BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= gi|15645173|ref|NP_207343.1| cag pathogenicity island
protein (cag26) [Helicobacter pylori 26695]
(1186 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223213.1| cag island protein, CYTOTOXICITY ASSOCIATE... 1996 0.0
ref|NP_223645.1| putative [Helicobacter pylori J99] 50 3e-07
ref|NP_223773.1| putative [Helicobacter pylori J99] 44 2e-05
ref|NP_223787.1| putative [Helicobacter pylori J99] 42 7e-05
ref|NP_223194.1| cag island protein [Helicobacter pylori J99] 40 5e-04
ref|NP_223759.1| putative [Helicobacter pylori J99] 37 0.002
ref|NP_222772.1| putative [Helicobacter pylori J99] 37 0.002
ref|NP_223761.1| putative [Helicobacter pylori J99] 36 0.007
ref|NP_223389.1| putative [Helicobacter pylori J99] 35 0.009
ref|NP_223801.1| putative Outer membrane protein [Helicobac... 35 0.011
ref|NP_222890.1| putative [Helicobacter pylori J99] 35 0.011
ref|NP_223644.1| putative [Helicobacter pylori J99] 35 0.015
ref|NP_223158.1| putative [Helicobacter pylori J99] 34 0.025
ref|NP_223001.1| putative FLAGELLAR-HOOK ASSOCIATED PROTEIN... 33 0.033
ref|NP_223830.1| putative [Helicobacter pylori J99] 33 0.056
ref|NP_223648.1| topoisomerase I [Helicobacter pylori J99] 33 0.056
ref|NP_222816.1| methyl-accepting chemotaxis protein (MCP) ... 33 0.056
ref|NP_223770.1| putative [Helicobacter pylori J99] 32 0.073
ref|NP_222878.1| PEPTIDE CHAIN RELEASE FACTOR 2 (RF-2) [Hel... 32 0.073
ref|NP_223438.1| putative [Helicobacter pylori J99] 32 0.096
ref|NP_223979.1| putative Outer membrane protein [Helicobac... 32 0.12
ref|NP_222933.1| putative Outer membrane protein [Helicobac... 32 0.12
ref|NP_222758.1| DNA transformation compentancy [Helicobact... 32 0.12
ref|NP_224142.1| TYPE I RESTRICTION ENZYME (RESTRICTION SUB... 31 0.16
ref|NP_223788.1| putative [Helicobacter pylori J99] 31 0.16
ref|NP_223490.1| putative [Helicobacter pylori J99] 31 0.21
ref|NP_224099.1| putative [Helicobacter pylori J99] 30 0.28
ref|NP_223610.1| putative [Helicobacter pylori J99] 30 0.28
ref|NP_222780.1| putative [Helicobacter pylori J99] 30 0.28
ref|NP_223195.1| cag island protein [Helicobacter pylori J99] 30 0.47
ref|NP_223183.1| HEAT SHOCK PROTEIN [Helicobacter pylori J99] 30 0.47
ref|NP_222901.1| TRIOSE PHOPHATE ISOMERASE [Helicobacter py... 30 0.47
ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [He... 30 0.47
ref|NP_223180.1| putative [Helicobacter pylori J99] 29 0.62
ref|NP_223858.1| GLYCINAMIDE RIBONUCLEOTIDE SYNTHETASE [Hel... 29 0.81
ref|NP_223629.1| putative [Helicobacter pylori J99] 29 0.81
ref|NP_223386.1| putative [Helicobacter pylori J99] 29 0.81
ref|NP_223380.1| putative Outer membrane protein [Helicobac... 29 0.81
ref|NP_223281.1| putative lipopolysaccharide biosynthesis p... 29 0.81
ref|NP_223176.1| putative [Helicobacter pylori J99] 29 0.81
ref|NP_222812.1| methyl-accepting chemotaxis protein (MCP) ... 29 0.81
ref|NP_222743.1| putative Outer membrane protein [Helicobac... 29 0.81
ref|NP_224128.1| TYPE III RESTRICTION ENZYME [Helicobacter ... 28 1.1
ref|NP_223605.1| putative [Helicobacter pylori J99] 28 1.1
ref|NP_223582.1| GERANYLTRANSTRANSFERASE [Helicobacter pylo... 28 1.1
ref|NP_223096.1| TRANSLATION INITIATION FACTOR IF-2 [Helico... 28 1.1
ref|NP_224043.1| putative [Helicobacter pylori J99] 28 1.4
ref|NP_223808.1| putative THIOREDOXIN REDUCTASE [Helicobact... 28 1.4
ref|NP_223323.1| putative [Helicobacter pylori J99] 28 1.4
ref|NP_223274.1| putative vacuolating cytotoxin (VacA) para... 28 1.4
ref|NP_222990.1| putative [Helicobacter pylori J99] 28 1.4
ref|NP_223882.1| outer membrane protein - adhesin [Helicoba... 28 1.8
ref|NP_223551.1| outer membrane protein - adhesin [Helicoba... 28 1.8
ref|NP_223322.1| putative [Helicobacter pylori J99] 28 1.8
ref|NP_222954.1| putative [Helicobacter pylori J99] 28 1.8
ref|NP_222945.1| GLUTAMYL TRNA REDUCTASE [Helicobacter pylo... 28 1.8
ref|NP_223764.1| FLAGELLAR HOOK-ASSOCIATED PROTEIN 1 (HAP1)... 27 2.4
ref|NP_223706.1| histidine kinase [Helicobacter pylori J99] 27 2.4
ref|NP_223684.1| METHIONYL-TRNA SYNTHETASE [Helicobacter py... 27 2.4
ref|NP_223646.1| putative [Helicobacter pylori J99] 27 2.4
ref|NP_223565.1| putative ATP-DEPENDENT HELICASE [Helicobac... 27 2.4
ref|NP_223265.1| putative secretion/efflux abc transporter,... 27 2.4
ref|NP_223070.1| putative [Helicobacter pylori J99] 27 2.4
ref|NP_222894.1| putative [Helicobacter pylori J99] 27 2.4
ref|NP_223561.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [H... 27 3.1
ref|NP_222781.1| putative [Helicobacter pylori J99] 27 3.1
ref|NP_222764.1| putative [Helicobacter pylori J99] 27 3.1
ref|NP_224209.1| putative O-SIALOGLYCOPROTEIN ENDOPEPTIDASE... 27 4.0
ref|NP_223725.1| putative outer membrane protein [Helicobac... 27 4.0
ref|NP_223247.1| putative SIDEROPHORE-MEDIATED IRON TRANSPO... 27 4.0
ref|NP_223046.1| putative FLAGELLAR EXPORT APPARATUS [Helic... 27 4.0
ref|NP_222943.1| PORPHOBILINOGEN DEAMINASE [Helicobacter py... 27 4.0
ref|NP_222885.1| putative restriction enzyme [Helicobacter ... 27 4.0
ref|NP_222797.1| methyl-accepting chemotaxis protein (MCP) ... 27 4.0
ref|NP_222776.1| putative [Helicobacter pylori J99] 27 4.0
ref|NP_224204.1| putative [Helicobacter pylori J99] 26 5.2
ref|NP_223777.1| ATP synthase F1, subunit beta [Helicobacte... 26 5.2
ref|NP_223641.1| putative [Helicobacter pylori J99] 26 5.2
ref|NP_223054.1| septum formation protein [Helicobacter pyl... 26 5.2
ref|NP_222854.1| Cytochrome oxidase (CBB3-TYPE) [Helicobact... 26 5.2
ref|NP_224102.1| putative PHOSPHATE PERMEASE [Helicobacter ... 26 6.8
ref|NP_224067.1| conserved lipoprotein [Helicobacter pylori... 26 6.8
ref|NP_223965.1| putative [Helicobacter pylori J99] 26 6.8
ref|NP_223956.1| 50S RIBOSOMAL PROTEIN L4 [Helicobacter pyl... 26 6.8
ref|NP_223659.1| putative [Helicobacter pylori J99] 26 6.8
ref|NP_223478.1| EXCINUCLEASE ABC SUBUNIT C [Helicobacter p... 26 6.8
ref|NP_222768.1| putative TYPE II restriction enzyme [Helic... 26 6.8
ref|NP_224170.1| LEUCYL-TRNA SYNTHETASE [Helicobacter pylor... 25 8.9
ref|NP_224131.1| putative [Helicobacter pylori J99] 25 8.9
ref|NP_223998.1| REPLICATIVE DNA HELICASE [Helicobacter pyl... 25 8.9
ref|NP_223330.1| putative [Helicobacter pylori J99] 25 8.9
ref|NP_223189.1| cag island protein [Helicobacter pylori J99] 25 8.9
ref|NP_222895.1| putative [Helicobacter pylori J99] 25 8.9
ref|NP_222822.1| 70kDa chaperone [Helicobacter pylori J99] 25 8.9
ref|NP_222811.1| THREONINE SYNTHASE [Helicobacter pylori J99] 25 8.9
ref|NP_222770.1| Proline/pyrroline-5-carboxylate dehydrogen... 25 8.9
>ref|NP_223213.1| cag island protein, CYTOTOXICITY ASSOCIATED IMMUNODOMINANT ANTIGEN
[Helicobacter pylori J99]
Length = 1167
Score = 1996 bits (5171), Expect = 0.0
Identities = 1022/1191 (85%), Positives = 1078/1191 (89%), Gaps = 29/1191 (2%)
Query: 1 MTNETIDQTRTPDQTQSQTAFDPQQFINNLQVAFIKVDNVVASFDPDQKPIVDKNDRDNR 60
MTNE I+Q Q Q++ AF+PQQFINNLQVAFIKVDNVVASFDP+QKPIVDKNDRDNR
Sbjct: 1 MTNEAINQ-----QPQTEAAFNPQQFINNLQVAFIKVDNVVASFDPNQKPIVDKNDRDNR 55
Query: 61 QAFDGISQLREEYSNKAIKNPTKKNQYFSDFIDKSNDLINKDNLIDVESSTKSFQKFGDQ 120
QAF+ ISQLREE++NKAIKNPTKKNQYFS FI KSNDLI+KDNLID SS KSFQKFG Q
Sbjct: 56 QAFEKISQLREEFANKAIKNPTKKNQYFSSFISKSNDLIDKDNLIDTGSSIKSFQKFGTQ 115
Query: 121 RYQIFTSWVSHQKDPSKINTRSIRNFMENIIQPPIPDDKEKAEFLKSAKQSFAGIIIGNQ 180
RYQIF +WVSHQ DPSKINT+ IR FMENIIQPPI DDKEKAEFL+SAKQ+FAGIIIGNQ
Sbjct: 116 RYQIFMNWVSHQNDPSKINTQKIRGFMENIIQPPISDDKEKAEFLRSAKQAFAGIIIGNQ 175
Query: 181 IRTDQKFMGVFDESLKERQEAEKNG----GPTGGDWLDIFLSFIFNKKQSSDVKEAINQE 236
IR+DQKFMGVFDESLKERQEAEKNG PTGGDWLDIFLSF+FNKKQSSD+KE +NQE
Sbjct: 176 IRSDQKFMGVFDESLKERQEAEKNGEPNGDPTGGDWLDIFLSFVFNKKQSSDLKETLNQE 235
Query: 237 PVPHVQPDIATTTTDIQGLPPEARDLLDERGNFSKFTLGDMEMLDVEGVADIDPNYKFNQ 296
PVPHVQPD+ATTTTDIQ LPPEARDLLDERGNFSKFTLGDM MLDVEGVADIDPNYKFNQ
Sbjct: 236 PVPHVQPDVATTTTDIQSLPPEARDLLDERGNFSKFTLGDMNMLDVEGVADIDPNYKFNQ 295
Query: 297 LLIHNNALSSVLMGSHNGIEPEKVSLLYAGNGGFGDKHDWNATVGYKDQQGNNVATLINV 356
LLIHNNALSSVLMGSHNGIEPEKVSLLY NGG +HDWNATVGYK+Q+G+NVATLINV
Sbjct: 296 LLIHNNALSSVLMGSHNGIEPEKVSLLYGNNGGPEARHDWNATVGYKNQRGDNVATLINV 355
Query: 357 HMKNGSGLVIAGGEKGINNPSFYLYKEDQLTGSQRALSQEEIRNKVDFMEFLAQNNTKLD 416
HMKNGSGLVIAGGEKGINNPSFYLYKEDQLTGSQRALSQEEI+NKVDFMEFLAQNN KLD
Sbjct: 356 HMKNGSGLVIAGGEKGINNPSFYLYKEDQLTGSQRALSQEEIQNKVDFMEFLAQNNAKLD 415
Query: 417 NLSEKEKEKFQNEIEDFQKDSKAYLDALGNDRIAFVSKKDTKHSALITEFNNGDLSYTLK 476
NLS+KEKEKFQNEIEDFQKDSKAYLDALGND IAFVSKKD KH AL+ EF NG+LSYTLK
Sbjct: 416 NLSKKEKEKFQNEIEDFQKDSKAYLDALGNDHIAFVSKKDKKHLALVAEFGNGELSYTLK 475
Query: 477 DYGKKADKALDREKNVTLQGSLKHDGVMFVDYSNFKYTNASKNPNKGVGATNGVSHLEAG 536
DYGKKADKALDRE TLQGSLKHDGVMFVDYSNFKYTNASK+P+KGVGATNGVSHLEAG
Sbjct: 476 DYGKKADKALDREAKTTLQGSLKHDGVMFVDYSNFKYTNASKSPDKGVGATNGVSHLEAG 535
Query: 537 FNKVAVFNLPDLNNLAITSFVRRNLENKLTAKGLSLQEANKLIKDFLSSNKELAGKALNF 596
F+KVAVFNLP+LNNLAITS VR++LE+KL AKGLS QEANKL+KDFLSSNKEL GKALNF
Sbjct: 536 FSKVAVFNLPNLNNLAITSVVRQDLEDKLIAKGLSPQEANKLVKDFLSSNKELVGKALNF 595
Query: 597 NKAVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQ 656
NKAVAEAK+TGNYDEVK+AQKDLEKSL+KRE LEK+V K LESKSGNKNKMEAK+QANSQ
Sbjct: 596 NKAVAEAKNTGNYDEVKQAQKDLEKSLKKRERLEKDVAKNLESKSGNKNKMEAKSQANSQ 655
Query: 657 KDEIFALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKD 716
KDEIFALINKEANRDARAIAY QNLKGIKRELSDKLE I+KDLKDFSKSFDEFKNGKNKD
Sbjct: 656 KDEIFALINKEANRDARAIAYAQNLKGIKRELSDKLENINKDLKDFSKSFDEFKNGKNKD 715
Query: 717 FSKAEETLKALKGSVKDLGINPEWISKVENLNAALNEFKNGKNKDFSKVTQAKSDLENSV 776
FSKAEETLKALKGSVKDLGINPEWISKVENLNAALNEFKNGKNKDFSKVTQAKSDLENS+
Sbjct: 716 FSKAEETLKALKGSVKDLGINPEWISKVENLNAALNEFKNGKNKDFSKVTQAKSDLENSI 775
Query: 777 KDVIINQKVTDKVDNLNQAVSVAKAMGDFSRVEQVLADLKNFSKEQLAQQAQKNEDFNTG 836
KDVIINQK+TDKVDNLNQAVSVAKA GDFS VEQ LADLKNFSKEQLAQQAQKNEDFNTG
Sbjct: 776 KDVIINQKITDKVDNLNQAVSVAKATGDFSGVEQALADLKNFSKEQLAQQAQKNEDFNTG 835
Query: 837 KNSELYQSVKNSVNKTLVGNGLSGIEATALAKNFSDIKKELNEKFKNF-NNNNNGLKNST 895
KNS LYQSVKN VN TLVGNGLS EAT L+KNFSDIKKELN K NF NNNNNGL+NST
Sbjct: 836 KNSALYQSVKNGVNGTLVGNGLSKAEATTLSKNFSDIKKELNAKLGNFNNNNNNGLENST 895
Query: 896 EPIYAKVNKKKTGQVASPEEPIYTQVAKKVNAKIDRLNQIASGLGGVGQAAGFPLKRHDK 955
E PIYTQVAKKV AKIDRL+QIASGLG VGQAA F LKRHDK
Sbjct: 896 E-------------------PIYTQVAKKVKAKIDRLDQIASGLGDVGQAASFLLKRHDK 936
Query: 956 VDDLSKVGLSASPEPIYATIDDLGGPFPLKRHDKVDDLSKVGRSRNQELAQKIDNLNQAV 1015
VDDLSKVGLSA+ EPIYATIDDLGGPFPLKRHDKVDDLSKVG SR Q+L QKIDNLNQAV
Sbjct: 937 VDDLSKVGLSANHEPIYATIDDLGGPFPLKRHDKVDDLSKVGLSREQKLTQKIDNLNQAV 996
Query: 1016 SEAKAGFFGNLEQTIDKLKDSTKKNVMNLYVESAKKVPASLSAKLDNYAINSHTRINSNI 1075
SEAKA F NL+Q IDKLKDSTKKNV+NLYVESAKKVP SLSAKLDNYA NSHTRINSN+
Sbjct: 997 SEAKASHFDNLDQMIDKLKDSTKKNVVNLYVESAKKVPTSLSAKLDNYATNSHTRINSNV 1056
Query: 1076 QNGAINEKATGMLTQKNPEWLKLVNDKIVAHNVGSVSLSEYDKIGFNQKNMKDYSDSFKF 1135
+NG INEKATGMLTQKN EWLKLVNDKIVAHNVGS LS YDKIGFNQKNMKDYSDSFKF
Sbjct: 1057 KNGTINEKATGMLTQKNSEWLKLVNDKIVAHNVGSAPLSAYDKIGFNQKNMKDYSDSFKF 1116
Query: 1136 STKLNNAVKDIKSGFTHFLANAFSTGYYCLARENAEHGIKNVNTKGGFQKS 1186
ST+L+NAVKDIKSGF FL N FS G Y L + + EHG+KN NTKGGFQKS
Sbjct: 1117 STRLSNAVKDIKSGFVQFLTNIFSMGSYSLMKASVEHGVKNTNTKGGFQKS 1167
>ref|NP_223645.1| putative [Helicobacter pylori J99]
Length = 2231
Score = 50.1 bits (118), Expect = 3e-07
Identities = 86/356 (24%), Positives = 144/356 (40%), Gaps = 55/356 (15%)
Query: 458 KHSALITEFNNGDLSYTLKDYGKKADKALDREKNVTLQGSLKHDGVMFVDYSNFKYTNAS 517
K+ E + DLS LK +K K + + TL+ V+ +D SN +Y
Sbjct: 846 KYDLQALEDESLDLSQALKQAIEKLPKDVYQYHKTTLKTD-----VLIIDSSNERYQEVQ 900
Query: 518 K-----NPNKGVGATNGVSHLEAGFNKVAVFNLPD-LNNLAITSFVRRNLENKLTAKGLS 571
K + V N LE N++ +F P +N+ S ++ + K L+
Sbjct: 901 KLIKNLERRELVKWDNLYFQLEQN-NEMGIFLKPTKINSKVQDSRLKAYFKIKDALNDLT 959
Query: 572 LQEANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQKDLEKSL--RKREHL 629
E N L SS+ EL K N E Y K +KD+ + L K L
Sbjct: 960 SAELNPL-----SSDLELENKRAKLNLVYDEFVKKFGYLNENKNRKDIRQDLYGAKVLGL 1014
Query: 630 EKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLKGIKRELS 689
EK+ EK++ +S +E + QA ++K +IF +R L+
Sbjct: 1015 EKDFEKEITPRSAKMQNIEPR-QAQAKKAQIF----------------------FERTLN 1051
Query: 690 DKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINPEWISKVENLNA 749
K E I + K+ + K G + F + T ++L+ ++K+L + + I K N
Sbjct: 1052 PKKELIITNAKEALIASINQKGGLDLHFIRDHFTTQSLETTIKEL-LEQKLIYKDHKDNG 1110
Query: 750 A---LNEFKNGKNKDFSK-----VTQAKSDLENSVKDVII----NQKVTDKVDNLN 793
N++ +G K K + Q LE +VKD+ + + K T+ + N+N
Sbjct: 1111 GYILANDYLSGNVKRKLKEVKEAINQGVEGLEANVKDLELIIPKDLKATEIMANIN 1166
Score = 25.4 bits (54), Expect = 8.9
Identities = 28/117 (23%), Positives = 50/117 (41%), Gaps = 12/117 (10%)
Query: 692 LEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINPEWISKVENLNAAL 751
LE + LK ++ +E N N S+A + L A+ SV G+NP SK+ + + L
Sbjct: 302 LEILENRLKKSIETTNETLNAFNVLDSQAID-LNAISNSV---GLNPTQESKITDNSVEL 357
Query: 752 N--------EFKNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVSVAK 800
N E + + TQ ++ E + ++ ++ T + D A + K
Sbjct: 358 NNAQEQTAQEQTTQEQTTQEQTTQEQTTQEQTTQEQTTQEQTTQEQDTQENAPTTIK 414
>ref|NP_223773.1| putative [Helicobacter pylori J99]
Length = 263
Score = 43.9 bits (102), Expect = 2e-05
Identities = 34/143 (23%), Positives = 65/143 (44%), Gaps = 8/143 (5%)
Query: 569 GLSLQEANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQKDLEKSLRKREH 628
GL L+ NK + L + +A++ N + + S ++++K + L +E
Sbjct: 24 GLLLERHNKEAEKILLDLNKKDEQAIDLN--LEDLPSEKKNEKIEKVTEKQGDFLEPKEE 81
Query: 629 LEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLKGIKREL 688
++E E+ LE + N + K N+QKDE K + R + Q LK +E
Sbjct: 82 PKEEPEESLEDIFSSLNDFQEKTDKNAQKDE-----QKNEQEEQRRLREQQRLKQ-NQEN 135
Query: 689 SDKLEKISKDLKDFSKSFDEFKN 711
+ L+ + ++L F++ + KN
Sbjct: 136 QEMLKGLQQNLNQFTQKLESVKN 158
>ref|NP_223787.1| putative [Helicobacter pylori J99]
Length = 759
Score = 42.4 bits (98), Expect = 7e-05
Identities = 100/450 (22%), Positives = 173/450 (38%), Gaps = 68/450 (15%)
Query: 515 NASKNPNKGVGATNGVSHLEAGFNKVAVF--NLPDLNNLAITSFVR-RNLENKLTAKGLS 571
N + ++G+S + KVA F N NL +F+ N K T
Sbjct: 5 NMGNKDKQQQNVSSGISQIS--LKKVATFDENGASFENLKSINFIYGANGSGKTTTSSFL 62
Query: 572 LQEANKLIKDFLSSNK-----ELAGKALNFNKAVAE-----AKSTGNYDEVKKAQKDLEK 621
A I+D +++K + K +NK E ++ G + KK ++LEK
Sbjct: 63 KNLAENGIEDKFANSKIAWYNNESLKIEVYNKQFKEEQLRNSQVKGIFTLGKKTNENLEK 122
Query: 622 SLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNL 681
K+E + KE EKK+ K EA Q +QK E + +D +
Sbjct: 123 IESKKESINKENEKKI--------KNEASLQVLTQKKE-------KEEKDFTDSCWKNLY 167
Query: 682 KGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKD----------------FSKAEETLK 725
K + E + LE + K K EF+N K+ FSK + L
Sbjct: 168 KKNEEEFKEILEGFKRKEKFKGKILKEFENDKHNQSEIVGLEKLKEKIEIVFSKNQTELA 227
Query: 726 ALKGSVKD---LGINPEWISKVENLN--AALNEFKNGKNKDFSKVTQAKSDL-ENSVKDV 779
L+ + D + + W K+ A N K N+D+ V Q + + +NS+
Sbjct: 228 LLECDLTDFDSIENHSIWEQKIVGSGDVAIANLIKTLSNEDW--VAQGREYVKDNSICPF 285
Query: 780 IINQKVTDKVDNLNQAVSVAKAMGDFSRVEQVLADLKNFSKEQLAQQAQKNEDFNTGKNS 839
+ +T++ ++ ++++ D N + E L + +E T +N+
Sbjct: 286 CQKETITEEFKKQLESYFDTSYQESTDTIKKMKEDYTNKTDEAL---ERLDEIIKTEQNN 342
Query: 840 ELYQSVKNSVN-KTLVGNGLSGIEATALAKNFSDIKKELNEKFKNFNNNNNGLKNSTEPI 898
Q+ ++ N K ++ S I+A + D KE++ FK +N KN + I
Sbjct: 343 S--QTKLDTENLKRIIETLRSKIKAN--QQKMIDKSKEMSRNFKLDSN-----KNEIDAI 393
Query: 899 YAKVNKKKTGQVASPEEPIYTQVAKKVNAK 928
+ KK Q+ + E I +K + K
Sbjct: 394 KDLI-KKANEQITNHNETIKDIEKQKKSCK 422
Score = 38.1 bits (87), Expect = 0.001
Identities = 42/186 (22%), Positives = 78/186 (41%), Gaps = 21/186 (11%)
Query: 625 KREHLEKEVEKKLES----------KSGNKNKMEAKAQANSQKDEIFALINKEANRDARA 674
++E + +E +K+LES + K K + + + + + +I E N
Sbjct: 287 QKETITEEFKKQLESYFDTSYQESTDTIKKMKEDYTNKTDEALERLDEIIKTEQNNSQTK 346
Query: 675 IAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDE-FKNGKNKD--------FSKAEETLK 725
+ T+NLK I L K++ + + D SK FK NK+ KA E +
Sbjct: 347 LD-TENLKRIIETLRSKIKANQQKMIDKSKEMSRNFKLDSNKNEIDAIKDLIKKANEQIT 405
Query: 726 ALKGSVKDLGINPEWISKVENLNAALNEFKNGKNKDFSKVTQAKSDLENSVKDVIINQKV 785
++KD+ + K + +NEFK+ + K + + N K++ NQ+
Sbjct: 406 NHNETIKDIEKQKK-SCKEQTWKFLINEFKSDIQEYNKKYCGLEKGINNLEKEISENQEK 464
Query: 786 TDKVDN 791
K++N
Sbjct: 465 VKKLEN 470
>ref|NP_223194.1| cag island protein [Helicobacter pylori J99]
Length = 1819
Score = 39.7 bits (91), Expect = 5e-04
Identities = 113/521 (21%), Positives = 201/521 (37%), Gaps = 77/521 (14%)
Query: 391 RALSQEEI-RNKVDFMEFLAQNNTKLDNLSEKEKEKFQNEIEDFQKDS------KAYLDA 443
+ LS+E I R K ++ L N K D E+ KE +N +D QK+ KAY D
Sbjct: 458 KGLSKEAIERLKQQALDCL--KNAKTD---EERKECLKNIPQDLQKELLADMSVKAYKDC 512
Query: 444 LGNDR-----------IAFVSKKDTKHSALITEFNNGDLSYTLKDYGKKADKALDREKNV 492
+ R + +KK ++ AL N K+ K K D + ++
Sbjct: 513 VSRARNEKEKQECEKLLTPEAKKLLENQALDC-LKNAKTDEERKECLKNLPK--DLQSDI 569
Query: 493 TLQGSLKHDGVMFVDYSNFKYTNASKNPNKGVGATNGVSHLEAGFNKVAVFNLPDLNNLA 552
+ SLK + D ++ T A K + + LE K +V D + A
Sbjct: 570 LAKESLK----AYKDCASQAKTEAEKKECEKLLTPEAKKLLEEEA-KESVKAYLDCVSQA 624
Query: 553 ITSFVRRNLENKLTAKGLS-LQEANKLIKDFL---------SSNKELA------GKALNF 596
T ++ E LT + L+EA K ++ +L + KE K L
Sbjct: 625 KTEAEKKECEKLLTPEAKKKLEEAKKSVRAYLDCVSKAKNEAERKECEKLLTPEAKKLLE 684
Query: 597 NKAVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQ 656
N+A+ K+ +E K+ KDL K L+K+ ++ V L+ S KN+ E K
Sbjct: 685 NQALDCLKNAKTDEERKECLKDLPKDLQKKVLAKESVRVYLDCVSKAKNEAERKECEKLL 744
Query: 657 KDEIFALINKEANRDARA----IAYTQNLKG-------IKRELSDKLEKISKDLKDFSKS 705
E L+ +EA + +A + +N K + E LE+ K +K +
Sbjct: 745 TPEARKLL-EEAKKSVKAYKDCVLRARNEKEKQECEKLLTPEARKLLEESKKSVKAYLDC 803
Query: 706 FDEFKN-GKNKDFSK--AEETLKALKGSVKDLGINPEWISKVEN--------------LN 748
+ KN + K+ K E K L+ + + + + +S+ N
Sbjct: 804 VSKAKNEAERKECEKLLTPEARKLLEEAKESVKAYKDCVSRARNEKEKQECEKLLTPEAR 863
Query: 749 AALNEFKNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVSVAKAMGDFSRV 808
L E K V++AK++ E + ++ + ++ ++V K +R
Sbjct: 864 KLLEESKKSVKAYLDCVSKAKNEAERKECEKLLTPEARKLLEEAKESVKAYKDCVSRARN 923
Query: 809 EQVLADLKNFSKEQLAQQAQKNEDFNTGKNSELYQSVKNSV 849
E+ + + + A++ +N+ + KN++ K V
Sbjct: 924 EKEKQECEKLLTPE-AKKLLENQALDCLKNAKTEAEKKRCV 963
Score = 35.4 bits (80), Expect = 0.009
Identities = 132/644 (20%), Positives = 249/644 (38%), Gaps = 121/644 (18%)
Query: 559 RNLENKLTAKGLSLQEANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQKD 618
RN + K + L EA KL++ N+A+ K+ E K+ KD
Sbjct: 922 RNEKEKQECEKLLTPEAKKLLE----------------NQALDCLKNAKTEAEKKRCVKD 965
Query: 619 LEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARA---- 674
L K L+K+ ++ V L+ S KN+ E K E L+ +EA +A
Sbjct: 966 LPKDLQKKVLAKESVRVYLDCVSKAKNEAERKECEKLLTPEARKLL-EEAKESVKAYKDC 1024
Query: 675 IAYTQNLKGIKRELSDKL----------EKISKDLKDFSKSFDEFKNGKNKDFSKAEETL 724
++ +N K +++ +KL +++ K +K + +N K K +E
Sbjct: 1025 VSRARNEK--EKQECEKLLTPEARKLLEQEVKKSVKAYLDCVSRARNEKEK-----QECE 1077
Query: 725 KALKGSVKDLGINPEWISKVENLNAALNEFKNGKN--------KDFSKVTQAKSDLENSV 776
K L PE +E N AL+ KN K KD K Q K + SV
Sbjct: 1078 KLL---------TPEARKLLE--NQALDCLKNAKTEAEKKRCVKDLPKDLQKKVLAKESV 1126
Query: 777 KDVI------INQKVTDKVDNLNQAVSVAKAMGDFSRVEQVLADLKNFSKEQLAQQAQKN 830
K + N+K + + L A+ + + S+ + V A L SK + + ++
Sbjct: 1127 KAYLDCVSRARNEKEKKECEKL--LTPEARKLLEESK-KSVKAYLDCVSKAKNEAEKKEC 1183
Query: 831 EDFNTGKNSELYQSVKNSVN--KTLVGNGLSGIEATALAKNFSD-----IKKELNEKFKN 883
E T + +L + K SV K V + E K + +++E+ + K
Sbjct: 1184 EKLLTPEARKLLEEAKESVKAYKDCVSRARNEKEKQECEKLLTPEARKLLEQEVKKSVKA 1243
Query: 884 FNNNNNGLKNSTEPIYAKVNKKKTGQVASPEEPIYTQVAKKVNAKI-----------DR- 931
+ + + +N E K++ ++ +PE + + ++ K DR
Sbjct: 1244 YLDCVSRARNEKE-------KQECEKLLTPEARKFLEKQRQQKDKAIKDCLKNADPNDRA 1296
Query: 932 -LNQIASGLGGVGQAAGFPLKRHDKVDDLSKVGLSASP----EPIYA-TIDDLGGPFPLK 985
+ + GL + R V D K + + +Y+ I ++ K
Sbjct: 1297 AIMKCLDGLSDEEKLKYLQEAREKAVLDCLKTARTDEEKRKCQNLYSDLIQEIQNK---K 1353
Query: 986 RHDKVDDLSKVGRSRNQELAQKIDNLNQAVSEAKAGFFGNLEQTIDKLKDSTKKNVMNL- 1044
+K + LSK R + ++ +DNL+ + +EQ ++ L DS + ++ +
Sbjct: 1354 AQNKQNQLSKT--ERLHQASECLDNLDDPTDQEA------IEQCLEGLSDSERALILGIK 1405
Query: 1045 -YVESAKKVPASLSAK--LDNYAINSHTRINSNIQNGAINEKATGMLTQKNPEWLKLVND 1101
+ ++ + L ++ DN A + + + +NG + AT + N + K+ +D
Sbjct: 1406 RQADEVDRIYSDLRSRKTFDNMAAKGYPLLPMDFKNG--GDIAT--INATNVDADKIASD 1461
Query: 1102 KIVAHNVGSVSLSEYDKIGFNQKNMKDYSDSFKFSTKLNNAVKD 1145
+ ++ +Y+ +K +KD S K + L KD
Sbjct: 1462 NPIYASIEPDITKQYE----TEKTIKDKSLEAKLAKALGGDKKD 1501
>ref|NP_223759.1| putative [Helicobacter pylori J99]
Length = 267
Score = 37.4 bits (85), Expect = 0.002
Identities = 54/290 (18%), Positives = 114/290 (38%), Gaps = 67/290 (23%)
Query: 594 LNFNKAVAEAKSTGNYDEVKKAQ----KDLEKSLRKREHLEKEVEKKL------------ 637
+N+ A EVK+ K L+ +LR H ++VE L
Sbjct: 1 MNYPNLPNSALEISEQPEVKEITNELLKQLQNALRSNAHFSEQVELSLKCIVRILEVLLS 60
Query: 638 --------ESKSGNKNKMEAKAQANS-------QKDEIFALINKEANRDARAIAYT---- 678
E S +N +E A + + F+ N + + + + T
Sbjct: 61 LDFFKNANEIDSSLRNSIEWLTNAGESLKLKMKEYERFFSEFNTSMHANEQEVTNTLNAN 120
Query: 679 -QNLKGIKRELSDKL-EKISKDLKDFSKSFDEFKNGKNKDFSKAE-ETLKALKGSVKDLG 735
+N+K ++L ++L E ++ L + ++ ++ N +K + ++L+A+
Sbjct: 121 AENIKSEIKKLENQLIETTTRLLTSYQIFLNQARDNANNQITKNKTQSLEAI-------- 172
Query: 736 INPEWISKVENLNAALNEFKNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQA 795
+ N A NE N + + + +T+AK++ N + + NQ T + N+N+A
Sbjct: 173 --------TQAKNNANNEISNNQTQAITNITEAKTNANNEISN---NQ--TQAITNINEA 219
Query: 796 VSVAKAMGDFSRVEQVLADLKNFSKEQLAQQAQKNEDFNTGKNSELYQSV 845
A + ++ E + N ++E + Q + K ++ YQ++
Sbjct: 220 KESATTQINANKQEAI----NNITQE----KTQATSEITEAKKTDHYQNI 261
>ref|NP_222772.1| putative [Helicobacter pylori J99]
Length = 220
Score = 37.4 bits (85), Expect = 0.002
Identities = 44/209 (21%), Positives = 84/209 (40%), Gaps = 39/209 (18%)
Query: 679 QNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINP 738
+ L+ + L+ E ++K+ + K +E KN K + E KA
Sbjct: 47 ERLERENKNLTADKENLTKEKTELQKQVNELKNSK-----QVLENEKA------------ 89
Query: 739 EWISKVENLNAALNEFKNGKNKDFSKVTQAKSDL--ENSVKDVIINQKVTDKVDNLNQAV 796
+W+ + ENL KD +T+ K++L +N V + T+K + +
Sbjct: 90 DWLREKENL-----------TKDRENLTKEKTELTEKNKVLTTEKERLATEKENLTKEKT 138
Query: 797 SVAKAMGDFSRVEQVLADLKNFSKEQLAQQAQKNEDFNTGKNSELYQSVKNSVNKTLVGN 856
K + + +QVL + K A +N T K ++ + + KT + N
Sbjct: 139 ESQKQVNELKNSKQVLENEK-------ADLTNENTKLKTDKTDLTEKNQRLTTEKTELNN 191
Query: 857 GLSGI--EATALAKNFSDIKKELNEKFKN 883
++G+ E LA + ++ KE ++ N
Sbjct: 192 KITGLATEKERLAADKENLTKESRQRKPN 220
>ref|NP_223761.1| putative [Helicobacter pylori J99]
Length = 1154
Score = 35.8 bits (81), Expect = 0.007
Identities = 76/340 (22%), Positives = 134/340 (39%), Gaps = 39/340 (11%)
Query: 403 DFMEFLAQNNTKL--DNLSEKEKEKFQNEIEDFQKDSKAYLDALGNDRIAFVSKKDTKHS 460
+ +EFL +NN K+ + S KE E ++ ++ +A LD +D IA + K+ H
Sbjct: 112 EMVEFLHKNNKKMIIEKASNKELELLKDANFKHPENIRASLD---HDAIAHILKR---HG 165
Query: 461 ALITEFNNGDLSYTLKDYGK------KAD---KALDREKNVTLQGSLKHDG--VMFVDYS 509
NG+ T +D AD + LD E + + +G V+
Sbjct: 166 VNSVNVKNGESPITYEDIANYRYIVNNADAILRTLDNEDKEVISAFKQINGYAVVVEQAI 225
Query: 510 NFKYTNASKNPNKGVGATNGVSHLEAGFNKVAVFNLPDLNNLAITSFVRRNLENKLTAKG 569
N K K K G ++ F+ N N ++S LT K
Sbjct: 226 NKKNELVLKTMYKSNGDYKD-NNAYKKFSSTLTLNADAKVNHGLSS--HSGATENLTQKP 282
Query: 570 LSLQEANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQKDLEKSLRKREHL 629
L+ QE L+KD + N+ +A A+ E ++ Q + E K + L
Sbjct: 283 LTSQE--DLLKDTENLNETTPKPTHLSPLELANAEKLAKL-ESEQLQSEQEFLKAKEQEL 339
Query: 630 EKE--VEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLKGIKRE 687
+++ ++KKLE + GN +E++ + + ++ +A ++ +RE
Sbjct: 340 KRKEALKKKLEHERGNAGHIESQTKIE---------VGEDIPTQVQAQIPKSRVRLNERE 390
Query: 688 LSDKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKAL 727
+ D L+ KD SF K D + EE +K++
Sbjct: 391 IYD-LDYAIVKAKDLKPSFTTGGTQKRTDMN--EEQIKSI 427
Score = 27.7 bits (60), Expect = 1.8
Identities = 64/350 (18%), Positives = 135/350 (38%), Gaps = 31/350 (8%)
Query: 390 QRALSQEEIRNKVDFMEFLAQNNTKLDNLSEKEKEKFQNEIEDFQKDSKAYLDALGNDRI 449
+RAL + + + L+ N+K N + K E+ N ++ ++ K N+++
Sbjct: 21 KRALERSHLISDFSKNLELSAKNSKFTNNTLKIIEELNNGVKQASEEIKEKAFDFSNEKL 80
Query: 450 AFVSKKDTKHSALITEFNNGDLSYTLKDYGKKADKALDREKNVTLQGSLKHDGVMFVDYS 509
K+ ++A I +++ + + + L + + + + + +
Sbjct: 81 TNEQIKELLNNAKIPTSGRDAITFGTNNLNPEMVEFLHKNNKKMIIEKASNKELELLKDA 140
Query: 510 NFKYTNASKNPNKGVGATNGVSHL--EAGFNKVAVFNLPDLNNLAITSFVRRNLENKLTA 567
NFK+ +N + + ++H+ G N V V N IT N +
Sbjct: 141 NFKH---PENIRASLD-HDAIAHILKRHGVNSVNVKN----GESPITYEDIANYRYIVNN 192
Query: 568 KGLSLQEANKLIKDFLSSNKELAGKALNFNKAVAEA---------KSTGNYDEVKKAQKD 618
L+ + K+ +S+ K++ G A+ +A+ + KS G+Y + A K
Sbjct: 193 ADAILRTLDNEDKEVISAFKQINGYAVVVEQAINKKNELVLKTMYKSNGDYKD-NNAYKK 251
Query: 619 LEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYT 678
+L + + +V L S SG + K SQ+D + K+
Sbjct: 252 FSSTLTL--NADAKVNHGLSSHSGATENLTQK-PLTSQED-----LLKDTENLNETTPKP 303
Query: 679 QNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKALK 728
+L ++ ++KL K+ + +S EF K ++ + E K L+
Sbjct: 304 THLSPLELANAEKLAKLESEQ---LQSEQEFLKAKEQELKRKEALKKKLE 350
>ref|NP_223389.1| putative [Helicobacter pylori J99]
Length = 439
Score = 35.4 bits (80), Expect = 0.009
Identities = 25/154 (16%), Positives = 62/154 (40%), Gaps = 4/154 (2%)
Query: 755 KNGKNKDFSKVTQAKSDLENS---VKDVIINQKVTDKVDNLNQAVSVAKAMGDFSRVEQV 811
++ K + + A D + + ++++ D++ L V + +GD+ +++ +
Sbjct: 54 ESAKQESIQTILNAAKDKKEGAILIASGCLSERYKDEIKELIPEVDIFTGVGDYDKIDIL 113
Query: 812 LADLKNFSKEQLAQQAQKNEDFNTGKNSELYQSVKNSVNKTLVGNGLSGIEATALAKNFS 871
+A +N EQ+ N TG + Y + N+ + + ++
Sbjct: 114 IAKKQNQFSEQVFLSEHYNARIITGSSVHAYVKISEGCNQKCSFCAIPSFKGKLQSRELD 173
Query: 872 DIKKELNE-KFKNFNNNNNGLKNSTEPIYAKVNK 904
I KE+ + K + + ++S+ +Y K K
Sbjct: 174 SILKEVEDLALKGYKDMTFIAQDSSSFLYDKGQK 207
>ref|NP_223801.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 1237
Score = 35.0 bits (79), Expect = 0.011
Identities = 55/238 (23%), Positives = 91/238 (38%), Gaps = 34/238 (14%)
Query: 645 NKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSK 704
NK + A + D + +A + A IA + N KG++ L E + + S
Sbjct: 837 NKQQNATTATTTTDSNLQKVYNDAQKIANIIASSGNNKGVENGLKQFFEALKSNSSSLSN 896
Query: 705 SFDEFKNGKNKDFSKAEETLKALKGSVKDLGINPEWISKVENLNAALNEFKNG----KNK 760
NG + S L L G++ G +S NL L EF +NK
Sbjct: 897 LCG---NGSSGSSSTCSGGLINLLGAIPTNG-----VSDTNNLINLLTEFIKTAGFIQNK 948
Query: 761 D----------FSKVTQAKSD----LENSVKD---VIINQKVTDKVDNLNQ-AVSVAKAM 802
D F +T A S L+N + + + Q++T + + ++ + +
Sbjct: 949 DSNVSTSLTSAFQAITSAISQGFQALQNDISPNAILTLLQEITSNTTTIQSFSQTLRQLL 1008
Query: 803 GD--FSRVEQVLADLKNFSKEQLAQQAQKNEDFNTGKNSELYQSVKNSVNKTLVGNGL 858
GD F V+Q L D ++ Q+ Q +N+ N G L Q + + NGL
Sbjct: 1009 GDKTFFMVQQKLIDAMINARNQV--QNAQNQANNYGSQPVLSQYAAAKSTQHGMSNGL 1064
Score = 30.8 bits (68), Expect = 0.21
Identities = 44/181 (24%), Positives = 69/181 (37%), Gaps = 29/181 (16%)
Query: 766 TQAKSDLENSVKDVIINQKVTDKVDNLNQAVSVAKAMGD---FSRVEQVLADLKNFSKEQ 822
TQAKS+ V++N + K N NQ+ + + VL ++ NF +Q
Sbjct: 547 TQAKSNASKLKAMVMVNNEEEAKTTNFNQSSGPTTQSSNSTVMGALNTVLQNVSNF--QQ 604
Query: 823 LAQQAQKNEDFNTGKNSELYQSVKNSVNKTLVGNGLSGIEATALAKNFSDIKKELNEKFK 882
Q A +N++ N Q+ N++ T NG T N D++ +L F
Sbjct: 605 SIQSAFQNQENN-------IQAWANALYNTSNPNGNQSQNLT--TNNNQDLRIQLRANFY 655
Query: 883 NFNNNNNGLKNSTEPIYAKVNKKKTGQVASPEEPIYTQVAKKVNAKIDRLNQIASGLGGV 942
N N + + A +N+ + Q S A N N ASG+G
Sbjct: 656 QLINTIN--QQVPTDMNALINQSQQTQQTSGS-------ASTTN------NACASGMGSS 700
Query: 943 G 943
G
Sbjct: 701 G 701
Score = 27.7 bits (60), Expect = 1.8
Identities = 39/156 (25%), Positives = 69/156 (44%), Gaps = 25/156 (16%)
Query: 1026 LEQTIDKLKD----STKKNVMNLYVES-AKKVPASLSAKLDNYAINSHTRINSNIQNGAI 1080
LEQ I L T N N V++ A+K+ + LDN AIN+ T +N+ N A+
Sbjct: 312 LEQFIQNLTPLAATPTSTNQANQQVQAIAQKLQSVAINALDNNAINNTTYNLNNLHN-AL 370
Query: 1081 NEKATGMLTQKNPEWLKLVNDKIVAHNVGSVSLSEYDKIGFNQKNMKDYSDSFKFSTKLN 1140
N +A ++ LK + +S SE + +K+ S++++ T N
Sbjct: 371 NFQAYQSTIEQYNNALK---------QISWISFSEPKNL------LKNTSNNYQIGTVTN 415
Query: 1141 NAVKDIK----SGFTHFLANAFSTGYYCLARENAEH 1172
+ ++I + T L++ S+G C A + +
Sbjct: 416 DQGQNISAYDCTSATGSLSSDASSGISCSATSSTNN 451
>ref|NP_222890.1| putative [Helicobacter pylori J99]
Length = 236
Score = 35.0 bits (79), Expect = 0.011
Identities = 30/96 (31%), Positives = 46/96 (47%), Gaps = 11/96 (11%)
Query: 645 NKMEAKAQANS---QKDEIFALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKD 701
+KM+ AN+ +K IF + A++ R +K +++ L D LE++S ++K+
Sbjct: 125 SKMDLMKDANAYLQEKSAIFPTMKSVASKIMRL----DGVKHVEKNLKDNLEEMSDEVKN 180
Query: 702 FSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGIN 737
S D K NK K E ALK KDL N
Sbjct: 181 -KGSIDNAKESFNKATDKGVE---ALKEKAKDLPKN 212
>ref|NP_223644.1| putative [Helicobacter pylori J99]
Length = 465
Score = 34.7 bits (78), Expect = 0.015
Identities = 39/164 (23%), Positives = 65/164 (38%), Gaps = 26/164 (15%)
Query: 562 ENKLTAKGLSLQEANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQKDLEK 621
ENKL LS ANK IK F +N + G A+ E + ++ A LE+
Sbjct: 310 ENKLKENHLSANNANK-IKQFFFNNGSILGWTKEEQSAIQENRDY----SLRSALLSLEE 364
Query: 622 SLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNL 681
+ + L+K E + GNK +++ KE RD T N
Sbjct: 365 IAQAKIELQKYYESVYVNGDGNKREIKP---------------FKEILRD------TNNF 403
Query: 682 KGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLK 725
+ +E DKL +S + + +E +N + + + T++
Sbjct: 404 EKAYKERYDKLVSLSAAIIQAKEGGNERQNSSANNNNPIKNTIE 447
>ref|NP_223158.1| putative [Helicobacter pylori J99]
Length = 912
Score = 33.9 bits (76), Expect = 0.025
Identities = 74/358 (20%), Positives = 136/358 (37%), Gaps = 39/358 (10%)
Query: 384 DQLTGSQRALSQEEIRNKVDFMEFLAQNNTKLDNLSEKEKEKFQNEIEDFQKDSKAYLDA 443
++LT + S EEI+ K E Q K+D E + K Q ++ K +
Sbjct: 15 EELTNGVKQAS-EEIKAKATKYEKALQELQKID---ESKLTKEQQQVLKVFKGELDQTEI 70
Query: 444 LGND-RIAFVSKKDTKHSALITEFNNGDLSYTLKDYGKKADKALDREKNVTLQGSLKHDG 502
G D ++ + T+H+ G +K YG + L ++ + + +K+
Sbjct: 71 KGIDLNDLYILDQGTRHA--------GAKKILVKHYGVENTGGLTNDELINMSEVIKNGS 122
Query: 503 VMFVDYSNFK--YTNASKNPNKGVGATNGVSHLEAGFNKVAVF----NLPDLNNLAIT-S 555
V+ + K + + N GV V L G NKV F N D + S
Sbjct: 123 VLLESFERLKNGFRYGYEWDNNGVKLRLVVDDLNDG-NKVFDFYSDRNFKDFRDARPQPS 181
Query: 556 FVRRNLENKLTAKGLSLQEANKLIKDFLSSNKELAG------KALNFNKAVAEAKSTGNY 609
+ N +T G + + ++ L N EL K L+ + K
Sbjct: 182 ASKDNGTQPITLDGNNPTQKPLTSQEDLLKNTELNNETTQEVKNLSLLEQANAEKLAKLE 241
Query: 610 DEVKKAQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEAN 669
E K ++++ K+ + + ++KKLE + GN +E++ + + ++
Sbjct: 242 SEAKVSEQEFLKAKEQEAKRKVALKKKLEHERGNAGNIESQTKIE---------VGEDIP 292
Query: 670 RDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKAL 727
+A ++ +RE+ D L+ KD SF K D + EE +K++
Sbjct: 293 TQIQAQIPKSRVRLNEREIYD-LDYAIVKAKDLKPSFTTGGTQKRTDMN--EEQIKSI 347
>ref|NP_223001.1| putative FLAGELLAR-HOOK ASSOCIATED PROTEIN 3 (HAP3) [Helicobacter
pylori J99]
Length = 828
Score = 33.5 bits (75), Expect = 0.033
Identities = 82/418 (19%), Positives = 154/418 (36%), Gaps = 37/418 (8%)
Query: 388 GSQRALSQEEIRNKVDFMEFLAQNNTKLDNLSEKEKEKFQNEIEDFQKDSKAYLDALGND 447
G + A+ + +D L N+ + +L + KE+F NE+ D + ++ L + N
Sbjct: 410 GDESAIKIPNLPINLDIPILLDVKNSTIKDLKDAIKERFNNEV-DVEIETNGRLRIIDNS 468
Query: 448 R----IAFVSKKDTKHSALITEFNNGDLSYTLKDYGKKADKALDREKNVTLQGSLKHDGV 503
I+F + + + S K Y K L+ T Q +
Sbjct: 469 SKESPISFALSTLDQKGLEVAGIPTNNASEYQKTYFNKEGAKLESNVAQTAQNDAANGST 528
Query: 504 MFVDYSNFKYTNASKNPNKGVGATNGVSHLEAGFNKVAVFNLPDLNN----LAITSFVRR 559
+ S N+ N + NG S LEA N L+N L++ + V+
Sbjct: 529 KLSEVSKGSLENSVFNMK--LNDVNG-SFLEAQIN---------LDNNGAFLSLPNGVKI 576
Query: 560 NLENKLTAKGLSLQEANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQKDL 619
L + TA + + N++ L +A N + A+ Y ++
Sbjct: 577 PLYDPTTA-DIQASKPNEVTYRQLMDAMSIALNYSNTDPAI--------YQQISDNPTSK 627
Query: 620 EKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQ 679
E R E L K+ + L + K+ + +S F L +K+AN D A
Sbjct: 628 ESKERFIE-LLKQAKDNLSINLNEEGKVIIQDNMHSNTKMQFMLFDKDAN-DFSQNALHS 685
Query: 680 NLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINPE 739
+ +K ++ L I K +F + K + + +++LGI
Sbjct: 686 DKPSLKLNANNAL-IIDKPSVNFFDQLENIITSVRKGIYRPDALGDTYSSDMRNLGIQ-N 743
Query: 740 WISKVENLNAALNEF--KNGKN-KDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQ 794
I+ +++L+ + + KNG + K F + + L+ V+ + TD + N+
Sbjct: 744 GITLIDHLSDHIEKMIAKNGAHGKAFENIIRRNEVLKTQVQSIRGETTGTDMAETYNK 801
>ref|NP_223830.1| putative [Helicobacter pylori J99]
Length = 383
Score = 32.7 bits (73), Expect = 0.056
Identities = 38/172 (22%), Positives = 75/172 (43%), Gaps = 22/172 (12%)
Query: 590 AGKALNFNKAVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEA 649
+G L + E + E +K +++ +K+ ++++ E+E +K ++ N+ K+E
Sbjct: 120 SGIELEQEEQKTEQEKQKTEQEKQKTEQEKQKTEQEKQKTEQEKQKTSNIETNNQIKVEQ 179
Query: 650 KAQA---------NSQKDEIFALINK-EANRDARAIAYTQNLKGIKRELSDKLEKISKDL 699
+ Q N+QKD L+NK E N + GIK ++ ++E K
Sbjct: 180 EQQKTEQEKQKTNNTQKD----LVNKAEQNCQENHNQFFIKKLGIKAGIAIEIEAECKTP 235
Query: 700 KDFS--------KSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINPEWISK 743
K K K ++ SKA+E + L+ ++ L + + I+K
Sbjct: 236 KPTKTNQTPIQPKHLPNSKQPHSQRGSKAQELIAYLQKELESLPYSQKAIAK 287
>ref|NP_223648.1| topoisomerase I [Helicobacter pylori J99]
Length = 686
Score = 32.7 bits (73), Expect = 0.056
Identities = 88/451 (19%), Positives = 165/451 (36%), Gaps = 90/451 (19%)
Query: 545 LPDLNNLAITS-----FVRRNLENKLTAK-GLSLQEANKLIKDFLSSNKELAGKALNFNK 598
L DL N + + F+ L K ++ GLS+ E L ++ + + + +
Sbjct: 243 LKDLKNSVVETKPKKPFITSTLLEKASSMLGLSISEVQSLAQNLFEAG------LITYIR 296
Query: 599 AVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKD 658
AE+ S DE + + K L K E K+G +++ EA
Sbjct: 297 TDAESLSVEFLDETESFYAPIYKDLYL----------KREYKAGKQSQAEAH-------- 338
Query: 659 EIFALINKEANRDARAIAYTQNLKGI------------------KRELSDKLEKISKDLK 700
E + + D +I Y N+ K + DK + + K
Sbjct: 339 EAIRITHPHTTEDLESIVYNANITNQDALKLYQLIFERTIESQGKNAIYDKQDLLFKIKN 398
Query: 701 DFSK---------------SFDEFKNGKNKDFSKAEETLKALKGSVKD---LGINPEWIS 742
++ K S E +N ++ D +E + + ++K L +N +S
Sbjct: 399 EYFKCSVKGLKSAGFLAMFSKKELENDESNDDKDNKEKEQNAQFNLKIDDVLSLNDLVLS 458
Query: 743 KVE-NLNAALNE---FKNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVSV 798
++ N +A E K +NK + + S L VK I+ DK +
Sbjct: 459 TIKRNAPSAYKEADFVKLLENKGIGRPSTYASYLPTLVKREYISIS-QDKKHIITPTHKG 517
Query: 799 AKAMGDFSRVEQVLADLKNFSK-----EQLAQQAQKNEDFNTGKNSELYQSVKNSVNKTL 853
+ + F Q + DL + +++ + DF + NS+ + K N
Sbjct: 518 KRVVEVFENAYQFIIDLTYTKQMEEVLDEIVENKSSYVDFISNLNSKCPKIEKLERNDDE 577
Query: 854 VGNGLSGIEATALAKNFSDIKKELNEKFKNFNNNNNGLKN------STEPIYAKVNKKKT 907
+ G + T + D++ L+E+FKN+ +N K + K NKK +
Sbjct: 578 IKPSSEG-QITYIENILRDLQLNLSEEFKNYKEDNRVAKAFLDRYIKEHEFFKKNNKKAS 636
Query: 908 ------GQVASPEEPIYTQV-AKKVNAKIDR 931
+ A+P++ + ++ AKK N K+ +
Sbjct: 637 SSNNDENRPATPKQISFAEILAKKHNVKLPK 667
>ref|NP_222816.1| methyl-accepting chemotaxis protein (MCP) [Helicobacter pylori J99]
Length = 564
Score = 32.7 bits (73), Expect = 0.056
Identities = 57/279 (20%), Positives = 111/279 (39%), Gaps = 47/279 (16%)
Query: 540 VAVFNLPDLNNLA-ITSFVRRNLENKLTAKGLSLQEANKLIKDFLSSNKELAGKALNFNK 598
++ N ++ L IT +++++N T +L D S ++ K
Sbjct: 292 ISTLNKTSMDKLVQITQETQKSMKNSST----TLNSVKNKATDIASMMNASIEQSQGLRK 347
Query: 599 AVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKD 658
+ E + G E K A DL + + H E+E+ K+E S N + +++
Sbjct: 348 RLIETQ--GLVKESKDAIGDLFSQITESAHTEEELSSKVEQLSRNADDVKS--------- 396
Query: 659 EIFALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKN---GKNK 715
I +IN IA NL + + + + + + F+ DE +N K
Sbjct: 397 -ILDIIND--------IADQTNLLALNAAI--EAARAGEHGRGFAVVADEVRNLAGRTQK 445
Query: 716 DFSKAEETLKALKGSVKDLGINPEWISKVENLNAALNEFKNGKNKDFSK-VTQAKSDLEN 774
++ T+ + + D +S NLN+ K + D SK V + + +
Sbjct: 446 SLAEINSTIMVIVQEIND-------VSSQMNLNSQ----KMERLSDMSKSVQETYEKMSS 494
Query: 775 SVKDVII--NQKVTDKVDNLNQAVSVAKAMGDFSRVEQV 811
++ V++ NQ + D + +Q + + DF+ VE+V
Sbjct: 495 NLSSVVLDSNQSMDDYAKSGHQ---IEAMVSDFAEVEKV 530
>ref|NP_223770.1| putative [Helicobacter pylori J99]
Length = 331
Score = 32.3 bits (72), Expect = 0.073
Identities = 36/147 (24%), Positives = 59/147 (39%), Gaps = 15/147 (10%)
Query: 521 NKGVGATNGVSHLEAGFNKVAVFNLPDLNNLAITSFVRRNLENKLTAKGLSLQEANKLIK 580
NK N + E + N L S +L N++ A ++Q+ +K K
Sbjct: 73 NKIKDLNNAILSQEESLRALKASQEVQANTLKQQSQTLEDLRNEIHANQQAIQQLDKQNK 132
Query: 581 DF----LSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQKDLEKSL--RKREHLEKEVE 634
+ +++L + KA+ E + +KA+K L+ S K L+ E
Sbjct: 133 EMSELLTKLSQDLVSQIALIQKALKEQE--------EKAEKPLKSSTPANKNPPLKAETP 184
Query: 635 KKLESKSGNKNKMEAKAQANSQKDEIF 661
K E K+ K K+E + QK EIF
Sbjct: 185 KNQEKKTQEKAKVEFDKDLSKQK-EIF 210
>ref|NP_222878.1| PEPTIDE CHAIN RELEASE FACTOR 2 (RF-2) [Helicobacter pylori J99]
Length = 363
Score = 32.3 bits (72), Expect = 0.073
Identities = 23/90 (25%), Positives = 42/90 (46%), Gaps = 9/90 (10%)
Query: 783 QKVTDKVDNLNQAVSVAKAMGDFSRVEQVLADLKNFSKEQLAQQAQKNEDFNTGKNSELY 842
+ + +K DN+ + K + R+E+ D NF ++ L + E + E Y
Sbjct: 11 KSLQNKCDNIALIIKPEKIKQELERIEKEQED-PNFWQDVLKARDTNKEKVRLNRLLETY 69
Query: 843 QSVKNSVNKTLVGNGLSGIEATALAKNFSD 872
Q +KNS++++ +E LA+N SD
Sbjct: 70 QKMKNSLDES--------VELFELAQNDSD 91
>ref|NP_223438.1| putative [Helicobacter pylori J99]
Length = 175
Score = 32.0 bits (71), Expect = 0.096
Identities = 32/137 (23%), Positives = 62/137 (44%), Gaps = 3/137 (2%)
Query: 650 KAQANSQK--DEIFALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFD 707
+AQANS K D++ +L +K + T +LK + +L +K++ + L+ K +
Sbjct: 31 EAQANSIKLSDQLVSLSDKLLEKAVDRGRNTDHLKDLN-DLHEKIKHLRLILEPKPKDKE 89
Query: 708 EFKNGKNKDFSKAEETLKALKGSVKDLGINPEWISKVENLNAALNEFKNGKNKDFSKVTQ 767
N K+ S+ E +A+K ++ D + + ++ L+ FK D +
Sbjct: 90 NNPNLKDHQGSETIEIGEAIKKALGDPVFPQDALDAALQIDKQLDSFKQDNLIDVKPLKD 149
Query: 768 AKSDLENSVKDVIINQK 784
+ LE ++ I QK
Sbjct: 150 VLAQLEAELRKAIDFQK 166
>ref|NP_223979.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 696
Score = 31.6 bits (70), Expect = 0.12
Identities = 36/197 (18%), Positives = 78/197 (39%), Gaps = 5/197 (2%)
Query: 744 VENLNAALNEFKNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVSVAKAMG 803
++N A L + + + +++TQ + + KD Q++ ++ + + +S+A+ +
Sbjct: 309 IKNAQAVLEKTQQLNANENTQITQPDNFNPYTSKDTQFAQEMLNRANAQAEILSLAQQVA 368
Query: 804 DFSRVEQVLADLKNFSKEQLAQQAQKNEDFNTGKNSELYQSVKNSVNKTLVGNGLSGIEA 863
D + ++ +E A A D G + NS+ + G +
Sbjct: 369 D--NFHSIQGPIQQDLEECTAGSAGVINDNTYGSGCAFVKETLNSLEQHTAYYGNQVNQD 426
Query: 864 TALAKNFSDIKKELNEKFKNFNNNNNGLKNSTEPIYAKVNKKKTGQVASPEEPIYTQVAK 923
AL++ + K+ L+ + N+G+ N AK + T +P P
Sbjct: 427 RALSQTILNFKEALSTLGNDSKAINSGISNLPN---AKSLQNMTHATQNPNSPEGLLTYS 483
Query: 924 KVNAKIDRLNQIASGLG 940
+K ++L +A LG
Sbjct: 484 LDTSKYNQLQTVAQELG 500
>ref|NP_222933.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 696
Score = 31.6 bits (70), Expect = 0.12
Identities = 36/197 (18%), Positives = 78/197 (39%), Gaps = 5/197 (2%)
Query: 744 VENLNAALNEFKNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVSVAKAMG 803
++N A L + + + +++TQ + + KD Q++ ++ + + +S+A+ +
Sbjct: 309 IKNAQAVLEKTQQLNANENTQITQPDNFNPYTSKDTQFAQEMLNRANAQAEILSLAQQVA 368
Query: 804 DFSRVEQVLADLKNFSKEQLAQQAQKNEDFNTGKNSELYQSVKNSVNKTLVGNGLSGIEA 863
D + ++ +E A A D G + NS+ + G +
Sbjct: 369 D--NFHSIQGPIQQDLEECTAGSAGVINDNTYGSGCAFVKETLNSLEQHTAYYGNQVNQD 426
Query: 864 TALAKNFSDIKKELNEKFKNFNNNNNGLKNSTEPIYAKVNKKKTGQVASPEEPIYTQVAK 923
AL++ + K+ L+ + N+G+ N AK + T +P P
Sbjct: 427 RALSQTILNFKEALSTLGNDSKAINSGISNLPN---AKSLQNMTHATQNPNSPEGLLTYS 483
Query: 924 KVNAKIDRLNQIASGLG 940
+K ++L +A LG
Sbjct: 484 LDTSKYNQLQTVAQELG 500
>ref|NP_222758.1| DNA transformation compentancy [Helicobacter pylori J99]
Length = 376
Score = 31.6 bits (70), Expect = 0.12
Identities = 32/104 (30%), Positives = 45/104 (42%), Gaps = 8/104 (7%)
Query: 665 NKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETL 724
N E+++DA A + LK + L+ K SK+ S D KDFS + L
Sbjct: 62 NTESSKDATIKALQEQLKAALKALNSKEMNYSKEETFTSPPMDPKTTPPKKDFSPKQLDL 121
Query: 725 KA-----LKGSVKDLGINPEWISKVENLNAALNEFKNGKNKDFS 763
A K S K+ N I V+N N ++ F N K KD +
Sbjct: 122 LASRITPFKQSPKNYEEN--LIFPVDNPN-GIDSFTNLKEKDIA 162
>ref|NP_224142.1| TYPE I RESTRICTION ENZYME (RESTRICTION SUBUNIT) [Helicobacter
pylori J99]
Length = 991
Score = 31.2 bits (69), Expect = 0.16
Identities = 28/143 (19%), Positives = 62/143 (42%), Gaps = 2/143 (1%)
Query: 743 KVENLNAALNEFKNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDN-LNQAVSVAKA 801
K +NLN A K + KV K LE+ V+D++++ ++ N A+ VA++
Sbjct: 452 KTQNLNEAAKTELKKKWVNLQKVFSTKDRLEHIVQDIVLDMAKLPRLSNGKGNAMLVAES 511
Query: 802 MGDFSRVEQVLADLKNFSKEQLAQQAQKN-EDFNTGKNSELYQSVKNSVNKTLVGNGLSG 860
+ + R ++ + + K + + N D ++E +S K ++ N +
Sbjct: 512 VYNACRYFELFLETELKDKVAVITSYEPNIADLKDCGSNESEESYKYRAYCKMLQNFFNE 571
Query: 861 IEATALAKNFSDIKKELNEKFKN 883
+ + ++E+ ++F N
Sbjct: 572 KDEKKALNKIKEFEEEVKKRFIN 594
Score = 28.5 bits (62), Expect = 1.1
Identities = 21/93 (22%), Positives = 43/93 (45%), Gaps = 5/93 (5%)
Query: 61 QAFDGISQLREEYSNKAIKNPTKKNQYFSDFIDKSNDLINKDNLIDVESSTKSFQKFGDQ 120
Q F S + E +N K +K + +K + L+N D ++ ++ ++ Q
Sbjct: 841 QVFKNESSMAESIANNTRKRIIEKEASDPKYYEKLSSLLN-DLILQFREKKLTYLEYL-Q 898
Query: 121 RYQIFTSWVSHQKD---PSKINTRSIRNFMENI 150
+ Q V ++D P KINT++++ +N+
Sbjct: 899 QIQDLAKKVIDKEDRNYPKKINTKALKTLYDNL 931
Score = 26.6 bits (57), Expect = 4.0
Identities = 24/108 (22%), Positives = 51/108 (47%), Gaps = 11/108 (10%)
Query: 727 LKGSVKDLGINPEWISKVENLNAALNEFKNGKNKDFSKVTQAKSDLENSVKDVIINQKVT 786
L G KD G ++ ++L A +++ NG +++ + D++ + D +QK+
Sbjct: 641 LDGEDKDFGCIIDYSDLFDSLQEAHSDYTNGAFENYE-----REDIQGLISDK--SQKIK 693
Query: 787 DKVDNL-NQAVSVAKAMGDFSRVEQVLADLKNFSKEQLAQQAQKNEDF 833
K++ +Q S+ +++ + E +A F + L + AQK F
Sbjct: 694 KKLEETRDQLKSLCESVKEPKDEEDYIA---YFCGDNLEKNAQKRRLF 738
Score = 25.8 bits (55), Expect = 6.8
Identities = 15/61 (24%), Positives = 27/61 (43%)
Query: 793 NQAVSVAKAMGDFSRVEQVLADLKNFSKEQLAQQAQKNEDFNTGKNSELYQSVKNSVNKT 852
NQ + KAMG + +D +N +KE L KN+ + ++ Q + ++
Sbjct: 9 NQVIETFKAMGYAYLGDLTKSDNENINKESLKAWLIKNQKIEPERWHKIEQEIHTALKND 68
Query: 853 L 853
L
Sbjct: 69 L 69
>ref|NP_223788.1| putative [Helicobacter pylori J99]
Length = 433
Score = 31.2 bits (69), Expect = 0.16
Identities = 60/295 (20%), Positives = 125/295 (42%), Gaps = 36/295 (12%)
Query: 616 QKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQ----ANSQKDEIFALINKEANRD 671
QK+ E KRE+ E E K E++ K+E + + A +K+E+ K ++
Sbjct: 133 QKEAEIERLKRENNEAESRLKAENEKKLNEKLELEREKIEKALHEKNEL-----KFKQQE 187
Query: 672 ARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKALKGSV 731
+ LK +R+ ++ ++++ + +EF K EE K +G
Sbjct: 188 EQLEMLRNELKNAQRKAELSSQQFQGEVQEL--AIEEFLRQK-FPLDSVEEIKKGQRG-- 242
Query: 732 KDLGINPEWISKVENLNAALNEFKNGKNKDFSK--VTQAKSDLENSVKD--VIINQKVTD 787
G + + E N +++ + K+F K V + KSD+ D VI+++ +
Sbjct: 243 ---GDCIQVVHTREFQNCGKIYYESKRTKEFQKAWVEKLKSDMREIGADVGVIVSEALPK 299
Query: 788 KVDNLNQAVSV-AKAMGDFSRVEQVLADLKNFSKEQLAQQAQKNEDFNTGKNSELYQSVK 846
+++ + V + +F + VL + + LA+++Q+N+ K + LY +
Sbjct: 300 EMERMGLFEGVWVCSFEEFKGLSAVLRE--GVIQVSLAKKSQENKG---DKVNLLYHYLT 354
Query: 847 NSVNKTLVGNGLSGI---------EATALAKNFSDIKKELNEKFKNFNNNNNGLK 892
+S V + G E A+A+ + +K++ + F++ N +K
Sbjct: 355 SSEFSMQVNAIIEGFEQLRADLESEKRAMARIWKSREKQIEKVFESTINMYGSIK 409
>ref|NP_223490.1| putative [Helicobacter pylori J99]
Length = 296
Score = 30.8 bits (68), Expect = 0.21
Identities = 45/181 (24%), Positives = 80/181 (43%), Gaps = 24/181 (13%)
Query: 634 EKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQN----LKG---IKR 686
EK L S + N E A NSQK+ F K ++ + I Y+Q LK I
Sbjct: 101 EKNLLSYPNDPNNNEDNAN-NSQKNP-FLYKPKRKTKNPKLIEYSQQDFYPLKNGDIIMS 158
Query: 687 ELSDK--LEKISKDLKDFSKSF-DEFKNGKNKDFSKAEETLKALKGSVKDLGINPEWISK 743
+ D+ +E SK LK F K D+ + + F+ + + +KG + ++
Sbjct: 159 KEGDQWLIEIQSKALKRFLKDQNDKDRQIQTFTFNDTKTQIAQIKGKISS------YVYT 212
Query: 744 VENLNAALNEFKNG----KNKD--FSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVS 797
N + +L F K D ++ +A +E S +++ + TDK+D+ ++A+S
Sbjct: 213 TNNGSLSLRPFYESFLLEKKSDNVYTIENKALDTMEISKCQMVLKKHSTDKLDSQHKAIS 272
Query: 798 V 798
+
Sbjct: 273 I 273
>ref|NP_224099.1| putative [Helicobacter pylori J99]
Length = 329
Score = 30.4 bits (67), Expect = 0.28
Identities = 50/228 (21%), Positives = 90/228 (38%), Gaps = 35/228 (15%)
Query: 552 AITSFVRRNLENKLTAKGLSLQEANKLIKDFLSSNKELAGKALNFN------KAVAEAKS 605
+++S V +E KG +++ + + F S+ EL K KAV++
Sbjct: 48 SVSSKVPGRIEKVFVKKGDRIKKGDLV---FSISSPELEAKLAQAEAGHKAAKAVSDEVK 104
Query: 606 TGNYDEVKKAQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALI- 664
G+ DE + +D+ ++ + + +L KE K+++ N + ++DE +A
Sbjct: 105 RGSRDETINSARDVWQAAKSQANLAKETYKRVQDLYDN------GVASLQKRDEAYAAYE 158
Query: 665 NKEANRDARAIAYTQNLKGIKRELS--------------DKLEKISKDLKDFSKSFDEFK 710
+ + N A Y L G E +++E KD+K + E
Sbjct: 159 STKYNESAAYQKYKMALGGASSESKIAAKAKESAALGQVNEVESYLKDVKALAPIDGEVS 218
Query: 711 NGKNKDFSKAEETLKALKGSVKDLGINPEWISKVENLNAALNEFKNGK 758
N S E + K V + + W+ K+ LNEFK GK
Sbjct: 219 NVL---LSGGELSPKGFP-VVLMIDLKDSWL-KISVPEKYLNEFKVGK 261
>ref|NP_223610.1| putative [Helicobacter pylori J99]
Length = 267
Score = 30.4 bits (67), Expect = 0.28
Identities = 27/95 (28%), Positives = 49/95 (51%), Gaps = 9/95 (9%)
Query: 541 AVFNLPDLNNLAITSFVRRNLEN--KLTAKGLSLQEANKLIKDFLSSNKELAGKALNFNK 598
A+ NL + LA+ V +N + AK S+Q+ IK S +EL ++LN +
Sbjct: 45 AILNLEE-EKLALKLQVSKNEQTLQDTNAKIASIQKKMSEIK----SEREL--RSLNIEE 97
Query: 599 AVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEKEV 633
+A+ +S E++ Q +++ K+E L+KE+
Sbjct: 98 DIAKERSNQANREIENLQNEIKHKSEKQEVLKKEM 132
Score = 29.6 bits (65), Expect = 0.47
Identities = 27/132 (20%), Positives = 52/132 (38%), Gaps = 20/132 (15%)
Query: 612 VKKAQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEAN-- 669
+++ +KDL+K+L +E K + E K K ++ Q + A I K+ +
Sbjct: 25 IREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEI 84
Query: 670 ------------------RDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKN 711
R +A +NL+ + S+K E + K++ + K E +N
Sbjct: 85 KSERELRSLNIEEDIAKERSNQANREIENLQNEIKHKSEKQEVLKKEMLELEKLALELEN 144
Query: 712 GKNKDFSKAEET 723
+ +ET
Sbjct: 145 LVENEVKNIKET 156
>ref|NP_222780.1| putative [Helicobacter pylori J99]
Length = 500
Score = 30.4 bits (67), Expect = 0.28
Identities = 57/260 (21%), Positives = 108/260 (40%), Gaps = 42/260 (16%)
Query: 957 DDLSKVGLSASPEPIYATIDDLGGPFPLKRHDKVDDLSKVGRSRNQELAQKIDNL----- 1011
DDL ++ ++ + +++D G + + D+L ++ S+ QEL + +++L
Sbjct: 236 DDLERM-IAFREQEFEKSLEDWMGAYSYDENPN-DELDRMAISKEQELEKSLEDLMPSVL 293
Query: 1012 -----NQAVSEAKAGFFGNLEQTIDKLKDSTKK--NVMNLYVESAKKVPASLSAKLDNYA 1064
N++++ AK N ++ ++ + K+ N N E+ + L +N +
Sbjct: 294 GVPSYNESLTLAKNRCVKNFKEALEGFTEKIKESPNDSNAINEAFDNLETELERATENLS 353
Query: 1065 --INSHTRINSNIQNGAI-------NEKATGMLTQKNP--------EWLKLVNDKIVAHN 1107
I+ N N A+ + K + ++ +KNP EW D + +
Sbjct: 354 QKIDPVLERNENYTQKALEYREFLESRKESFIVDEKNPYPEEVSFNEWRWAEFDSVFSAI 413
Query: 1108 VGSVSLSE----YDKIGFNQKNMKDYSDSFKFSTKLNNAVKD-IKSGFT-HFLANAFSTG 1161
V L++ + + Q +KD F +T+L K I G+ HF AN G
Sbjct: 414 VPLEDLNKTACAHHALKALQATLKDNDLGFD-ATELEQIAKGFIPRGYLWHFDANVL--G 470
Query: 1162 YYCLARENAEHGIKNVNTKG 1181
L RE G+K +TKG
Sbjct: 471 NLALVREELLLGVK--HTKG 488
>ref|NP_223195.1| cag island protein [Helicobacter pylori J99]
Length = 522
Score = 29.6 bits (65), Expect = 0.47
Identities = 34/153 (22%), Positives = 79/153 (51%), Gaps = 19/153 (12%)
Query: 583 LSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQK------DLEKSLRKREHLEKEVEKK 636
+ SN +A+NF A T +Y E K +K D ++ +++ LEKE E K
Sbjct: 102 VKSNLMFEKEAVNF------ALMTRDYQEFLKTKKLIVDAPDPKELEEQKKALEKEKEAK 155
Query: 637 LESKSGNKNKMEAKAQANSQ-KDEIFALINKEANRDARAIAYTQNLKG-IKRELSDKLEK 694
+++ K+K E + + ++ + + L N +N + ++ +NL IK++ ++L++
Sbjct: 156 EQAQKAQKDKREKRKEERAKNRANLENLTNAMSN--PQNLSNNKNLSELIKQQRENELDQ 213
Query: 695 ISK--DLKDFSKSFDEFKNGKNKDFSKAEETLK 725
+ + D+++ +++ + K + + +AEE ++
Sbjct: 214 MERLEDMQEQAQA-NALKQIEELNKKQAEEAVR 245
>ref|NP_223183.1| HEAT SHOCK PROTEIN [Helicobacter pylori J99]
Length = 443
Score = 29.6 bits (65), Expect = 0.47
Identities = 77/364 (21%), Positives = 140/364 (38%), Gaps = 51/364 (14%)
Query: 524 VGATNGVSHLEAGFNKVAVFNLP----DLNNLAITSFVRRNLENKL-----TAKGLSLQE 574
+G+T GV E + LP + + FV R++E+ + + L E
Sbjct: 58 IGST-GVGKTEIARRMAKIMKLPFVKVEASKYTEVGFVGRDVESMVRDLVNNSVLLVENE 116
Query: 575 ANKLIKDFLSSN--KELAGKALN-FNKAVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEK 631
+ +KD + +++A K L V+E K + + K Q+ + + +E
Sbjct: 117 HKERLKDKIEEAVVEKIAKKLLPPLPSGVSEEKKQEYANSLLKMQQRIAQGELDSREIEI 176
Query: 632 EVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLKGIKRELSDK 691
EV KK N + Q N + + +KE ++ + ++ + + +K E+SD
Sbjct: 177 EVRKKSIEIDSNVPPEILRVQEN-----LIKVFHKEQDKVKKTLSVKEAKEALKAEISDT 231
Query: 692 L---EKISKD------------LKDFSKSFDEFKNGKNKDFSK---AEETLKALKGSVKD 733
L E I + + + K K G +D SK + L ++GSV
Sbjct: 232 LLDGEAIKMEGLKRAESSGVIFIDEIDKIAVSSKEGSRQDPSKEGVQRDLLPIVEGSV-- 289
Query: 734 LGINPEWIS-KVEN-LNAALNEFKNGKNKDFSKVTQA----KSDLENSVKDVIINQKVTD 787
+N ++ S K E+ L A F K D Q + +LEN ++++
Sbjct: 290 --VNTKYGSIKTEHILFIAAGAFHLSKPSDLIPELQGRFPLRVELENLTEEIMYMILTQT 347
Query: 788 KVDNLNQAVSVAKAMGDFSRVEQVLADLKNFSKEQLAQQA-QKNEDFNTGKNSELYQSVK 846
K + Q ++ K G VE D +L+ A QK+ED + + V
Sbjct: 348 KTSIIKQYQALLKVEG----VEIAFEDDAIKELAKLSYNANQKSEDIGARRLHTTIEKVL 403
Query: 847 NSVN 850
++
Sbjct: 404 EDIS 407
>ref|NP_222901.1| TRIOSE PHOPHATE ISOMERASE [Helicobacter pylori J99]
Length = 234
Score = 29.6 bits (65), Expect = 0.47
Identities = 21/74 (28%), Positives = 34/74 (45%), Gaps = 14/74 (18%)
Query: 832 DFNTGKNSELYQSVKNSVNKTLVGNGLSGIEATALAKNFSDIKKELNEKFKNFNNNNNGL 891
DF GKN ++ + G + T K F +K+ L+E+ +N + N + L
Sbjct: 109 DFFKGKNFKIVYCI--------------GEDLTTREKGFRAVKEFLSEQLENIDLNYSNL 154
Query: 892 KNSTEPIYAKVNKK 905
+ EPI+A KK
Sbjct: 155 IVAYEPIWAIGTKK 168
>ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [Helicobacter pylori J99]
Length = 681
Score = 29.6 bits (65), Expect = 0.47
Identities = 85/447 (19%), Positives = 158/447 (35%), Gaps = 70/447 (15%)
Query: 405 MEFLAQNNTKLDNLSEKEKEKF-------QNEIEDFQKDSKAYLDALGNDRIAFVSKKDT 457
++F+ L N + KE F +N + D +KD + D +R VS+KD
Sbjct: 213 IDFIYAYKDALINRERRVKELFRSFDDDDENSVSDPKKDDDSEEDEENEERKKVVSEKDK 272
Query: 458 KHSALITEFNNGDLSYTLKDYGKKADKALDREKNVTLQGSLKHDGVMFVDYSNFKYTNAS 517
K + E L K++ K + +D +++ ++ + + S
Sbjct: 273 KRVEKVQESFKA-LDKAKKEWLKALEAPIDEKEDELVRSLTLAYKRQTLKDRLYDLEPTS 331
Query: 518 KNPNKGVGATNGVSHLEAGFNKVAVFNLPDLNNLAITSFVRRNLENKLTAKGLSLQEANK 577
K N+ V GF K + LE KL
Sbjct: 332 KLINELVKTMETTLKSGDGFEKEL-----------------KRLEYKL-----------P 363
Query: 578 LIKDFLSSN-KELAGKALNFNK-----AVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEK 631
L D L +N K++ N K V EA Y ++KK E S +
Sbjct: 364 LFNDTLIANHKKILANITNMTKEDIIAQVPEATMVSVYMDLKKLFLTKEASEEGFDLAPN 423
Query: 632 EVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLKGIKRELSDK 691
++++ LE K + +A+ K + +++ +R + +
Sbjct: 424 KLKEILEQIKRGK-LISDRAKNKMAKSNLRLVVSIAKRFTSRGLPF-------------- 468
Query: 692 LEKISKDLKDFSKSFDEFKNGKNKDFSK------AEETLKALKGSVKDLGINPEWISKVE 745
L+ I + K+ D+F++ K FS + +A+ + + I I +
Sbjct: 469 LDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWWIKQAISRAIADQARTIRIPIHMIDTIN 528
Query: 746 NLNAALNEF--KNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAVSVAK--A 801
+N + + + GK D V + + VK+VI KVT + +L V
Sbjct: 529 RINKVMRKHIQETGKEPDLEVVAEEVGLSLDKVKNVI---KVTKEPISLETPVGNDDDGK 585
Query: 802 MGDFSRVEQVLADLKNFSKEQLAQQAQ 828
GDF + +++ + + +E L Q +
Sbjct: 586 FGDFVEDKNIVSSIDHIMREDLKAQIE 612
>ref|NP_223180.1| putative [Helicobacter pylori J99]
Length = 706
Score = 29.3 bits (64), Expect = 0.62
Identities = 33/139 (23%), Positives = 62/139 (43%), Gaps = 12/139 (8%)
Query: 565 LTAKGLSLQEANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQKDLEKSLR 624
LT G + + +NK ++ K +L NK + + + G + K+A ++ +L+
Sbjct: 482 LTLTGYNAKYSNKSFQEKRDMEKGFKQSSLKLNKNLKDLEPFGEKEIEKRASDLVDWALK 541
Query: 625 KREH--LEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLK 682
+ LE E ++ + K K K E K +K+E + L ++ D + ++ +
Sbjct: 542 IWTYPILEAETLEEYKPKKEKKEKKEKK-----EKEE-YKLKKEKKVYDLSSYKFSPH-- 593
Query: 683 GIKRELSDKLEKISKDLKD 701
REL D L K K L +
Sbjct: 594 --SRELFDILRKEIKTLDE 610
Score = 25.4 bits (54), Expect = 8.9
Identities = 48/211 (22%), Positives = 85/211 (39%), Gaps = 38/211 (18%)
Query: 613 KKAQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDA 672
K +K E S++ E+ K EK + S N +K+E + + ++ ++KE + D
Sbjct: 138 KNKRKPSEPSVKIMENF-KLFEKWI---SKNTDKLETIFKGLEKLMIVYIALDKEKD-DP 192
Query: 673 RAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNG----KNKDFSKAEE------ 722
+ I + N KGI+ +D + + + +F NG +DF + E
Sbjct: 193 QLIFESMNSKGIELTQTDLIRNYIIMETETEEKQKDFYNGYWRAMEEDFKQNETLFNRFV 252
Query: 723 ------------TLKALKGSVKDLGINPEWISKVENLNAALNE---------FKNGKNKD 761
+K + G+ KD E I ++E+L L + FK NKD
Sbjct: 253 RHYLTIKTGKIPNIKKVYGAFKDYQ-QKEGI-EIEDLLKDLQKYCGYFCQIAFKKEANKD 310
Query: 762 FSKVTQAKSDLENSVKDVIINQKVTDKVDNL 792
+K DLE V ++ + +D D +
Sbjct: 311 LNKALSFLVDLEMDVVYPLLLELYSDYSDGV 341
>ref|NP_223858.1| GLYCINAMIDE RIBONUCLEOTIDE SYNTHETASE [Helicobacter pylori J99]
Length = 424
Score = 28.9 bits (63), Expect = 0.81
Identities = 38/172 (22%), Positives = 65/172 (37%), Gaps = 24/172 (13%)
Query: 712 GKNKDFSKAEETLKALKGSVKDLGINPEWISKVENLNAALNEFKNGKNKDFSKVTQAKSD 771
G +K+ +K E + +K VK+ GI + +L ALN +N K +
Sbjct: 95 GASKEAAKLEASKSYMKAFVKECGIKSASYFETNDLKEALNYIQNASFPLVIKALNKNTS 154
Query: 772 LENSVKDVIINQKVTDKVDNLNQAVSVAKAMGDFSRVEQVLADLKNFSKEQLAQQAQKNE 831
+ + ++ + + + D + N+ V + + F L N+
Sbjct: 155 IVHHQEEAL--KILEDALKQSNEPVIIEPFLEGFELSVTALI---------------AND 197
Query: 832 DFNTGKNSELYQSVKNSVNKTLVGNGLSGIEATALAKNFSDIKKELNEKFKN 883
DF + Y+ + N G G+ A A A FS+ EL EK KN
Sbjct: 198 DFILLPFCQNYKRLLEGDN----GVNTGGMGAIAPANFFSN---ELEEKIKN 242
>ref|NP_223629.1| putative [Helicobacter pylori J99]
Length = 487
Score = 28.9 bits (63), Expect = 0.81
Identities = 62/250 (24%), Positives = 104/250 (40%), Gaps = 49/250 (19%)
Query: 397 EIRNKVDFMEFLAQNNTKLDNLSEKEKEKFQNEIEDFQKDSKAYLDALGNDRIAFVSKKD 456
++++K+D + L N+ K+ E+ K+ ++N +DF+K + +L D A + K D
Sbjct: 186 KLQDKLDIL-ILNPNDVKISLNEEEMKKYYENHRKDFKKPTSFKTRSLYFD--ASLEKTD 242
Query: 457 TKHSALITEFNNGDLSYTLKDYGKKADKALDREKNVTLQGSLKHDGVMFVDYSNFKYTNA 516
K L ++ +SY K+ GK D ++Q +KHD + + +N K +
Sbjct: 243 LKE--LEEYYHKNKVSYLDKE-GKLQDFK-------SVQEQVKHD--LNMQKANEKALRS 290
Query: 517 SKNPNKGVGATNGVSHLEAGFNKVAVFNLPDLNNLAITSFVRRNLENKLTA-KGLSLQEA 575
KG N ++ F K NN T+ + KLTA K L + +
Sbjct: 291 YIALKKG----NAQNYTTQDFEK---------NNSPYTA----EITQKLTALKPLEVLKP 333
Query: 576 NKLIKDFLSSNKELAGKALNFNKAVAEAK-STGNYDEVKKAQK---DLEKSLRKREHLEK 631
F+ + V++ K N+DE K A K EK+L + L K
Sbjct: 334 EPFKDGFI------------VVQLVSQIKDELQNFDEAKSALKTRLTQEKTLMALQTLAK 381
Query: 632 EVEKKLESKS 641
E K + KS
Sbjct: 382 EKLKDFKGKS 391
>ref|NP_223386.1| putative [Helicobacter pylori J99]
Length = 569
Score = 28.9 bits (63), Expect = 0.81
Identities = 21/83 (25%), Positives = 36/83 (43%), Gaps = 9/83 (10%)
Query: 644 KNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFS 703
K K E ++ N+QK EI ALIN E + Q + EL + ++ + +K
Sbjct: 489 KTKREMESHFNNQKQEILALINDETR-------FKQTCFPMALELEETIQACEESVKKTQ 541
Query: 704 KSFDEFKN--GKNKDFSKAEETL 724
+ + +DF K E+ +
Sbjct: 542 ECAQGLEKWIQTGEDFIKGEDII 564
>ref|NP_223380.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 651
Score = 28.9 bits (63), Expect = 0.81
Identities = 19/69 (27%), Positives = 37/69 (53%), Gaps = 2/69 (2%)
Query: 712 GKNKDFSKAEETLKALKGSVKDLGINPEWISKVENLNAALNEFKNGKNKDFSKVTQAKSD 771
G+ K+ ++ E L V L + + + +E +N++LN K+ N +++ TQ S
Sbjct: 44 GELKNLNEKYEQLSQYLNQVASLKQSIQNANNIELVNSSLNYLKSFTNNNYNSTTQ--SP 101
Query: 772 LENSVKDVI 780
+ N+V+ VI
Sbjct: 102 IFNAVQAVI 110
>ref|NP_223281.1| putative lipopolysaccharide biosynthesis protein [Helicobacter pylori
J99]
Length = 444
Score = 28.9 bits (63), Expect = 0.81
Identities = 19/62 (30%), Positives = 28/62 (44%), Gaps = 8/62 (12%)
Query: 971 IYATIDDLGGPFPLKRHDKVDDLSKVGRSRNQELAQKIDNLNQAVSEAKAGFFGNLEQTI 1030
+ A DDL G K DDL+K + +L K D+LN+ ++E G E +
Sbjct: 246 VVAKYDDLTG--------KYDDLNKNIAEKYDDLTGKYDDLNKNIAEKYDDLMGKYEALL 297
Query: 1031 DK 1032
K
Sbjct: 298 AK 299
>ref|NP_223176.1| putative [Helicobacter pylori J99]
Length = 450
Score = 28.9 bits (63), Expect = 0.81
Identities = 47/221 (21%), Positives = 91/221 (40%), Gaps = 28/221 (12%)
Query: 623 LRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLK 682
++K + E +EKK E +NK E K +A + K+AN+ T+N
Sbjct: 237 VKKEKRKEVRIEKKEERIDARENKREIKQEAIKEP--------KKANQG------TENAP 282
Query: 683 GIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINPEWIS 742
++ + K E+ ++ +S DE K K + T KA++ ++ +
Sbjct: 283 TLEEKNYQKAERKFDAKEERRRSRDERK--------KTKATKKAMEFEEREKEHDERDEK 334
Query: 743 KVENLNAALNEFKNGKNKDFSKVTQAKSDLENSVKDVIINQ---KVTDKVDNLNQAVSVA 799
+ E AL E G K +K + + + E++ + N K T+ L ++ +
Sbjct: 335 ETEERRKAL-EMDKGNEKVNAKENEREINQESANEPSSENNATLKDTENTSVLKESAAKK 393
Query: 800 KAMGDFSRVEQVLADLKNFSKEQLAQQAQKNEDFNTGKNSE 840
+A S+ E+ LK K+ A+Q + + ++ E
Sbjct: 394 EAPKPSSKEEK--RRLKEEKKKAKAEQRAREFEQRAREHQE 432
Score = 28.9 bits (63), Expect = 0.81
Identities = 26/107 (24%), Positives = 47/107 (43%), Gaps = 7/107 (6%)
Query: 558 RRNLENKLTAKGLSLQEANKLI---KDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKK 614
R E + K L + + N+ + ++ N+E A + + N A K T N +K+
Sbjct: 331 RDEKETEERRKALEMDKGNEKVNAKENEREINQESANEPSSENNATL--KDTENTSVLKE 388
Query: 615 --AQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDE 659
A+K+ K K E + EKK + E +A+ + ++DE
Sbjct: 389 SAAKKEAPKPSSKEEKRRLKEEKKKAKAEQRAREFEQRAREHQERDE 435
Score = 28.1 bits (61), Expect = 1.4
Identities = 40/158 (25%), Positives = 67/158 (42%), Gaps = 24/158 (15%)
Query: 596 FNKAVAEAKSTGNYDEVKKAQKDLEKSLRKREHLE---KEVE---KKLESKSGNKNKMEA 649
F+ +S + K +K +E R++EH E KE E K LE GN+ K+ A
Sbjct: 296 FDAKEERRRSRDERKKTKATKKAMEFEEREKEHDERDEKETEERRKALEMDKGNE-KVNA 354
Query: 650 K--------AQANSQKDEIFALINKEANRD------ARAIAYTQNLKGIKRELSDKLEKI 695
K AN E A + N A+ A + K KR L ++ +K
Sbjct: 355 KENEREINQESANEPSSENNATLKDTENTSVLKESAAKKEAPKPSSKEEKRRLKEEKKKA 414
Query: 696 SKDLKDFSKSFDE-FKNGKNKDFSKAEETLKALKGSVK 732
+ + ++ F++ + + +D + EE KAL+ + K
Sbjct: 415 KAEQR--AREFEQRAREHQERDEKELEERRKALEMNKK 450
>ref|NP_222812.1| methyl-accepting chemotaxis protein (MCP) [Helicobacter pylori J99]
Length = 675
Score = 28.9 bits (63), Expect = 0.81
Identities = 75/359 (20%), Positives = 135/359 (36%), Gaps = 66/359 (18%)
Query: 557 VRRNLENKLTAKGL---SLQEANK------LIKDFLSSNKELAGKALNFNKAVAEAKSTG 607
V+ LEN T+ G+ L E K L+K+F+ +N +AG ++ F
Sbjct: 57 VQSVLENTYTSMGIVKEMLPEDTKREIKIQLLKNFILANSHVAGVSMFF----------- 105
Query: 608 NYDEVKKAQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKE 667
K ++DL +L + + + K +E+ S N + KA N + + K
Sbjct: 106 ------KDREDLRLTLLR----DNDTIKLMENPSLGSNPLAQKAMKNKEISKSLPYYRKM 155
Query: 668 ANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKDFS-------KA 720
N A + + + +++ L F S D F N K+ S K
Sbjct: 156 PNG-----AEVYGVDILLPLFKENTQEVVGVLMIFF-SIDSFSNEITKNRSDLFLIGVKG 209
Query: 721 EETLKALKGSVKDLGINPEWISKVENLNAALNEFKNGK------------NKDFSKV--- 765
+ L A K S++D I + S + N + +NG ++F V
Sbjct: 210 KVLLSANK-SLQDKSITEIYKSVPKATNEVMAILENGSKATLEYLDPFSHKENFLAVETF 268
Query: 766 -----TQAKSDLENSVKDVIINQKVTDKVDNLNQAVSVAKAMGDFSRVEQVLADLKNFSK 820
T++K +L + +I KV ++V ++ V VA A+ + + + ++
Sbjct: 269 KMLGKTESKDNLNWMIALIIEKDKVYEQVGSVRFVVVVASAIMVLALIIAITLLMRAIVS 328
Query: 821 EQLAQQAQKNEDFNTGKNSELYQSVKNSVNKTLVGNGLSGIEATALAKNFSDIKKELNE 879
+L + F N++ + S V N G TA+ KN +K + E
Sbjct: 329 NRLEVVSSTLSHFFKLLNNQAHSSDIKLVEAR--SNDELGRMQTAINKNILQTQKTMQE 385
>ref|NP_222743.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 690
Score = 28.9 bits (63), Expect = 0.81
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 7/57 (12%)
Query: 834 NTGKNSELYQSVKNSVNKTLVGNGLSGIEATALAKNFSDIKKELNEKFKNFNNNNNG 890
N K ++ YQ ++ + G SG + AL+ +++K +N+ N N NNNG
Sbjct: 174 NYAKINKAYQIIQKAF-------GSSGKDIPALSDTNTELKFTINKNNGNTNTNNNG 223
>ref|NP_224128.1| TYPE III RESTRICTION ENZYME [Helicobacter pylori J99]
Length = 969
Score = 28.5 bits (62), Expect = 1.1
Identities = 74/394 (18%), Positives = 153/394 (38%), Gaps = 41/394 (10%)
Query: 375 NPSFYLYKEDQLTG--SQRALSQEEIRNKVDFMEFLAQNNTKLDNLSEKEKEKFQNEIED 432
N + +L KE +L ++ L E+++ DF++ + ++ N +E++ EK + E+
Sbjct: 608 NQNEFLKKEPELEKLKDEKYLDFEKLK---DFLKDRLIGHFRVRNKNERKTEKIKINKEN 664
Query: 433 FQKDSKAYLDALGNDRIAFVSKKDTKHSALITEFNNGDLSYTLKDYGKKADKALDREKNV 492
F+K + RIA+ ++ ++ N+ + + K K ++ N
Sbjct: 665 FKKFETLWAGLNHQARIAYAIDSESLIDEIVKNINS-SFNVSSKIVSVTTHKKVETMGNN 723
Query: 493 TLQGSLKHDGVMFVDYSNFKYTNASKNPNKGVGATNGVSHLEAGFNKVAVFNLPDLNNLA 552
+ +S ++ +A N ++ F VA L +++
Sbjct: 724 AKTEIFERKSACV--WSLHEFISALSN------------KVKLSFKSVAKV-LENIDENK 768
Query: 553 ITSFVRRNLENKLTAKGLSLQEANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEV 612
+ E + L L+ + IKD +S + K+ YDE
Sbjct: 769 FNEIKKNEQEGLKRLEELFLEIIYQNIKDKISYQMR--------ETTIKNRKNDAFYDEK 820
Query: 613 KKAQKDLEKSL--RKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANR 670
+ ++ L+ SL K E ++K ++ + E + + ++ ++ + R
Sbjct: 821 GEIREFLDGSLGADKYEIKNSSAQEKCLYENFMQVDSEIEKDTIEESNDTKIIVFGKLPR 880
Query: 671 DARAIAYTQNLK---GIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKAL 727
I Q G E +DK + + K K E + + + S A++ +AL
Sbjct: 881 VKIPIGLNQTYSPDFGYVVENNDKKVLLVVETKGVDKK-SELRPEEKRKISTAKKFFEAL 939
Query: 728 KGSVKDLGINPEWISKVEN--LNAALNEFKNGKN 759
K G+N E+ +K+ N L+A +NE N K+
Sbjct: 940 KKQ----GVNIEYKTKLNNDQLSALINEVLNRKD 969
>ref|NP_223605.1| putative [Helicobacter pylori J99]
Length = 188
Score = 28.5 bits (62), Expect = 1.1
Identities = 32/155 (20%), Positives = 69/155 (43%), Gaps = 19/155 (12%)
Query: 680 NLKGIKRELSDKLEKISKDLK-DFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINP 738
+LKG+K ELSD + +D K + + + NK + TL A
Sbjct: 34 DLKGMKSELSDAPAWVFEDPKVPYEEMGVAYIPVNNKYLGIEQATLNAK----------- 82
Query: 739 EWISKVENLNAALNEFKNGKNKDFSKVTQAKSDLENSVKDVIINQ-KVTDKVDNLNQAVS 797
+S + + + ++K + F + Q +++ ++ + + + +V+D NL V+
Sbjct: 83 --LSLIVVFHEIMLKYKKRFMEQFHESEQTATNISYAIYNYLATKIRVSDTYTNLKSEVA 140
Query: 798 VAKAMGDFSRVEQV----LADLKNFSKEQLAQQAQ 828
V K + ++EQ+ A ++N + ++A A+
Sbjct: 141 VVKIKLEGCQIEQIKRYLKASVENLNDNEIAYIAK 175
>ref|NP_223582.1| GERANYLTRANSTRANSFERASE [Helicobacter pylori J99]
Length = 303
Score = 28.5 bits (62), Expect = 1.1
Identities = 25/82 (30%), Positives = 39/82 (47%), Gaps = 6/82 (7%)
Query: 683 GIKRELSDKLEKISKDLKDFSKS--FDEFKNG--KNKDFSKAEETLKALKGSV-KDLG-I 736
G+ ++ D + +++D K+ K+ D KN KA + LK + DL +
Sbjct: 221 GLCFQVLDDIIDVTQDEKESGKTTHLDSAKNSFVNLLGLKKASGYAQTLKTEILNDLNAL 280
Query: 737 NPEWISKVENLNAALNEFKNGK 758
P ++S ENLNA LN GK
Sbjct: 281 EPTYLSLQENLNALLNTLFKGK 302
>ref|NP_223096.1| TRANSLATION INITIATION FACTOR IF-2 [Helicobacter pylori J99]
Length = 949
Score = 28.5 bits (62), Expect = 1.1
Identities = 66/316 (20%), Positives = 127/316 (39%), Gaps = 52/316 (16%)
Query: 574 EANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEKEV 633
+AN+ K+ NK+ A +A T +E KAQ +K+ K++ +
Sbjct: 62 QANQPTKNPKQDNKDDLNTAATPKPLAKKASKTPKKEET-KAQPKPKKTKEKKKEAPAPI 120
Query: 634 EKKLESKSGNKNKMEAKAQANSQKDEIFALINK------EANRDARAI-AYTQ------- 679
KK E + N + + N+ K + I K E + A+ TQ
Sbjct: 121 IKKKEIEIVNTFENQTPLVENTPKAVSHSQIEKAKQKLQEIQKSREALNKLTQSNTNTTN 180
Query: 680 ------NLKGIKRELSDKLEKISKDLKDFS-----------KSFDEFKNGKNKDFSKAEE 722
N+ K+E+S+ ++K +++K K DE +N +++++
Sbjct: 181 NANSASNVSNAKKEISE-VKKQEQEIKRHENIKRRTGFRVIKRNDETENETENSVTESKK 239
Query: 723 TLKALKGSVKDLGINPEW---------ISKVENLNAALNEFKNGKNK--DFSKVTQAK-S 770
++ +D I EW +K + A KN K+ DFS V K +
Sbjct: 240 PTQSAAAIFED--IKKEWQEKDKQETKKTKKPSKPKATPTAKNNKSHKIDFSDVRDFKGN 297
Query: 771 DLENSVKDVIINQKVTDKVDNLNQAVSVAKAMGDFSRVEQVLADLKN--FSKEQLAQQAQ 828
D+ + D I+ + ++ DNLN+ +A + + ++V KN ++ + +Q++
Sbjct: 298 DIYDDETDEILLFDLHEQ-DNLNKEEEEKEARQNIN--DRVRVQRKNPWMNEAGIKRQSK 354
Query: 829 KNEDFNTGKNSELYQS 844
K F + ++ QS
Sbjct: 355 KKRVFRNDNSQKVIQS 370
>ref|NP_224043.1| putative [Helicobacter pylori J99]
Length = 357
Score = 28.1 bits (61), Expect = 1.4
Identities = 27/111 (24%), Positives = 45/111 (40%), Gaps = 6/111 (5%)
Query: 1048 SAKKVPASLSAKLDNYAI--NSHTRINSNIQNGAINEKATGMLTQKNPEWLKLVNDKIVA 1105
S K++ S S D I + + I A+++K L N ++ N + V
Sbjct: 196 SPKRITISTSGVADKIPILAGKNLGVQLAISLHAVDDKTRSSLMPLNKKY----NIECVL 251
Query: 1106 HNVGSVSLSEYDKIGFNQKNMKDYSDSFKFSTKLNNAVKDIKSGFTHFLAN 1156
+ V L + ++ F +KD +DS + KL + IKS L N
Sbjct: 252 NEVRKWPLEQRKRVMFEYLLIKDLNDSLDCAKKLLKLLNGIKSKVNLILFN 302
Score = 25.4 bits (54), Expect = 8.9
Identities = 25/89 (28%), Positives = 33/89 (36%), Gaps = 18/89 (20%)
Query: 418 LSEKEKEKFQNEIEDFQKDSKAYLDALGNDRIAFVSKKDTKHSALITEFNNGDLSYTLKD 477
L K K F++ +F KD AYL+ R T A + E +G Y K
Sbjct: 30 LYAKYKTSFKDMQNNFSKDFIAYLEQEFTLR--------TIEIAHVRESVDGSKKYLFKS 81
Query: 478 YG----------KKADKALDREKNVTLQG 496
K DK +D E N L+G
Sbjct: 82 LRDNHTFEAVLLKMKDKKIDEETNAVLEG 110
>ref|NP_223808.1| putative THIOREDOXIN REDUCTASE [Helicobacter pylori J99]
Length = 324
Score = 28.1 bits (61), Expect = 1.4
Identities = 43/200 (21%), Positives = 77/200 (38%), Gaps = 14/200 (7%)
Query: 690 DKLEKISKDL-KDFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINPEWISKVENLN 748
+K K K + KD+ K E K S EETL+ +K+ I P + + +E++
Sbjct: 46 EKFYKAGKRIDKDYKKQVVELKGHIPFKDSFKEETLENFTNLLKEHRITPSYKTDIESVK 105
Query: 749 AALNEFK------NGKNKDFSKVTQAKSDLENSVK----DVIINQKVTDKVDNLNQAVSV 798
FK + F V K N V ++++V +++ +
Sbjct: 106 KEGELFKITTTSNTTYHAKFVVVAIGKMGQPNRPTTYKIPVALSKQVVFSINDCKENEKT 165
Query: 799 AKAMGDFSRVEQVLADLKNFSKEQLAQQAQKNEDFNTGKNSELYQSVKNSVNKTLVGNGL 858
G S VE +A K + L + ++ N L + + N+ K+ +G +
Sbjct: 166 LVIGGGNSAVEYAIALCKT-TPTTLNYRKKEFSRINEDNAKNLQEVLDNNTLKSKLGVDI 224
Query: 859 SGIEA--TALAKNFSDIKKE 876
+E T + NF+D E
Sbjct: 225 ESLEEDNTQIKVNFTDNTSE 244
>ref|NP_223323.1| putative [Helicobacter pylori J99]
Length = 335
Score = 28.1 bits (61), Expect = 1.4
Identities = 35/143 (24%), Positives = 59/143 (40%), Gaps = 16/143 (11%)
Query: 586 NKELAGKALNFNKAVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEKEVEKKLESKSGNKN 645
NK+ K A A S+ N DE+ K K R + + +VE +E G N
Sbjct: 40 NKKFLQKFAQNQNAYA---SSENLDELLKHAKISSLMFLARAYSKADVEMSIEILKGLLN 96
Query: 646 KMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKS 705
+ KDE + ++ ++ Y Q K +E+ L ++++ K
Sbjct: 97 R--------PLKDEEKIAVLDLLAKNYFSVGYLQKTKDTVKEI---LRFSPRNVEALLKL 145
Query: 706 FDEFKNGKNKDFSKAEETLKALK 728
++ KD+SKA ETL+ L+
Sbjct: 146 LHAYE--LEKDYSKALETLECLE 166
>ref|NP_223274.1| putative vacuolating cytotoxin (VacA) paralog [Helicobacter pylori
J99]
Length = 3194
Score = 28.1 bits (61), Expect = 1.4
Identities = 16/48 (33%), Positives = 22/48 (45%)
Query: 509 SNFKYTNASKNPNKGVGATNGVSHLEAGFNKVAVFNLPDLNNLAITSF 556
S+ + N S G A NGVS+L N FN + NN +T +
Sbjct: 1564 SSLSFYNDSVANFNGTTAFNGVSYLNLNPNAQVSFNQANFNNANVTFY 1611
>ref|NP_222990.1| putative [Helicobacter pylori J99]
Length = 523
Score = 28.1 bits (61), Expect = 1.4
Identities = 24/87 (27%), Positives = 39/87 (44%), Gaps = 26/87 (29%)
Query: 678 TQNLKGIKRELSDKLEKISKDLKDFSKSFDEF--------------------KNGKNKD- 716
+Q L I+++++ +K++KD + K F+ + KN K+KD
Sbjct: 20 SQELSSIQKQMALVDKKLAKDDNVWLKKFENYKIYNQIYTEKESVRQELRRLKNKKSKDL 79
Query: 717 --FSKAEETLKALKGSVK---DLGINP 738
S E TLKAL+ K G+NP
Sbjct: 80 LKISTLEHTLKALESQQKMFESYGVNP 106
>ref|NP_223882.1| outer membrane protein - adhesin [Helicobacter pylori J99]
Length = 703
Score = 27.7 bits (60), Expect = 1.8
Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 722 ETLKALKGSVKDLGINPEWISKVENLNAALNEFKNGKNK---DFSKVTQAKSDLENS 775
+T+ LK S+ G + I + EN+ L FK+ ++ ++ +T A S++ N+
Sbjct: 410 QTITNLKNSIAHFGTQEQQIQQAENIADTLVNFKSRYSELGNTYNSITTALSNIPNA 466
>ref|NP_223551.1| outer membrane protein - adhesin [Helicobacter pylori J99]
Length = 744
Score = 27.7 bits (60), Expect = 1.8
Identities = 15/57 (26%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 722 ETLKALKGSVKDLGINPEWISKVENLNAALNEFKNGKNK---DFSKVTQAKSDLENS 775
+T+ LK S+ G + I + EN+ L FK+ ++ ++ +T A S++ N+
Sbjct: 451 QTITNLKNSIAHFGTQEQQIQQAENIADTLVNFKSRYSELGNTYNSITTALSNIPNA 507
>ref|NP_223322.1| putative [Helicobacter pylori J99]
Length = 413
Score = 27.7 bits (60), Expect = 1.8
Identities = 20/71 (28%), Positives = 32/71 (44%), Gaps = 2/71 (2%)
Query: 859 SGIEATALAKNFSDIKKELNEKFKNFNNNNNGLKNSTEPIYAKVNKKKTGQVASPEEPIY 918
S +EA K S + K++ ++ K+ N LKN + + K KK+T P ++
Sbjct: 24 SKVEALEGRKQESSLDKKIRQELKSKELKNKELKN--KDLKNKEEKKETKAKRKPRAEVH 81
Query: 919 TQVAKKVNAKI 929
AK KI
Sbjct: 82 HGDAKNPTPKI 92
>ref|NP_222954.1| putative [Helicobacter pylori J99]
Length = 362
Score = 27.7 bits (60), Expect = 1.8
Identities = 31/139 (22%), Positives = 59/139 (42%), Gaps = 19/139 (13%)
Query: 557 VRRNLENKLTAKGLSLQEANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQ 616
++RN L G++ +E +KL N + ++ + V AK ++V+ A+
Sbjct: 193 IKRNEIAALINSGIN-KEVSKL------PNTPVELSSIQLREIVLPAKIKEQIEKVQIAR 245
Query: 617 KDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIA 676
++ E+ + E ++E +K+ G + KAQ + I A +AN
Sbjct: 246 QESERVKYEVERSKQEAQKQAALAKGEADANRIKAQGVADAIVIEAKAKSQAN------- 298
Query: 677 YTQNLKGIKRELSDKLEKI 695
I + LSDKL ++
Sbjct: 299 -----LSISQSLSDKLLRL 312
>ref|NP_222945.1| GLUTAMYL TRNA REDUCTASE [Helicobacter pylori J99]
Length = 449
Score = 27.7 bits (60), Expect = 1.8
Identities = 25/81 (30%), Positives = 38/81 (46%), Gaps = 9/81 (11%)
Query: 615 AQKDLEKSLRKREHLEKEVEKKLESKSGNK-----NKMEAKAQANSQKDE---IFALINK 666
AQK+L+K+L+KR ++ KE E +E N + + N+QK+E + I
Sbjct: 366 AQKELQKALKKR-YVPKEYEGNIEKILHNAFNTFLHHPTIALKKNAQKEESDVLVGAIKN 424
Query: 667 EANRDARAIAYTQNLKGIKRE 687
N D + QNL K E
Sbjct: 425 LFNLDKSNANHAQNLNLYKCE 445
Score = 27.7 bits (60), Expect = 1.8
Identities = 37/159 (23%), Positives = 67/159 (41%), Gaps = 24/159 (15%)
Query: 600 VAEAKSTGNYDEVKK---AQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQ 656
V E + TG K +K K L + H + K+ + +G + + ++
Sbjct: 124 VGETQITGQMKNAYKFAFEEKFCSKDLTRLLHFAFKCAAKVRNLTGISK--QGVSISSVA 181
Query: 657 KDEIFALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKD 716
E ++ KE +D +A+ L + + + K L +K F+ G+N
Sbjct: 182 VKEALSIFEKERIKDKKALVIG---------LGEMAQLVIKHL--LNKQFEVLILGRNA- 229
Query: 717 FSKAEETLKALKGSVKDLGINPEWISKVENLNAALNEFK 755
+K E+ +K L+ K +G VENLNA +NE++
Sbjct: 230 -AKFEDFVKELE-EPKKVGFQ-----NVENLNAYINEYE 261
>ref|NP_223764.1| FLAGELLAR HOOK-ASSOCIATED PROTEIN 1 (HAP1) [Helicobacter pylori
J99]
Length = 606
Score = 27.3 bits (59), Expect = 2.4
Identities = 63/310 (20%), Positives = 117/310 (37%), Gaps = 42/310 (13%)
Query: 640 KSGNKN-KMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKD 698
K +KN K A+ QA +QK E A T N+K + L+ K S++
Sbjct: 122 KELSKNAKDSAQKQALAQKTE----------------ALTHNIKDTRERLTTLQHKASEE 165
Query: 699 LKDFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINPEWISKVENLNAALNEFKNGK 758
LK K N ++ + +K ++ + K L E K + L L E G
Sbjct: 166 LKSVIKEV----NSLGSQIAEINKRIKEVENN-KSLKHANELRDKRDELEFHLRELLGGN 220
Query: 759 NKDFSKVTQAKSDLENSVKDVIINQKVTDKVDNLNQAV---SVAKAMGDFSRVEQVLADL 815
S T + +D +++ D N + + ++ ++ V K + + QV
Sbjct: 221 VFKSSIKTHSLTDKDSADFDESYNLNIGHGFNIIDGSIFHPLVVKESENKGGLNQVYFQS 280
Query: 816 KNFSKEQLAQQAQKNE------DFNTGKNSEL------YQSVKNSVNKTLVGNGLSGIEA 863
+F + + + + +N G N L Y + +S + L+ + I A
Sbjct: 281 DDFKLTNITDKLNQGKVGALLNVYNDGSNGTLKGKLQDYIDLLDSFARGLI-ESTNAIYA 339
Query: 864 TALAKNFSDIKKELNEKFKNFNNNNNGLKNSTEPIYA-KVNKKKTGQVASPEEPIYT--Q 920
+ + + E N + F + N +KN + + A + K+ + PI T
Sbjct: 340 QSASHHIEGEPVEFNSD-EAFKDTNYNIKNGSFDLIAYNTDGKEIARKTIAITPITTMND 398
Query: 921 VAKKVNAKID 930
+ + +NA D
Sbjct: 399 IIQAINANTD 408
>ref|NP_223706.1| histidine kinase [Helicobacter pylori J99]
Length = 815
Score = 27.3 bits (59), Expect = 2.4
Identities = 43/179 (24%), Positives = 73/179 (40%), Gaps = 22/179 (12%)
Query: 552 AITSFVRRNLENKLTAKGLSLQEANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNY-- 609
AITS +NLE G +EA + K+ NKE A + + NK T +
Sbjct: 128 AITS---QNLEGAKETSGT--KEAPE--KEVKKENKEKAKEEVKANKTPTTENLTSDNPL 180
Query: 610 -DE---------VKKAQKDLEKSLRKREHLEKE--VEKKLESKSGNKNKM-EAKAQANSQ 656
DE ++ + ++E+ L KR+ +KE +KK E ++ K ++ AK ++
Sbjct: 181 ADEPDLDYANMSAEEVEAEIERLLNKRQEADKERRAQKKQEDQAKPKQEVAPAKETPKTE 240
Query: 657 KDEIFALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNK 715
+ +A A+A A T+ K + + + L E GKN+
Sbjct: 241 TPKTETRKVPKAETKAKAKADTEENKAPSIGVEQTVRVDVRRLDHLMNLIGELVLGKNR 299
>ref|NP_223684.1| METHIONYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 656
Score = 27.3 bits (59), Expect = 2.4
Identities = 51/202 (25%), Positives = 84/202 (41%), Gaps = 34/202 (16%)
Query: 542 VFNLPDLNNLAITS----FVRRNLENKLTAKGLSLQEANKLIKDFLSSNKELAGKALNFN 597
+FN+ D N I + +N E++ LSL AN L++ + A+
Sbjct: 415 LFNIYDFLNKLIAKEEPWVLHKNNESEKLEALLSLI-ANTLLQSSFLLYAFMPKSAMKLA 473
Query: 598 KAVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEKEVEK--KLESKSGNKNKMEAKAQANS 655
A + NY+ KA+K + L+ E L ++EK K+E K K+E +A +
Sbjct: 474 SAFRVEITPNNYERFFKAKKLQDMVLQDTEPLFSKIEKIEKIE-KIEKIEKIEKGEEALA 532
Query: 656 QKDEIFALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNK 715
+K E KE +E + ++ ++DF K E K G K
Sbjct: 533 EKAE-----KKE------------------KEKAPPTQENYISIEDFKKV--EIKVGLIK 567
Query: 716 DFSKAEETLKALKGSVKDLGIN 737
+ + E++ K L+ V DLG N
Sbjct: 568 EAQRIEKSNKLLRLKV-DLGEN 588
>ref|NP_223646.1| putative [Helicobacter pylori J99]
Length = 150
Score = 27.3 bits (59), Expect = 2.4
Identities = 35/130 (26%), Positives = 54/130 (40%), Gaps = 24/130 (18%)
Query: 675 IAYTQNLKGIKRELSDKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDL 734
+ Y Q LK + L D L K+SKD +++ +F+ K++E LK
Sbjct: 42 LEYLQALKWDHKTLIDDLAKMSKD-RNYKPAFN----------PKSKEVLK--------- 81
Query: 735 GINPEWISKVENLNAALNEFKNGKNKD-FSKVTQAKSDLENSVKDVIINQKVTDKVDNLN 793
+N E + +EN N K+ D T+ + E D I N D +N
Sbjct: 82 NLNAEKRASLENEREEQGVKGNTKSHDEIEPATEQVIEKEIEKGDEIANN--VDYYEN-E 138
Query: 794 QAVSVAKAMG 803
Q V + K+MG
Sbjct: 139 QEVEITKSMG 148
>ref|NP_223565.1| putative ATP-DEPENDENT HELICASE [Helicobacter pylori J99]
Length = 676
Score = 27.3 bits (59), Expect = 2.4
Identities = 21/99 (21%), Positives = 44/99 (44%), Gaps = 7/99 (7%)
Query: 69 LREEYSNKAIKNPTKKNQYFSDFIDKSNDLINKDNLIDVESSTKSFQKF--GDQRYQIFT 126
L+E Y N ++K P + + +D N L ++D + + + F+
Sbjct: 93 LKEHYPNLSLKQPKELRKLLESIVDTKNALTDEDKKPYTSQHLYALYSLYTNALKQEDFS 152
Query: 127 SWVSHQKDPSKINTRSIRNFMENIIQPPIPDDKEKAEFL 165
+W+S K+P + F ENI++ + K+K +++
Sbjct: 153 AWLS-SKNPEHAPYAA---FYENILE-EFENTKKKHDYI 186
>ref|NP_223265.1| putative secretion/efflux abc transporter, ATP-binding protein
[Helicobacter pylori J99]
Length = 589
Score = 27.3 bits (59), Expect = 2.4
Identities = 26/90 (28%), Positives = 41/90 (44%), Gaps = 11/90 (12%)
Query: 779 VIINQKVTDKVDNLNQAVSVAKAM-GDFS-----RVEQVLADLKNFSKEQLAQQAQKNED 832
+IIN K + LN A+ DFS ++ L N +KEQL Q+ + +
Sbjct: 404 IIINNKYPLQDLELNSYHQQMSAIFQDFSLYAGYSIDDNLFMQNNITKEQLKQKREILKS 463
Query: 833 FNTGKNSELYQSVKNSVNKTLVGNGLSGIE 862
F+ E +Q+ N N TL G +G++
Sbjct: 464 FD-----ENFQNCLNDCNNTLFGAQYNGVD 488
>ref|NP_223070.1| putative [Helicobacter pylori J99]
Length = 272
Score = 27.3 bits (59), Expect = 2.4
Identities = 22/85 (25%), Positives = 41/85 (47%), Gaps = 14/85 (16%)
Query: 374 NNPSFYLYKEDQLTGSQRALSQEEIRNKVDFMEFLAQNNTKLDNLSEKEKEKFQNE-IED 432
N P FY + + Q +E++ +KV +D + E +++K +NE +E+
Sbjct: 47 NKPEFYRF----VFTEQNNYLREKLTDKV---------GRAMDLIDEIQRDKTENESLEN 93
Query: 433 FQKDSKAYLDALGNDRIAFVSKKDT 457
K K ++ L ND I +K++T
Sbjct: 94 GAKFKKRFVFELQNDLIFLRTKRNT 118
>ref|NP_222894.1| putative [Helicobacter pylori J99]
Length = 268
Score = 27.3 bits (59), Expect = 2.4
Identities = 23/92 (25%), Positives = 44/92 (47%), Gaps = 13/92 (14%)
Query: 561 LENKLTAKGLSLQEANKLIKDF-LSSNKELAGKALNFNKAVAEAKSTGNYDEV----KKA 615
+E K T + Q+ K ++ +S+ KE ++AVA+ ++ +V K+A
Sbjct: 115 MEMKTTEEKQESQKELKAVEPIPMSTQKE--------SQAVAKKETPHKKPKVAPKDKEA 166
Query: 616 QKDLEKSLRKREHLEKEVEKKLESKSGNKNKM 647
KD K K ++KE K++ K+ +K +
Sbjct: 167 HKDKAKHAAKEPKVKKEARKEVSKKANSKTNL 198
>ref|NP_223561.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [Helicobacter pylori J99]
Length = 363
Score = 26.9 bits (58), Expect = 3.1
Identities = 16/74 (21%), Positives = 29/74 (38%)
Query: 8 QTRTPDQTQSQTAFDPQQFINNLQVAFIKVDNVVASFDPDQKPIVDKNDRDNRQAFDGIS 67
QTR FD + + + + +D+ + + PDQKP+ K Q
Sbjct: 231 QTRIGRGEVESVIFDKGKPMLRMGEMILPIDSAIEFYKPDQKPLDQKLSDQKPQKLSEQK 290
Query: 68 QLREEYSNKAIKNP 81
L ++ S + + P
Sbjct: 291 ALEQKISEQKPQEP 304
>ref|NP_222781.1| putative [Helicobacter pylori J99]
Length = 139
Score = 26.9 bits (58), Expect = 3.1
Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 8/73 (10%)
Query: 291 NYKFNQLLIHN--NALSSVLMGSHNGIEPEKVSLLYAGNGGFGDKHDWNAT---VGYKDQ 345
+Y F +L N + L + +EPE++ N G+G + WN T V + D
Sbjct: 61 SYMFKHVLNFNLESLLIDFMQSLKEWLEPEEIVF---ANDGYGGYYLWNTTTDVVLFLDT 117
Query: 346 QGNNVATLINVHM 358
+ L+N++M
Sbjct: 118 DNGSKKVLLNLNM 130
>ref|NP_222764.1| putative [Helicobacter pylori J99]
Length = 330
Score = 26.9 bits (58), Expect = 3.1
Identities = 51/225 (22%), Positives = 86/225 (37%), Gaps = 39/225 (17%)
Query: 420 EKEKEKFQNEIEDFQKDSKAYLDALGNDRIAF----------VSKKDTKHS-----ALIT 464
E+ +E F + I+ K +K + ND I + +++ DT + I+
Sbjct: 30 EEARESFLHIIQTIAKHAKVLVCVHTNDTIGYETLKNLPGVEIARIDTNDTWARDFGAIS 89
Query: 465 EFNNG---DLSYTLKDYGKKADKALDREKNVTLQGSLKHDGVMFVDYSNFKYT---NASK 518
N+G L + +G K LD + N LKH G + Y + +
Sbjct: 90 VENHGVLECLDFGFNGWGLKYPSNLDNQVNF----KLKHLGFLKHPLKTMPYILEGGSIE 145
Query: 519 NPNKGVGATNGVSHLEAGFNKVAVFNLPDLNNLAITSFVRRNLENKLTAKGLSLQEANKL 578
+ G TN LE N P LN I + L+ +L AK + L
Sbjct: 146 SDGAGSILTNTQCLLEKNRN-------PHLNQNGIETM----LKKELGAKQVLWYSYGYL 194
Query: 579 IKDFLSSNKELAGKALNFNKAV---AEAKSTGNYDEVKKAQKDLE 620
D S+ + + LN + V E ++ +Y +KK Q++L+
Sbjct: 195 KGDDTDSHTDTLARFLNKDTIVYSACEDENDEHYTALKKMQEELK 239
>ref|NP_224209.1| putative O-SIALOGLYCOPROTEIN ENDOPEPTIDASE [Helicobacter pylori
J99]
Length = 340
Score = 26.6 bits (57), Expect = 4.0
Identities = 15/33 (45%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 735 GINPEWISKV--ENLNAALNEFKNGKNKDFSKV 765
G+ PE S++ ENL L K NKDFSK+
Sbjct: 41 GVVPEIASRLHAENLPLLLERVKISLNKDFSKI 73
>ref|NP_223725.1| putative outer membrane protein [Helicobacter pylori J99]
Length = 751
Score = 26.6 bits (57), Expect = 4.0
Identities = 21/75 (28%), Positives = 32/75 (42%)
Query: 838 NSELYQSVKNSVNKTLVGNGLSGIEATALAKNFSDIKKELNEKFKNFNNNNNGLKNSTEP 897
NS+ Q ++ + N S E + + E + F + NN+ NG S +P
Sbjct: 204 NSDGLQQLQTTTTPFSDANTQSLFEKLSQITTNLQMTYENTDPFSSGNNDPNGPLASPKP 263
Query: 898 IYAKVNKKKTGQVAS 912
Y KK+ QVAS
Sbjct: 264 HYECPGYKKSCQVAS 278
>ref|NP_223247.1| putative SIDEROPHORE-MEDIATED IRON TRANSPORT PROTEIN [Helicobacter
pylori J99]
Length = 317
Score = 26.6 bits (57), Expect = 4.0
Identities = 24/108 (22%), Positives = 47/108 (43%), Gaps = 7/108 (6%)
Query: 614 KAQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKD-EIFALINKEANRDA 672
KA K +EK K+ EK+ EKK+ + + K+E K + D + + KE
Sbjct: 133 KALKKVEKVEEKKVVEEKKEEKKVVEQKVEQKKIEEKKPVKKEFDPNQLSFLPKEV---- 188
Query: 673 RAIAYTQNLKGIKRELSDKLEKI-SKDLKDFSKSFDEFKNGKNKDFSK 719
A +N KG+ + ++++ ++ D + +F +D +
Sbjct: 189 -APPRQENNKGLDNQTRRDIDELYGEEFGDLGTAEKDFIRNNLRDIGR 235
>ref|NP_223046.1| putative FLAGELLAR EXPORT APPARATUS [Helicobacter pylori J99]
Length = 258
Score = 26.6 bits (57), Expect = 4.0
Identities = 36/163 (22%), Positives = 64/163 (39%), Gaps = 16/163 (9%)
Query: 544 NLPDLNNLAITSFVRRNLENKLTAKGLSLQEANKLIKDFLSSNKELAGKALNFNKAVAEA 603
NLP N S N + L K + + L+K + L + F KA E+
Sbjct: 30 NLPPKTNPNSASLETPNPQEPLEKKAIENDLIDCLLKKTDELSSHLVKLQMQFEKAQEES 89
Query: 604 K---STGNYDEVKKAQKDLEKSLRKR--EHLEKEVEKKLESKSGNKNKMEAKAQANSQKD 658
K D K K+ E+ +R + +E + L + + KM+ S ++
Sbjct: 90 KVLIENAKNDGYKIGFKEGEEKMRNELTHSVNEEKNQLLHAITALDEKMK------SSEN 143
Query: 659 EIFALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKD 701
+ AL ++ AIA + I +E+ D +K++ L +
Sbjct: 144 HLMAL-----EKELSAIAIDIAKEVILKEVEDNSQKVALALAE 181
>ref|NP_222943.1| PORPHOBILINOGEN DEAMINASE [Helicobacter pylori J99]
Length = 306
Score = 26.6 bits (57), Expect = 4.0
Identities = 14/44 (31%), Positives = 23/44 (51%), Gaps = 1/44 (2%)
Query: 46 PDQKPIVDKNDR-DNRQAFDGISQLREEYSNKAIKNPTKKNQYF 88
P+ K ++ K + D +AFD + +L EE+ K +K Q F
Sbjct: 263 PNGKEVIAKEKQGDKTKAFDLVQELLEEFLQSGAKEILEKAQLF 306
>ref|NP_222885.1| putative restriction enzyme [Helicobacter pylori J99]
Length = 448
Score = 26.6 bits (57), Expect = 4.0
Identities = 16/84 (19%), Positives = 40/84 (47%), Gaps = 10/84 (11%)
Query: 625 KREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLKGI 684
KR ++K + + K+ N+++++ ++ D++ L+ + GI
Sbjct: 16 KRISIKKGILEHFFDKANNQDEVDMSGILSNYNDKVSILLATDPRLGG----------GI 65
Query: 685 KRELSDKLEKISKDLKDFSKSFDE 708
KR +S +++KI ++ D+ D+
Sbjct: 66 KRIISAEVDKIKENRLDYELKIDD 89
>ref|NP_222797.1| methyl-accepting chemotaxis protein (MCP) [Helicobacter pylori J99]
Length = 673
Score = 26.6 bits (57), Expect = 4.0
Identities = 54/260 (20%), Positives = 100/260 (37%), Gaps = 37/260 (14%)
Query: 715 KDFSKAEETLKALKGS-VKDLGINPEWISKVENLNAALNEFKNGKNKDFSKVTQAKSDLE 773
K ++++ K + G + + I + K +N+ ALN F N V + KS+
Sbjct: 143 KSITRSDPYYKEVNGDKIYGMDITLPLMGKNQNVIGALNFFLNIDAFYTDVVGKKKSNTF 202
Query: 774 NSVKDVII----NQKVTDKV-DNLNQAVSVAKAMGDFSRVEQVLADLKNFSKEQLAQQAQ 828
KD I N+++ DK+ +N VAKA+ +++ E + S A
Sbjct: 203 LMGKDGRILINPNREIQDKILSAINPDKRVAKAVEYYNQNEAGTLSYHSLSGNTETFLAI 262
Query: 829 KNEDF--NTGKNSELYQ-SVKNSVNKTLVGNGLSG----------------------IEA 863
+ DF G N ++ ++ VNK+LV + I +
Sbjct: 263 QPFDFFEEKGNNGNHWRWAIGKYVNKSLVFKEATNTKFIIITTLILGVLVLAFLVFIIIS 322
Query: 864 TALAKNFSDIKKELNEKFKNFNN--NNNGLKNSTEPIYAKVNKKKTG---QVASPEEPIY 918
+ K S + LN+ F NN NN+ + + Y ++ + + + +E I
Sbjct: 323 NLITKRISRVNNTLNDFFNLLNNPKNNHAISLTPPSAYDEIGQMQASINENILKTQESIQ 382
Query: 919 TQVAKKVNAKIDRLNQIASG 938
K + I+ N + +G
Sbjct: 383 AD-NKAIQNSIEVTNYVENG 401
>ref|NP_222776.1| putative [Helicobacter pylori J99]
Length = 522
Score = 26.6 bits (57), Expect = 4.0
Identities = 17/55 (30%), Positives = 26/55 (46%), Gaps = 1/55 (1%)
Query: 528 NGVSHLEAGFNKVAVFNLPDLNNLAITSFVRRNLENKLTAKGLSLQEANKLIKDF 582
+GV++ AGF+KV N+ D A F+ RN+ K K +KD+
Sbjct: 369 DGVANFFAGFSKVMAENIDD-QCRAFHIFLGRNVSRSALVKQAFENAKEKQLKDY 422
Score = 26.2 bits (56), Expect = 5.2
Identities = 29/120 (24%), Positives = 52/120 (43%), Gaps = 18/120 (15%)
Query: 595 NFNKAVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEKEVEKKLESK---SGNKNKME--- 648
N + + EA E+K +KD + L R +E E + K++ K + K K+E
Sbjct: 312 NLDANIIEAIEENENFEIKGFEKDFKAMLFDRNGVETECDLKVDCKELLNLLKGKIEDGV 371
Query: 649 -------AKAQANSQKDEIFA---LINKEANRDARAIAYTQNLKGIKRELSDKLEKISKD 698
+K A + D+ A + + +R A +N K +++L D +K SK+
Sbjct: 372 ANFFAGFSKVMAENIDDQCRAFHIFLGRNVSRSALVKQAFENAK--EKQLKDYHQKTSKN 429
>ref|NP_224204.1| putative [Helicobacter pylori J99]
Length = 140
Score = 26.2 bits (56), Expect = 5.2
Identities = 22/80 (27%), Positives = 39/80 (48%), Gaps = 8/80 (10%)
Query: 714 NKDFSKAEETLKALKGSVKDLGINPEWI----SKVENLNAALNEFKNGKNKDFSKVTQAK 769
+K F KA+E L A+ + + G + I +ENL+ +F + KDF V
Sbjct: 29 SKAFLKAKEVLTAINKTCIETGHDRTQIRLQNDFLENLSQTEQQFDDYFEKDFKSV---- 84
Query: 770 SDLENSVKDVIINQKVTDKV 789
L+ +KD+ +K ++K+
Sbjct: 85 GVLKTLLKDIQSLEKTSNKL 104
>ref|NP_223777.1| ATP synthase F1, subunit beta [Helicobacter pylori J99]
Length = 469
Score = 26.2 bits (56), Expect = 5.2
Identities = 31/131 (23%), Positives = 55/131 (41%), Gaps = 21/131 (16%)
Query: 918 YTQVAKKVNAKIDRLNQIASGLGGVGQAAGFPLKRHDKVDDLSKVGLSASPEPIYATIDD 977
Y Q +++A + R I S +G AG K +++ +K G S + +Y DD
Sbjct: 254 YAQSGAEMSALLGR---IPSAVGYQPTLAGEMGKLQERIAS-TKNGSITSVQAVYVPADD 309
Query: 978 LGGPFPLKRHDKVDDLSKVGRSRNQELAQK-----IDNLN--------QAVSEAKAGFFG 1024
L P P +D + + N+++A+K +D L+ Q + E
Sbjct: 310 LTDPAPASVFAHLDATTVL----NRKIAEKGIYPAVDPLDSTSRILSPQMIGEKHYEIAT 365
Query: 1025 NLEQTIDKLKD 1035
++Q + K KD
Sbjct: 366 GIQQVLQKYKD 376
>ref|NP_223641.1| putative [Helicobacter pylori J99]
Length = 268
Score = 26.2 bits (56), Expect = 5.2
Identities = 29/104 (27%), Positives = 43/104 (40%), Gaps = 22/104 (21%)
Query: 686 RELSDKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINPEWISKVE 745
+ +++ +EK KDL DF+ + N KDF+K TL I P+ S
Sbjct: 76 KSVNENIEKTQKDLDDFNALVQKLPN-LPKDFNK---TL-----------IKPQ--SPFF 118
Query: 746 NLNAALNEFKN-----GKNKDFSKVTQAKSDLENSVKDVIINQK 784
N N A + KN K TQ ++NSV + +K
Sbjct: 119 NYNTANEDEKNRLVILASRISSQKETQPPISIKNSVSHIKSKEK 162
>ref|NP_223054.1| septum formation protein [Helicobacter pylori J99]
Length = 844
Score = 26.2 bits (56), Expect = 5.2
Identities = 29/147 (19%), Positives = 59/147 (39%), Gaps = 25/147 (17%)
Query: 684 IKRELSDKLEKISKDLKDFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINPEWISK 743
+K+E L+ I +++ D+ +N K + E+ DL +P+ +
Sbjct: 276 LKKETPTTLKPIMPISASNTENHDKTENHKTPNHPIKED----------DLQESPQENPQ 325
Query: 744 VENLNAALNEFKNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVD------------- 790
EN+ + E + FS +T + VK++ N+++ D +D
Sbjct: 326 KENIEENIEEKETQNAPSFSPLTLTSAKKPVMVKELSENKEILDGLDYGEVQKPKDYELP 385
Query: 791 --NLNQAVSVAKAMGDFSRVEQVLADL 815
L AV + + D + ++Q + DL
Sbjct: 386 TTQLLNAVCLKETSLDENEIDQKIQDL 412
>ref|NP_222854.1| Cytochrome oxidase (CBB3-TYPE) [Helicobacter pylori J99]
Length = 232
Score = 26.2 bits (56), Expect = 5.2
Identities = 25/90 (27%), Positives = 39/90 (42%), Gaps = 23/90 (25%)
Query: 379 YLYKEDQLTGSQRALSQEEIRNKVDFMEFLAQNNTKLDNLSEKEKEKFQN--EIEDFQKD 436
++ K D T AL+Q+ KV + + +N KL N+ E +K + +I KD
Sbjct: 140 FIKKSDFDTAYAEALTQK----KVFGVPYDTENGVKLGNVEEAKKAYLEEAKKITADMKD 195
Query: 437 SK-----------------AYLDALGNDRI 449
+ AYL++LGN RI
Sbjct: 196 KRVLEAIERGEVLEIVALIAYLNSLGNSRI 225
>ref|NP_224102.1| putative PHOSPHATE PERMEASE [Helicobacter pylori J99]
Length = 533
Score = 25.8 bits (55), Expect = 6.8
Identities = 19/69 (27%), Positives = 38/69 (54%), Gaps = 3/69 (4%)
Query: 569 GLSLQEANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQKDLEKSLRKREH 628
G L+E ++ F +N L K+L +++ ++K+T E+KK +K K + K E
Sbjct: 439 GEDLEEIEGFLERFDKAN--LKEKSLML-ESLKKSKNTAIALELKKKEKKSLKKVYKEEV 495
Query: 629 LEKEVEKKL 637
+++ + KK+
Sbjct: 496 IKRSILKKI 504
>ref|NP_224067.1| conserved lipoprotein [Helicobacter pylori J99]
Length = 175
Score = 25.8 bits (55), Expect = 6.8
Identities = 17/63 (26%), Positives = 32/63 (49%), Gaps = 3/63 (4%)
Query: 984 LKRHDKVDDLSKVGRSRNQELAQKID---NLNQAVSEAKAGFFGNLEQTIDKLKDSTKKN 1040
L++ K + S V R ++L D + NQA ++A+A NL+ T+ K ++ K
Sbjct: 52 LEKVAKYEKYSGVFLGRAEDLITNNDVDYSTNQATAKARANLAANLKSTLQKDLENEKTR 111
Query: 1041 VMN 1043
++
Sbjct: 112 TVD 114
>ref|NP_223965.1| putative [Helicobacter pylori J99]
Length = 412
Score = 25.8 bits (55), Expect = 6.8
Identities = 13/48 (27%), Positives = 25/48 (52%)
Query: 616 QKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFAL 663
+ ++E + K HL ++ KKLE+ N + + N + +I+AL
Sbjct: 319 KSEVENAKNKTRHLALKLLKKLETLQKNLESINKIIKQNEKIAQIYAL 366
>ref|NP_223956.1| 50S RIBOSOMAL PROTEIN L4 [Helicobacter pylori J99]
Length = 215
Score = 25.8 bits (55), Expect = 6.8
Identities = 12/52 (23%), Positives = 29/52 (55%)
Query: 351 ATLINVHMKNGSGLVIAGGEKGINNPSFYLYKEDQLTGSQRALSQEEIRNKV 402
A +++ H+K + + +GIN+ + YLY + L+ ++ ++ + R +V
Sbjct: 4 AIVLDSHLKEKGSVELPKRYEGINSHNLYLYVKHYLSSARANTAKSKNRAEV 55
>ref|NP_223659.1| putative [Helicobacter pylori J99]
Length = 677
Score = 25.8 bits (55), Expect = 6.8
Identities = 20/67 (29%), Positives = 29/67 (42%)
Query: 375 NPSFYLYKEDQLTGSQRALSQEEIRNKVDFMEFLAQNNTKLDNLSEKEKEKFQNEIEDFQ 434
N L KE L Q +EE + + + + +LS KEK+ F +I+ F
Sbjct: 497 NTMLLLAKERLLFLEQDLKQKEEEFERAKEHYVKSSKHYRETSLSPKEKQGFLKQIKQFS 556
Query: 435 KDSKAYL 441
K SK L
Sbjct: 557 KISKDIL 563
>ref|NP_223478.1| EXCINUCLEASE ABC SUBUNIT C [Helicobacter pylori J99]
Length = 594
Score = 25.8 bits (55), Expect = 6.8
Identities = 18/52 (34%), Positives = 26/52 (49%), Gaps = 2/52 (3%)
Query: 598 KAVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEA 649
KA E K T +E K K+ + + ++ L KE+E K+E S N EA
Sbjct: 178 KAPCEDKITK--EEYLKIAKECLEMIENKDRLIKELELKMERLSSNLRFEEA 227
>ref|NP_222768.1| putative TYPE II restriction enzyme [Helicobacter pylori J99]
Length = 260
Score = 25.8 bits (55), Expect = 6.8
Identities = 27/150 (18%), Positives = 66/150 (44%), Gaps = 18/150 (12%)
Query: 754 FKNGKNKDFSKVTQAKS---DLENSVKDVIINQKV-------TDKVDNLNQAVSVAK--A 801
++ G NK F K ++ K + KD I N+ + D + N N A+ A
Sbjct: 97 YEMGLNKIFEKCSEPKETNRQIGPMFKDWINNKSLGVEPVDLNDFIANENDAILKASDNV 156
Query: 802 MGDFSRVE------QVLADLKNFSKEQLAQQAQKNEDFNTGKNSELYQSVKNSVNKTLVG 855
M +F++ + L + F+K+ + +A+ DF +N++ ++ +
Sbjct: 157 MAEFAKSHLNYHHHKGLDFVARFNKKYIIGEAKFLTDFGGHQNAQFNDAINTIETPNIKA 216
Query: 856 NGLSGIEATALAKNFSDIKKELNEKFKNFN 885
++ ++ ++ + ++K L+ ++N++
Sbjct: 217 IKVAILDGVLYIESNNKMRKLLDTTYRNYH 246
>ref|NP_224170.1| LEUCYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 806
Score = 25.4 bits (54), Expect = 8.9
Identities = 21/89 (23%), Positives = 38/89 (42%), Gaps = 5/89 (5%)
Query: 571 SLQEANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQKDLEKSLRKREHLE 630
+L+ A++ IK A+ + E K G + K A+K + ++L+K +
Sbjct: 615 ALEGAHRFIKRLYDK-----ANAITPTTSKPEFKEVGLNEAQKLARKKVYEALKKSHEIF 669
Query: 631 KEVEKKLESKSGNKNKMEAKAQANSQKDE 659
+ E + + MEA N+Q DE
Sbjct: 670 NKAESAYAFNTLIASCMEALNALNAQSDE 698
>ref|NP_224131.1| putative [Helicobacter pylori J99]
Length = 115
Score = 25.4 bits (54), Expect = 8.9
Identities = 20/77 (25%), Positives = 35/77 (44%), Gaps = 11/77 (14%)
Query: 646 KMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLKGIKRELSDKLEKISKDLKDF--- 702
K E K + S ++ N + N+ +++K I+ E D EK++K++ D
Sbjct: 22 KDEPKKSSQSHQNNTKTTQNNQINQP------NKDIKKIEHEEED--EKVTKEVNDLINN 73
Query: 703 SKSFDEFKNGKNKDFSK 719
DE N +N D S+
Sbjct: 74 ENKIDEINNEENADPSQ 90
>ref|NP_223998.1| REPLICATIVE DNA HELICASE [Helicobacter pylori J99]
Length = 486
Score = 25.4 bits (54), Expect = 8.9
Identities = 16/60 (26%), Positives = 27/60 (44%), Gaps = 4/60 (6%)
Query: 789 VDNLNQAVSVAKAMGDFSRVEQVLADLKNFSKEQLAQQAQKNEDFNTGKNSELYQSVKNS 848
+DN+ V K + +++ L L N +EQ + AQK+ D E+Y + S
Sbjct: 91 IDNIEAYVEEIKN----ASIKRKLFTLANTIREQALESAQKSSDILNAVEREVYALLNGS 146
>ref|NP_223330.1| putative [Helicobacter pylori J99]
Length = 450
Score = 25.4 bits (54), Expect = 8.9
Identities = 43/200 (21%), Positives = 76/200 (37%), Gaps = 41/200 (20%)
Query: 452 VSKKDTKHSALITEFNNGDLSYTLKDYGKKADKALD------REKNVTLQGSLKHDGVMF 505
+SK+ + E+ + DL Y K G + DK +D ++ + +Q + + +
Sbjct: 30 ISKQFLQEHDSANEYESIDLWYDWKLRGNERDKGIDIVITTSNKEYIAVQCKFHQNSISY 89
Query: 506 VDYSNFKYTNASKNPNKGVGATNGVSHLEAGFNKVAVFNLPDLNNLAITSFVRRNLENKL 565
D S F S GVG F K + + +L + A+ + + +
Sbjct: 90 NDISPFLTQLLS-----GVGGVK--------FKKGIIISTSNLTSEALKAIE----QIRS 132
Query: 566 TAKGLSLQEANKLIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQKDLEKSLRK 625
T G+ + E + +DF+ S +++ K T DE+ K R
Sbjct: 133 TGMGIDIDEITE--EDFIYSR-------IDWEK----FDPTKTEDEIPLCDKK-----RP 174
Query: 626 REHLEKEVEKKLESKSGNKN 645
R H + +EK E S KN
Sbjct: 175 RPHQTEAIEKTKEYFSDPKN 194
>ref|NP_223189.1| cag island protein [Helicobacter pylori J99]
Length = 481
Score = 25.4 bits (54), Expect = 8.9
Identities = 27/123 (21%), Positives = 49/123 (38%), Gaps = 17/123 (13%)
Query: 397 EIRNKVDFMEFLAQNNTKLDNLSE--------KEKEKFQNEIEDFQKDSKAYLDALGNDR 448
++ V + L N +SE KE ++ + E + +K++K N +
Sbjct: 4 KLATSVSLISLLISNALYAKEISEADKVIKATKETKETKKEAKRLKKEAKQRQQIPDNKK 63
Query: 449 IAFVSKKDTKHSALITEFNNGDLSYTLKDYGKKADKALDREKNVTLQGSLKHDGVMFVDY 508
+VS DTK AL ++ L+ K +G D N L+ + +DY
Sbjct: 64 PQYVSVDDTKTQALFDIYDT--LNVNDKSFG-------DWFGNSALKNKTYLYAMDLLDY 114
Query: 509 SNF 511
+N+
Sbjct: 115 NNY 117
>ref|NP_222895.1| putative [Helicobacter pylori J99]
Length = 567
Score = 25.4 bits (54), Expect = 8.9
Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 12/70 (17%)
Query: 401 KVDFMEFLAQNNTKLDNLSEK--------EKEKFQNEIEDFQKDSKAYLDALGNDRIAFV 452
+ D +EFL T DN EK +K K ++ I+ + D K + A + +
Sbjct: 273 RFDGIEFLGHYRTSTDNTYEKLKAELKEIKKSKLKSFIQSYVSDLKNFYQAF----LDLL 328
Query: 453 SKKDTKHSAL 462
S+ DT + L
Sbjct: 329 SEIDTNPTTL 338
>ref|NP_222822.1| 70kDa chaperone [Helicobacter pylori J99]
Length = 620
Score = 25.4 bits (54), Expect = 8.9
Identities = 36/165 (21%), Positives = 58/165 (34%), Gaps = 37/165 (22%)
Query: 634 EKKLESKSGNKNKMEAKAQANSQKDEIFALINKEANRDARAIAYTQNLKGIKRELSDKLE 693
E +E K+ K A + K E+ + + E N T +K+ K E
Sbjct: 241 ETGIEIKNDVMALQRLKEAAENAKKELSSAMETEINLPFITADATGPKHLVKKLTRAKFE 300
Query: 694 KISKDLKDFSKSFDEFKNGKNKDFSKAEETLKALKGSVKDLGINPEWISKV--------- 744
+++DL EET+ ++ +KD G+ IS+V
Sbjct: 301 SLTEDL--------------------VEETISKIESVIKDAGLTKNEISEVVMVGGSTRI 340
Query: 745 ----ENLNAALN-EFKNGKNKDFSKVTQAKSD---LENSVKDVII 781
E + A +N E N D A L+ VKDV++
Sbjct: 341 PKVQERVKAFINKELNKSVNPDEVVAVGASIQGGVLKGDVKDVLL 385
>ref|NP_222811.1| THREONINE SYNTHASE [Helicobacter pylori J99]
Length = 486
Score = 25.4 bits (54), Expect = 8.9
Identities = 29/110 (26%), Positives = 37/110 (33%), Gaps = 25/110 (22%)
Query: 732 KDLGINPEWISKVENLNAALNEFKNGKNKDFSKVTQAKSDLENSVKDVIINQKVTDKVDN 791
K +G+N I V N N L EF D +K +
Sbjct: 274 KKMGLNIAKIKVVTNSNDVLREFIETGRYDLTK-------------------------RS 308
Query: 792 LNQAVSVAKAMGDFSRVEQVLADLKNFSKEQLAQQAQKNEDFNTGKNSEL 841
L Q S A + S VE+ L L F + QA + E F K EL
Sbjct: 309 LKQTFSPAMDILKSSNVERALFSLFGFERTLELMQALEEEKFYALKPKEL 358
>ref|NP_222770.1| Proline/pyrroline-5-carboxylate dehydrogenase [Helicobacter pylori
J99]
Length = 1185
Score = 25.4 bits (54), Expect = 8.9
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 1081 NEKATGMLTQKNPEWLKLVNDKIVAHNVGSVSL 1113
NE T + + N EW K V DK+ HN + L
Sbjct: 478 NESDTDFILKANREWAKKVRDKM--HNAPILEL 508
Database: NC_000921.faa
Posted date: Dec 10, 2001 4:36 PM
Number of letters in database: 494,079
Number of sequences in database: 1491
Lambda K H
0.310 0.130 0.352
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,332,169
Number of Sequences: 1491
Number of extensions: 70167
Number of successful extensions: 447
Number of sequences better than 10.0: 96
Number of HSP's better than 10.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 71
Number of HSP's that attempted gapping in prelim test: 317
Number of HSP's gapped (non-prelim): 166
length of query: 1186
length of database: 494,079
effective HSP length: 88
effective length of query: 1098
effective length of database: 362,871
effective search space: 398432358
effective search space used: 398432358
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 54 (25.4 bits)