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|15645092|ref|NP_207262.1| type I restriction enzyme R
protein (hsdR) [Helicobacter pylori 26695]
(1055 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_224142.1| TYPE I RESTRICTION ENZYME (RESTRICTION SUB... 134 1e-32
ref|NP_223502.1| TYPE I RESTRICTION ENZYME (RESTRICTION SUB... 108 7e-25
ref|NP_223331.1| putative [Helicobacter pylori J99] 42 1e-04
ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (... 37 0.003
ref|NP_222831.1| putative [Helicobacter pylori J99] 35 0.010
ref|NP_223788.1| putative [Helicobacter pylori J99] 35 0.013
ref|NP_222797.1| methyl-accepting chemotaxis protein (MCP) ... 35 0.013
ref|NP_224162.1| ELONGATION FACTOR TS (EF-TS) [Helicobacter... 33 0.029
ref|NP_223096.1| TRANSLATION INITIATION FACTOR IF-2 [Helico... 33 0.038
ref|NP_222953.1| ATP-DEPENDENT RNA HELICASE DEAD [Helicobac... 32 0.085
ref|NP_224003.1| putative [Helicobacter pylori J99] 31 0.14
ref|NP_224011.1| ATP-DEPENDENT PROTEASE LA [Helicobacter py... 31 0.19
ref|NP_223357.1| putative [Helicobacter pylori J99] 30 0.25
ref|NP_223400.1| putative [Helicobacter pylori J99] 30 0.42
ref|NP_222999.1| P-AMINOBENZOATE SYNTHETASE [Helicobacter p... 30 0.42
ref|NP_223625.1| putative [Helicobacter pylori J99] 29 0.72
ref|NP_223624.1| GLYCYL-TRNA SYNTHETASE BETA CHAIN [Helicob... 29 0.72
ref|NP_224153.1| putative [Helicobacter pylori J99] 28 0.94
ref|NP_223830.1| putative [Helicobacter pylori J99] 28 0.94
ref|NP_222912.1| putative [Helicobacter pylori J99] 28 0.94
ref|NP_222794.1| PEPTIDE CHAIN RELEASE FACTOR 1 [Helicobact... 28 0.94
ref|NP_223608.1| putative [Helicobacter pylori J99] 28 1.2
ref|NP_223222.1| ACETYL-COENZYME A CARBOXYLASE SUBUNIT A [H... 28 1.2
ref|NP_222919.1| SUCCINYL-DIAMINOPIMELATE DESUCCINYLASE [He... 28 1.2
ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [He... 28 1.2
ref|NP_223730.1| putative [Helicobacter pylori J99] 28 1.6
ref|NP_223123.1| putative [Helicobacter pylori J99] 28 1.6
ref|NP_222737.1| DNA transfer protein [Helicobacter pylori ... 28 1.6
ref|NP_223787.1| putative [Helicobacter pylori J99] 27 2.1
ref|NP_223427.1| putative PROBABLE N-ACETYLMURAMOYL-L-ALANI... 27 2.1
ref|NP_223409.1| putative [Helicobacter pylori J99] 27 2.1
ref|NP_223323.1| putative [Helicobacter pylori J99] 27 2.1
ref|NP_223025.1| putative [Helicobacter pylori J99] 27 2.1
ref|NP_223370.1| RNA POLYMERASE SIGMA-54 FACTOR [Helicobact... 27 2.7
ref|NP_223213.1| cag island protein, CYTOTOXICITY ASSOCIATE... 27 2.7
ref|NP_223180.1| putative [Helicobacter pylori J99] 27 2.7
ref|NP_223140.1| OLIGOPEPTIDASE [Helicobacter pylori J99] 27 2.7
ref|NP_223758.1| EXCINUCLEASE ABC SUBUNIT B [Helicobacter p... 27 3.6
ref|NP_223577.1| RECOMBINATION PROTEIN [Helicobacter pylori... 27 3.6
ref|NP_223312.1| ASPARTATE AMMONIA-LYASE [Helicobacter pylo... 27 3.6
ref|NP_222835.1| TRANSLATION INITIATION FACTOR IF-3 [Helico... 27 3.6
ref|NP_223848.1| putative [Helicobacter pylori J99] 26 4.6
ref|NP_223614.1| putative [Helicobacter pylori J99] 26 4.6
ref|NP_223575.1| putative Outer membrane protein [Helicobac... 26 4.6
ref|NP_223421.1| putative [Helicobacter pylori J99] 26 4.6
ref|NP_223380.1| putative Outer membrane protein [Helicobac... 26 4.6
ref|NP_223206.1| cag island protein [Helicobacter pylori J99] 26 4.6
ref|NP_222758.1| DNA transformation compentancy [Helicobact... 26 4.6
ref|NP_224130.1| ATP-DEPENDENT DNA HELICASE [Helicobacter p... 26 6.1
ref|NP_223959.1| putative [Helicobacter pylori J99] 26 6.1
ref|NP_223243.1| putative [Helicobacter pylori J99] 26 6.1
ref|NP_223218.1| putative [Helicobacter pylori J99] 26 6.1
ref|NP_223176.1| putative [Helicobacter pylori J99] 26 6.1
ref|NP_222960.1| ADENYLOSUCCINATE SYNTHETASE [Helicobacter ... 26 6.1
ref|NP_223781.1| ATP synthase F0, subunit b [Helicobacter p... 25 7.9
ref|NP_223664.1| putative [Helicobacter pylori J99] 25 7.9
ref|NP_223562.1| putative FLAGELLAR BASAL-BODY/ROD/HOOKPROT... 25 7.9
ref|NP_223055.1| putative [Helicobacter pylori J99] 25 7.9
ref|NP_222917.1| 90kDa chaperone [Helicobacter pylori J99] 25 7.9
>ref|NP_224142.1| TYPE I RESTRICTION ENZYME (RESTRICTION SUBUNIT) [Helicobacter
pylori J99]
Length = 991
Score = 134 bits (337), Expect = 1e-32
Identities = 137/493 (27%), Positives = 224/493 (44%), Gaps = 111/493 (22%)
Query: 283 KKHVWRYAQMFASLNVLKELQKHYGTNQNLKDPLKGIIWHTQGSGKTALTYHLTKLIRDF 342
+K R+ Q FA + +Q+ G GIIWHTQGSGK+ LT+ IR
Sbjct: 235 QKKCARFHQYFAIKKTQEFIQRKEG----------GIIWHTQGSGKSLTMVWLTRWIR-- 282
Query: 343 FSRSNLNKKTKFYFIVDRLDLLEQAKNEFLKRGLCVHEAENKEDLSQKLKSSSVFEGSQG 402
N+ K+ + + DR +L Q + F G ++ A++K+DL L + F
Sbjct: 283 ---RNI-KQARVLIVTDRRELDAQIQGVFQGIGEKIYRADSKKDLLSVLFENKKF----- 333
Query: 403 NDEIIVVNIQKFKAPNEEKSPNEDPSNSAPKEIISKTELQESIQNSRNLQRVFIIDEAHR 462
++ + KF +++ K+ + K + + ++DE HR
Sbjct: 334 ---LVGSLVHKF---------DDNDLEDLKKQPVLK-------------EWIVLVDECHR 368
Query: 463 SYDPKGCFYANLIECDKTAIKIALTGTPLLEDNAQDKAT-KNTFGNYLHTYSYTESIKDR 521
+ K + + AI IA +GTPLL+ QDK T + FG+Y+H Y + E++ D+
Sbjct: 369 TQSGK--LHKAMKSLLPNAIFIAFSGTPLLK---QDKKTSQEVFGDYIHCYKFNEAVSDK 423
Query: 522 HTLKLQLE--SIE--TSYKEKLQEIYRLLQESIT-IEDTEVKK-----ETIFNDEKYINA 571
L L E S+E S EKL E + L +++ TE+KK + +F+ + +
Sbjct: 424 VVLDLNYEARSVEQYVSSPEKLDEYFELKTQNLNEAAKTELKKKWVNLQKVFSTKDRLEH 483
Query: 572 MLYYIIRDLLDFRRLNDNE-----------------------RLK---AMVVCFSSKQAR 605
++ I+ D+ RL++ + LK A++ + A
Sbjct: 484 IVQDIVLDMAKLPRLSNGKGNAMLVAESVYNACRYFELFLETELKDKVAVITSYEPNIAD 543
Query: 606 LADCLFNEVQE--------KVLQ----ENPNLRILNKLKSSLILHDEQEVKEKVHSFKHE 653
L DC NE +E K+LQ E + LNK+K E+EVK++ F +E
Sbjct: 544 LKDCGSNESEESYKYRAYCKMLQNFFNEKDEKKALNKIKEF-----EEEVKKR---FINE 595
Query: 654 DT--DIVFVFNMLLTGFDLPSLKRLYIHRELKDHNLLQALARVNR-SYKNMSFGYLIDFV 710
++ V + LLTGFD PSL LYI + ++DH L QA+ RVNR ++ FG +ID+
Sbjct: 596 PARMKLLIVVDKLLTGFDAPSLTYLYIDKRMQDHGLFQAVCRVNRLDGEDKDFGCIIDYS 655
Query: 711 GIQENFDKTTDDY 723
+ ++ + DY
Sbjct: 656 DLFDSLQEAHSDY 668
Score = 32.7 bits (73), Expect = 0.050
Identities = 36/160 (22%), Positives = 68/160 (42%), Gaps = 19/160 (11%)
Query: 9 VQIPALMHLAKLGYDFIPTNSKENKPNLDTATNILTNSFTKSFERLNPTKNAQETLAEMK 68
VQ + +GY ++ +K + N++ + + E K QE +K
Sbjct: 7 VQNQVIETFKAMGYAYLGDLTKSDNENINKESLKAWLIKNQKIEPERWHKIEQEIHTALK 66
Query: 69 KRLNCDDLGKSFYEYLLK--------SENQ----IIDFDNPNNNLYEMMTELPYKS---F 113
L + + FYE L+ +EN +ID+ + + N + + E+ K
Sbjct: 67 NDLY--EANQKFYELLIYGVKTKISLNENTQTHWLIDWKDVSKNEFSVAEEVSAKGPNMK 124
Query: 114 RPDTTLFINGLPLVNIEVKQP--YAKKGIKEERDRHIKRY 151
RPD L++NG+ L +E+K+ + GI++ D K +
Sbjct: 125 RPDIVLYVNGIALGVLELKKSSVSVESGIRQNLDNQKKEF 164
>ref|NP_223502.1| TYPE I RESTRICTION ENZYME (RESTRICTION SUBUNIT) [Helicobacter
pylori J99]
Length = 875
Score = 108 bits (270), Expect = 7e-25
Identities = 189/906 (20%), Positives = 352/906 (37%), Gaps = 178/906 (19%)
Query: 114 RPDTTLFINGLPLVNIEVKQPYAKKGIK-EERDRHIKRYENPENKV---FYNLAQIWLFS 169
R D ++ +NGLPLV++E+K K+G+ E IKRY+ + QI++ S
Sbjct: 17 RYDVSVLVNGLPLVHVELK----KRGVAIREAFNQIKRYKRDSFSAEDGLFEFVQIFVIS 72
Query: 170 DNLPYDENKPDQGAFYSASYSPIFQRFVEAHRLDITPPPPQKNDQNHQNDQNHRSLEEIQ 229
N + + + ++ +A + T N+ D +R++E++
Sbjct: 73 -------NGTSSKYYSNTTRIAQIEKNNKADTFEFT---------NYWADSKNRNIEDLM 116
Query: 230 KSVLNEFNLKDTDTPKSPKDTPTNSLLTSFCSPKRLCFILKYGISFLKEKSEFKKHVWRY 289
SF + + L +L F E+ V R
Sbjct: 117 ------------------------DFAKSFFAKRSLLNVLTRYCVFTSEEVLL---VMRP 149
Query: 290 AQMFASLNVLKELQKHYGTNQNLKDPLKGIIWHTQGSGKTALTYHLTKLIRDFFSRSNLN 349
Q+ A+ +L++++ + + K G IWHT GSGKT ++ L ++ L
Sbjct: 150 YQIVAAERILEKIKATHDSKTYGKSQSGGYIWHTTGSGKTLTSFKSATLAKE------LE 203
Query: 350 KKTKFYFIVDRLDLLEQAKNEFLK-RGLCVHEAENKEDLSQKLKSSSVFEGSQGNDEIIV 408
+K F+VDR DL Q E+ K + C + + + L Q+L+ N +II+
Sbjct: 204 HVSKVLFVVDRKDLDYQTMKEYDKFQKDCANSNTSTKILKQQLEDF--------NAKIII 255
Query: 409 VNIQKFKAPNEEKSPNEDPSNSAPKEIISKTELQ-ESIQNSRNLQRVFIIDEAHRSYDPK 467
IQK + K L+ +I N + V I DE HRS
Sbjct: 256 TTIQKL-------------------DKFVKAHLKGHAIFNE---EVVMIFDECHRS--QL 291
Query: 468 GCFYANLIECDKTAIKIALTGTPLLEDNAQDK----ATKNTFGNYLHTYSYTESIKDRHT 523
G + + + K TGTP+ N T+ FG LH Y+ ++I+D++
Sbjct: 292 GSMHQAITKAFKKYHLFGFTGTPIFAQNCDKNNPLGTTEQKFGRCLHQYTIIDAIRDKNV 351
Query: 524 LKLQLESIET-SYKEKLQEIYRLLQESITIEDTE-VKKETIFNDEKYINAMLYYIIRDLL 581
L ++E T KE +++ +E I ++ V ++ D + I + I+
Sbjct: 352 LPFRVEYHNTIKAKEGIKD-----KEGIKDKEVRAVDEKNALLDSRRIKEIAKCILE--- 403
Query: 582 DFRRLNDNERLKAMVVCFSSKQARLADCLFNEVQE----------------KVLQENPNL 625
F + N++ +++ C + + F E + + L++ N
Sbjct: 404 RFHQATKNKKFNSILACSGIEALKKYYQAFKEEKHDLKIATIFSYSANEEIEALEDENNE 463
Query: 626 RILNKLKSS---------------LILHDEQE------VKEKVHSFKHEDTDIVFVFNML 664
KSS I D + K+ K + D++ V NM
Sbjct: 464 STAGLDKSSRDFLEGAIADYNGMFQISFDTSDQKFQSYYKDLSQKMKEREIDLLLVANMF 523
Query: 665 LTGFDLPSLKRLYIHRELKDHNLLQALARVNRSYKNM-SFGYLIDFVGIQENFDKTTDDY 723
LTGFD L L++ + LK H L+QA +R NR ++ + G ++ F ++++ +
Sbjct: 524 LTGFDATRLNTLWVDKNLKYHGLIQAFSRTNRILDSVKTHGNIVCFRDLEQDLNDA---- 579
Query: 724 LKELNRFNQSGANSDSHIKDMFADRKTLEEDIKNAYDDLFDYPIDDIEGMTSAIVSMSAM 783
L F A S A + E+ +K D+ +Y + EG+ +++ +
Sbjct: 580 ---LMLFGNKDARS-------IALLRKYEDYLKGYADNNKEY--EGYEGLIERLLTEFPL 627
Query: 784 NE-LVKVSRAINTLKERYNLIRTSNDKKILSLKEKIDIEKIHKISSMLHQKAKHLHALKN 842
E ++ S+ + +K +++ N IL+ E + + ++K+L
Sbjct: 628 KEPIISESQKKDFIKLFGKILKLEN---ILNSFENFNKDDHINPRDFQDYQSKYLDFYDE 684
Query: 843 INEPKNPNDLMILEDLIALLDFKIEFKERKELRFKEQEEITTKQKQAKEILEKIPDQQDK 902
+ K + I +DLI F+IE ++ E+ + I T ++EK + D
Sbjct: 685 MRPEKGRDKEEINDDLI----FEIELIKQVEVNI---DYILT-------LIEKYAKEPDL 730
Query: 903 EIQKFYKDFSKLLQTPTTSQNFEEISHSY-DAIISQLKQHKEQTTHLLNKYDNDLSYAIT 961
EIQ +L + +N +++ + D + H ++ K + + I
Sbjct: 731 EIQGVKTQIEPILNSSIELRNKKDLIMGFIDKYNKDEEVHAYFQNYIHQKREEEFQNIIE 790
Query: 962 NKRLHK 967
RL++
Sbjct: 791 ENRLNE 796
>ref|NP_223331.1| putative [Helicobacter pylori J99]
Length = 1167
Score = 41.6 bits (96), Expect = 1e-04
Identities = 97/480 (20%), Positives = 190/480 (39%), Gaps = 78/480 (16%)
Query: 606 LADCLFNEVQEKVLQENPNLRI-LNKLKSSLILHDEQEVKEKVHSFKHEDTDIVFVFNML 664
+ +C E+++K + NL+I ++ + ++ + + E +++F+ ++ L
Sbjct: 71 IMECYDEELKKKSFK---NLKISIDHVDGTMNCKERLDKLENLNTFEPNICKVLSNARCL 127
Query: 665 LTGFDLPSLKR-LYIHRELKDHNLLQALARVNRSYKNMSFGYLIDFVGIQENFDKTTDDY 723
G D+P+L ++ +++QA+ RV R KN GY+I + ++E+ K D+
Sbjct: 128 SEGVDVPALDSVIFFDGRSAMVDIIQAVGRVMRKAKNKKRGYIILPIALRESEIKNLDEA 187
Query: 724 LKELN-----------RFNQSGANSDSHIKDMFA-----------DRKTLEE-------- 753
+K N R + S ++ K+ D + L++
Sbjct: 188 VKNTNFQNIWKVLKALRSHDSSLVDEAIFKEKIKIFGSDDASNPDDEEELQKDKTEQSSN 247
Query: 754 DIKNAYDDLFDYPIDDIEGMTSAIVSMSAMNELVKVSRAINTLKERYNLIRTSND--KKI 811
D K A LFD + ++ + +A+ ++ +L + N K+ N+ RT N+ K++
Sbjct: 248 DPKEAQKTLFDAIL--LQDLANAVYNVMP-TKLGDRNYWENFAKKTGNIARTLNERLKEL 304
Query: 812 LSLKEKIDIEKIHKISSMLHQKAKHLHALKNI---------------NEPKNPNDLMILE 856
+I + + +HQ K AL I + KNP + +
Sbjct: 305 FGKNPEIFDNFLTSLRGNIHQSIKEEEALDMIISHIITKPIFDAIFGDNIKNPIAKALDK 364
Query: 857 DLIALLDFKIEFKERKELR-----FKEQEEITTKQKQAKEILEKIPDQQDKEIQKFYKDF 911
++ L D +E E K+L+ K + QK +E+++ + + KE + +
Sbjct: 365 MVLKLSDLGLE-GETKDLKNLYESVKTEAARAKSQKSQQELIKNLYNTFFKEAFRKQSEK 423
Query: 912 SKLLQTPTTSQNFEEISHSYDAIISQLKQHKEQTTHLLNKYDNDLSYAITNKRLHKHLME 971
++ TP E + A LK+H N ND S I + +
Sbjct: 424 LGIVYTP-----IEVVDFILRATNGILKKH-------FNTDFNDQSITIFDPFMGTGSFI 471
Query: 972 QNISNSAGIFTLLSALKKAIDARIFKRQEILNEEYY-LKNAIKAELNNAFKKDPSLKDLE 1030
+ + F ALK+ +F +L Y L N +A N +D SLK+ +
Sbjct: 472 ARLLSKENDFISDEALKEKFQKGLFAFDIVLLSYYIALINITQAAQN----RDSSLKNFK 527
>ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
[Helicobacter pylori J99]
Length = 1252
Score = 37.0 bits (84), Expect = 0.003
Identities = 99/386 (25%), Positives = 159/386 (40%), Gaps = 94/386 (24%)
Query: 556 EVKKETIFNDEKYINAMLYYIIR-DLLDFRRLNDNERLKAMV------------VCFSSK 602
E KKETI N EK IN++L + R D +F++ N+ LK V + K
Sbjct: 19 EPKKETIENFEKEINSLLENVPRQDDEEFQKNEINKFLKNAYGYDCNTYEKVDSVIYVDK 78
Query: 603 QARL---ADCLFNEVQEKVLQENPNLRILNKLKSSLILHDEQEV-KEKVHSFKHEDTDIV 658
+ R+ L N+ + +ENP L+K ++L+ +E+ KEK +S KH T I
Sbjct: 79 EVRVLIEVKALNNKTEFPKNRENP----LSKAFCQMVLYFLEEIEKEKNNSLKH--TIIC 132
Query: 659 FVFNMLLTGFDLPSLKRLYIHRELKDHNLLQALARVNRSYKNMSFGYLIDFVGIQENFDK 718
L FD KD L+ R+ + YKN + +E D
Sbjct: 133 NAHEFFL--FD------------CKDLLSLKEDKRIKKFYKNYA---------KKEGTDS 169
Query: 719 TTDDYLKELNRFNQSGANSDSHIKDMFADRKTLEEDIKNAYDDLFDYPIDDIEGMTSAIV 778
+ + K+L +F Q + L N DD + P+ I
Sbjct: 170 SKPKFYKDLEQFLQEDFQGE------------LRYTHFNLSDDFKELPL---------IY 208
Query: 779 SMSAMNELVKVSRAI--NTL-KERYNLIRTSNDKKILSLKEKIDIEKI--------HKIS 827
+ + L+K R + NTL K+ Y + IL L+E+ D KI + +S
Sbjct: 209 QVLSQEVLLKQKRTLDANTLNKDFYEEL-----LYILGLEEQNDKGKILIKPSRTKNSLS 263
Query: 828 SMLHQKAKHLHALKNINEPKNPND----LMILEDLIALLDFKIEFKERKEL---RFKEQE 880
L +K K+L + + N+ L +LE L L+ F+ KER L FK+
Sbjct: 264 GALKEKYKNLDDEEVMALLIAWNNRILFLRLLESL--LISFEHFEKERSFLTTGNFKDFN 321
Query: 881 EITTK--QKQAKEILEKIPDQQDKEI 904
+ T + AK+ E++P+ ++ +I
Sbjct: 322 ALNTLFFEVLAKKNSERLPEIKENKI 347
Score = 32.3 bits (72), Expect = 0.065
Identities = 67/309 (21%), Positives = 119/309 (37%), Gaps = 66/309 (21%)
Query: 713 QENFDKTTDDYLKELNRFNQSGANSDSHIKDMFADRKTLEEDIKNAYDDLFDYPIDDIEG 772
QE +T +++ KE+N ++ D D + + + +KNAY Y + E
Sbjct: 18 QEPKKETIENFEKEINSLLENVPRQD----DEEFQKNEINKFLKNAYG----YDCNTYEK 69
Query: 773 MTSAIVSMSAMNELVKVSRAINTL---KERYNLIRTSNDKKILSLKEKIDIEKIHKISSM 829
+ S I + L++V N K R N + + + +L E+I+ EK + +
Sbjct: 70 VDSVIYVDKEVRVLIEVKALNNKTEFPKNRENPLSKAFCQMVLYFLEEIEKEKNNSLKHT 129
Query: 830 LHQKAKHLHALKNINEPKNPNDLMILEDLIALLDFKIEFKERKELRFKEQEEITTKQKQA 889
+ A L +DL++L KE K ++ K
Sbjct: 130 IICNAHEFF-------------LFDCKDLLSL-------KEDKRIK-----------KFY 158
Query: 890 KEILEKIPDQQDKEIQKFYKDFSKLLQTP----------TTSQNFEEISHSYDAIISQ-- 937
K +K + D KFYKD + LQ S +F+E+ Y + +
Sbjct: 159 KNYAKK--EGTDSSKPKFYKDLEQFLQEDFQGELRYTHFNLSDDFKELPLIYQVLSQEVL 216
Query: 938 LKQHKEQTTHLLNK-YDNDLSYAITNKRLHKHLMEQNISNSAGIFTLLSALKKAIDARIF 996
LKQ + + LNK + +L Y + L EQN + I S K ++ +
Sbjct: 217 LKQKRTLDANTLNKDFYEELLYIL-------GLEEQN--DKGKILIKPSRTKNSLSGALK 267
Query: 997 KRQEILNEE 1005
++ + L++E
Sbjct: 268 EKYKNLDDE 276
Score = 27.3 bits (59), Expect = 2.1
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 60 AQETLAEMKKRLNCDDLGKSFYEYLL 85
+QE L + K+ L+ + L K FYE LL
Sbjct: 212 SQEVLLKQKRTLDANTLNKDFYEELL 237
>ref|NP_222831.1| putative [Helicobacter pylori J99]
Length = 412
Score = 35.0 bits (79), Expect = 0.010
Identities = 54/237 (22%), Positives = 91/237 (37%), Gaps = 28/237 (11%)
Query: 358 VDRLDLLEQAKNEFLKRGLCVHEAENK-EDLSQKLKSSSV---FEGSQGNDEIIVVNIQK 413
+D+ LEQ K E K G+ + + K E QK S + E + N I + +
Sbjct: 123 IDKQIELEQEKKEANKSGIKLEQERQKTEQERQKTNKSEIELEQERQKTNKSGIELANSQ 182
Query: 414 FKAPNEEKSPNEDPSNSAPKEIISKTELQESIQNSRNL---QRVFIIDEAHRSYDPKGCF 470
KA E + ++ + EI + + Q++I R+L Q+ FI + + G
Sbjct: 183 IKAEQERQKTEQEKQKANKSEIELEQQKQKTINTQRDLIKEQKDFIKETEQNCQEKHGQL 242
Query: 471 YANLIECDKTAIKIALTGTPLLEDNAQDKATKNTFGNYLHTYSYTESIKDRHTLKLQLES 530
+ K IK +T +E A+ K K N I+ +H +
Sbjct: 243 FIK-----KARIKTGITTGIAIEIEAECKTPKPAKTN-------QTPIQPKHLPNSKQPR 290
Query: 531 IETSYKEKLQEIYRLLQ---ESITIEDTEVKKETIFNDEKYINAMLYYIIRDLLDFR 584
+ K QE+ LQ ES+ + K+ F Y + + Y+ D DF+
Sbjct: 291 SQRG--SKAQELIAYLQKELESLPYSQKAIAKQVDF----YKPSSIAYLELDPRDFK 341
>ref|NP_223788.1| putative [Helicobacter pylori J99]
Length = 433
Score = 34.7 bits (78), Expect = 0.013
Identities = 39/140 (27%), Positives = 62/140 (43%), Gaps = 19/140 (13%)
Query: 784 NELVKVSRAINTLKERYNLIRTSNDKKILSLKEKIDI------EKIHKISSMLHQKAKHL 837
+E VK + A+ ER +I + L ++ +++ EK ++ LHQK +
Sbjct: 80 DEAVKQASALALQDERAKIIEEARKNAFLEQQKGLELLQKELDEKSKQVQE-LHQKEAEI 138
Query: 838 HALKNINEP-----KNPNDLMILEDLIALLDFKIE--FKERKELRFKEQEE----ITTKQ 886
LK N K N+ + E L L KIE E+ EL+FK+QEE + +
Sbjct: 139 ERLKRENNEAESRLKAENEKKLNEKL-ELEREKIEKALHEKNELKFKQQEEQLEMLRNEL 197
Query: 887 KQAKEILEKIPDQQDKEIQK 906
K A+ E Q E+Q+
Sbjct: 198 KNAQRKAELSSQQFQGEVQE 217
>ref|NP_222797.1| methyl-accepting chemotaxis protein (MCP) [Helicobacter pylori J99]
Length = 673
Score = 34.7 bits (78), Expect = 0.013
Identities = 42/234 (17%), Positives = 102/234 (42%), Gaps = 21/234 (8%)
Query: 788 KVSRAINTLKERYNLIRTSNDKKILSLKEKIDIEKIHKISSMLHQKAKHLHALKNINEPK 847
++SR NTL + +NL+ + +SL ++I ++ + +++ L ++I
Sbjct: 328 RISRVNNTLNDFFNLLNNPKNNHAISLTPPSAYDEIGQMQASINENI--LKTQESIQA-- 383
Query: 848 NPNDLMILEDLIALLDFKIEFKERKELR-FKEQEEITTKQKQAKEILEKIPDQQDKEIQ- 905
D +++ I + ++ +E+ + +++ + I++ +Q +I+
Sbjct: 384 ---DNKAIQNSIEVTNYVENGDFTQEIACVPKNKDLQALRNTINSIIQYFRNQIGADIES 440
Query: 906 -----KFYK--DFSKLLQTPTTSQNFEEISHSYDAIISQLKQHKEQTTHLLNKYDNDLSY 958
+ YK DF+ +Q P N E+ ++ IS + + + LN DL
Sbjct: 441 LNNALEHYKNLDFTHHIQNP--KANMEKALNTLGQEISSMLKASLGFANALNHESKDLKT 498
Query: 959 AITNKRLHKHLMEQNISNSAGIFTLLSALKKAIDARIFKRQEILNEEYYLKNAI 1012
+ N H E+++ N+ ++ + ID+ K QE++++ +K+ +
Sbjct: 499 CVDNLTKTAHKQERSLKNTTQSLEEITNIITMIDS---KSQEMISQGEDIKSVV 549
>ref|NP_224162.1| ELONGATION FACTOR TS (EF-TS) [Helicobacter pylori J99]
Length = 355
Score = 33.5 bits (75), Expect = 0.029
Identities = 30/129 (23%), Positives = 59/129 (45%), Gaps = 14/129 (10%)
Query: 832 QKAKHLHALKNINEPKNPNDLMILEDLIALLDFKIEFKERKELRFKEQEEITTKQKQAKE 891
QKA K +++ D + E ++AL + +FK + + + K + KE
Sbjct: 35 QKAIDFLREKGLSKAAKKADRIAAEGVVAL-EVAPDFKSAMMVEINSETDFVAKNEGFKE 93
Query: 892 ILEKIPDQQDKEIQKFYKDFS--KLLQTPTTSQNFEEISHSYDAIISQ------LKQHKE 943
+++K E K + + +LL++P ++ FEE HS A+I + + K
Sbjct: 94 LVKKT-----LETIKTHNIHTTEELLKSPLDNKPFEEYLHSQIAVIGENILVRKIAHLKA 148
Query: 944 QTTHLLNKY 952
++H++N Y
Sbjct: 149 PSSHIINGY 157
>ref|NP_223096.1| TRANSLATION INITIATION FACTOR IF-2 [Helicobacter pylori J99]
Length = 949
Score = 33.1 bits (74), Expect = 0.038
Identities = 58/231 (25%), Positives = 89/231 (38%), Gaps = 27/231 (11%)
Query: 780 MSAMNELVK-VSRAINTLKERYNLIRTSNDKKI-LSLKEKIDIEKIHKISSMLHQKAKH- 836
MS M +L K V+ T KE N+I + D + L K+ E+ K+ + K
Sbjct: 1 MSDMVDLKKFVTELGKTQKELKNVIEQAKDIGLELKTNFKMTPEQAGKLYKYIVDGIKEQ 60
Query: 837 LHALKNINEPKNPNDLMILEDLIALLDFKIEFKERKELRFKEQEEITTKQKQAKEILEKI 896
+ A + PK N +DL K K+ + KE+ + K K+ KE ++
Sbjct: 61 IQANQPTKNPKQDNK----DDLNTAATPKPLAKKASKTPKKEETKAQPKPKKTKEKKKEA 116
Query: 897 PDQ--QDKEIQKFYKDFSKLLQTPTTSQNFEEISHSYDAIISQLKQHKEQTTHLLNKYDN 954
P + KEI+ F QTP + +SHS Q Q +++ LNK
Sbjct: 117 PAPIIKKKEIE-IVNTFEN--QTPLVENTPKAVSHSQIEKAKQKLQEIQKSREALNKLTQ 173
Query: 955 DLSYAITNKRLHKHLMEQNISNSAGIFTLLSALKKAIDARIFKRQEILNEE 1005
N +N+A + +S KK I + QEI E
Sbjct: 174 S---------------NTNTTNNANSASNVSNAKKEISEVKKQEQEIKRHE 209
>ref|NP_222953.1| ATP-DEPENDENT RNA HELICASE DEAD [Helicobacter pylori J99]
Length = 491
Score = 32.0 bits (71), Expect = 0.085
Identities = 24/121 (19%), Positives = 57/121 (46%), Gaps = 7/121 (5%)
Query: 583 FRRLNDNERLKAMVVCFSSKQARLADCLFNEVQEKVLQENPNLRILNKLKSSLILH---D 639
F +N++ER +A++ + QA +F +++ + + + +K S LH D
Sbjct: 236 FYVINEHERAEAIMRLLDT-QAPEKSIVFTRTKKEA--DELHQFLASKNYKSTALHGDMD 292
Query: 640 EQEVKEKVHSFKHEDTDIVFVFNMLLTGFDLPSLKRLY-IHRELKDHNLLQALARVNRSY 698
+++ + + +FK D D++ ++ G D+ + ++ H L + + + R R+
Sbjct: 293 QRDRRSSIMAFKKNDADVLVATDVASRGLDISGVSHVFSYHLPLNTESYIHRIGRTGRAG 352
Query: 699 K 699
K
Sbjct: 353 K 353
>ref|NP_224003.1| putative [Helicobacter pylori J99]
Length = 972
Score = 31.2 bits (69), Expect = 0.14
Identities = 45/175 (25%), Positives = 73/175 (41%), Gaps = 36/175 (20%)
Query: 894 EKIPDQQDKEIQKFY--KDFSKLL--------------QTPTTSQNFEEISHSYDAIISQ 937
E + Q +KEI+K+ KD+SK + + P S E Y A +
Sbjct: 162 EHLIKQFEKEIEKYNRNKDYSKQIDFKNLKSVKNKDFYRAPKDSLMKEIALFYYRADLMS 221
Query: 938 LKQHKEQTTHLLNKYDNDLSYAITNKRLHKHLMEQNISNSAGIFTLLSALKKAI---DAR 994
++ KE + + +DN +Y I ++ H + S IF+LLS LK + A
Sbjct: 222 DEESKENLLNYKDCWDNGENYVILDEA---HKGNKTESKRQAIFSLLS-LKGFLFNFSAT 277
Query: 995 IFKRQEILNEEY-----------YLKNAIKAELNN--AFKKDPSLKDLEKEKELI 1036
+ +++ Y Y K ++ + NN AFK+ L D EKE L+
Sbjct: 278 FTEESDLITAVYNLSVGEWVKLGYGKESVLLKKNNLNAFKELKDLNDREKEIALL 332
>ref|NP_224011.1| ATP-DEPENDENT PROTEASE LA [Helicobacter pylori J99]
Length = 831
Score = 30.8 bits (68), Expect = 0.19
Identities = 22/88 (25%), Positives = 41/88 (46%), Gaps = 14/88 (15%)
Query: 982 TLLSALKKAIDARIFKRQEILNEEYYLKNAIK-------------AELNNAFKKDPSLKD 1028
T L+K I +++ ++ E N+EY+LK +K +LN ++K S+K
Sbjct: 202 TKTQKLQKEIKSKVHQKMEQTNKEYFLKEQLKQIQKELGTDKQRDEDLNQYYQKLESIKP 261
Query: 1029 LEKEKEL-IIQTLFNELTQNHHQGNPHA 1055
KE+ I+ + L++ H + A
Sbjct: 262 FLKEEAFKEIKKQIDRLSRTHADSSDSA 289
>ref|NP_223357.1| putative [Helicobacter pylori J99]
Length = 342
Score = 30.4 bits (67), Expect = 0.25
Identities = 45/244 (18%), Positives = 97/244 (39%), Gaps = 27/244 (11%)
Query: 775 SAIVSMSAMNELVKVS-RAINTLKERYNLIR-------TSNDKKILSLKEKIDIEKIHKI 826
S I+ S ++ ++ + +N L E++ R + D+K L+ K D+ I
Sbjct: 112 SPILEQSIQQKISQIPLKNLNALLEKFKPTRLNCSLTFNALDEKTLNDNLKCDLTNAENI 171
Query: 827 SSMLH-----QKAKHLHALKNINEPKNPNDLMILEDLIALLDFKIEFKERKELRFKEQE- 880
+ +A+ +LKNI + + D +E+L + +LRF +
Sbjct: 172 LAYTFFQEGLMEAQENLSLKNIFKTLSSKDAKAIEEL------------QDKLRFLAPKL 219
Query: 881 EITTKQKQAKEILEKIPDQQDKEIQKFYKDFSKLLQTPTTSQNFEEISHSYDAIISQLKQ 940
++ + + K +LE Q + + F FS QTP+ S ++ + ++ +
Sbjct: 220 SVSIQARHFKNVLESFYQQNKESLGFFSPYFSLRSQTPSVSYE-SALASLENYFMALFQS 278
Query: 941 HKEQTTHLLNKYDNDLSYAITNKRLHKHLMEQNISNSAGIFTLLSALKKAIDARIFKRQE 1000
H + T L + L ++ + + + N +AL +++ F+ +
Sbjct: 279 HFKDDTALQQNFKGLLQAFVSMAKDKRSQIVLNAQAKDNTKLTFNALLESLSVNFFQSYK 338
Query: 1001 ILNE 1004
I +E
Sbjct: 339 ISHE 342
>ref|NP_223400.1| putative [Helicobacter pylori J99]
Length = 327
Score = 29.6 bits (65), Expect = 0.42
Identities = 71/334 (21%), Positives = 128/334 (38%), Gaps = 57/334 (17%)
Query: 612 NEVQEKVLQENPNLRILNKLKSSLILHDEQEVKEKVHSFKHEDT---------------D 656
+E K LQ + N ++LN +K L+ ++EVK+ + K D +
Sbjct: 15 DEFLAKELQISKN-QVLNLIKEGLVFCQKKEVKKGGLALKEGDAITLLTPKIVPKPLKKE 73
Query: 657 IVFVFNMLLTGFDLPSLKR---LYIHR--ELKDHNLLQALARVNRSYKNMSFGYLIDFVG 711
+ ++ DL L + L +H+ +K+ L+ L N N+ L + G
Sbjct: 74 LDLEIEVIFEDEDLLVLNKPPNLVVHKAPSVKEPTLVDWLKSQNYELSNLG---LKERYG 130
Query: 712 IQENFDKTTDDYLKELNRFNQSGANSDSHIKDMFADRKTLEEDIKNA-----YDDLFDYP 766
I DK T + N+ +H+ L E +K Y L P
Sbjct: 131 IVHRLDKDTSGGI-------VIAKNNFTHV--------CLSEQLKTKMMGRYYIALLSTP 175
Query: 767 IDDIEGMTSAIVSMSAMNELVKVS-RAINTLKERYNLIRTSNDKKILSLKEKIDIEKIHK 825
+ + + ++ + N L ++ +A K RY+ S +L+ + +D+
Sbjct: 176 LKEEKMSVECYLTRNPNNRLKMIALKAAKKEKSRYS---KSEFTSLLTSQNGMDLIGAKL 232
Query: 826 ISSMLHQKAKHLHALKNINEPKN---PNDLMILEDL-IALLDFKIEFKERKELRFKEQEE 881
+ HQ HL L N N ++ E++ I L + IEFK + +++
Sbjct: 233 FTGRTHQIRAHLEYLNRHIIGDNLYGLNGVLSKEEIRIMLHAYLIEFKHP-----RSEQK 287
Query: 882 ITTKQKQAKEILEKIPDQQDKEIQKFYKDFSKLL 915
+ K K++LE + DKE D K+L
Sbjct: 288 LRFKVPLLKDMLEYLKKVFDKENLDEVLDEEKIL 321
>ref|NP_222999.1| P-AMINOBENZOATE SYNTHETASE [Helicobacter pylori J99]
Length = 567
Score = 29.6 bits (65), Expect = 0.42
Identities = 21/55 (38%), Positives = 30/55 (54%), Gaps = 7/55 (12%)
Query: 994 RIFKRQEILNEEYYLKNAIKAELNNA-----FKKDPSLKDLEKEKELIIQTLFNE 1043
R+ KR + L E KNA K L ++ FK D +L D E EKE +++ L N+
Sbjct: 369 RVIKRDQKL--EINNKNAHKERLMHSAQYFNFKYDENLLDFELEKEGVLRVLLNK 421
>ref|NP_223625.1| putative [Helicobacter pylori J99]
Length = 362
Score = 28.9 bits (63), Expect = 0.72
Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 8/63 (12%)
Query: 382 ENKEDLSQKLKSSSVFEGSQGNDEIIVVNIQKFKAPNEEKSPNEDPSNSAPKEIISKTEL 441
E +D ++LK S +F+ ND+ +QK N + DP +A + +++TE
Sbjct: 198 EEIQDRIRRLKESKIFDSQSSNDQ----ELQKSANSNLDL----DPIGNAMPQTLAQTET 249
Query: 442 QES 444
Q+S
Sbjct: 250 QKS 252
>ref|NP_223624.1| GLYCYL-TRNA SYNTHETASE BETA CHAIN [Helicobacter pylori J99]
Length = 701
Score = 28.9 bits (63), Expect = 0.72
Identities = 24/103 (23%), Positives = 53/103 (51%), Gaps = 8/103 (7%)
Query: 751 LEEDIKNAYDDLFDYPIDDIEGMTSAIVSM--SAMNELVKVSRAINTLKERYNLIRTSND 808
L+ D+KN ++ + Y D+E + ++ + ++ + + R++ ER ++++
Sbjct: 517 LKADLKNLFEKVGVYQSFDLEVLEKFLLERFHNLIDCNLSIIRSVLNTNER-DIVKII-- 573
Query: 809 KKILSLKEKIDIEKIHKISSMLHQKAKHLHALKNINEPKNPND 851
+K+ +LK +D K + +L K L NIN+ +NPN+
Sbjct: 574 QKVKALKRFLDNPKNAQKKELLFSAFKRL---ANINKDRNPNE 613
>ref|NP_224153.1| putative [Helicobacter pylori J99]
Length = 435
Score = 28.5 bits (62), Expect = 0.94
Identities = 46/210 (21%), Positives = 90/210 (41%), Gaps = 23/210 (10%)
Query: 718 KTTDDYLKELNRFNQSGANSDSHIKDMFADRK-TLEEDIKNAYDDLFDYPIDDIEGMTSA 776
K ++L FN N+ S + + F+ K D+ Y L P + + T A
Sbjct: 7 KKFSEFLNTQTHFNLKRLNASSFLLETFSKEKHAFVVDLSAPYIGLSKKPPESVLKNTLA 66
Query: 777 I-VSMSAMNELVKVSRAINTLKERYNLIRTSNDKKILSLKEKIDIEKIHKISSM--LHQK 833
+ ++ + K+ +A +R I+ + D S + +E I K +++ L Q+
Sbjct: 67 LDFCLNKFTKNAKILQANVIDNDRILEIKGAKDLAYKSETFILRLEMIPKKANLMILDQE 126
Query: 834 AKHLHALKNINEPKNPNDLM------ILEDLIALLDFK--IEFKER-------KELRFKE 878
+ A + N+ ND++ I E LDFK ++ E+ KEL K+
Sbjct: 127 KCVIEAFR-FNDRVAKNDILGALPPNIYEHQEEDLDFKGLLDILEKDFLSYQHKELEHKK 185
Query: 879 QE---EITTKQKQAKEILEKIPDQQDKEIQ 905
+ + ++++ KE LEK+ D + +++
Sbjct: 186 NQIIKRLNAQKERLKEKLEKLEDPKTLQLE 215
>ref|NP_223830.1| putative [Helicobacter pylori J99]
Length = 383
Score = 28.5 bits (62), Expect = 0.94
Identities = 38/159 (23%), Positives = 62/159 (38%), Gaps = 9/159 (5%)
Query: 878 EQEEITTKQKQAKEILEKIPDQQDKEIQKFYKDFSKLLQTPTTSQNFEEISHSYDAIISQ 937
EQEE T+Q++ K EK +Q+K+ K + +T Q I + + Q
Sbjct: 125 EQEEQKTEQEKQKTEQEKQKTEQEKQ-----KTEQEKQKTEQEKQKTSNIETNNQIKVEQ 179
Query: 938 LKQHKEQTTHLLNKYDNDL-SYAITN-KRLHKHLMEQNISNSAGIFTLLSALKKAIDARI 995
+Q EQ N DL + A N + H + + AGI + A K +
Sbjct: 180 EQQKTEQEKQKTNNTQKDLVNKAEQNCQENHNQFFIKKLGIKAGIAIEIEAECKT--PKP 237
Query: 996 FKRQEILNEEYYLKNAIKAELNNAFKKDPSLKDLEKEKE 1034
K + + +L N+ + K + L+KE E
Sbjct: 238 TKTNQTPIQPKHLPNSKQPHSQRGSKAQELIAYLQKELE 276
>ref|NP_222912.1| putative [Helicobacter pylori J99]
Length = 916
Score = 28.5 bits (62), Expect = 0.94
Identities = 62/305 (20%), Positives = 109/305 (35%), Gaps = 52/305 (17%)
Query: 268 ILKYGISFLKEKSEFKKHVWRYAQMFASLNVLKELQKHYGTNQNLKDPLKGIIWHTQGSG 327
+L+ + F K+K + + V YA + +L + K+L KH SG
Sbjct: 69 LLESFLDFYKDKLKLSELVTEYANVTNNL-LFKKLIKHL-------------------SG 108
Query: 328 KTALTYHLTKLIRDFFSRSNLNKKTK--FYFIVDRLDLLEQAKNEFLKRGLCVHEA--EN 383
L + + IR+ + NK+ K +FI+ + + AK + L E ++
Sbjct: 109 NNQLVKNFYQCIREIIKYNAPNKEYKPNQFFIIGKGKQKQLAKIYSHLKELSASEIKPQD 168
Query: 384 KEDLSQKLKS-SSVFEGSQGNDEIIVVNIQKFKAPNEEKSPNEDPSNSAPKEIISKTELQ 442
ED+ +KL+ +F+ + I+ +EK P + E S E
Sbjct: 169 MEDILKKLEELDKIFKTTDFTKFTPKTEIKDIIKEIDEKYPINENFKRQFNEFESNIEKH 228
Query: 443 ESIQNSRNLQRVFIIDEAHRSYDPKGCFYANLIECDKTAIKIALTGTPLLEDNAQDKATK 502
+ I+ + +I E EC+ P + N K +
Sbjct: 229 DEIKKDFERNKESLIREIENHCKN---------ECNSEE-------EPEYKINDLLKNIQ 272
Query: 503 NTFGNYLHTYSYTESIKDRHTLKLQL-----------ESIETSYKEKLQEIYRLLQESIT 551
NY+ +++ + KD ++ Q E + Y + I R L ESI
Sbjct: 273 QICKNYIESHAVNDVSKDIKSMMCQFYLKQIDLLVNSEIVRYRYSNLFEPIQRSLWESIK 332
Query: 552 IEDTE 556
I D E
Sbjct: 333 ILDNE 337
Score = 27.3 bits (59), Expect = 2.1
Identities = 88/461 (19%), Positives = 175/461 (37%), Gaps = 90/461 (19%)
Query: 505 FGNYLHTYSYTESIKDRHTLKLQLESIETSYKEKLQEI-YRLLQESITIEDTEVKKETIF 563
F N + +Y+ ES D + KL+L + T Y + ++ L + ++ + VK
Sbjct: 60 FINLIASYNLLESFLDFYKDKLKLSELVTEYANVTNNLLFKKLIKHLSGNNQLVKN---- 115
Query: 564 NDEKYINAMLYYIIRDLLDFRRLNDNERLKAMVVCFSSKQARLADCLFNEVQEKVLQENP 623
Y IR+++ + N + + KQ +LA +++ ++E E
Sbjct: 116 ---------FYQCIREIIKYNAPNKEYKPNQFFIIGKGKQKQLAK-IYSHLKELSASE-- 163
Query: 624 NLRILNKLKSSLILHDEQEVKEKVHSFKHEDTDIVFVFNMLLTGFDLPSLKRLYIHRELK 683
+ D +++ +K+ E+ D +F T F + K E+K
Sbjct: 164 -----------IKPQDMEDILKKL-----EELDKIFK----TTDFTKFTPKT-----EIK 198
Query: 684 DH-NLLQALARVNRSYK---NMSFGYLIDFVGIQENFDKTTDDYLKELNRFNQSGANSDS 739
D + +N ++K N + I+++F++ + ++E+ ++ NS+
Sbjct: 199 DIIKEIDEKYPINENFKRQFNEFESNIEKHDEIKKDFERNKESLIREIENHCKNECNSEE 258
Query: 740 HIKDMFADR-KTLEEDIKNAYDDLFDYPIDDIEGMTSAIVSMSAMNELVKVSRAINTLKE 798
+ D K +++ KN + + ++D+ + I SM L ++ +N+
Sbjct: 259 EPEYKINDLLKNIQQICKNYIES---HAVNDV---SKDIKSMMCQFYLKQIDLLVNSEIV 312
Query: 799 RYNLIRTSNDKKILSLKEKIDIEKIHKISSMLHQKAKHLHALKNINEPKNPNDLMILEDL 858
RY R SN L E I I + ++ +L KNI E K+
Sbjct: 313 RY---RYSN------LFEPIQRSLWESIKILDNESGIYLFP-KNIGEIKD---------- 352
Query: 859 IALLDFKIEFKERKELRFKEQEEITTKQKQAKEILE--------KIPDQQDKEIQKFYKD 910
+F+ KE +FK+ + ++ + +E I + + +KF
Sbjct: 353 --------KFEANKE-KFKQSKNVSEFAEYCRECNPYTAFNFHLNINNGLSHQFEKFVPI 403
Query: 911 FSKLLQTPTTSQNFEEISHSYDAIISQLKQHKEQTTHLLNK 951
+ + T + E IS + SQL H L NK
Sbjct: 404 MKEYKEPKITDNDLEAISTKETGLASQLSGHWFFQLSLFNK 444
>ref|NP_222794.1| PEPTIDE CHAIN RELEASE FACTOR 1 [Helicobacter pylori J99]
Length = 352
Score = 28.5 bits (62), Expect = 0.94
Identities = 21/92 (22%), Positives = 51/92 (54%), Gaps = 9/92 (9%)
Query: 768 DDIEGMTSAIVSMSAMNELVKVSRAINTL-------KERYNLIR-TSNDKKILSLKEKID 819
D++ + S++ +S + +L ++S+ +++ KE +++ +K++L KE +
Sbjct: 16 DELTALLSSVEVVSDIKKLTELSKEQSSIEEISVASKEYLSVLEGIKENKELLEDKELSE 75
Query: 820 IEKIHKISSMLHQKAKHLHALKNINEPKNPND 851
+ K ++ + QK++ A+K + PK+PND
Sbjct: 76 LAK-EELKILEIQKSELETAIKQLLIPKDPND 106
>ref|NP_223608.1| putative [Helicobacter pylori J99]
Length = 242
Score = 28.1 bits (61), Expect = 1.2
Identities = 35/144 (24%), Positives = 61/144 (42%), Gaps = 16/144 (11%)
Query: 736 NSDSHIKDMFADRKTLEEDIKNAYDDLFDYPIDDIEGMTSAIVSMSAMNELVKVSRAINT 795
NS+ H+K A + + +K Y + I++ + + I+++ K+S+
Sbjct: 106 NSEFHLK---AKKAFKDRAVKKEYLAIVQGIIEEEREINAPILTIKTTKAFSKISKKGQE 162
Query: 796 LKERYNLIRTSNDKKILSLKEKIDIEKIHKISSMLHQKAKHLH------ALKNINEPKNP 849
++ N K +L K I + H+I L KH++ L N NEP +
Sbjct: 163 AVTIITPLKIINKKTLL--KVGIKTGRTHQIRVHL----KHINHPIIGDTLYN-NEPSSA 215
Query: 850 NDLMILEDLIALLDFKIEFKERKE 873
LM+ IALL ++ E KE
Sbjct: 216 KRLMLHAHKIALLGYEFEAIAPKE 239
>ref|NP_223222.1| ACETYL-COENZYME A CARBOXYLASE SUBUNIT A [Helicobacter pylori J99]
Length = 312
Score = 28.1 bits (61), Expect = 1.2
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 872 KELRFKEQEEITTKQKQAKEILEKIPDQQDKEIQKFYKDFSKL 914
KE++ + + + + AKEILEK D++ K I DF KL
Sbjct: 12 KEIQNEIELALIRGDEDAKEILEKRLDKEVKSIYSNLTDFQKL 54
>ref|NP_222919.1| SUCCINYL-DIAMINOPIMELATE DESUCCINYLASE [Helicobacter pylori J99]
Length = 388
Score = 28.1 bits (61), Expect = 1.2
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 13/75 (17%)
Query: 873 ELRFKEQEEITTKQKQAKEILEKIPDQQDKEIQKFYKDFSKLLQTPTTSQNFEEISHSYD 932
E+ F + + T Q+ KE LEK+ KD L+ ++S F SHS
Sbjct: 264 EIAFNARHSLKTTQESLKEYLEKV-----------LKDLPYTLELESSSSPFITASHS-- 310
Query: 933 AIISQLKQHKEQTTH 947
+ S L+++ +T H
Sbjct: 311 KLTSVLQENILKTCH 325
>ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [Helicobacter pylori J99]
Length = 681
Score = 28.1 bits (61), Expect = 1.2
Identities = 61/318 (19%), Positives = 134/318 (41%), Gaps = 63/318 (19%)
Query: 719 TTDDYLKELNRFNQSGANSDSHIKDMFADRKTLEEDIKNAYDDLFDYPIDDIEGMTSAIV 778
++ +Y K+LN ++ IK+ +K L+E++++ YD L +
Sbjct: 120 SSSEYAKKLNAIDK--------IKNTEEKQKVLDEELEDGYDFLKE-------------- 157
Query: 779 SMSAMNELVKVSRAINTLKERYNLIRTSNDKKILSLKEKIDIEKIHKISSMLHQKA---- 834
+ ++ SR+ + ++ +R D K+LS E+I++ K ++ + A
Sbjct: 158 -----KDFLEWSRSDSPVR---MYLREMGDIKLLSKDEEIELSKQIRLGEDIILDAICSV 209
Query: 835 ----KHLHALKN--INEPKNPNDLMIL---EDLIALLDFKIEFKERKELRFKEQEEITTK 885
++A K+ IN + +L +D ++ D K + ++ +E++++ ++
Sbjct: 210 PYLIDFIYAYKDALINRERRVKELFRSFDDDDENSVSDPKKDDDSEEDEENEERKKVVSE 269
Query: 886 QKQAKEILEKIPDQQDKEIQKFYKDFSKLLQTPTTSQNFEEISHSYDAIISQLKQHKEQT 945
+ K+ +EK+ + K + K K++ K L+ P I D ++ L ++
Sbjct: 270 KD--KKRVEKV-QESFKALDKAKKEWLKALEAP--------IDEKEDELVRSLTLAYKRQ 318
Query: 946 THLLNKYDNDLSYAITNKRLHKHLMEQNISNSAGIFTLLSALKKAIDARIFKRQEILNEE 1005
T YD + + + N+ + ME + + G L L+ + +F I N +
Sbjct: 319 TLKDRLYDLEPTSKLINELV--KTMETTLKSGDGFEKELKRLEYKLP--LFNDTLIANHK 374
Query: 1006 YYLKNAIKAELNNAFKKD 1023
L N + N K+D
Sbjct: 375 KILAN-----ITNMTKED 387
>ref|NP_223730.1| putative [Helicobacter pylori J99]
Length = 182
Score = 27.7 bits (60), Expect = 1.6
Identities = 40/183 (21%), Positives = 72/183 (38%), Gaps = 35/183 (19%)
Query: 722 DYLKELNRFNQSGANSDSHIKDMFADRKTLEEDIKNAYDDLFDYPI--DDIEGMTSAIVS 779
DY ++ AN+ I + F + + NA D++ + I D+ + MT + VS
Sbjct: 23 DYNAIFSKIRDFEANAIGQIGEEFL------KSVLNAIDEVINDGIIHDEYDIMTKSGVS 76
Query: 780 M---SAMNELVKVSRAINTLKERYNL-----IRTSNDKKILSLKEKIDIEKIHKISSMLH 831
+A + N + RYN + D+ + + +K +I IHK
Sbjct: 77 FEVKTAQKGRTNNTFQFNGINPRYNYDFLICLGVCEDQLLYRIFKKDEIHYIHKERKYFM 136
Query: 832 QKAKHLHALKNINEPKNPNDLMILEDLIALLDFKIEFKERKELRFKEQEEITTKQKQAKE 891
++ + K P NP++ + ++ L KE +EIT K+ +
Sbjct: 137 KQ----NEFKKQLVPMNPDN---------------QVNDKLTLNLKELKEITNLIKELER 177
Query: 892 ILE 894
ILE
Sbjct: 178 ILE 180
>ref|NP_223123.1| putative [Helicobacter pylori J99]
Length = 409
Score = 27.7 bits (60), Expect = 1.6
Identities = 19/57 (33%), Positives = 32/57 (55%), Gaps = 10/57 (17%)
Query: 913 KLLQTPTTSQNFEEISHSYDAIISQLKQ--HKEQTTHLLNKYDNDLSYAITNKRLHK 967
KL+QTP ++SH+ + S L Q K++++ +L + N +SY +K LHK
Sbjct: 182 KLIQTP-------QLSHT-KTLQSALNQGGFKDESSAILQAFPNSVSYIEGSKDLHK 230
>ref|NP_222737.1| DNA transfer protein [Helicobacter pylori J99]
Length = 787
Score = 27.7 bits (60), Expect = 1.6
Identities = 53/266 (19%), Positives = 103/266 (37%), Gaps = 54/266 (20%)
Query: 802 LIRTSNDKKILSLKEKIDIEKIHKISSML-HQKAKHLHALKNINEPKNPNDLMILEDLIA 860
++ +K++ + + +E H + +L H+K +HA + E+
Sbjct: 112 ILNQFENKEVYENQYFLVLESTHSLHGVLEHKKKSFMHANR--------------ENFKD 157
Query: 861 LLDFKIEFKERKELRFKEQEEITTKQKQAKEILEKIPDQQDKEIQKFYKDFSKLLQTPTT 920
+L +K F QE + + + Q K K+ + KE+ FY ++ + P
Sbjct: 158 ILSYKAHFL---------QETLKSLEIQLKNYAPKLLNS--KEVLNFYAEYINGFELPLK 206
Query: 921 SQNFEEISHSYDAIISQLKQHKEQTTHLLNKYDNDLSY-AITNKRLHKHLMEQNISNSAG 979
+S SY I S + K+ + + + N +Y + + ++ +I+ A
Sbjct: 207 PLVGGYLSDSY--IASSITFEKD---YFIQESFNQKTYNRLIGIKAYESERITSIAVGAL 261
Query: 980 IF--TLLSALKKAIDARIFKRQEILNE--EYYLKNAIKAELN------------------ 1017
++ T L + + K L E ++ + N +K EL
Sbjct: 262 LYQETPLDIIFSIEPMSVNKTLSFLKERAKFSMSNLVKNELLEYQELVKTKRLSMQKFAL 321
Query: 1018 NAFKKDPSLKDLEKEKELIIQTLFNE 1043
N K PSL+DL+ + LI+ LF E
Sbjct: 322 NVLIKAPSLEDLDAQTSLILGLLFKE 347
>ref|NP_223787.1| putative [Helicobacter pylori J99]
Length = 759
Score = 27.3 bits (59), Expect = 2.1
Identities = 37/150 (24%), Positives = 62/150 (40%), Gaps = 24/150 (16%)
Query: 905 QKFYKDFS--KLLQTPTTSQNFEEISHSY---------DAIISQLKQHKEQTTHLLNKYD 953
+++ KD S Q T ++ F++ SY D I + + +T L + D
Sbjct: 274 REYVKDNSICPFCQKETITEEFKKQLESYFDTSYQESTDTIKKMKEDYTNKTDEALERLD 333
Query: 954 NDLSYAITNKRLHKHLMEQNISNSAGIFTLLSALK----KAID-----ARIFKRQEILNE 1004
+ N + L +N+ I TL S +K K ID +R FK NE
Sbjct: 334 EIIKTEQNNSQTK--LDTENLKRI--IETLRSKIKANQQKMIDKSKEMSRNFKLDSNKNE 389
Query: 1005 EYYLKNAIKAELNNAFKKDPSLKDLEKEKE 1034
+K+ IK + ++KD+EK+K+
Sbjct: 390 IDAIKDLIKKANEQITNHNETIKDIEKQKK 419
Score = 26.9 bits (58), Expect = 2.7
Identities = 32/134 (23%), Positives = 54/134 (39%), Gaps = 19/134 (14%)
Query: 295 SLNVLKELQKHYGTNQNLKDPLKGIIWHTQGSGKTALTYHLTKLIRDFFSRSNLNKKTKF 354
SL + ++ + +NLK I+ GSGKT + L L + N K +
Sbjct: 24 SLKKVATFDENGASFENLKSI--NFIYGANGSGKTTTSSFLKNLAENGIEDKFANSKIAW 81
Query: 355 YFIVDRLDLLEQAKNEFLKRGLCVHEAENKEDLSQKLKSSSVFE-GSQGNDEIIVVNIQK 413
Y NE LK + V+ + KE+ + + +F G + N+ + + +K
Sbjct: 82 Y------------NNESLK--IEVYNKQFKEEQLRNSQVKGIFTLGKKTNENLEKIESKK 127
Query: 414 --FKAPNEEKSPNE 425
NE+K NE
Sbjct: 128 ESINKENEKKIKNE 141
Score = 26.6 bits (57), Expect = 3.6
Identities = 25/89 (28%), Positives = 46/89 (51%), Gaps = 5/89 (5%)
Query: 867 EFKERKELRFKEQEEITTKQKQAKEILEKIPDQQD---KEIQKFYKDFSKLLQTPTTSQN 923
+FKE ++LR + + I T K+ E LEKI +++ KE +K K+ + LQ T +
Sbjct: 95 QFKE-EQLRNSQVKGIFTLGKKTNENLEKIESKKESINKENEKKIKNEAS-LQVLTQKKE 152
Query: 924 FEEISHSYDAIISQLKQHKEQTTHLLNKY 952
EE + + K+++E+ +L +
Sbjct: 153 KEEKDFTDSCWKNLYKKNEEEFKEILEGF 181
>ref|NP_223427.1| putative PROBABLE N-ACETYLMURAMOYL-L-ALANINE AMIDASE [Helicobacter
pylori J99]
Length = 469
Score = 27.3 bits (59), Expect = 2.1
Identities = 15/55 (27%), Positives = 26/55 (47%)
Query: 405 EIIVVNIQKFKAPNEEKSPNEDPSNSAPKEIISKTELQESIQNSRNLQRVFIIDE 459
EI I K + P +E E P PK+ I K E+ + + + ++FI ++
Sbjct: 179 EIPKKEIPKKEIPKKEIPKKEIPKKEIPKKEIPKKEIPKKEAENESKNQIFIAEK 233
>ref|NP_223409.1| putative [Helicobacter pylori J99]
Length = 79
Score = 27.3 bits (59), Expect = 2.1
Identities = 15/36 (41%), Positives = 22/36 (60%)
Query: 857 DLIALLDFKIEFKERKELRFKEQEEITTKQKQAKEI 892
DL ALL K + EL KE+EE+ ++ +AK+I
Sbjct: 39 DLDALLSLKEMIAQSIELLEKEKEELQSQMHKAKQI 74
>ref|NP_223323.1| putative [Helicobacter pylori J99]
Length = 335
Score = 27.3 bits (59), Expect = 2.1
Identities = 17/67 (25%), Positives = 34/67 (50%), Gaps = 7/67 (10%)
Query: 341 DFFSRSNLNKKTKFYFIVDRLDLLEQAKNEFLKRGLCVHEAENKEDLSQKLKSSSVFEGS 400
+F + +L F FI+ + LLEQA+ F ++ NK+ L + ++ + + S
Sbjct: 5 NFLYKDSLFSIALFTFIIALVILLEQARAYFTRK-------RNKKFLQKFAQNQNAYASS 57
Query: 401 QGNDEII 407
+ DE++
Sbjct: 58 ENLDELL 64
>ref|NP_223025.1| putative [Helicobacter pylori J99]
Length = 501
Score = 27.3 bits (59), Expect = 2.1
Identities = 49/234 (20%), Positives = 92/234 (38%), Gaps = 25/234 (10%)
Query: 815 KEKIDIEKIHKISSMLHQKAKHLHALKNINEPK-----NPNDLMILEDLIALLDFKIEFK 869
K + E + + L A L +N++ + N ++L L DL AL + +
Sbjct: 99 KPFLPTEMLKVLQKKLGSNASELEPSQNLDPTQEILETNWDELENLGDLEALAKEEPNNE 158
Query: 870 ERKELRFKEQEEITTKQK--------QAKEILEKIPDQQDKEIQKFYKDFSKLLQTPTTS 921
E+ EQE T K++ + KE+ E++ ++Q +E+ + +D K P
Sbjct: 159 EQLLPTLNEQEGETPKEEAQEEVKKEEVKEMQEEVKEKQKQEVAENPQDEEK----PKDD 214
Query: 922 QNFEEISHSYDAIIS-QLKQHKEQTTHLLNKYDNDLSYAITNKRLHKHLMEQNISNSAGI 980
+ + D +S +L+ +E T + + T + + + S SA
Sbjct: 215 ETQGSVEPPKDEEVSKELETQEELETPKEETQEQEPIKEETQEIKEEKQEKTQDSPSAQE 274
Query: 981 FTLLSALKKAIDARIFKRQEILNEEYYLKNAIKAELNNAFKKDPSLKDLEKEKE 1034
+ L K I QE N++ K + + N +D ++LE KE
Sbjct: 275 LEAMQELVKEI-------QENSNDQENKKETQETQENTETPQDIETQELEIPKE 321
>ref|NP_223370.1| RNA POLYMERASE SIGMA-54 FACTOR [Helicobacter pylori J99]
Length = 414
Score = 26.9 bits (58), Expect = 2.7
Identities = 23/96 (23%), Positives = 44/96 (44%), Gaps = 21/96 (21%)
Query: 818 IDIEKIHKISSMLHQKAKHLHALKNINEPKNPNDLMILEDLIALLD--FKIEFKER---- 871
+++EK H+ S + + ALK + KNP + LE I ++ F +E
Sbjct: 179 LNLEKHHEFSKDFYYEK----ALKILKSFKNPPAIEFLEKEIEVIPELFILEVDNEMIVR 234
Query: 872 -----------KELRFKEQEEITTKQKQAKEILEKI 896
+E RFK+ + + K K+AK++++ +
Sbjct: 235 LNDESYPTISLEENRFKDSDYLKEKLKEAKDLIDAL 270
Score = 26.6 bits (57), Expect = 3.6
Identities = 13/42 (30%), Positives = 27/42 (63%), Gaps = 2/42 (4%)
Query: 1003 NEEYYLKNAIKAELNNAFKKDPSLKDLEKEKELIIQTLFNEL 1044
++++Y + A+K + +FK P+++ LEKE E+I + E+
Sbjct: 188 SKDFYYEKALK--ILKSFKNPPAIEFLEKEIEVIPELFILEV 227
>ref|NP_223213.1| cag island protein, CYTOTOXICITY ASSOCIATED IMMUNODOMINANT ANTIGEN
[Helicobacter pylori J99]
Length = 1167
Score = 26.9 bits (58), Expect = 2.7
Identities = 12/42 (28%), Positives = 23/42 (54%)
Query: 384 KEDLSQKLKSSSVFEGSQGNDEIIVVNIQKFKAPNEEKSPNE 425
K D + ++ + +GS +D ++ V+ FK N KSP++
Sbjct: 480 KADKALDREAKTTLQGSLKHDGVMFVDYSNFKYTNASKSPDK 521
Score = 25.8 bits (55), Expect = 6.1
Identities = 29/138 (21%), Positives = 54/138 (39%), Gaps = 4/138 (2%)
Query: 826 ISSMLHQKAKHLHALKNINEPKNPNDLMILEDLIALLDFKIEFKERKELRFKEQEEITTK 885
+SS K L+ K + E KN + ++ L+ ++ +ER E + E +
Sbjct: 582 LSSNKELVGKALNFNKAVAEAKNTGNYDEVKQAQKDLEKSLKKRERLEKDVAKNLESKSG 641
Query: 886 QKQAKEILEKIPDQQDKEIQKFYKDFSKLLQTPTTSQNFE----EISHSYDAIISQLKQH 941
K E + Q+D+ K+ ++ + +QN + E+S + I LK
Sbjct: 642 NKNKMEAKSQANSQKDEIFALINKEANRDARAIAYAQNLKGIKRELSDKLENINKDLKDF 701
Query: 942 KEQTTHLLNKYDNDLSYA 959
+ N + D S A
Sbjct: 702 SKSFDEFKNGKNKDFSKA 719
>ref|NP_223180.1| putative [Helicobacter pylori J99]
Length = 706
Score = 26.9 bits (58), Expect = 2.7
Identities = 41/165 (24%), Positives = 72/165 (42%), Gaps = 15/165 (9%)
Query: 813 SLKEKIDIEKIHKISSM-LHQKAKHLHALKNINEPKNPNDLM----------ILE-DLIA 860
S +EK D+EK K SS+ L++ K L K +DL+ ILE + +
Sbjct: 495 SFQEKRDMEKGFKQSSLKLNKNLKDLEPFGEKEIEKRASDLVDWALKIWTYPILEAETLE 554
Query: 861 LLDFKIEFKERKELRFKEQEEITTKQKQAKEILEKIPDQQDKEIQKFYKDFSKLLQTPTT 920
K E KE+KE + KE+ ++ ++K K + K+ L + T
Sbjct: 555 EYKPKKEKKEKKEKKEKEEYKLKKEKKVYDLSSYKFSPHSRELFDILRKEIKTLDERVTE 614
Query: 921 SQNFEEISHSYDAI--ISQLKQHKEQTTHLLNKYDNDLSYAITNK 963
+ N + I++ + I + + Q+K +L ++ N+L I K
Sbjct: 615 NFNSKYIAYKFFKINFVDIVVQNKVLKLYLKMEF-NELQDEIKEK 658
>ref|NP_223140.1| OLIGOPEPTIDASE [Helicobacter pylori J99]
Length = 578
Score = 26.9 bits (58), Expect = 2.7
Identities = 23/99 (23%), Positives = 36/99 (36%), Gaps = 10/99 (10%)
Query: 966 HKHLMEQNISNSAGIFTLLSALKKAIDARIFKRQEILNEEYYLKNAIKA----------E 1015
H +++ N FT+ I + K+Q +LN + L A A
Sbjct: 349 HPYVLLNYTGNRRDAFTIAHEFGHMIHQELSKKQGVLNMDTPLTTAETASVFSEMLFFEH 408
Query: 1016 LNNAFKKDPSLKDLEKEKELIIQTLFNELTQNHHQGNPH 1054
L K D L L + E I TLF ++ + + H
Sbjct: 409 LKKGLKSDELLFMLAGKLEDIFSTLFRQVVMTNFERRIH 447
Score = 25.4 bits (54), Expect = 7.9
Identities = 36/153 (23%), Positives = 66/153 (42%), Gaps = 19/153 (12%)
Query: 521 RHTLKLQLESIETSYKEKLQEIYRLLQESITIEDT-EVKKETIFNDEKYINAMLYYIIRD 579
+H L ++E K++L I + + + + E KK T+ DE+ I L +
Sbjct: 95 QHLLFFEIEFKNLDAKKQLAFIKKCKDHAFYLNNLIEKKKHTLNLDEEKIALALSPV--G 152
Query: 580 LLDFRRLNDNERLKAMVVCFSSK---QARLADCLFNEVQE----------KVLQENPNLR 626
+ F RL D E ++ + F K + + L N ++ K L+++ L
Sbjct: 153 VGAFSRLFD-EHFSSLKIPFEEKTLSEEEILALLHNPKRKIRKKSQKAFSKSLEKSRPLL 211
Query: 627 --ILNKLKSSLILHDEQEVKEKVHSFKHEDTDI 657
ILN ++ L++ + +K SF+H D I
Sbjct: 212 TYILNMVRKDLLIETKLRKYDKKESFRHIDNQI 244
>ref|NP_223758.1| EXCINUCLEASE ABC SUBUNIT B [Helicobacter pylori J99]
Length = 658
Score = 26.6 bits (57), Expect = 3.6
Identities = 32/136 (23%), Positives = 57/136 (41%), Gaps = 17/136 (12%)
Query: 637 LHDEQEVKEKVH---SFKHEDTDIVFVFNMLLTGFDLPSLKRLYIHRELK------DHNL 687
+H E + E+ H S + ++ D++ N+L G DLP + + I K + +L
Sbjct: 478 MHSEIDAIERNHIIRSLRLKEFDVLIGINLLREGLDLPEVSLVAIMDADKEGFLRSETSL 537
Query: 688 LQALARVNRSYKNMSFGYLIDFV-GIQENFDKTTDDYLKELNRFNQSGANSDSHIKDMFA 746
+Q + R R+ Y +Q+ F+ T+ R Q N +I
Sbjct: 538 IQTMGRAARNANGKVLLYAKKTTQSMQKAFEITS------YRRAKQEEFNKIHNITPKTV 591
Query: 747 DRKTLEEDIKNAYDDL 762
R LEE++K D++
Sbjct: 592 TR-ALEEELKLRDDEI 606
>ref|NP_223577.1| RECOMBINATION PROTEIN [Helicobacter pylori J99]
Length = 193
Score = 26.6 bits (57), Expect = 3.6
Identities = 23/89 (25%), Positives = 37/89 (40%), Gaps = 10/89 (11%)
Query: 848 NPNDLMILEDLIALLDFKIEFKERKELRFKEQEEITTKQKQAKEILEKIPDQQ------- 900
+P D+ ILEDL L +++ F E+ + KEI+ P
Sbjct: 91 HPRDVFILEDLKDFLGRYYVLNSIEDVDFNALEKRLIGEN-IKEIIFAFPPTLANDSLML 149
Query: 901 --DKEIQKFYKDFSKLLQTPTTSQNFEEI 927
+ ++Q + F+K+ Q T NFE I
Sbjct: 150 YIEDKLQHLHLTFTKIAQGVPTGVNFENI 178
>ref|NP_223312.1| ASPARTATE AMMONIA-LYASE [Helicobacter pylori J99]
Length = 468
Score = 26.6 bits (57), Expect = 3.6
Identities = 14/49 (28%), Positives = 29/49 (58%), Gaps = 2/49 (4%)
Query: 1007 YLKNAIKAELNNAFKKDPSLKDLEKEKELIIQTLFNELTQNHHQGNPHA 1055
Y K+A+ A+ A K D S+ D+ EK+++ + +++ + + +PHA
Sbjct: 416 YEKSAMIAK--EALKSDRSIYDIALEKKILTKEQLDDIFKPENMLSPHA 462
>ref|NP_222835.1| TRANSLATION INITIATION FACTOR IF-3 [Helicobacter pylori J99]
Length = 203
Score = 26.6 bits (57), Expect = 3.6
Identities = 24/73 (32%), Positives = 36/73 (48%), Gaps = 17/73 (23%)
Query: 772 GMTSAIVSMSAMNELVKVSRAINTLKERYNLIRTSNDKKILSLKEK---IDIEKIHKISS 828
G+ ++S SA + KV YN R N+KKI K+K I+I++I K+S+
Sbjct: 43 GLDLVLISASAKPPVCKVMD--------YNKFRYQNEKKIKEAKKKQKQIEIKEI-KLST 93
Query: 829 MLHQ-----KAKH 836
+ Q K KH
Sbjct: 94 QIAQNDINYKVKH 106
>ref|NP_223848.1| putative [Helicobacter pylori J99]
Length = 222
Score = 26.2 bits (56), Expect = 4.6
Identities = 17/74 (22%), Positives = 37/74 (49%), Gaps = 7/74 (9%)
Query: 900 QDKEIQKFYKDFSKLLQTPTTSQNFEEISHSYDAIISQL---KQH-KEQTTHLLNKYDND 955
++++IQ FY + +L+TP + + ++ + AII Q + H + ++K+ +
Sbjct: 55 RNEKIQYFYNE---ILKTPIAQEEIDALALEFGAIIEQKLFDRGHLNSEVMAFIDKHYQN 111
Query: 956 LSYAITNKRLHKHL 969
+ I + LH L
Sbjct: 112 YIFHIASAALHSEL 125
>ref|NP_223614.1| putative [Helicobacter pylori J99]
Length = 230
Score = 26.2 bits (56), Expect = 4.6
Identities = 34/145 (23%), Positives = 64/145 (43%), Gaps = 29/145 (20%)
Query: 525 KLQLESIETSYKEKLQEIYRLLQESITIEDTEVKKE----------TIFNDEKYINAML- 573
+L E I+ Y++ + +LLQ ++E+ + +E NDEK N +
Sbjct: 68 ELSQEKIQEEYRDCIDYDNKLLQLHYSLENLQTLRELKEEADNNYQESLNDEKLQNNLRE 127
Query: 574 YYIIRDLLDFRRLNDNERLKAMVVCFSSKQARLADCLF---------NEVQE-KVLQENP 623
+ +++ + + E +K MV+ F C+F E+Q+ + L +N
Sbjct: 128 WRDLKNTPEEENYREFEEIKKMVLYFRDW------CMFRLDWYKLRQEEIQKHRDLMDND 181
Query: 624 N--LRILNKLKSSLILHDEQEVKEK 646
N L++ LK+ IL +E+ EK
Sbjct: 182 NRLLQLDYSLKNLSILKRFKEINEK 206
>ref|NP_223575.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 366
Score = 26.2 bits (56), Expect = 4.6
Identities = 28/122 (22%), Positives = 50/122 (40%), Gaps = 19/122 (15%)
Query: 794 NTLKERYNLIRTSNDKKILSLKEKI-DIEKIHKISSMLHQKAKHLHALKNINEPKNPNDL 852
N LK L T + L+ + +IEKI +S + K + AL+ + EP N L
Sbjct: 83 NALKNNAKLTPTEKQAETYYLQSTLQNIEKIVMLSGGVASNPKLVQALEKMQEPIT-NPL 141
Query: 853 MILEDLIALLDFKIEFKERKELRFKEQEE--ITTKQKQAKEILEKI----PDQQDKEIQK 906
++E+L + EL+F + + +++ Q +I + P K +
Sbjct: 142 ELVENL-----------KNLELQFSQSQNSMLSSLSSQIAQISNSLNALDPSSYSKNVSS 190
Query: 907 FY 908
Y
Sbjct: 191 MY 192
>ref|NP_223421.1| putative [Helicobacter pylori J99]
Length = 286
Score = 26.2 bits (56), Expect = 4.6
Identities = 35/129 (27%), Positives = 57/129 (44%), Gaps = 24/129 (18%)
Query: 936 SQLKQHKEQTTH--LLNKYDNDLSYAITNKRLHKHLMEQN--ISNSAGIFTLLSA---LK 988
S L + +++ H L D +L K+ HKHL E+N + G L++A +K
Sbjct: 69 SDLPREQKKAVHAELQKSIDENLEVL---KKNHKHLKEKNMPLPFILGGLALVAAGYGVK 125
Query: 989 KAIDA--------RIFKRQEILNEEYYLK-NAIKAELNNAFKKDPSLKDLEKEKELIIQT 1039
K IDA K+ E L EE K + +++ AF ++ EK+ ++ T
Sbjct: 126 KGIDALDADCEADEFIKKAESLKEEATKKAESAESDCRRAF-----MRLGEKKLHVLSHT 180
Query: 1040 LFNELTQNH 1048
+ N L H
Sbjct: 181 VSNFLDHFH 189
>ref|NP_223380.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 651
Score = 26.2 bits (56), Expect = 4.6
Identities = 37/166 (22%), Positives = 62/166 (37%), Gaps = 28/166 (16%)
Query: 877 KEQEEITTKQKQAKEILEKIPDQQDKEIQKFYKDFSKLLQTPTT---------------S 921
+ Q+++ + + + IP Q + ++K Y +TPT
Sbjct: 307 QNQKQVISYAQDIFNLFSSIPKDQYRYLEKAYLKIPNAGKTPTNPYRQEVNLNQEIQTIQ 366
Query: 922 QNFEEISHSYDAIISQLK---QHKEQTTHLLNKYDN--DLSYAITNKRLHKHLMEQNISN 976
N + DA +S K K T ++ Y+N +LS I+ + N N
Sbjct: 367 NNVSYYGNRVDAALSVAKDVYNLKSNQTEIVTTYNNAKNLSQEISK-------LPYNQVN 419
Query: 977 SAGIFTLLSALKKAIDARIFKRQEILNEEYYLKNAIKAELNNAFKK 1022
+ I T L + A A + Q ++ L A+ A NN FKK
Sbjct: 420 TKDIIT-LPYDQNAPAAGQYNYQINPEQQSNLSQALAAMSNNPFKK 464
>ref|NP_223206.1| cag island protein [Helicobacter pylori J99]
Length = 381
Score = 26.2 bits (56), Expect = 4.6
Identities = 21/78 (26%), Positives = 37/78 (46%), Gaps = 15/78 (19%)
Query: 770 IEGMTSAIVSMSAMNELVKVSRAINTLKERYNL-IRTSNDKKILSLKEKIDIEKIHKISS 828
+EG +SA+ ++ +++ + INT E N+ I + +I+ LK
Sbjct: 110 MEGYSSALSALGGNVKMIVEKQKINTQTEIQNMQIALQKNNEIIKLK------------- 156
Query: 829 MLHQKAKHLHALKNINEP 846
++Q+ L ALKN EP
Sbjct: 157 -MNQQNALLEALKNSFEP 173
>ref|NP_222758.1| DNA transformation compentancy [Helicobacter pylori J99]
Length = 376
Score = 26.2 bits (56), Expect = 4.6
Identities = 20/87 (22%), Positives = 34/87 (38%), Gaps = 13/87 (14%)
Query: 209 PQKNDQNHQNDQNHRSLEEIQKSVLNEFNLKD---------TDTPKSPKDTPTNSLLTSF 259
PQ + D ++L+E K+ L N K+ T P PK TP
Sbjct: 58 PQPTNTESSKDATIKALQEQLKAALKALNSKEMNYSKEETFTSPPMDPKTTPPKKDF--- 114
Query: 260 CSPKRLCFILKYGISFLKEKSEFKKHV 286
SPK+L + F + +++++
Sbjct: 115 -SPKQLDLLASRITPFKQSPKNYEENL 140
>ref|NP_224130.1| ATP-DEPENDENT DNA HELICASE [Helicobacter pylori J99]
Length = 623
Score = 25.8 bits (55), Expect = 6.1
Identities = 31/104 (29%), Positives = 44/104 (41%), Gaps = 15/104 (14%)
Query: 527 QLESIETSYKEKLQE-IYRLLQESIT-----IEDTEVKKE---TIFNDEKYINAMLYY-- 575
+L S+E KE ++E + RLL E ++D E K N KYI + Y
Sbjct: 141 KLLSLENLKKEGVKENVARLLLEIFFPTPHFVKDFETNKNFPSQHLNALKYIEMLFYMKN 200
Query: 576 IIRDLLDFRRL----NDNERLKAMVVCFSSKQARLADCLFNEVQ 615
+ R L F N++ERLKA + K R E+Q
Sbjct: 201 LERKKLQFNAKIACPNNSERLKAFIASLPFKLTRDQQNAIKEIQ 244
Score = 25.8 bits (55), Expect = 6.1
Identities = 31/138 (22%), Positives = 60/138 (43%), Gaps = 5/138 (3%)
Query: 783 MNELVKVSRAINTLKERYNLIRTSNDKKILSLKE-KIDIEKIHKISSMLHQKAKHLHALK 841
+ E K+S +K + N +K+LSL+ K + K + +L H +K
Sbjct: 116 LTEFGKISLIFKKVKNHKKI--QENLQKLLSLENLKKEGVKENVARLLLEIFFPTPHFVK 173
Query: 842 NINEPKN-PNDLMILEDLIALLDFKIEFKERKELRFKEQEEITTKQKQAKEILEKIPDQQ 900
+ KN P+ + I +L F ++ ERK+L+F + ++ K + +P +
Sbjct: 174 DFETNKNFPSQHLNALKYIEML-FYMKNLERKKLQFNAKIACPNNSERLKAFIASLPFKL 232
Query: 901 DKEIQKFYKDFSKLLQTP 918
++ Q K+ L +P
Sbjct: 233 TRDQQNAIKEIQSDLTSP 250
>ref|NP_223959.1| putative [Helicobacter pylori J99]
Length = 376
Score = 25.8 bits (55), Expect = 6.1
Identities = 23/89 (25%), Positives = 36/89 (39%), Gaps = 2/89 (2%)
Query: 844 NEPKNPNDLMILEDLIALLDFKIEFKERKELRFKEQEEITTKQKQAKEILEKIPDQQDKE 903
N PKN L D AL E ++ K L K+QE I + ++ KI Q K
Sbjct: 156 NTPKNTLFNRFLRDGNALDSLFTENEQEKIL--KKQENIQLAFQAYAPLMAKICSYQSKF 213
Query: 904 IQKFYKDFSKLLQTPTTSQNFEEISHSYD 932
+ FY + T+ ++ H+ +
Sbjct: 214 VSAFYLYTQLKKELKTSKDTLYKLLHALE 242
>ref|NP_223243.1| putative [Helicobacter pylori J99]
Length = 678
Score = 25.8 bits (55), Expect = 6.1
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 95 DNPNNNLYEMMTELPYKS 112
+NP NNLYE++T+ + +
Sbjct: 271 ENPQNNLYELLTQTSHNN 288
>ref|NP_223218.1| putative [Helicobacter pylori J99]
Length = 227
Score = 25.8 bits (55), Expect = 6.1
Identities = 25/96 (26%), Positives = 38/96 (39%), Gaps = 14/96 (14%)
Query: 942 KEQTTHLLNKYDNDLSYAITNKRLHKHLMEQNISNSAGIFTLLSALKKAIDARIFKRQEI 1001
K+ THLLN + L +K + K L F L A I K Q +
Sbjct: 8 KQVITHLLNSHHEKLQEIYLSKEIDKKL----------FFALKKACPNIIKVDNKKAQSL 57
Query: 1002 LNEEYYLKNAIKAELNNAFKKDPSLKDLEKEKELII 1037
+ K EL A SLK+++K ++L++
Sbjct: 58 AKGGNHQGVLAKVELPLA----ASLKEIKKAQKLLV 89
>ref|NP_223176.1| putative [Helicobacter pylori J99]
Length = 450
Score = 25.8 bits (55), Expect = 6.1
Identities = 32/153 (20%), Positives = 61/153 (38%), Gaps = 35/153 (22%)
Query: 785 ELVKVSRAINTLKERYNLIRTSNDKKILSL-------KEKIDIEKIHKISSMLHQKAKHL 837
++ + +A N I T+N ILS K ++D + K S+ + + +
Sbjct: 153 KIANLRKACNVYSVGVIYIVTTNTLNILSCESFEILEKRELDTSGVTKTSTPFFSRVEGI 212
Query: 838 HA-----LKNINEPKNPNDLMILEDLIALLDFKIEFKERKELRFKEQEEITTKQKQAKEI 892
A L + ++ KN A D ++ ++RKE+R +++EE ++ +EI
Sbjct: 213 DAGTLGKLFSGSQSKN---------YFAYYDALVKKEKRKEVRIEKKEERIDARENKREI 263
Query: 893 --------------LEKIPDQQDKEIQKFYKDF 911
E P ++K QK + F
Sbjct: 264 KQEAIKEPKKANQGTENAPTLEEKNYQKAERKF 296
>ref|NP_222960.1| ADENYLOSUCCINATE SYNTHETASE [Helicobacter pylori J99]
Length = 411
Score = 25.8 bits (55), Expect = 6.1
Identities = 24/109 (22%), Positives = 48/109 (44%), Gaps = 6/109 (5%)
Query: 545 LLQESITIEDTEVKKETIFNDEKYINAMLYYIIRDLLDFRRLNDNERLKAMVVCFSSKQA 604
L +E ED E + +F ++ + Y+ +D + N K + C+ K A
Sbjct: 78 LCEEISAFEDLENR---LFISDRAHVILPYHAKKDAFKEKSQNIGTTKKGIGPCYEDKMA 134
Query: 605 RLADCLFNEVQEKVLQE--NPNLRILNKLKSSLILHDEQEVKEKVHSFK 651
R + + + +K+L+E N + + + K + L + E K+ + FK
Sbjct: 135 RSGIRMGDLLDDKILEEKLNAHFKAIEPFKKAYDLGENYE-KDLMGYFK 182
>ref|NP_223781.1| ATP synthase F0, subunit b [Helicobacter pylori J99]
Length = 171
Score = 25.4 bits (54), Expect = 7.9
Identities = 23/99 (23%), Positives = 40/99 (40%), Gaps = 7/99 (7%)
Query: 926 EISHSYDAIISQLKQHKEQTTHLLNKYDN-----DLSYAITNKRLHKHLMEQNISNSAGI 980
EIS + I +QLK KE LL + + +L + NK + + + +
Sbjct: 61 EISKRLEEIQAQLKVSKEHKKKLLKELEQAKEKAELIISDANKEAYTITQKYELQTKMDV 120
Query: 981 FTLLSALKKAIDARIFKRQEILNEEYY--LKNAIKAELN 1017
L+ K +D + K + L E + L+ + K N
Sbjct: 121 ENLIKNSKALMDLEVKKIKRELVESVFKDLRESKKVSFN 159
>ref|NP_223664.1| putative [Helicobacter pylori J99]
Length = 466
Score = 25.4 bits (54), Expect = 7.9
Identities = 15/66 (22%), Positives = 31/66 (46%), Gaps = 9/66 (13%)
Query: 203 DITPPPPQKNDQNHQN--DQNHRSLEEIQKSVLNEFNLKDTDTPK-------SPKDTPTN 253
DI P K+D+ HQ +Q + +E++ ++ L+ + + K S + P++
Sbjct: 398 DIIPADALKDDKEHQENLEQKQQEIEKVYRAKLDAYGFPNGSVGKASGVNSNSNNEAPSS 457
Query: 254 SLLTSF 259
+ SF
Sbjct: 458 DNIQSF 463
>ref|NP_223562.1| putative FLAGELLAR BASAL-BODY/ROD/HOOKPROTEIN [Helicobacter pylori
J99]
Length = 605
Score = 25.4 bits (54), Expect = 7.9
Identities = 26/93 (27%), Positives = 44/93 (46%), Gaps = 4/93 (4%)
Query: 944 QTTHLLNKYDNDLSYAITNKRLHKHLMEQNISNSAGIFTLLSALKKAIDAR-IFKRQEIL 1002
Q + L DN+ AITN++L+ + ++N +FT A K + + Q++L
Sbjct: 227 QDINALANDDNEPIDAITNRKLNVSIQKENGKKEDFVFTYGDAEKGENQFKTLGDLQKLL 286
Query: 1003 NEEYYLK-NAIKAELNNAFKKDPSLKDLEKEKE 1034
E+ L N IK+E + K P L ++ E
Sbjct: 287 KEKTGLDLNLIKSEKD--AKSPPLLLEIANPSE 317
>ref|NP_223055.1| putative [Helicobacter pylori J99]
Length = 778
Score = 25.4 bits (54), Expect = 7.9
Identities = 15/68 (22%), Positives = 36/68 (52%), Gaps = 2/68 (2%)
Query: 753 EDIKNAYDDLFDYPIDDIEGMTSAIVSMSAMNELVKVSRAINTLKERYNLIRTSNDKKIL 812
ED++ + +L + D+E +T A++ + E + A + + +Y+L++ + K
Sbjct: 320 EDLQTSDCNLSGSALLDLENITLALLEQQSSKEKAPLKEAHSQIMHQYHLLK--DTLKNY 377
Query: 813 SLKEKIDI 820
SLK+ + +
Sbjct: 378 SLKDLLHL 385
>ref|NP_222917.1| 90kDa chaperone [Helicobacter pylori J99]
Length = 621
Score = 25.4 bits (54), Expect = 7.9
Identities = 26/102 (25%), Positives = 43/102 (41%), Gaps = 22/102 (21%)
Query: 885 KQKQAKEILEKIP--DQQDKEIQKFYKDFSKLLQTPTTSQNFEEISHSYDAIISQLKQHK 942
+ K+IL +I + +K KFY+ F K+L+ E + + ++K
Sbjct: 354 RSASVKKILSEIERLSKDNKNYHKFYEPFGKVLK--------EGLYGDF--------ENK 397
Query: 943 EQTTHLLNKYDNDLSYAITNKRLHKHLMEQNISNSAGIFTLL 984
E+ LL Y D I+ K ++L E N I+ LL
Sbjct: 398 EKLLELLRFYSKDKGEWISLKEYKENLKE----NQKSIYYLL 435
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 0.133 0.371
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,212,058
Number of Sequences: 1491
Number of extensions: 63827
Number of successful extensions: 412
Number of sequences better than 10.0: 59
Number of HSP's better than 10.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 46
Number of HSP's that attempted gapping in prelim test: 349
Number of HSP's gapped (non-prelim): 115
length of query: 1055
length of database: 494,079
effective HSP length: 87
effective length of query: 968
effective length of database: 364,362
effective search space: 352702416
effective search space used: 352702416
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)