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|15645351|ref|NP_207525.1| hypothetical protein
[Helicobacter pylori 26695]
(573 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223386.1| putative [Helicobacter pylori J99] 957 0.0
ref|NP_223787.1| putative [Helicobacter pylori J99] 39 4e-04
ref|NP_223213.1| cag island protein, CYTOTOXICITY ASSOCIATE... 35 0.005
ref|NP_223176.1| putative [Helicobacter pylori J99] 33 0.020
ref|NP_223405.1| putative [Helicobacter pylori J99] 32 0.033
ref|NP_223096.1| TRANSLATION INITIATION FACTOR IF-2 [Helico... 31 0.074
ref|NP_223388.1| putative [Helicobacter pylori J99] 30 0.13
ref|NP_224164.1| putative ATP-DEPENDENT HELICASE [Helicobac... 30 0.22
ref|NP_222882.1| putative PEPTIDYL-PROLYL CIS-TRANS ISOMERA... 30 0.22
ref|NP_224141.1| TYPE I RESTRICTION ENZYME (MODIFICATION SU... 29 0.28
ref|NP_223194.1| cag island protein [Helicobacter pylori J99] 29 0.37
ref|NP_223004.1| PERIPLASMIC DIPEPTIDE TRANSPORT SUBSTRATE-... 28 0.63
ref|NP_222812.1| methyl-accepting chemotaxis protein (MCP) ... 28 0.63
ref|NP_223566.1| Outer membrane protein/porin [Helicobacter... 28 0.82
ref|NP_222917.1| 90kDa chaperone [Helicobacter pylori J99] 28 0.82
ref|NP_223761.1| putative [Helicobacter pylori J99] 27 1.1
ref|NP_223290.1| putative [Helicobacter pylori J99] 27 1.1
ref|NP_222854.1| Cytochrome oxidase (CBB3-TYPE) [Helicobact... 27 1.1
ref|NP_223644.1| putative [Helicobacter pylori J99] 27 1.4
ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [He... 27 1.4
ref|NP_224034.1| DNA transfer protein [Helicobacter pylori ... 27 1.8
ref|NP_223684.1| METHIONYL-TRNA SYNTHETASE [Helicobacter py... 27 1.8
ref|NP_223159.1| putative [Helicobacter pylori J99] 26 2.4
ref|NP_222847.1| putative [Helicobacter pylori J99] 26 2.4
ref|NP_222814.1| putative [Helicobacter pylori J99] 26 2.4
ref|NP_222783.1| putative [Helicobacter pylori J99] 26 2.4
ref|NP_223990.1| putative [Helicobacter pylori J99] 26 3.1
ref|NP_223987.1| CARBOXYL-TERMINAL PROTEASE [Helicobacter p... 26 3.1
ref|NP_223617.1| putative [Helicobacter pylori J99] 26 3.1
ref|NP_223610.1| putative [Helicobacter pylori J99] 26 3.1
ref|NP_223478.1| EXCINUCLEASE ABC SUBUNIT C [Helicobacter p... 26 3.1
ref|NP_222970.1| HEAT SHOCK PROTEIN [Helicobacter pylori J99] 26 3.1
ref|NP_223385.1| putative [Helicobacter pylori J99] 25 4.1
ref|NP_223838.1| DNA-DIRECTED RNA POLYMERASE, BETA SUBUNIT ... 25 5.3
ref|NP_223731.1| putative [Helicobacter pylori J99] 25 5.3
ref|NP_223366.1| putative [Helicobacter pylori J99] 25 5.3
ref|NP_224130.1| ATP-DEPENDENT DNA HELICASE [Helicobacter p... 25 6.9
ref|NP_223835.1| ELONGATION FACTOR G (EF-G) [Helicobacter p... 25 6.9
ref|NP_223512.1| putative [Helicobacter pylori J99] 25 6.9
ref|NP_223399.1| putative [Helicobacter pylori J99] 25 6.9
ref|NP_223367.1| putative Outer membrane protein [Helicobac... 25 6.9
ref|NP_223150.1| putative [Helicobacter pylori J99] 25 6.9
ref|NP_222797.1| methyl-accepting chemotaxis protein (MCP) ... 25 6.9
ref|NP_224145.1| arginase [Helicobacter pylori J99] 24 9.1
ref|NP_223788.1| putative [Helicobacter pylori J99] 24 9.1
ref|NP_223637.1| topoisomerase I [Helicobacter pylori J99] 24 9.1
ref|NP_223124.1| PROTEASE DO [Helicobacter pylori J99] 24 9.1
ref|NP_223055.1| putative [Helicobacter pylori J99] 24 9.1
ref|NP_223025.1| putative [Helicobacter pylori J99] 24 9.1
ref|NP_222780.1| putative [Helicobacter pylori J99] 24 9.1
>ref|NP_223386.1| putative [Helicobacter pylori J99]
Length = 569
Score = 957 bits (2473), Expect = 0.0
Identities = 481/569 (84%), Positives = 517/569 (90%)
Query: 1 MKNETLEQFKRNQKRNQEILKKLLDFVHAGEKYGIQIEESLKDKIRNAIKNVADQKLKVA 60
MKNETLEQFKRNQKRNQEILKKLLDFVH GE+YGI++EESLKDKIRNA++NVA QKLKVA
Sbjct: 1 MKNETLEQFKRNQKRNQEILKKLLDFVHTGEEYGIKVEESLKDKIRNAMENVAGQKLKVA 60
Query: 61 LVGGFSEGKTSIAAAWIDRLDEGMKIDHQESSDAVKIYDIDNEMELVDTPGLFGFKEKIT 120
LVGGFSEGKTSIAAAWIDRLD+ MKIDHQESSD VKIY ID+E+ELVDTPGLFGFK K
Sbjct: 61 LVGGFSEGKTSIAAAWIDRLDKSMKIDHQESSDEVKIYHIDDEIELVDTPGLFGFKVKTH 120
Query: 121 DSGKIERYKDITKKYISEAHLILYALNPSNPIKDSHKDDLNWLFRTLNLLSRTIFVISRF 180
DSGK ERYKDITKKYISEAHLILYALNPSNPIK+SHKDDLNWLFRTLNLLSRTIFVISRF
Sbjct: 121 DSGKTERYKDITKKYISEAHLILYALNPSNPIKESHKDDLNWLFRTLNLLSRTIFVISRF 180
Query: 181 DEEADIEDEEDYNKRFEIKKENVQNRLNDLISLSEKEKEGLSIVAVAANPYDLGVEHWLK 240
DEEADIEDEEDYNKRF+IKKEN+QNRL++LISLSE+EKE L IVAVAANP+DLGVEHWLK
Sbjct: 181 DEEADIEDEEDYNKRFKIKKENIQNRLDELISLSEEEKESLMIVAVAANPFDLGVEHWLK 240
Query: 241 HKEEFQKLSHIKTLQDATQKKIKENGGKLTIIEEAKKSVIQDVVYRQMPPAKQALQDINR 300
H+EEFQKLSHIK LQDATQKKIKENGGKLTIIEEAKKSVIQDVVYRQMPPAKQALQDINR
Sbjct: 241 HQEEFQKLSHIKALQDATQKKIKENGGKLTIIEEAKKSVIQDVVYRQMPPAKQALQDINR 300
Query: 301 EMEYLNKTLEKRRKEIQNLNSEISQARINLREFITRYFSDLIRQVLGTSLETFNDFVIRE 360
EMEYLNKTLEKRRKEIQ+LN EISQARI+LREFI RYFSDLIRQV G SLETFNDFVIRE
Sbjct: 301 EMEYLNKTLEKRRKEIQDLNKEISQARIHLREFIIRYFSDLIRQVSGASLETFNDFVIRE 360
Query: 361 IGDKGTNIDTRVQNEFERQTQGIVNEISKIETGFNADRSFFEKHAGTLGKIGINFLNKSG 420
IGD+ N++TRV+NEFE+QTQGI NEI+KI T FN+D S FEKHA T G+IGI L +S
Sbjct: 361 IGDEYINMETRVKNEFEKQTQGISNEIAKIGTTFNSDMSSFEKHARTFGRIGIKLLEQSK 420
Query: 421 FINATNIKLARDTIAAAGKFVGVDLAFKFKPWGAVNLAGNLNKGLPLIGLAFEVWDSWKE 480
FINATNIKL RD I A KF G+DLA KFKPWG V LAGN+NK LPLIGLAFE WDS+ +
Sbjct: 421 FINATNIKLTRDGIVAVAKFTGIDLALKFKPWGTVKLAGNINKALPLIGLAFEAWDSYNK 480
Query: 481 SQKIEKLEKAKREMESDFNNQKQEILDLINNETRFKQTCFPMALELEKCIQECEESVKKT 540
QK ++ EK KREMES FNNQKQEIL LIN+ETRFKQTCFPMALELE+ IQ CEESVKKT
Sbjct: 481 YQKQQEFEKTKREMESHFNNQKQEILALINDETRFKQTCFPMALELEETIQACEESVKKT 540
Query: 541 QECTQGLEKWIQTGEDLIKGEDFIEVEPE 569
QEC QGLEKWIQTGED IKGED I+VEPE
Sbjct: 541 QECAQGLEKWIQTGEDFIKGEDIIDVEPE 569
>ref|NP_223787.1| putative [Helicobacter pylori J99]
Length = 759
Score = 38.9 bits (89), Expect = 4e-04
Identities = 80/355 (22%), Positives = 145/355 (40%), Gaps = 57/355 (16%)
Query: 2 KNETLEQFKRNQKRNQEILKKLLDFVHAGEKYGIQIEESLKDKIRNAIKNVADQKLKVAL 61
K+ T +K K+N+E K++L+ EK+ +I + ++ N + V +KLK +
Sbjct: 156 KDFTDSCWKNLYKKNEEEFKEILEGFKRKEKFKGKILKEFENDKHNQSEIVGLEKLKEKI 215
Query: 62 VGGFSEGKTSIAAAWIDRLD----EGMKIDHQE---SSD---AVKIYDIDNE------ME 105
FS+ +T +A D D E I Q+ S D A I + NE E
Sbjct: 216 EIVFSKNQTELALLECDLTDFDSIENHSIWEQKIVGSGDVAIANLIKTLSNEDWVAQGRE 275
Query: 106 LVDTPGLFGFKEKITDSGKIERYKDITKKYISEAHLILYALNPSNPIKDSHKDDLNWLFR 165
V + F +K T + E +K + Y ++ ++ IK +D N
Sbjct: 276 YVKDNSICPFCQKETIT---EEFKKQLESYFDTSY-----QESTDTIKKMKEDYTN---- 323
Query: 166 TLNLLSRTIFVISRFDEEADIEDEEDYNKRFEIKKENVQNRLNDLIS--------LSEKE 217
+T + R DE I E N + ++ EN++ + L S + +K
Sbjct: 324 ------KTDEALERLDE---IIKTEQNNSQTKLDTENLKRIIETLRSKIKANQQKMIDKS 374
Query: 218 KEGLSIVAVAANPYDLGVEHWLKHKEEFQKLSHIKTLQDATQKK--IKENGGKLTIIEEA 275
KE + +N ++ L K Q +H +T++D ++K KE K I E
Sbjct: 375 KEMSRNFKLDSNKNEIDAIKDLIKKANEQITNHNETIKDIEKQKKSCKEQTWKFLINE-- 432
Query: 276 KKSVIQDVVYRQMPPAKQALQDINREMEYLNKTLEKRRKEIQNLNSEISQARINL 330
KS IQ+ + + + + L K + + +++++ L +EI + N+
Sbjct: 433 FKSDIQEY--------NKKYCGLEKGINNLEKEISENQEKVKKLENEIKELEKNM 479
Score = 31.6 bits (70), Expect = 0.057
Identities = 35/151 (23%), Positives = 68/151 (44%), Gaps = 21/151 (13%)
Query: 190 EDYNKRFEIKKENVQN-RLNDLISLSEKEKEGLSIVAVAANPYDLGVEHWLKHKEEFQKL 248
E YNK+F K+E ++N ++ + +L +K E L + + KE +K+
Sbjct: 90 EVYNKQF--KEEQLRNSQVKGIFTLGKKTNENLEKIESKKESIN---------KENEKKI 138
Query: 249 SHIKTLQDATQKKIKENGGKLTIIEEAKKSVIQDVVYRQMPPAKQALQDINREMEYLNKT 308
+ +LQ TQKK KE ++ S +++ + K+ L+ R+ ++ K
Sbjct: 139 KNEASLQVLTQKKEKEE-------KDFTDSCWKNLYKKNEEEFKEILEGFKRKEKFKGKI 191
Query: 309 LEKRRKEIQNLNSEISQARINLREFITRYFS 339
L++ + N + + + L+E I FS
Sbjct: 192 LKEFENDKHNQSEIVGLEK--LKEKIEIVFS 220
>ref|NP_223213.1| cag island protein, CYTOTOXICITY ASSOCIATED IMMUNODOMINANT ANTIGEN
[Helicobacter pylori J99]
Length = 1167
Score = 35.0 bits (79), Expect = 0.005
Identities = 84/405 (20%), Positives = 151/405 (36%), Gaps = 38/405 (9%)
Query: 187 EDEEDYNKRFEIKKENVQNRLNDLISLSEKEKEGLSIVAVAANPYDLGVEHWLKHKEEFQ 246
E D+N K + N + LI++ K GL +A + + +KE+
Sbjct: 330 EARHDWNATVGYKNQRGDN-VATLINVHMKNGSGL---VIAGGEKGINNPSFYLYKEDQL 385
Query: 247 KLSHIKTLQDATQKKIK------ENGGKLTIIEEAKKSVIQDVVYRQMPPAKQALQDI-N 299
S Q+ Q K+ +N KL + + +K Q+ + +K L + N
Sbjct: 386 TGSQRALSQEEIQNKVDFMEFLAQNNAKLDNLSKKEKEKFQNEIEDFQKDSKAYLDALGN 445
Query: 300 REMEYLNKTLEKRRKEIQNL-NSEISQARINLREFITRYFSDLIRQVLGTSLETFNDFVI 358
+ +++K +K + N E+S + + + + L SL+ +
Sbjct: 446 DHIAFVSKKDKKHLALVAEFGNGELSYTLKDYGKKADKALDREAKTTLQGSLKHDGVMFV 505
Query: 359 REIGDKGTNIDTRVQNEFERQTQGIVNEISKIETGFNADRSFFEKHAGTLGKIGI----- 413
K TN ++ + G N +S +E GF+ F + L +
Sbjct: 506 DYSNFKYTNA-----SKSPDKGVGATNGVSHLEAGFSKVAVFNLPNLNNLAITSVVRQDL 560
Query: 414 -NFLNKSGFINATNIKLARDTIAAAGKFVGVDLAFKFKPWGAVNLAGNLNKGLPLIGLAF 472
+ L G KL +D +++ + VG L F AV A N +
Sbjct: 561 EDKLIAKGLSPQEANKLVKDFLSSNKELVGKALNFN----KAVAEAKNTGNYDEVKQAQK 616
Query: 473 EVWDSWKESQKIEK-----LE-----KAKREMESDFNNQKQEILDLINNETRFKQTCFPM 522
++ S K+ +++EK LE K K E +S N+QK EI LIN E
Sbjct: 617 DLEKSLKKRERLEKDVAKNLESKSGNKNKMEAKSQANSQKDEIFALINKEANRDARAIAY 676
Query: 523 ALELEKCIQECEESVKKTQECTQGLEKWIQTGEDLIKGEDFIEVE 567
A L+ +E + ++ + + K ++ K +DF + E
Sbjct: 677 AQNLKGIKRELSDKLENINKDLKDFSKSFDEFKN-GKNKDFSKAE 720
>ref|NP_223176.1| putative [Helicobacter pylori J99]
Length = 450
Score = 33.1 bits (74), Expect = 0.020
Identities = 33/135 (24%), Positives = 55/135 (40%), Gaps = 5/135 (3%)
Query: 180 FDEEADIEDEEDYNKRFEIKKENVQNRLNDLISLSEKEKEGLSIVAVAANPYDLGVEHWL 239
F+E DE D + E +K ++ N+ ++ E E+E I +AN L
Sbjct: 321 FEEREKEHDERDEKETEERRKALEMDKGNEKVNAKENERE---INQESANEPSSENNATL 377
Query: 240 KHKEEFQKLSHIKTLQDATQKKIKENGGKLTIIEEAKKSVIQDVVYRQMPPAKQALQDIN 299
K E L ++A + KE K + EE KK+ + A++ +
Sbjct: 378 KDTENTSVLKESAAKKEAPKPSSKEE--KRRLKEEKKKAKAEQRAREFEQRAREHQERDE 435
Query: 300 REMEYLNKTLEKRRK 314
+E+E K LE +K
Sbjct: 436 KELEERRKALEMNKK 450
>ref|NP_223405.1| putative [Helicobacter pylori J99]
Length = 400
Score = 32.3 bits (72), Expect = 0.033
Identities = 38/147 (25%), Positives = 68/147 (45%), Gaps = 21/147 (14%)
Query: 248 LSHIKTLQDATQKKIKENGGKLTIIEEAKKSVIQDVVYRQMPPAKQALQDINREMEYLNK 307
+ H +TL T ++ + +L+ + EA +S V +I R+M L K
Sbjct: 27 IQHKETLLKKTHEEKNQLNSRLSSLGEAIRSKELQKV------------EIERQMVALKK 74
Query: 308 TLEKRRKEIQNLNSEISQARINLREFITRYFSDLIRQVLGTSLETFNDFVIREIGDKGTN 367
+LEK R E ++ R +L + + + S L ++V T LE DF+ + KG N
Sbjct: 75 SLEKNRNESLVQEKVLTNYRKSL-DHLQKQRSFLQKRVFDTLLE---DFLFSQ-ALKGQN 129
Query: 368 I----DTRVQNEFERQTQGIVNEISKI 390
+ D +Q FE Q ++++S++
Sbjct: 130 LASSNDVILQVAFENLHQSTLSKMSQL 156
>ref|NP_223096.1| TRANSLATION INITIATION FACTOR IF-2 [Helicobacter pylori J99]
Length = 949
Score = 31.2 bits (69), Expect = 0.074
Identities = 18/52 (34%), Positives = 26/52 (49%), Gaps = 2/52 (3%)
Query: 283 VVYRQMPPAKQALQDINREMEYLNKTLEKRRKEIQNLN--SEISQARINLRE 332
V + Q+ AKQ LQ+I + E LNK + N N S +S A+ + E
Sbjct: 146 VSHSQIEKAKQKLQEIQKSREALNKLTQSNTNTTNNANSASNVSNAKKEISE 197
>ref|NP_223388.1| putative [Helicobacter pylori J99]
Length = 192
Score = 30.4 bits (67), Expect = 0.13
Identities = 29/117 (24%), Positives = 52/117 (43%), Gaps = 16/117 (13%)
Query: 7 EQFKRNQKRNQEILKKLLDFVHAGEKYGIQIEESLKDKIRNAIKNVADQKLKVALVGGFS 66
E+ KR + E+ +KL E+ ++ ESLK+ N + +A G
Sbjct: 31 EKLKRFNQEALEVFQKL-------ERESLKELESLKN-------NEEWENFTIAFYGETG 76
Query: 67 EGKTSIAAAWIDRLDEGMKIDHQESSDAV-KIYDIDNE-MELVDTPGLFGFKEKITD 121
GK+++ E K+D QE + Y +++ L+D PG+ G ++K+ D
Sbjct: 77 AGKSTLIECLRMFFKEQSKVDQQERFKRLYSTYQYNHQNFILLDVPGIEGSEKKVID 133
>ref|NP_224164.1| putative ATP-DEPENDENT HELICASE [Helicobacter pylori J99]
Length = 946
Score = 29.6 bits (65), Expect = 0.22
Identities = 63/307 (20%), Positives = 122/307 (39%), Gaps = 39/307 (12%)
Query: 1 MKNETLEQFKRNQKRNQEILKKLLDFVHAGEKYGIQIEESLKDKIRNAIKNVADQKLKVA 60
++ T K +Q +I+K L++ A E Y + S+ +K V
Sbjct: 522 IRPSTESSAKLSQLVESKIIKNALEYALAEEPYKPFYKHSV-------LKLAGYLHDDVI 574
Query: 61 LVGGFSEGKTSIAAAWIDRLDEGMKIDHQESSD----AVKIYDIDNEMELVDTPGLFGFK 116
+ GF+ K S+A+ ++ ++ E K+ + + AV D D +E ++ + F
Sbjct: 575 ALPGFNPKKESVAS-FVWKIMEQFKLYEEPAQSCLELAVGCEDADGFLEKLEAKEIASFN 633
Query: 117 EKITDSGKIERYKDITKKYISEAHLILYALNPSNPIKDSHKDDLNWLFRTLNLLSRTIFV 176
K I + K + Y+ + NP SH + L + L ++
Sbjct: 634 PKGAQIMTIHKSKGMQFPYVIVCERL------GNP-NSSHANQLLEEYDGTELAR--LYY 684
Query: 177 ISRFDEEADIEDEEDYNKRFEIKKENVQNRLNDLISLSEKEKEGLSIVAVAANPYDLGVE 236
+ E D +DY + + K+E + K+ E +++ VA +LG+
Sbjct: 685 RMKNREVVD----KDYARALD-KEE------------AAKDHEEINVYYVAFTRAELGLI 727
Query: 237 HWLKHKEEFQKLSHIKTLQDATQKKIKENGGKLTIIEEAKKSVIQDVVYRQMPPAKQALQ 296
K K+E +K S K + + + E G +I K+ ++ VV + +Q +Q
Sbjct: 728 VVAKDKKESKKESKNKKMHEQLELAPLEEGEIAPVISPQKEPLMTSVVIKPHAYGEQ-VQ 786
Query: 297 DINREME 303
+I E +
Sbjct: 787 EIEEESD 793
>ref|NP_222882.1| putative PEPTIDYL-PROLYL CIS-TRANS ISOMERASE [Helicobacter pylori
J99]
Length = 299
Score = 29.6 bits (65), Expect = 0.22
Identities = 50/224 (22%), Positives = 85/224 (37%), Gaps = 20/224 (8%)
Query: 94 AVKIYDIDNEME---LVDTPGLFGFKEKITDSGKIERYKDITKKYISEAHLILYALNPSN 150
A++ ++NE + L TP E + +E + KK E I P
Sbjct: 85 AIRTALVENEAKAEKLNQTPEFKAMMEAVKKQALVEFW---AKKQAEEVKKIQI---PEK 138
Query: 151 PIKDSHKDDLNWLFRTLNLLSRTIFVISRFDEEADIEDEEDYNKRFEIKKENVQNRLNDL 210
++D + + + LF +R I V + DE I E D + + + + ++ D
Sbjct: 139 EMQDFYNANKDQLFVKQEAHARHILVKTE-DEAKRIISEIDKQPKAKKEAKFIELANRDT 197
Query: 211 ISLSEKEKEGLSIVAVAANPYDLGVEHWLKHKEEFQKLSHIKTLQDATQKKIKENGGKLT 270
I + K A N DLG + +F K + T D T+ +K G
Sbjct: 198 IDPNSKN---------AQNGGDLGKFQKNQMAPDFSKAAFALTPGDYTKTPVKTEFGYHI 248
Query: 271 IIEEAKKSVIQDVVYRQMPPAKQALQDINREMEYLNKTLEKRRK 314
I +K S + Y Q P + + E +N+ +E+ RK
Sbjct: 249 IYLISKDSPV-TYTYEQAKPTIKGMLQEKLFQERMNQRIEELRK 291
>ref|NP_224141.1| TYPE I RESTRICTION ENZYME (MODIFICATION SUBUNIT) [Helicobacter
pylori J99]
Length = 815
Score = 29.3 bits (64), Expect = 0.28
Identities = 37/172 (21%), Positives = 79/172 (45%), Gaps = 20/172 (11%)
Query: 174 IFVISRFDEEADIEDEEDYNKRFEIKKENVQNRLNDLISLSEKE--KEGLSIVAVAANPY 231
+FVI +A + ++D NK +++++VQ ++ +L E + +S+ ++ N Y
Sbjct: 386 VFVI-----DASKDFKKDGNKN-RLREQDVQKMIDTFNALKEIPYYSKMVSLEEISLNDY 439
Query: 232 DLGVEHWLKHKEEFQK--LSHIKTLQDATQKKIKENGGKLTIIEEAKKSVIQDVVYRQMP 289
+L + ++ K+E +K + I + + +IK + +E K ++ +
Sbjct: 440 NLNIPRYIAAKQELEKDLFALINSPSYLPKNEIKAYDPYFQVFKELKNTLFK-------K 492
Query: 290 PAKQALQDINREMEYLNKTLEKRRKEIQNLNSEISQARINLREFITRYFSDL 341
K+ + E E + K L + E Q ++ + A +L F T F+DL
Sbjct: 493 SDKEGYYALKTECENI-KDLITQSLEYQTFHASVLSAFESLDLFTT--FNDL 541
>ref|NP_223194.1| cag island protein [Helicobacter pylori J99]
Length = 1819
Score = 28.9 bits (63), Expect = 0.37
Identities = 26/89 (29%), Positives = 42/89 (46%), Gaps = 6/89 (6%)
Query: 479 KESQKIEKLEKAK-REMESDFNNQKQEILDLIN---NETRFKQTCFPMALELEKCIQECE 534
KE Q+ EKL + R++ + + LD ++ NE K+ + E K ++E +
Sbjct: 849 KEKQECEKLLTPEARKLLEESKKSVKAYLDCVSKAKNEAERKECEKLLTPEARKLLEEAK 908
Query: 535 ESVKKTQECTQGL--EKWIQTGEDLIKGE 561
ESVK ++C EK Q E L+ E
Sbjct: 909 ESVKAYKDCVSRARNEKEKQECEKLLTPE 937
Score = 28.9 bits (63), Expect = 0.37
Identities = 26/89 (29%), Positives = 42/89 (46%), Gaps = 6/89 (6%)
Query: 479 KESQKIEKLEKAK-REMESDFNNQKQEILDLIN---NETRFKQTCFPMALELEKCIQECE 534
KE Q+ EKL + R++ + + LD ++ NE K+ + E K ++E +
Sbjct: 773 KEKQECEKLLTPEARKLLEESKKSVKAYLDCVSKAKNEAERKECEKLLTPEARKLLEEAK 832
Query: 535 ESVKKTQECTQGL--EKWIQTGEDLIKGE 561
ESVK ++C EK Q E L+ E
Sbjct: 833 ESVKAYKDCVSRARNEKEKQECEKLLTPE 861
Score = 27.3 bits (59), Expect = 1.1
Identities = 25/89 (28%), Positives = 42/89 (47%), Gaps = 6/89 (6%)
Query: 479 KESQKIEKLEKAK-REMESDFNNQKQEILDLIN---NETRFKQTCFPMALELEKCIQECE 534
KE ++ EKL + R++ + + LD ++ NE K+ + E K ++E +
Sbjct: 1140 KEKKECEKLLTPEARKLLEESKKSVKAYLDCVSKAKNEAEKKECEKLLTPEARKLLEEAK 1199
Query: 535 ESVKKTQECTQGL--EKWIQTGEDLIKGE 561
ESVK ++C EK Q E L+ E
Sbjct: 1200 ESVKAYKDCVSRARNEKEKQECEKLLTPE 1228
Score = 24.3 bits (51), Expect = 9.1
Identities = 28/102 (27%), Positives = 43/102 (41%), Gaps = 20/102 (19%)
Query: 480 ESQKIEKLEKAKREMES-----DFNNQKQE----------ILDLIN---NETRFKQTCFP 521
E+Q ++ L+ AK E E D Q+ LD ++ NE K+
Sbjct: 943 ENQALDCLKNAKTEAEKKRCVKDLPKDLQKKVLAKESVRVYLDCVSKAKNEAERKECEKL 1002
Query: 522 MALELEKCIQECEESVKKTQECTQGL--EKWIQTGEDLIKGE 561
+ E K ++E +ESVK ++C EK Q E L+ E
Sbjct: 1003 LTPEARKLLEEAKESVKAYKDCVSRARNEKEKQECEKLLTPE 1044
>ref|NP_223004.1| PERIPLASMIC DIPEPTIDE TRANSPORT SUBSTRATE-BINDING PROTEIN
[Helicobacter pylori J99]
Length = 546
Score = 28.1 bits (61), Expect = 0.63
Identities = 27/114 (23%), Positives = 48/114 (41%), Gaps = 5/114 (4%)
Query: 346 LGTSLETFNDFVIREIGDKGTNIDTRVQNEFERQTQGIVNEISKIETGFNADRSFFE--- 402
L T + FN+ ++R + N+D ++ +E Q +VN G+N + +E
Sbjct: 311 LNTQKKYFNNPLVRLAINHAINVDDYIKVIYEGFAQKMVNPFPPTIWGYNYNIKPYEYDL 370
Query: 403 -KHAGTLGKIGI-NFLNKSGFINATNIKLARDTIAAAGKFVGVDLAFKFKPWGA 454
K L + G N + F +T I A+ +G+D+ + WGA
Sbjct: 371 KKAKELLKQAGYPNGFKTTIFTTSTRNPKGAVFIQASLAKIGIDVKIEVYEWGA 424
>ref|NP_222812.1| methyl-accepting chemotaxis protein (MCP) [Helicobacter pylori J99]
Length = 675
Score = 28.1 bits (61), Expect = 0.63
Identities = 17/89 (19%), Positives = 39/89 (43%)
Query: 472 FEVWDSWKESQKIEKLEKAKREMESDFNNQKQEILDLINNETRFKQTCFPMALELEKCIQ 531
F++++S+ +++ A +E N QEI ++ + F + + L++C+Q
Sbjct: 444 FKIFESYSGLDFRGRIQNASGRVELVTNALGQEIQKMLETSSNFAKDLANDSANLKECVQ 503
Query: 532 ECEESVKKTQECTQGLEKWIQTGEDLIKG 560
E++ + K I+ I+G
Sbjct: 504 NLEKASNSQHKSLMETSKTIENITTSIQG 532
Score = 25.0 bits (53), Expect = 5.3
Identities = 17/70 (24%), Positives = 30/70 (42%), Gaps = 3/70 (4%)
Query: 18 EILKKLLDFVHAGEKYGIQIEESLKDKIRNAIKNVADQKLKVALVGGFSEGKTSIAAAWI 77
E +K L + A +Q + I+N +K V + + + +EG IA+
Sbjct: 594 ERTQKSLSEIEANINILVQSISDTSESIKNQVKEVEEINASIEALRSVTEGNLKIAS--- 650
Query: 78 DRLDEGMKID 87
D L+ +ID
Sbjct: 651 DSLEISQEID 660
>ref|NP_223566.1| Outer membrane protein/porin [Helicobacter pylori J99]
Length = 520
Score = 27.7 bits (60), Expect = 0.82
Identities = 20/107 (18%), Positives = 49/107 (45%), Gaps = 7/107 (6%)
Query: 291 AKQALQDINREMEYLNKTLEKRRKE---IQNLNSEISQARINLREFITRYFSDLIRQVLG 347
++QA+Q + + LN +++ ++ NS ++ A I +EF + F+ L++ ++
Sbjct: 214 SQQAIQYLQGQQNILNNAANLLKQDELLLEAFNSAVA-ANIGNKEFNSAAFTGLVQGIID 272
Query: 348 TSLETFNDFVIREIGDKGTN---IDTRVQNEFERQTQGIVNEISKIE 391
S +N+ I N I++ N + + + N + ++
Sbjct: 273 QSQLVYNELTKNTISGSAVNNAGINSNQANAVQGRASQLPNALYNVQ 319
>ref|NP_222917.1| 90kDa chaperone [Helicobacter pylori J99]
Length = 621
Score = 27.7 bits (60), Expect = 0.82
Identities = 32/130 (24%), Positives = 55/130 (41%), Gaps = 20/130 (15%)
Query: 319 LNSEISQARINLREFITRYFSDLIRQVLGTSLETFNDFVIREIGDKGTNIDTRVQNEFER 378
++S S I LRE I+ +L+ N ++ + KG N + F+
Sbjct: 20 IHSLYSNKEIFLRELISN---------ASDALDKLNYLMLTDEKLKGLNTTPSIHLSFDS 70
Query: 379 QTQGIVNEISKIETGFNADRSFFEKHAGTLGKIGINFLNKSGFINATNIKLARDTIAAAG 438
Q + + + + G D+S +H GT+ K G F++A + +D+ A G
Sbjct: 71 QKKTLTIK----DNGIGMDKSDLIEHLGTIAKSG-----TKSFLSALSGDKKKDS-ALIG 120
Query: 439 KF-VGVDLAF 447
+F VG AF
Sbjct: 121 QFGVGFYSAF 130
>ref|NP_223761.1| putative [Helicobacter pylori J99]
Length = 1154
Score = 27.3 bits (59), Expect = 1.1
Identities = 20/68 (29%), Positives = 31/68 (45%), Gaps = 14/68 (20%)
Query: 218 KEGLSIVAVAANPYDLGVEHWLKHKEE-------------FQKLSHIKTLQDATQKKIK- 263
KEGL + + D G+EH LK +E+ +S IKT+ + K +K
Sbjct: 826 KEGLGDIDLVWGNKDYGLEHILKRREDQALNNGINEAEAKDYAISVIKTIPEVIDKGVKV 885
Query: 264 ENGGKLTI 271
E G++ I
Sbjct: 886 ERNGRVAI 893
>ref|NP_223290.1| putative [Helicobacter pylori J99]
Length = 683
Score = 27.3 bits (59), Expect = 1.1
Identities = 20/86 (23%), Positives = 43/86 (49%), Gaps = 7/86 (8%)
Query: 192 YNKRFEIKKENVQNRLNDLISLSEKEKEGLSIVAVAANPYDLGVEHWLKHKEEF------ 245
Y + + ++EN + L D++++S+ +K + ++ + + E L+ +EF
Sbjct: 24 YQRNYTWEEENCEKLLQDIVNISQNKKTHF-MGSITYILHLIDDEKSLRQLQEFVIIDGQ 82
Query: 246 QKLSHIKTLQDATQKKIKENGGKLTI 271
Q+++ I L A + KI+ G K I
Sbjct: 83 QRITTIMLLLKAIETKIQNEGIKKEI 108
>ref|NP_222854.1| Cytochrome oxidase (CBB3-TYPE) [Helicobacter pylori J99]
Length = 232
Score = 27.3 bits (59), Expect = 1.1
Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 10/84 (11%)
Query: 205 NRLNDLISLSEKEKEGLSIVAVAANPYDLGVEHWLKHKEEFQKLSHIKTLQDATQKKI-- 262
+R+ D + EK L +V + +H K +F ++ + L TQKK+
Sbjct: 106 HRVGDYRTTDWHEKHMLDPKSVVPHSIMPAYKHLFIKKSDFDT-AYAEAL---TQKKVFG 161
Query: 263 ----KENGGKLTIIEEAKKSVIQD 282
ENG KL +EEAKK+ +++
Sbjct: 162 VPYDTENGVKLGNVEEAKKAYLEE 185
>ref|NP_223644.1| putative [Helicobacter pylori J99]
Length = 465
Score = 26.9 bits (58), Expect = 1.4
Identities = 43/198 (21%), Positives = 73/198 (36%), Gaps = 58/198 (29%)
Query: 153 KDSHKDDLNWLFRTLNLLSRTIFVIS------RFDEEADIEDEE-DYNKRFEIKKENVQN 205
KD+ K+D+N+ S ++ + R + D+ D D N+ F IK+ +
Sbjct: 107 KDNSKEDVNFFANGEIKESSRVYEANKEGFERRITKRYDLIDRNIDRNREFFIKEIEILT 166
Query: 206 RLNDLISLSEKEKEGLSIVAVAANPYDLGVEHWLKHKEEFQKLSHIKTLQDATQKKIKEN 265
N L L E+ G+E L H E T KK EN
Sbjct: 167 HTNSLKELKEQ-----------------GLEIQLTHHNE-------------THKKALEN 196
Query: 266 GGKLTIIEEAKKSVIQDV-------VYRQMPPA-----------KQALQDINREMEYLNK 307
G ++ + K + Q+V + R++ P+ K + IN E LN
Sbjct: 197 GNEIVKEYDHLKDIYQEVERTKDGGLVREIIPSISSAEYFKLYNKLPFESINNENTKLN- 255
Query: 308 TLEKRRKEIQNLNSEISQ 325
+E++ L E+++
Sbjct: 256 --TNDNEEVKKLEFELAK 271
>ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [Helicobacter pylori J99]
Length = 681
Score = 26.9 bits (58), Expect = 1.4
Identities = 10/31 (32%), Positives = 21/31 (67%)
Query: 535 ESVKKTQECTQGLEKWIQTGEDLIKGEDFIE 565
+ +K T+E + L++ ++ G D +K +DF+E
Sbjct: 132 DKIKNTEEKQKVLDEELEDGYDFLKEKDFLE 162
>ref|NP_224034.1| DNA transfer protein [Helicobacter pylori J99]
Length = 304
Score = 26.6 bits (57), Expect = 1.8
Identities = 19/68 (27%), Positives = 36/68 (52%), Gaps = 5/68 (7%)
Query: 40 SLKD---KIRN--AIKNVADQKLKVALVGGFSEGKTSIAAAWIDRLDEGMKIDHQESSDA 94
SL+D K+ N ++KN+A + + + G S GKTS+ A +D +++ ++ E S
Sbjct: 117 SLEDFTFKVSNPESLKNLALKGHNILISGETSSGKTSLLNALLDCVNKDERVVSVEDSQE 176
Query: 95 VKIYDIDN 102
+ + N
Sbjct: 177 LDLKAFSN 184
>ref|NP_223684.1| METHIONYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 656
Score = 26.6 bits (57), Expect = 1.8
Identities = 15/66 (22%), Positives = 30/66 (44%), Gaps = 3/66 (4%)
Query: 88 HQESSDAVKIYDIDNEMELVDTPGLFGFKEKITDSGKIERYKDITKKYISEAHLILYALN 147
H+ + IYD N++ + P + K +S K+E + + ++ +LYA
Sbjct: 409 HKALEELFNIYDFLNKLIAKEEPWVL---HKNNESEKLEALLSLIANTLLQSSFLLYAFM 465
Query: 148 PSNPIK 153
P + +K
Sbjct: 466 PKSAMK 471
>ref|NP_223159.1| putative [Helicobacter pylori J99]
Length = 181
Score = 26.2 bits (56), Expect = 2.4
Identities = 22/94 (23%), Positives = 45/94 (47%), Gaps = 9/94 (9%)
Query: 1 MKNETLEQFKRNQKRN--QEILKKLLDFVHAGEKYGIQIEESLKDKIRNAIKNVADQKLK 58
+ N TLE ++ + + E+LK+L + +H+ + Q+E SLK +R + + L
Sbjct: 6 LPNSTLEITQQPEVKEITNELLKQLQNALHSNALFTEQVELSLKGIVR-----ILEVLLS 60
Query: 59 VALVGGFSEGKTSI--AAAWIDRLDEGMKIDHQE 90
+ +E +S+ + W+ E +K +E
Sbjct: 61 LDFFKNANEIDSSLRNSIEWLSNAGESLKTKMKE 94
>ref|NP_222847.1| putative [Helicobacter pylori J99]
Length = 481
Score = 26.2 bits (56), Expect = 2.4
Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 1/68 (1%)
Query: 176 VISRFDEEADIEDEEDYNKRFEIKKENVQNRLNDLISLSEKEKEGLSIV-AVAANPYDLG 234
++SR DE ++ ++ F+I + N++I KEK I+ + ++G
Sbjct: 63 ILSRLDEYLELFEKNATQNGFKIHYAKDGDEANEIIYNLAKEKNIKRILKQKSMASEEIG 122
Query: 235 VEHWLKHK 242
+ H+LK K
Sbjct: 123 LNHYLKEK 130
>ref|NP_222814.1| putative [Helicobacter pylori J99]
Length = 253
Score = 26.2 bits (56), Expect = 2.4
Identities = 15/43 (34%), Positives = 24/43 (54%), Gaps = 1/43 (2%)
Query: 466 PLIGLAFEV-WDSWKESQKIEKLEKAKREMESDFNNQKQEILD 507
PL A E+ W + E+ K + + + + D NN+KQ+ILD
Sbjct: 15 PLFLEAKEITWSQFLENFKNKNEDDKPKPLTIDKNNEKQQILD 57
>ref|NP_222783.1| putative [Helicobacter pylori J99]
Length = 806
Score = 26.2 bits (56), Expect = 2.4
Identities = 18/88 (20%), Positives = 40/88 (45%), Gaps = 2/88 (2%)
Query: 221 LSIVAVAANPYDLGVEHWLKHKEEFQKLSHIKTLQDATQKKIKENGGKLTIIEEAKKSVI 280
LS V + + + E ++ E F+ + + L+ + I + G K +++ +
Sbjct: 232 LSFVNLESEKNNQSAEDLKRYAEFFKDRTSFECLKYLNVEIISDQGIKSQHMQDFADKI- 290
Query: 281 QDVVYRQMPPAKQALQDINREMEYLNKT 308
Y+Q K+ L+D+ R+ E+ K+
Sbjct: 291 -KAYYKQKKEVKRELKDLQRDKEFWTKS 317
>ref|NP_223990.1| putative [Helicobacter pylori J99]
Length = 1164
Score = 25.8 bits (55), Expect = 3.1
Identities = 72/301 (23%), Positives = 125/301 (40%), Gaps = 48/301 (15%)
Query: 35 IQIEESLK--DKIRNAIKNVADQKLKVALVGGFSEGKTSIAAAWIDRLDEGMKIDHQES- 91
I+IE+++K DKI+ +KNV QK E + A + L K+ +++
Sbjct: 510 IEIEKNVKLTDKIQTLLKNVQKQK----------ESGSKNALKELKNLHSKYKLQKEKNP 559
Query: 92 ----SDAVKIYDI-DNEMELVDTPGLFGFKEKITDSGKIER--YKDITKKYISEAHLILY 144
D VK N++EL+ GLFGF I+++ ++ ++ + ++ + E + LY
Sbjct: 560 KWLLDDYVKFMRFAQNKIELLG-HGLFGF---ISNNAFLDNPTFRGL-RRSLLECYDELY 614
Query: 145 ALNPSNPIKDSHK-----DDLNWLFRTLNLLSRTIFVISRFDEEADIEDEEDYNKRFEIK 199
LN + + D N +F + +S +FV + I + Y +R E
Sbjct: 615 ILNLHGNARRKEETPQGATDEN-VFNIMQGVSINLFVKKAQATKPKICYYDVYGERAEKY 673
Query: 200 KENVQNRLNDLISLSEKEKEGLSIVAVAANPYDLGVEHWLKHKEEFQKLS-HIKTLQDA- 257
QN L+ + L +E ++ P E +E FQ S I T +D
Sbjct: 674 AFLAQNDLDRIEWLELAPREPFYLLIPQKTPLLEEYEQGFSVQEMFQISSVGIVTGKDKI 733
Query: 258 ----TQKKIKENGGKLTIIEEAKKSVIQDVVYRQMPPAKQALQDINREMEYLNKTLEKRR 313
+ +KE L E + ++D+ YR DI R++ Y K LE+ R
Sbjct: 734 FIANNTESLKEQ--VLKYCNEFNEQCVKDIHYRPF--------DI-RKVYYDTKKLERAR 782
Query: 314 K 314
+
Sbjct: 783 E 783
>ref|NP_223987.1| CARBOXYL-TERMINAL PROTEASE [Helicobacter pylori J99]
Length = 459
Score = 25.8 bits (55), Expect = 3.1
Identities = 12/37 (32%), Positives = 20/37 (53%)
Query: 177 ISRFDEEADIEDEEDYNKRFEIKKENVQNRLNDLISL 213
+ + D++ I E D +K+ E +KE +ND I L
Sbjct: 398 LKKLDDKTPISKEADKDKKSEEEKEVTPKMINDDIQL 434
>ref|NP_223617.1| putative [Helicobacter pylori J99]
Length = 500
Score = 25.8 bits (55), Expect = 3.1
Identities = 25/89 (28%), Positives = 43/89 (48%), Gaps = 7/89 (7%)
Query: 184 ADIEDE-EDYNKRFEIKKENVQNRLNDLISLSEKEKEGLSIVA---VAANPYDLGVEHWL 239
A++E+E E Y + F E + + SLS + KEG+ V + N D +E
Sbjct: 115 AELENEHEKYEREFNRIVEEEVKKQKEKQSLSNRAKEGIRNVGNKMLGRNKSDEEIEKRA 174
Query: 240 KH--KEEFQKLSHIKTLQDATQKKIKENG 266
+ K E +K + + + D +KIK++G
Sbjct: 175 ERIAKNELEKDTKLVSSHD-QYEKIKKSG 202
Score = 25.0 bits (53), Expect = 5.3
Identities = 22/80 (27%), Positives = 36/80 (44%), Gaps = 14/80 (17%)
Query: 472 FEVWDSWKESQKIEKLEKAKREMESDF-------NNQKQEILDLINN---ETRFKQTCFP 521
FE SW+ +QK E+ A R + + + K+ L LIN E R K+
Sbjct: 392 FENQASWERNQKTEEYHNALRNLRDSYPDAFSSDDKSKESSLFLINMGAIEERLKKA--- 448
Query: 522 MALELEKCIQECEESVKKTQ 541
A E EK + + ++ ++Q
Sbjct: 449 -AQEKEKIMSQKLQNYAESQ 467
>ref|NP_223610.1| putative [Helicobacter pylori J99]
Length = 267
Score = 25.8 bits (55), Expect = 3.1
Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 11/63 (17%)
Query: 485 EKLEKAKREMESDFN-----NQKQEILDLINNETRFKQTCFPMALELEKCIQECEESVKK 539
E+ +A RE+E+ N ++KQE+L E +ALELE ++ +++K+
Sbjct: 102 ERSNQANREIENLQNEIKHKSEKQEVLKKEMLELE------KLALELENLVENEVKNIKE 155
Query: 540 TQE 542
TQ+
Sbjct: 156 TQQ 158
>ref|NP_223478.1| EXCINUCLEASE ABC SUBUNIT C [Helicobacter pylori J99]
Length = 594
Score = 25.8 bits (55), Expect = 3.1
Identities = 14/58 (24%), Positives = 26/58 (44%), Gaps = 6/58 (10%)
Query: 497 DFNNQKQEILDLINNETRFKQTCFPMALELEKCIQECEESVKK------TQECTQGLE 548
D + E+L L+ + K M ++E+C CE+ + K +EC + +E
Sbjct: 145 DILDSLYELLPLVQKKNCIKDKKACMFYQIERCKAPCEDKITKEEYLKIAKECLEMIE 202
>ref|NP_222970.1| HEAT SHOCK PROTEIN [Helicobacter pylori J99]
Length = 856
Score = 25.8 bits (55), Expect = 3.1
Identities = 16/54 (29%), Positives = 31/54 (56%), Gaps = 5/54 (9%)
Query: 6 LEQFKRNQKRNQEILKKLLDFVHAGEKYGIQIEESLKDKIRNAIKNVADQKLKV 59
+E + N KR QEILK+L D ++ IQ+E +++ + K ++ K+++
Sbjct: 428 MENKESNHKRMQEILKELSDL----KEEKIQLEAQFENE-KEVFKEISRLKMEM 476
Score = 25.8 bits (55), Expect = 3.1
Identities = 63/306 (20%), Positives = 128/306 (41%), Gaps = 52/306 (16%)
Query: 13 QKRNQEILKKLLDFVHAGEKYGIQIEESLKDKIRNAIKN----VADQKLKVA---LVGGF 65
QK Q ++L+ +K + E++LK I AIK ++D + +G
Sbjct: 549 QKMLQSEKNRVLNIESELQKRVVGQEKALK-AIAKAIKRNKAGLSDSNKPIGSFLFLGPT 607
Query: 66 SEGKTSIAAAWIDRL-DEGMKIDHQESSDAVKIYDIDNEMELVDTPGLFGFKE--KITDS 122
GKT A A L D + + S+ ++ + I + PG G++E ++T++
Sbjct: 608 GVGKTESAKALAQFLFDSDKNLIRIDMSEYMEKHAISRLIGAA--PGYVGYEEGGQLTEA 665
Query: 123 GKIERYKDITKKYISEAH-----LILYALNPSNPIKDSHKDDLNWLFRTLNLLSRTIFVI 177
+ + Y + + +AH L+L L+ + + DS +++ T+ +L+ +
Sbjct: 666 VRRKPYSVVLLDEVEKAHPDVFNLLLQVLDEGH-LTDSKGVRVDFK-NTILILTSNVASG 723
Query: 178 SRFDEEADIEDEEDYNKRF--EIKKENVQNRLNDLISLSEKEKEGLSIVAVAANPYDLGV 235
+ +E+ D++ K + K NRL+++IS + + +
Sbjct: 724 ALLEEDLSEADKQKAIKESLRQFFKPEFLNRLDEIISFNALDSHAI-------------- 769
Query: 236 EHWLKHKEEFQKLSHIKTLQDATQKKIKENGGKLTIIEEAKKSVIQ---DVVYRQMPPAK 292
++ + L + QKK E G +T+ E+AK+ + + D Y P K
Sbjct: 770 ------------INIVGILFENVQKKALERGINITLDEKAKELIAEAGFDRFYGAR-PLK 816
Query: 293 QALQDI 298
+AL ++
Sbjct: 817 RALYEM 822
>ref|NP_223385.1| putative [Helicobacter pylori J99]
Length = 101
Score = 25.4 bits (54), Expect = 4.1
Identities = 18/68 (26%), Positives = 33/68 (48%), Gaps = 8/68 (11%)
Query: 152 IKDSHKDDLNWLFRTLNLLSRTIFVISRFDEEADIEDEEDYNKRFEIKKENVQNRLNDLI 211
IKD+ DD + LN + ++ +F +E +D+N+ FEI K+ +Q +
Sbjct: 39 IKDAFNDDKD----PLNNACEALDLVVKFKKE----HPQDFNELFEILKDLIQEYEQNPD 90
Query: 212 SLSEKEKE 219
+ + KE
Sbjct: 91 EIKQNLKE 98
>ref|NP_223838.1| DNA-DIRECTED RNA POLYMERASE, BETA SUBUNIT [Helicobacter pylori J99]
Length = 2890
Score = 25.0 bits (53), Expect = 5.3
Identities = 12/44 (27%), Positives = 23/44 (52%)
Query: 186 IEDEEDYNKRFEIKKENVQNRLNDLISLSEKEKEGLSIVAVAAN 229
+ D+E YNK + E +++S K+KEG + + + A+
Sbjct: 2049 LTDQERYNKIIDTWTEVNDRMSKEMMSAIAKDKEGFNSIYMMAD 2092
>ref|NP_223731.1| putative [Helicobacter pylori J99]
Length = 201
Score = 25.0 bits (53), Expect = 5.3
Identities = 33/141 (23%), Positives = 55/141 (38%), Gaps = 41/141 (29%)
Query: 81 DEGMKIDHQESSDAVKIYDIDNEMELV-----DTPGLFGFKEKIT-----DSGKIERYKD 130
DE +K+ Q D + I D+++ ++ + D L G + D ER+K
Sbjct: 41 DEKIKLAKQAKQDNLAIGDLESRLKSLKGMDKDAKELVGISKSYAHNNEKDRSDFERFKS 100
Query: 131 ITKKYISEAHLILYALNPSNPIKDSHKDDLNWLFRTLNLLSRTIFVISRFDEEADIEDE- 189
K I DS +L+ +L L S + DI+D
Sbjct: 101 RLDKAI-----------------DSFNQNLDNGAASLKLPS-----------DIDIDDTK 132
Query: 190 --EDYNKRFEIKKENVQNRLN 208
E ++K E +KE++QN L+
Sbjct: 133 ALEKFSKSLESEKESIQNSLH 153
>ref|NP_223366.1| putative [Helicobacter pylori J99]
Length = 300
Score = 25.0 bits (53), Expect = 5.3
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
Query: 24 LDFVHAGEKYGIQIEESLKDKIRNAIKNVA---DQKLKV 59
L VHA +Q + SLKD +A+K VA D LK+
Sbjct: 16 LSSVHASNALILQTDFSLKDGAVSAMKGVAFSVDSNLKI 54
>ref|NP_224130.1| ATP-DEPENDENT DNA HELICASE [Helicobacter pylori J99]
Length = 623
Score = 24.6 bits (52), Expect = 6.9
Identities = 18/44 (40%), Positives = 27/44 (60%), Gaps = 3/44 (6%)
Query: 244 EFQKLSHI-KTLQDATQKKIKENGGKLTIIEEAKKSVIQDVVYR 286
EF K+S I K +++ KKI+EN KL +E KK +++ V R
Sbjct: 118 EFGKISLIFKKVKN--HKKIQENLQKLLSLENLKKEGVKENVAR 159
>ref|NP_223835.1| ELONGATION FACTOR G (EF-G) [Helicobacter pylori J99]
Length = 692
Score = 24.6 bits (52), Expect = 6.9
Identities = 14/58 (24%), Positives = 30/58 (51%)
Query: 68 GKTSIAAAWIDRLDEGMKIDHQESSDAVKIYDIDNEMELVDTPGLFGFKEKITDSGKI 125
G+ AA +D +++ + +S A + D+++ L+DTPG F ++ S ++
Sbjct: 41 GEVHDGAATMDWMEQEKERGITITSAATTCFWKDHQINLIDTPGHVDFTIEVERSMRV 98
>ref|NP_223512.1| putative [Helicobacter pylori J99]
Length = 174
Score = 24.6 bits (52), Expect = 6.9
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 365 GTNIDTRVQNEFERQTQGIVNEISKIETGFNADRSFFEKHA 405
G N +FE+ T+ + + K E GFN D +F +HA
Sbjct: 57 GINRGYYTLKDFEQLTEYLQESLLK-ELGFNLDGIYFCRHA 96
>ref|NP_223399.1| putative [Helicobacter pylori J99]
Length = 404
Score = 24.6 bits (52), Expect = 6.9
Identities = 27/116 (23%), Positives = 50/116 (42%), Gaps = 16/116 (13%)
Query: 272 IEEAKKSVIQDVVYRQMPPAKQALQDINREMEYLNKTL-EKRRKEIQNLNSEISQARINL 330
I+E K ++ D + +Q I +EME KTL EK ++ L + + +R+
Sbjct: 87 IDEEKGLILWDTKGIEDKDYHDTMQSIKKEMEDSFKTLDEKEAIDVAYLCVKETSSRVQE 146
Query: 331 REFITRYFSDLIRQVLGTSLETFNDFVIREIGDKGTNIDTRVQNEFERQTQGIVNE 386
RE +L+ ++ T F T+ + F ++T+GI++E
Sbjct: 147 RE------RELLSFAKHWNIPTIVVF---------THTQAEAGDAFVQETKGIIDE 187
>ref|NP_223367.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 657
Score = 24.6 bits (52), Expect = 6.9
Identities = 18/67 (26%), Positives = 27/67 (39%), Gaps = 6/67 (8%)
Query: 99 DIDNEMELVDTPGLFGFKEKITDSGKIERYKDITKKYISEAHLILYALNPS------NPI 152
D DN+ PG G D + +DI K+ ++A L + L S + I
Sbjct: 244 DCDNDPSKCVNPGTNGLVNSKVDQKYVLNKQDIVNKFKNKADLDVIVLKDSGVVGLGSDI 303
Query: 153 KDSHKDD 159
S+ DD
Sbjct: 304 TPSNNDD 310
>ref|NP_223150.1| putative [Helicobacter pylori J99]
Length = 599
Score = 24.6 bits (52), Expect = 6.9
Identities = 21/86 (24%), Positives = 38/86 (43%), Gaps = 23/86 (26%)
Query: 59 VALVGGFSEGKTSIAAAWIDR---LDEGMKIDHQ--ESSDAVK------------IYDID 101
+A++ GKT++ + + E K+D + +S+D K IY D
Sbjct: 7 IAVIAHVDHGKTTLVDGLLSQSGTFSEREKVDERVMDSNDLEKERGITILSKNTAIYYKD 66
Query: 102 NEMELVDTPGLFGFKEKITDSGKIER 127
++ ++DTPG F G++ER
Sbjct: 67 TKINIIDTPGHADF------GGEVER 86
>ref|NP_222797.1| methyl-accepting chemotaxis protein (MCP) [Helicobacter pylori J99]
Length = 673
Score = 24.6 bits (52), Expect = 6.9
Identities = 48/204 (23%), Positives = 83/204 (40%), Gaps = 27/204 (13%)
Query: 203 VQNRLNDLISLSEKEKEGLSIVAVAANPYD-LGV------EHWLKHKEEFQKLSHIKTLQ 255
V N LND +L K +I + YD +G E+ LK +E Q + K +Q
Sbjct: 332 VNNTLNDFFNLLNNPKNNHAISLTPPSAYDEIGQMQASINENILKTQESIQ--ADNKAIQ 389
Query: 256 DATQ-KKIKENGGKLTIIEEAKKSVIQDVVYRQMPPAKQALQD-INREMEYLNKTLEKRR 313
++ + ENG I K+ + + Q ++ I ++E LN LE +
Sbjct: 390 NSIEVTNYVENGDFTQEIACVPKNKDLQALRNTINSIIQYFRNQIGADIESLNNALEHYK 449
Query: 314 K-----EIQNLNSEISQARINLREFITRYFSDLIRQVLGTSLETFNDFVIREIGDKGTNI 368
IQN + + +A L + I S +++ LG F + + E D T +
Sbjct: 450 NLDFTHHIQNPKANMEKALNTLGQEI----SSMLKASLG-----FANALNHESKDLKTCV 500
Query: 369 D--TRVQNEFERQTQGIVNEISKI 390
D T+ ++ ER + + +I
Sbjct: 501 DNLTKTAHKQERSLKNTTQSLEEI 524
Score = 24.6 bits (52), Expect = 6.9
Identities = 16/78 (20%), Positives = 30/78 (37%), Gaps = 4/78 (5%)
Query: 476 DSWKESQKIEKLEKAKREMESDFNNQKQEILDLINNETRFKQTCFPMALELEKCIQECEE 535
+ +K ++ K ME N QEI ++ F + +L+ C+ +
Sbjct: 446 EHYKNLDFTHHIQNPKANMEKALNTLGQEISSMLKASLGFANALNHESKDLKTCVDNLTK 505
Query: 536 SVKKTQ----ECTQGLEK 549
+ K + TQ LE+
Sbjct: 506 TAHKQERSLKNTTQSLEE 523
>ref|NP_224145.1| arginase [Helicobacter pylori J99]
Length = 322
Score = 24.3 bits (51), Expect = 9.1
Identities = 15/49 (30%), Positives = 27/49 (54%), Gaps = 1/49 (2%)
Query: 340 DLIRQVLGTSLETFNDFV-IREIGDKGTNIDTRVQNEFERQTQGIVNEI 387
D +RQ+LG LE+F D + E+ + + + +E E+Q I++ I
Sbjct: 257 DELRQLLGLLLESFKDRLGAVEVTEYNPTVSAKHTDEEEKQVLEILDLI 305
>ref|NP_223788.1| putative [Helicobacter pylori J99]
Length = 433
Score = 24.3 bits (51), Expect = 9.1
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 485 EKLEKAKREMESDFNNQKQEILDLINNETRFKQ 517
EK+EKA E Q++E L+++ NE + Q
Sbjct: 169 EKIEKALHEKNELKFKQQEEQLEMLRNELKNAQ 201
>ref|NP_223637.1| topoisomerase I [Helicobacter pylori J99]
Length = 425
Score = 24.3 bits (51), Expect = 9.1
Identities = 23/89 (25%), Positives = 44/89 (48%), Gaps = 6/89 (6%)
Query: 180 FDEEADIEDEEDYNKRFEIKK--ENVQNRLNDLISLSEKEKEGLSIVAVAANPYDLGVEH 237
F E +IE +++N FEIKK + ++R + + + K+ +V +A +P G
Sbjct: 34 FVELVNIEVNKEFNPIFEIKKSTDKKKDRSTHINHMINQCKD--KVVYIATDPDREGYGI 91
Query: 238 WLKHKEEFQKLSHIKTLQDATQKKIKENG 266
K E+ + L+ KT+ +I ++G
Sbjct: 92 GYKFYEKIKNLA--KTIYRTEFHEITKSG 118
>ref|NP_223124.1| PROTEASE DO [Helicobacter pylori J99]
Length = 476
Score = 24.3 bits (51), Expect = 9.1
Identities = 22/77 (28%), Positives = 32/77 (40%), Gaps = 17/77 (22%)
Query: 377 ERQTQGIVNEISKIETGFNADRSFFEKHAGTLGKIGINFLNKSGFINATNIKLARDTIAA 436
E TQGIV+ ++K G N+ +F + A IN N G + I +
Sbjct: 187 ESVTQGIVSALNKSGIGINSYENFIQTDA------SINPGNSGGAL-----------IDS 229
Query: 437 AGKFVGVDLAFKFKPWG 453
G VG++ A K G
Sbjct: 230 RGGLVGINTAIISKTGG 246
>ref|NP_223055.1| putative [Helicobacter pylori J99]
Length = 778
Score = 24.3 bits (51), Expect = 9.1
Identities = 13/60 (21%), Positives = 26/60 (42%)
Query: 251 IKTLQDATQKKIKENGGKLTIIEEAKKSVIQDVVYRQMPPAKQALQDINREMEYLNKTLE 310
+K L+D +G L +E ++++ ++ P K+A I + L TL+
Sbjct: 316 VKILEDLQTSDCNLSGSALLDLENITLALLEQQSSKEKAPLKEAHSQIMHQYHLLKDTLK 375
>ref|NP_223025.1| putative [Helicobacter pylori J99]
Length = 501
Score = 24.3 bits (51), Expect = 9.1
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 5/70 (7%)
Query: 479 KESQKIEKLEKAKREMESDFNNQKQEILDLINNETRFKQTCFPMALELEKCIQECEESVK 538
+E+Q+ K E+ K E QKQE+ + +E + K ++E K +E V
Sbjct: 175 EEAQEEVKKEEVKEMQEEVKEKQKQEVAENPQDEEKPKDDETQGSVEPPK-----DEEVS 229
Query: 539 KTQECTQGLE 548
K E + LE
Sbjct: 230 KELETQEELE 239
>ref|NP_222780.1| putative [Helicobacter pylori J99]
Length = 500
Score = 24.3 bits (51), Expect = 9.1
Identities = 22/113 (19%), Positives = 46/113 (40%), Gaps = 17/113 (15%)
Query: 297 DINREMEYLNKTLEKRRKEI-------QNLNSEISQARINLREFITRYFSDLIRQVLGTS 349
D+ R + + + EK ++ +N N E+ + I+ + + + DL+ VLG
Sbjct: 237 DLERMIAFREQEFEKSLEDWMGAYSYDENPNDELDRMAISKEQELEKSLEDLMPSVLG-- 294
Query: 350 LETFNDFVIREIGDKGTNIDTRVQNEFERQTQGIVNEISKIETGFNADRSFFE 402
+ ++N+ + T R F+ +G +I + NA F+
Sbjct: 295 VPSYNESL--------TLAKNRCVKNFKEALEGFTEKIKESPNDSNAINEAFD 339
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
0.315 0.134 0.374
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 613,921
Number of Sequences: 1491
Number of extensions: 30176
Number of successful extensions: 153
Number of sequences better than 10.0: 50
Number of HSP's better than 10.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 113
Number of HSP's gapped (non-prelim): 73
length of query: 573
length of database: 494,079
effective HSP length: 83
effective length of query: 490
effective length of database: 370,326
effective search space: 181459740
effective search space used: 181459740
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)