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|15645068|ref|NP_207238.1| DNA topoisomerase I (topA)
[Helicobacter pylori 26695]
(677 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223648.1| topoisomerase I [Helicobacter pylori J99] 521 e-149
ref|NP_223637.1| topoisomerase I [Helicobacter pylori J99] 434 e-123
ref|NP_222829.1| DNA TOPOISOMERASE I [Helicobacter pylori J99] 196 2e-51
ref|NP_223160.1| PUTATIVE POTASSIUM CHANNEL PROTEIN [Helico... 34 0.014
ref|NP_222970.1| HEAT SHOCK PROTEIN [Helicobacter pylori J99] 33 0.031
ref|NP_223892.1| TRYPTOPHANYL-TRNA SYNTHETASE [Helicobacter... 32 0.052
ref|NP_223638.1| putative [Helicobacter pylori J99] 31 0.12
ref|NP_223905.1| NADH oxidoreductase I [Helicobacter pylori... 30 0.15
ref|NP_223441.1| PREPROTEIN TRANSLOCASE SUBUNIT [Helicobact... 30 0.15
ref|NP_223278.1| ASPARTYL-TRNA SYNTHETASE [Helicobacter pyl... 30 0.20
ref|NP_223054.1| septum formation protein [Helicobacter pyl... 30 0.26
ref|NP_222950.1| putative histidine kinase sensor protein [... 29 0.34
ref|NP_223384.1| putative [Helicobacter pylori J99] 29 0.44
ref|NP_223194.1| cag island protein [Helicobacter pylori J99] 29 0.44
ref|NP_223787.1| putative [Helicobacter pylori J99] 28 0.58
ref|NP_224034.1| DNA transfer protein [Helicobacter pylori ... 28 0.76
ref|NP_223561.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [H... 28 0.76
ref|NP_222894.1| putative [Helicobacter pylori J99] 28 0.99
ref|NP_223698.1| LYSIS TOLERANCE PROTEIN [Helicobacter pylo... 27 1.3
ref|NP_223645.1| putative [Helicobacter pylori J99] 27 2.2
ref|NP_223486.1| INOSINE-5'-MONOPHOSPHATE DEHYDROGENASE [He... 27 2.2
ref|NP_223065.1| putative [Helicobacter pylori J99] 27 2.2
ref|NP_222812.1| methyl-accepting chemotaxis protein (MCP) ... 27 2.2
ref|NP_224116.1| putative RIBOFLAVIN-SPECIFIC DEAMINASE [He... 26 2.9
ref|NP_223415.1| putative [Helicobacter pylori J99] 26 2.9
ref|NP_223329.1| glycerol-3-phosphate dehydrogenase [Helico... 26 2.9
ref|NP_223151.1| putative TYPE II DNA MODIFICATION ENZYME (... 26 2.9
ref|NP_223418.1| FUNCTIONAL HOMOLOG OF SRP RECEPTOR [Helico... 26 3.8
ref|NP_223234.1| putative [Helicobacter pylori J99] 26 3.8
ref|NP_223140.1| OLIGOPEPTIDASE [Helicobacter pylori J99] 26 3.8
ref|NP_223895.1| RIBOSOME RECYCLING FACTOR (RIBOSOME RELEAS... 25 4.9
ref|NP_223788.1| putative [Helicobacter pylori J99] 25 4.9
ref|NP_223530.1| putative [Helicobacter pylori J99] 25 4.9
ref|NP_223322.1| putative [Helicobacter pylori J99] 25 4.9
ref|NP_224191.1| PENICILLIN-BINDING PROTEIN [Helicobacter p... 25 6.4
ref|NP_224106.1| TRANSALDOLASE [Helicobacter pylori J99] 25 6.4
ref|NP_223998.1| REPLICATIVE DNA HELICASE [Helicobacter pyl... 25 6.4
ref|NP_223764.1| FLAGELLAR HOOK-ASSOCIATED PROTEIN 1 (HAP1)... 25 6.4
ref|NP_223465.1| putative [Helicobacter pylori J99] 25 6.4
ref|NP_222759.1| phosphomannose isomerase/GDP-mannose pyrop... 25 6.4
ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (... 25 8.4
ref|NP_223915.1| putative [Helicobacter pylori J99] 25 8.4
ref|NP_223628.1| ADENOSYLMETHIONINE-8-AMINO-7-OXONONANOATE ... 25 8.4
ref|NP_223189.1| cag island protein [Helicobacter pylori J99] 25 8.4
ref|NP_223025.1| putative [Helicobacter pylori J99] 25 8.4
ref|NP_222792.1| phosphoglucosamine mutase [Helicobacter py... 25 8.4
ref|NP_222738.1| putative [Helicobacter pylori J99] 25 8.4
>ref|NP_223648.1| topoisomerase I [Helicobacter pylori J99]
Length = 686
Score = 521 bits (1342), Expect = e-149
Identities = 313/653 (47%), Positives = 413/653 (62%), Gaps = 34/653 (5%)
Query: 1 MKDSVIIIESPNKVEKIKQLTGAEVYATIGHFTNLIGVDIENNFACKFEIKEDKAKKINF 60
M +SVIIIESPNKV KI+++TGA+V+ATIGHF L D N F F+ ++K K I
Sbjct: 1 MNNSVIIIESPNKVAKIREITGAKVFATIGHFMQLKSYDENNGFKPTFDYDQEKKKHIFE 60
Query: 61 LINACRDKKVYIATDPDREGYGIGYQFYEKIKNVASEIYRAEFHEITPSGIESGLKNAVL 120
+I AC++KKVYIATDPDREGY IGY FY+KIKNVAS IYRAEF EITPSGI GL+NA+L
Sbjct: 61 MIEACKNKKVYIATDPDREGYAIGYMFYQKIKNVASSIYRAEFFEITPSGINKGLQNALL 120
Query: 121 FSRSNTNLYQSFLGRIASDQVVGFALTSYLRKSLN-LSELSAGRVQTPALALICQRDQEI 179
F +N +YQS L R +D ++GF L+ YL K+L + SAGRVQTP L LI RD+EI
Sbjct: 121 FENTNRQMYQSALARRVADMLLGFTLSPYLGKALGQMKGSSAGRVQTPCLKLIVDRDREI 180
Query: 180 RDFDKLDAEEKVEYQIQANIVCN-EKEAIIKHVRANEKNELVDFKFKDKNEASQFLKDLK 238
F L EKV YQIQA I + +E IKH +EK E + KF DK EA + + LK
Sbjct: 181 EKFKALPENEKVSYQIQAKINDSANREVTIKH--CDEKGE--EIKFNDKEEALKLFESLK 236
Query: 239 DGLGSMSVLVSLKESLSNKEPKKPFTTSKLLSQASKSLKIPTKEIAQLAQKLFEAGLITY 298
D + L LK S+ +PKKPF TS LL +AS L + E+ LAQ LFEAGLITY
Sbjct: 237 DNKACL--LKDLKNSVVETKPKKPFITSTLLEKASSMLGLSISEVQSLAQNLFEAGLITY 294
Query: 299 HRTDSEFLSPEYLKEHEVFFEPIYPSVYQYREYKAGKNSQAEAHEAIRITHPHALKDLEK 358
RTD+E LS E+L E E F+ PIY +Y REYKAGK SQAEAHEAIRITHPH +DLE
Sbjct: 295 IRTDAESLSVEFLDETESFYAPIYKDLYLKREYKAGKQSQAEAHEAIRITHPHTTEDLES 354
Query: 359 VCSDAKISEELALKLYQLIYTNTICSQSRNALYNQYDCIFKIKSESFKLSFKLLKEKGFL 418
+ +A I+ + ALKLYQLI+ TI SQ +NA+Y++ D +FKIK+E FK S K LK GFL
Sbjct: 355 IVYNANITNQDALKLYQLIFERTIESQGKNAIYDKQDLLFKIKNEYFKCSVKGLKSAGFL 414
Query: 419 ------EIEELIQGKEEINREEQESEIENFSLKENDSVPLKEVFIKKIEKPSPKPYKESA 472
E+E ++ N+E++++ F+LK +D + L ++ + I++ +P YKE+
Sbjct: 415 AMFSKKELENDESNDDKDNKEKEQN--AQFNLKIDDVLSLNDLVLSTIKRNAPSAYKEAD 472
Query: 473 FIPLLESEGIGRPSTYASFLDLLLKRKYISI-DTKTNAITPTSQGLEVISFFKKDKEVDF 531
F+ LLE++GIGRPSTYAS+L L+KR+YISI K + ITPT +G V+ F+ +
Sbjct: 473 FVKLLENKGIGRPSTYASYLPTLVKREYISISQDKKHIITPTHKGKRVVEVFENAYQF-I 531
Query: 532 IALTSKDKSKLGNTTKQFEECLDLIMRGEASYEKFMLEVISKLKSTAKFYQTQSTDNNMP 591
I LT TKQ EE LD I+ ++SY F+ + SK K ++ D P
Sbjct: 532 IDLT---------YTKQMEEVLDEIVENKSSYVDFISNLNSKCPKIEKL--ERNDDEIKP 580
Query: 592 TDK-QLELIDKICKDKKLQKPSQEILQNKEK---CSDWIAEHVKEKPSQKQLN 640
+ + Q+ I+ I +D +L S+E KE ++ ++KE K+ N
Sbjct: 581 SSEGQITYIENILRDLQLNL-SEEFKNYKEDNRVAKAFLDRYIKEHEFFKKNN 632
>ref|NP_223637.1| topoisomerase I [Helicobacter pylori J99]
Length = 425
Score = 434 bits (1116), Expect = e-123
Identities = 227/411 (55%), Positives = 291/411 (70%), Gaps = 12/411 (2%)
Query: 2 KDSVIIIESPNKVEKIKQLTGAE-VYATIGHFTNLIGVDIENNFACKFEIKEDKAKK--- 57
K+ V IIESPNK+ KIK+LTG+ V+AT GHF L+ +++ F FEIK+ KK
Sbjct: 3 KNCVFIIESPNKIAKIKELTGSSFVFATGGHFVELVNIEVNKEFNPIFEIKKSTDKKKDR 62
Query: 58 ---INFLINACRDKKVYIATDPDREGYGIGYQFYEKIKNVASEIYRAEFHEITPSGIESG 114
IN +IN C+DK VYIATDPDREGYGIGY+FYEKIKN+A IYR EFHEIT SG+E G
Sbjct: 63 STHINHMINQCKDKVVYIATDPDREGYGIGYKFYEKIKNLAKTIYRTEFHEITKSGVEKG 122
Query: 115 LKNAVLFSRSNTNLYQSFLGRIASDQVVGFALTSYLRKSLNLSELSAGRVQTPALALICQ 174
L NA LFS+SN NLY S+LGRI SDQ +GF LT YLRK++ E+ AGRVQTPAL+++ +
Sbjct: 123 LNNAGLFSQSNLNLYYSWLGRIVSDQFIGFTLTPYLRKNIKNFEVGAGRVQTPALSILVE 182
Query: 175 RDQEIRDFDKLDAEEKVEYQIQANIVCNEKEAIIKHVRANEKNELVDFKFKDKNEASQFL 234
D++I+ F++ + +EK+ Y I+A I + I V N++ F+ K A FL
Sbjct: 183 LDRKIQAFEQKNNDEKLSYSIEAIIDALGSQISITLVEENKRKA-----FETKELAQNFL 237
Query: 235 KDLKDGLGSMSVLVSLKESLSNKEPKKPFTTSKLLSQASKSLKIPTKEIAQLAQKLFEAG 294
DLK+ L ++ L ++++ K P KPFTTS LL ++ L + K+I + AQKLFEAG
Sbjct: 238 NDLKNNLNPLAFLDAIEQKDKEKAPPKPFTTSNLLKDGARILGMGVKQIQEHAQKLFEAG 297
Query: 295 LITYHRTDSEFLSPEYLKEHEVFFEPIYPSVYQYREYKAGKNSQAEAHEAIRITHPHALK 354
LITY RTDSE LS EYL+EHE FFE IYPSVY+YREY+AGKNSQAEAHEAIRITHPH +
Sbjct: 298 LITYIRTDSEALSKEYLQEHEAFFEGIYPSVYEYREYRAGKNSQAEAHEAIRITHPHCYE 357
Query: 355 DLEKVCSDAKISEELALKLYQLIYTNTICSQSRNALYNQYDCIFKIKSESF 405
DL+KVC + I++ LK+Y LI+ NTICSQS+NA+Y FK+K+ F
Sbjct: 358 DLKKVCEEHNITDIDDLKVYTLIFFNTICSQSKNAIYENTVLNFKVKTHRF 408
>ref|NP_222829.1| DNA TOPOISOMERASE I [Helicobacter pylori J99]
Length = 736
Score = 196 bits (497), Expect = 2e-51
Identities = 202/706 (28%), Positives = 313/706 (43%), Gaps = 97/706 (13%)
Query: 5 VIIIESPNKVEKIKQLTGA--EVYATIGHFTNL----IGVDI-ENNFACKFEIKEDKAKK 57
+II+ESP K + IK EV A+ GH +L +G+ I E F + + +D +
Sbjct: 4 LIIVESPAKAKTIKNFLDKNYEVVASKGHVRDLSKFALGIKIDETGFTPNYVVDKDHKEL 63
Query: 58 INFLINACRDKKV-YIATDPDREGYGIGYQFYEKIKNVASEIYRAEFHEITPSGIESGLK 116
+ +I + + YIATD DREG IGY I R FHEIT + I + LK
Sbjct: 64 VKQIIELSKKASITYIATDEDREGEAIGYHVACLIGGKLESYPRIVFHEITQNAILNVLK 123
Query: 117 NAVLFSRSNTNLYQSFLGRIASDQVVGFALTSYLRKSLNLSELSAGRVQTPALALICQRD 176
N Q+ R D++VGF L+S + + LSAGRVQ+ AL L+ R+
Sbjct: 124 TPRKIDMFKVNAQQA---RRLLDRIVGFKLSSLIASKITKG-LSAGRVQSAALKLVIDRE 179
Query: 177 QEIRDFDKLD---AEEKVEYQIQANIVCNEKEAIIKHVRANEKNELVDFKFKDKNEASQF 233
+EIR F L + E ++A ++ + + + EL+D K
Sbjct: 180 KEIRPFKPLTYFTLDALFEPHLEAQLISYKGNKL-------KAQELIDEKKA-------- 224
Query: 234 LKDLKDGLGSMSVLVSLKESLSNKEPKKP-FTTSKLLSQASKSLKIPTKEIAQLAQKLFE 292
+++K+ L S ++S S K P P F TS L AS L + +AQKL+E
Sbjct: 225 -QEIKNELEKESYIISSIIKKSKKSPTPPPFMTSTLQQSASSLLGFSPTKTMSIAQKLYE 283
Query: 293 A--------GLITYHRTDSEFLSPEYLKEHEVFFEPIYPSVY---QYREYKAGKNSQAEA 341
G+ITY RTDS ++ E L+E Y Y + + Y + + EA
Sbjct: 284 GVATPQGVMGVITYMRTDSLNIAKEALEEARAKILKDYGKDYLPPKAKVYSSKNKNAQEA 343
Query: 342 HEAIR----ITHPHALKDLEKVCSDAKISEELALKLYQLIYTNTICSQSRNALYNQYDCI 397
HEAIR I P+ALKD K EEL KLY LIY + SQ ++AL+ +
Sbjct: 344 HEAIRPTSIILEPNALKDYLK-------PEEL--KLYTLIYKRFLASQMQDALFESQSVV 394
Query: 398 FKIKSESFKLSFKLLKEKGFLEIEELIQGKEEINREEQESEIENFSLKENDSVPLKEVFI 457
+ FK S + L G +I + ++++ + N LKEND + L+++
Sbjct: 395 VACEKGEFKASGRKLLFDGHYKI---------LGNDDKDKLLPN--LKENDPIKLEKLES 443
Query: 458 KKIEKPSPKPYKESAFIPLLESEGIGRPSTYASFLDLLLKRKYISIDTKTNAITPTSQGL 517
P Y E++ I +LES GIGRPSTYA + LL R YI ++ K I+
Sbjct: 444 NAHVTEPPARYSEASLIKVLESLGIGRPSTYAPTISLLQNRDYIKVEKK--QISALESAF 501
Query: 518 EVISFFKKDKEVDFIALTSKDKSKLGNTTKQFEECLDLIMRGEASYEKFMLEVISKLKST 577
+VI +K E + SK + L EE LD I + +A Y++ + +
Sbjct: 502 KVIEILEKHFEE---IVDSKFSASL-------EEELDNIAQNKADYQQVLKDFYYPFMD- 550
Query: 578 AKFYQTQSTDNNMPTDKQLELIDKICKDKKLQKPSQEILQNKEKCSDWIA-------EHV 630
+ ++ N+ + K E + C K E+++ + ++IA +++
Sbjct: 551 ----KIEAGKKNIISQKVHEKTGQSC-----PKCGGELVKKNSRYGEFIACNNYPKCKYI 601
Query: 631 KEKPSQKQLNLVKKICEECKLAMPTNKILNDKFAISKWIDKHKKTK 676
K+ + +++CE+C M N F + K TK
Sbjct: 602 KQTENAND-EAKQELCEKCGGEMVQKFSRNGAFLACNNYPECKNTK 646
>ref|NP_223160.1| PUTATIVE POTASSIUM CHANNEL PROTEIN [Helicobacter pylori J99]
Length = 378
Score = 33.9 bits (76), Expect = 0.014
Identities = 27/107 (25%), Positives = 55/107 (51%), Gaps = 5/107 (4%)
Query: 432 REEQESEIENFSLKENDSVPLKEVFIKKIEKPSPKPYKESAFIPLLESEGIGRPSTYASF 491
R + E+ +E F K++ + L+EV + K + KE+ F + ++ IG +
Sbjct: 273 RPDMENILERFINKKDTLLDLEEVIVPKTSWLVLRKLKEAHFREIAKAFVIGITQKDGKY 332
Query: 492 LDLLLKRKYISIDTKTNAITPTSQGL----EVISFFKKDKEVDFIAL 534
+ + I+ ++K + TS+G+ ++I+ +K KEVD+I+L
Sbjct: 333 IPMPDGETIIASESKL-LMVGTSEGVATCKQLITSHQKPKEVDYISL 378
>ref|NP_222970.1| HEAT SHOCK PROTEIN [Helicobacter pylori J99]
Length = 856
Score = 32.7 bits (73), Expect = 0.031
Identities = 48/199 (24%), Positives = 87/199 (43%), Gaps = 23/199 (11%)
Query: 493 DLLLKRKYISIDTKTNAITPTSQGLEVISFFKKDKE------VDFIALTSKDKSKLGNTT 546
D+ L+R++ I +I ++ L+++ K+ E ++ AL + K T
Sbjct: 323 DMALQRRFQPILLNEPSI---NEALQILRGLKETLETHHNITINDSALIASAKLSSRYIT 379
Query: 547 KQF--EECLDLIMRGEASYEKFMLEVISKLKSTAKFYQTQSTDNNMPTDKQ-LELIDKIC 603
+F ++ +DLI G A + M +KL S + Q + +KQ LE+ +K
Sbjct: 380 DRFLPDKAIDLIDEGAAQLKMQMESEPAKLSSVKRSIQ------RLEMEKQALEMENKES 433
Query: 604 KDKKLQKPSQEILQNKEKCSDWIAEHVKEKPSQKQLNLVKKICEECKLAMPTNKILND-- 661
K++Q+ +E+ KE+ A+ EK K+++ +K E K K D
Sbjct: 434 NHKRMQEILKELSDLKEEKIQLEAQFENEKEVFKEISRLKMEMEGLKKEAERFKRNGDYQ 493
Query: 662 ---KFAISKWIDKHKKTKK 677
+ SK +K KK K+
Sbjct: 494 QAAEIEYSKIPEKEKKEKE 512
>ref|NP_223892.1| TRYPTOPHANYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 326
Score = 32.0 bits (71), Expect = 0.052
Identities = 27/122 (22%), Positives = 50/122 (40%), Gaps = 1/122 (0%)
Query: 108 PSGIESGLKNAVLFSRSNTNLYQSFLGRIASDQVVGFALTSYLRKSLNLSELSAGRVQTP 167
P + GL N + S+ LYQS L + DQ LT + + N + +V P
Sbjct: 118 PKSVNVGLFNYPILMASDILLYQSDLVPVGEDQKQHLELTRNVAEKFNRDFGNCFKVPEP 177
Query: 168 ALALICQRDQEIRDFDKLDAEEKVEYQIQANIVCNEKEAIIKHVRANEKNELVDFKFKDK 227
+A + R + D K+ + + A + +E + I+K ++ + + F +
Sbjct: 178 LIAKVGARVMGLDD-PKVKMSKSHKGANHAIFLLDEPDVIVKKIKKAATDSMGVIAFDET 236
Query: 228 NE 229
E
Sbjct: 237 RE 238
>ref|NP_223638.1| putative [Helicobacter pylori J99]
Length = 93
Score = 30.8 bits (68), Expect = 0.12
Identities = 21/79 (26%), Positives = 39/79 (48%), Gaps = 3/79 (3%)
Query: 596 LELIDKICKDKKLQKPSQEILQNKEKCSDWIAEHVKEKPSQKQLNLVKKICEECKLAMPT 655
L+L+ I K+L + +N + + + P++KQLN V+ I E+ +
Sbjct: 11 LDLMQNI--QKRLGTEISNLYRNNSNNNASVTKKEMIPPTEKQLNFVETI-EKTLQIKAS 67
Query: 656 NKILNDKFAISKWIDKHKK 674
+ DKFA ++I++H K
Sbjct: 68 DMTKKDKFACMRFIEEHSK 86
>ref|NP_223905.1| NADH oxidoreductase I [Helicobacter pylori J99]
Length = 849
Score = 30.4 bits (67), Expect = 0.15
Identities = 29/77 (37%), Positives = 37/77 (47%), Gaps = 11/77 (14%)
Query: 421 EELIQGKEEINREEQESEIENFSLKENDSVPLKEVFIKKIEKPSPKPYKESAFIPLLESE 480
EE + KE N+EE ++E + KEN + EV +KIE P+ Y LLE
Sbjct: 482 EEAVASKE--NKEENKTEAA--APKENQTENKTEVKEEKIEVPTKTTYL------LLEEA 531
Query: 481 GIGRPSTYASFLDLLLK 497
GI TY L LL K
Sbjct: 532 GINL-ETYEKILALLQK 547
>ref|NP_223441.1| PREPROTEIN TRANSLOCASE SUBUNIT [Helicobacter pylori J99]
Length = 865
Score = 30.4 bits (67), Expect = 0.15
Identities = 22/66 (33%), Positives = 38/66 (57%), Gaps = 9/66 (13%)
Query: 391 YNQYDCIFKIKSESFKLSFKLLKEKGFLEIEEL-----IQGKEEINREEQESEIENFS-L 444
YNQ D + + K ES+ L +L+ G ++IE + IQ + E + + E ++NFS
Sbjct: 750 YNQKDPLVEYKKESYNLFLELI---GDIKIEAIQTFSKIQFENEQDSSDAERYLDNFSEE 806
Query: 445 KENDSV 450
+E++SV
Sbjct: 807 REHESV 812
>ref|NP_223278.1| ASPARTYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 579
Score = 30.0 bits (66), Expect = 0.20
Identities = 17/36 (47%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 392 NQYDCIFKIKSESFKLSFKLLKEKGFLEIEELIQGK 427
N Y+ IFK++SE ++ L +KGFLEIE I K
Sbjct: 133 NAYE-IFKLRSEVALITRNALAQKGFLEIETPILSK 167
>ref|NP_223054.1| septum formation protein [Helicobacter pylori J99]
Length = 844
Score = 29.6 bits (65), Expect = 0.26
Identities = 25/72 (34%), Positives = 36/72 (49%), Gaps = 7/72 (9%)
Query: 397 IFKIKSESFKLSFKLLKEKGFLEIEELIQGKEEINREEQESEIENFSLKENDSVPLKEVF 456
I+K ++F +F L KE GF Q KE N +E+E+ EN + EN + P +E F
Sbjct: 157 IYKQCLQAFSPNFSLKKE-GFENTPSDSQKKETNNDKEKENLKEN-PIDENHNTPNEESF 214
Query: 457 IKKIEKPSPKPY 468
+ P PY
Sbjct: 215 L-----AIPTPY 221
>ref|NP_222950.1| putative histidine kinase sensor protein [Helicobacter pylori J99]
Length = 381
Score = 29.3 bits (64), Expect = 0.34
Identities = 17/48 (35%), Positives = 24/48 (49%)
Query: 400 IKSESFKLSFKLLKEKGFLEIEELIQGKEEINREEQESEIENFSLKEN 447
+K+ K S K KG LE E + E +E E +ENFS K++
Sbjct: 12 LKNSHLKHSDKASSFKGLLENENNVISLENFKPKESEDLLENFSNKKD 59
>ref|NP_223384.1| putative [Helicobacter pylori J99]
Length = 355
Score = 28.9 bits (63), Expect = 0.44
Identities = 33/164 (20%), Positives = 69/164 (41%), Gaps = 6/164 (3%)
Query: 303 SEFLSPEYLKEHEVFFEPIYPSVYQYREYKAGKNSQAEAHEAIRITHPHALKDLEKVCSD 362
S + S EYL E F ++ Y Y N+ A + + L D +
Sbjct: 166 SVYKSNEYLTMQENFMRFVFGKRLFYLLYPDSINNIIHAELELLQSENDLLNDFTSII-- 223
Query: 363 AKISEELALKLYQLIYTNTICSQSRNALYNQYDCIFKIKSESFKLSFKLLKEKGFLEIEE 422
K ++ L ++Y + + ++ N YD +K++ +SF L K+ I+
Sbjct: 224 VKYTKTLEYEIYT--FAKQVLLKACEKDPNLYDLAYKVQGKSFTLKDFFAKKPNLGSIKL 281
Query: 423 LIQ-GKEEINREEQESEIENFSLKENDSVPLKEVFIKKIEKPSP 465
L++ K + + EE N+ +++ S+ ++ + K + + +P
Sbjct: 282 LLKHEKVQDHLEENLKRFINYPFQKSLSL-IQNIRNKAVHQKAP 324
>ref|NP_223194.1| cag island protein [Helicobacter pylori J99]
Length = 1819
Score = 28.9 bits (63), Expect = 0.44
Identities = 98/521 (18%), Positives = 195/521 (36%), Gaps = 74/521 (14%)
Query: 170 ALICQRDQEIRDFDKLDAEEKVEYQIQANIVCNEKEAIIKHVRANEKNELVDFKFKDKNE 229
AL C ++ + D ++ + + + +Q ++ + K + +NE K+K E
Sbjct: 472 ALDCLKNAKT-DEERKECLKNIPQDLQKELLADMSVKAYKDCVSRARNE------KEKQE 524
Query: 230 ASQFLKDLKDGLGSMSVLVSLKESLSNKEPK-------KPFTTSKLLSQASKSLKIPTKE 282
+ L L L LK + +++E K K + L ++ K+ K +
Sbjct: 525 CEKLLTPEAKKLLENQALDCLKNAKTDEERKECLKNLPKDLQSDILAKESLKAYKDCASQ 584
Query: 283 IAQLAQKLFEAGLITYHRTDSEFLSPEYLKEHEVFFEPIYPSVYQYREYKAGKNSQAEAH 342
A+K + + L+PE K E E SV Y + + ++AE
Sbjct: 585 AKTEAEK----------KECEKLLTPEAKKLLE---EEAKESVKAYLDCVSQAKTEAEKK 631
Query: 343 EAIRITHPHALKDLEKVCSD--------AKISEELALKLYQLIYTNTICSQSRNALYNQ- 393
E ++ P A K LE+ +K E K + + T +++ L NQ
Sbjct: 632 ECEKLLTPEAKKKLEEAKKSVRAYLDCVSKAKNEAERKECEKLLT----PEAKKLLENQA 687
Query: 394 YDCIFKIKSESFK----------LSFKLL-KEKGFLEIEELIQGKEEINREEQES----E 438
DC+ K++ + L K+L KE + ++ + + K E R+E E E
Sbjct: 688 LDCLKNAKTDEERKECLKDLPKDLQKKVLAKESVRVYLDCVSKAKNEAERKECEKLLTPE 747
Query: 439 IENFSLKENDSVPLKEVFIKKIEKPSPKPYKESAFIPLLESEGIGRPSTYASFLDLLLKR 498
+ SV + + + K E P + ++LD + K
Sbjct: 748 ARKLLEEAKKSVKAYKDCVLRARNEKEKQECEKLLTPEARKLLEESKKSVKAYLDCVSKA 807
Query: 499 KYISIDTK-TNAITPTSQGL-----EVISFFKKDKEVDFIALTSKDKSKLGNTTKQFEEC 552
K + + +TP ++ L E + +K D ++ +K K E
Sbjct: 808 KNEAERKECEKLLTPEARKLLEEAKESVKAYK-----DCVSRARNEKEKQECEKLLTPEA 862
Query: 553 LDLIMRGEASYEKFMLEVISKLKSTAKFYQTQSTDNNMPTDKQLELIDKICKDKKLQKPS 612
L+ + S + + L+ +SK K+ A+ + + + T + +L+++ + K K
Sbjct: 863 RKLLEESKKSVKAY-LDCVSKAKNEAERKECE----KLLTPEARKLLEEAKESVKAYKDC 917
Query: 613 QEILQN---KEKCSDWIAEHVKEKPSQKQLNLVKKICEECK 650
+N K++C + K+ + L+ +K E +
Sbjct: 918 VSRARNEKEKQECEKLLTPEAKKLLENQALDCLKNAKTEAE 958
>ref|NP_223787.1| putative [Helicobacter pylori J99]
Length = 759
Score = 28.5 bits (62), Expect = 0.58
Identities = 32/135 (23%), Positives = 61/135 (44%), Gaps = 17/135 (12%)
Query: 546 TKQFEECLDLIMRGEASYEKFMLEVISKLKSTAKFYQTQSTDNNMPTDKQLELIDKICKD 605
T++F++ L+ + SY++ + I K+K D TD+ LE +D+I K
Sbjct: 292 TEEFKKQLESYF--DTSYQE-STDTIKKMKE----------DYTNKTDEALERLDEIIKT 338
Query: 606 KKLQKPSQEILQNKEKCSDWIAEHVKEKPSQKQLNLVKKICEECKLAMPTNKILNDKFAI 665
++ ++ +N ++ + + +K QK ++ K++ KL N+I K I
Sbjct: 339 EQNNSQTKLDTENLKRIIETLRSKIKAN-QQKMIDKSKEMSRNFKLDSNKNEIDAIKDLI 397
Query: 666 SK---WIDKHKKTKK 677
K I H +T K
Sbjct: 398 KKANEQITNHNETIK 412
>ref|NP_224034.1| DNA transfer protein [Helicobacter pylori J99]
Length = 304
Score = 28.1 bits (61), Expect = 0.76
Identities = 26/112 (23%), Positives = 48/112 (42%), Gaps = 1/112 (0%)
Query: 336 NSQAEAHEAIRITHPHALKDLEKVCSDAKISEELALKLYQLIYTNTICSQSRNALYNQYD 395
N+Q + + P +L+D S+ + + LALK + ++ + S + L D
Sbjct: 101 NNQITLNIRVPRLKPLSLEDFTFKVSNPESLKNLALKGHNILISGETSSGKTSLLNALLD 160
Query: 396 CIFKIKSESFKLSFKLLKEKGFLEIEELIQGKEEINREEQESEIENFSLKEN 447
C+ K + + L K F L+ GK+E R E + N +++ N
Sbjct: 161 CVNKDERVVSVEDSQELDLKAFSNCVGLLVGKQENTRFNYEDAL-NMAMRLN 211
>ref|NP_223561.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [Helicobacter pylori J99]
Length = 363
Score = 28.1 bits (61), Expect = 0.76
Identities = 12/67 (17%), Positives = 35/67 (51%)
Query: 579 KFYQTQSTDNNMPTDKQLELIDKICKDKKLQKPSQEILQNKEKCSDWIAEHVKEKPSQKQ 638
K + ++ + + K E +D+ D+K QKP ++ + ++ +++ +KP +++
Sbjct: 285 KLSEQKALEQKISEQKPQEPLDQKLSDQKPQKPLEQKISEQKPLDQKLSDQKPQKPLEQK 344
Query: 639 LNLVKKI 645
++ K +
Sbjct: 345 ISEQKPL 351
>ref|NP_222894.1| putative [Helicobacter pylori J99]
Length = 268
Score = 27.7 bits (60), Expect = 0.99
Identities = 23/88 (26%), Positives = 41/88 (46%), Gaps = 9/88 (10%)
Query: 589 NMPTDKQLELIDKICKDKKLQKPSQEILQNKEKCSDWIAEHVKEKPSQKQLNLVKKICEE 648
NM + KQ + +DK+ + K Q+ + ++ + +++ SQK+L V+ I
Sbjct: 80 NMDSPKQEDKLDKVVDNIKKQESENSMPIQTDQAQMEMKTTEEKQESQKELKAVEPI--- 136
Query: 649 CKLAMPTNKILNDKFAISKWIDKHKKTK 676
M T K + A++K HKK K
Sbjct: 137 ---PMSTQK---ESQAVAKKETPHKKPK 158
>ref|NP_223698.1| LYSIS TOLERANCE PROTEIN [Helicobacter pylori J99]
Length = 274
Score = 27.3 bits (59), Expect = 1.3
Identities = 54/257 (21%), Positives = 91/257 (35%), Gaps = 42/257 (16%)
Query: 413 KEKGFLEIEELIQGKEEINREEQESEIE-----------------NFSLKENDSVPLKEV 455
K + L LI +EINR E+ ++ + + D LK
Sbjct: 24 KNQNSLIFGSLIHNAKEINRLEKNFNVKIEEDPKKIPKNKSVIIRTHGIPKQDLEYLKNK 83
Query: 456 FIKKIEKPSPKPYKESAFIPLLESEGIGRPSTYASFLDLLLKRKYISIDTKTNAITPTSQ 515
+K + P K + + EG F D+ I TN +
Sbjct: 84 GVKITDATCPYVIKPQQIVESMSKEGY----QIVLFGDINHPEVKGVISYATNQALVVNS 139
Query: 516 GLEVISFFKKDKEVDFIALTSKDKSKLGNTTKQF-EECLDL----IMRGEASYEKFMLEV 570
LE + K ++V ++ T+K KL E C ++ + SY +
Sbjct: 140 -LEELQEKKLQRKVALVSQTTKQTPKLLQIASYLVERCTEVRIFNTICNATSYNQKAALD 198
Query: 571 ISKLKSTAKFYQTQSTDNNMPTDKQLELIDKICKDKKLQKPSQEI----LQNKEKCS--- 623
+SK +++ N T + L + + CKD L + E+ ++K+ C
Sbjct: 199 LSKEVDIMIVVGGKTSSN---TKQLLSIAKQHCKDSYLVEDENELELAWFKDKKLCGITA 255
Query: 624 -----DWIAEHVKEKPS 635
DWI E+VK+K S
Sbjct: 256 GASTPDWIIENVKQKIS 272
>ref|NP_223645.1| putative [Helicobacter pylori J99]
Length = 2231
Score = 26.6 bits (57), Expect = 2.2
Identities = 33/116 (28%), Positives = 50/116 (42%), Gaps = 20/116 (17%)
Query: 182 FDKLDAEEKVEYQIQANIVCNEKEAI-IKH--------VRANEKNELVDFKFKDKNEASQ 232
++K ++ +YQ+ N KE I I+H VR NE NEL + KDK + +
Sbjct: 1187 YEKQYGDKMTDYQLS-----NLKEDIKIEHLSGAYEVFVRNNELNELYGIRHKDKPHSYK 1241
Query: 233 --FLKDLKDGLGSMSVLVSLKESLSNKEPKKPFTT----SKLLSQASKSLKIPTKE 282
F L L + + V + N K+ F T S L Q ++ LK K+
Sbjct: 1242 VPFESLLNKVLNNKDLSVKYAQVDPNDPKKEIFITDEEQSNLARQKAEELKEAFKD 1297
>ref|NP_223486.1| INOSINE-5'-MONOPHOSPHATE DEHYDROGENASE [Helicobacter pylori J99]
Length = 481
Score = 26.6 bits (57), Expect = 2.2
Identities = 13/42 (30%), Positives = 21/42 (49%)
Query: 88 YEKIKNVASEIYRAEFHEITPSGIESGLKNAVLFSRSNTNLY 129
Y+ KN+ AEF EIT +G++ + V ++ N Y
Sbjct: 439 YQGAKNILELYQNAEFVEITSAGLKESHVHGVDITKEAPNYY 480
>ref|NP_223065.1| putative [Helicobacter pylori J99]
Length = 381
Score = 26.6 bits (57), Expect = 2.2
Identities = 20/65 (30%), Positives = 30/65 (45%), Gaps = 14/65 (21%)
Query: 351 HALKDLEKVCSDAKISEELALKLYQLIYTNTICSQSRNALYNQYDCIFKIKSESFKLSFK 410
H ++ + K+CS+ ++ EEL L Q + N I S S N + KL K
Sbjct: 197 HMIQAVSKICSNNQLEEELNKHLNQ--FDNNIQSISFNT------------NNQLKLKVK 242
Query: 411 LLKEK 415
+KEK
Sbjct: 243 NIKEK 247
>ref|NP_222812.1| methyl-accepting chemotaxis protein (MCP) [Helicobacter pylori J99]
Length = 675
Score = 26.6 bits (57), Expect = 2.2
Identities = 14/48 (29%), Positives = 23/48 (47%)
Query: 230 ASQFLKDLKDGLGSMSVLVSLKESLSNKEPKKPFTTSKLLSQASKSLK 277
+S F KDL + ++ V E SN + K TSK + + S++
Sbjct: 484 SSNFAKDLANDSANLKECVQNLEKASNSQHKSLMETSKTIENITTSIQ 531
Score = 25.0 bits (53), Expect = 6.4
Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 2/55 (3%)
Query: 7 IIESPNKVEKIKQLTGAEVYATIGHFTNLIGVDIENNFACKFEIKEDKAKKINFL 61
++ S NK + K +T E+Y ++ TN + +EN E + + K NFL
Sbjct: 211 VLLSANKSLQDKSIT--EIYKSVPKATNEVMAILENGSKATLEYLDPFSHKENFL 263
>ref|NP_224116.1| putative RIBOFLAVIN-SPECIFIC DEAMINASE [Helicobacter pylori J99]
Length = 344
Score = 26.2 bits (56), Expect = 2.9
Identities = 28/93 (30%), Positives = 37/93 (39%), Gaps = 19/93 (20%)
Query: 331 YKAGKNSQAE---AHEAIRITHPHALKDLEKVCSDAKISEELALKLYQLIYTNTICSQSR 387
+K K AE A A++I PH DLEK+ D KI + + ++
Sbjct: 45 HKKAKTPHAEVLAAKSALKILRPHLKSDLEKL-EDPKILSDF------------LKTRHD 91
Query: 388 NALYNQYDCIFKIKSESFKLSFKLLKEKGFLEI 420
NA DC+F I E K G LEI
Sbjct: 92 NAF---KDCVFLITLEPCNSYGKTPACSGLLEI 121
>ref|NP_223415.1| putative [Helicobacter pylori J99]
Length = 529
Score = 26.2 bits (56), Expect = 2.9
Identities = 17/62 (27%), Positives = 28/62 (44%), Gaps = 3/62 (4%)
Query: 400 IKSESFKLSFKLLKEKGFLEIEELIQGKEEINREEQESEIENFSLKENDSVPLKEVFIKK 459
+K S K + K F+E EE+ +E ++Q EN +L+ KE +K
Sbjct: 39 LKGASAKAKLMEFQAKSFVEAEEMRMKSQECKLQQQ---YENKNLQLQTHFDKKEAHLKH 95
Query: 460 IE 461
+E
Sbjct: 96 LE 97
>ref|NP_223329.1| glycerol-3-phosphate dehydrogenase [Helicobacter pylori J99]
Length = 433
Score = 26.2 bits (56), Expect = 2.9
Identities = 9/22 (40%), Positives = 17/22 (76%)
Query: 453 KEVFIKKIEKPSPKPYKESAFI 474
K++++K++EK +PK Y S F+
Sbjct: 280 KDLYVKRLEKITPKIYLASVFL 301
>ref|NP_223151.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
[Helicobacter pylori J99]
Length = 309
Score = 26.2 bits (56), Expect = 2.9
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 291 FEAGLITYHRTDSEFLSPEYLKEHEVFFEPIYP 323
FE LI Y D +L P Y+ E+ F+ IYP
Sbjct: 192 FEEVLIAYPN-DFFYLDPSYVLENSKMFKGIYP 223
>ref|NP_223418.1| FUNCTIONAL HOMOLOG OF SRP RECEPTOR [Helicobacter pylori J99]
Length = 293
Score = 25.8 bits (55), Expect = 3.8
Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 3/82 (3%)
Query: 491 FLDLLLKRKYISIDTKTNAITPTSQGLEVISFFKKDKEVDFIALTSKDKSKLGNTTKQFE 550
F ++ K K + K P + E++ F D + D I K L T KQ E
Sbjct: 5 FKKIVNKIKGEEVKEKKRESVPKEELEEILIGF--DIQYDLIESLLKHLGDL-ITPKQLE 61
Query: 551 ECLDLIMRGEASYEKFMLEVIS 572
L +RGE+ Y+K L+ I+
Sbjct: 62 VALLRFVRGESYYDKTRLKTIT 83
>ref|NP_223234.1| putative [Helicobacter pylori J99]
Length = 366
Score = 25.8 bits (55), Expect = 3.8
Identities = 19/63 (30%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 219 LVDFKFKDK--NEASQFLKDLKDGLGSMSVLVSLKESLSNKEPKK--PFTTSKLLSQASK 274
L D DK + + LK KD + +SLK L +P K P TS+ + K
Sbjct: 135 LADIATLDKRIDRLQKALKSSKDAKNLLECALSLKTHLEELKPAKTFPLNTSEAFLELDK 194
Query: 275 SLK 277
L+
Sbjct: 195 ELR 197
>ref|NP_223140.1| OLIGOPEPTIDASE [Helicobacter pylori J99]
Length = 578
Score = 25.8 bits (55), Expect = 3.8
Identities = 19/72 (26%), Positives = 32/72 (44%), Gaps = 9/72 (12%)
Query: 220 VDFKFKDKNEASQFLKDLKDGLGSMSVLVSLKESLSNKEPKKPFTT---------SKLLS 270
++FK D + F+K KD ++ L+ K+ N + +K S+L
Sbjct: 102 IEFKNLDAKKQLAFIKKCKDHAFYLNNLIEKKKHTLNLDEEKIALALSPVGVGAFSRLFD 161
Query: 271 QASKSLKIPTKE 282
+ SLKIP +E
Sbjct: 162 EHFSSLKIPFEE 173
>ref|NP_223895.1| RIBOSOME RECYCLING FACTOR (RIBOSOME RELEASING FACTOR) (RRF)
[Helicobacter pylori J99]
Length = 185
Score = 25.4 bits (54), Expect = 4.9
Identities = 39/189 (20%), Positives = 77/189 (40%), Gaps = 15/189 (7%)
Query: 217 NELVDFKFKDKNEASQFLKDLKDGLGSMSVLVSLKESLSNKEPKKPFTTSKLLSQASKSL 276
NE D K ++ L+ S+++L +K P ++S + +L
Sbjct: 7 NETKDLMQKSIQALNRDFSTLRSAKVSVNILDHIKVDYYGT-PTALNQVGSVMSLDATTL 65
Query: 277 KIPTKE---IAQLAQKLFEAGLITYHRTDSEFLSPEYLKEHEVFFEPIYPSVYQYREYKA 333
+I E + ++ + + EA + D E + ++FF P+ + K
Sbjct: 66 QISPWEKNLLKEIERSIQEANIGVNPNNDGETI--------KLFFPPMTTEQRKLIA-KD 116
Query: 334 GKNSQAEAHEAIRITHPHALKDLEKVCSDAKISEELALKLYQLI--YTNTICSQSRNALY 391
K +A A+R T A ++K+ D +ISE+ + K + I T+ + ++
Sbjct: 117 AKAMGEKAKVAVRNTRQDANNKVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVK 176
Query: 392 NQYDCIFKI 400
N+ D I K+
Sbjct: 177 NKEDAILKV 185
>ref|NP_223788.1| putative [Helicobacter pylori J99]
Length = 433
Score = 25.4 bits (54), Expect = 4.9
Identities = 38/151 (25%), Positives = 61/151 (40%), Gaps = 33/151 (21%)
Query: 86 QFYEKIKNVASEIYRAEFHEITPSGIESGLKNAVLFSRSNTNLYQSFLGRIASDQVVGFA 145
QF E +K ++ + E +I IE KNA L + L Q L
Sbjct: 78 QFDEAVKQASALALQDERAKI----IEEARKNAFLEQQKGLELLQKELDE---------- 123
Query: 146 LTSYLRKSLNLSELSAGRVQTPALALICQRDQEIRDFDKLDAEEKVEYQIQANIVCNEKE 205
KS + EL + L + + E K + E+K+ +++ E+E
Sbjct: 124 ------KSKQVQELHQKEAEIERLK---RENNEAESRLKAENEKKLNEKLEL-----ERE 169
Query: 206 AIIKHVRANEKNELVDFKFKDKNEASQFLKD 236
I K + +EKNEL KFK + E + L++
Sbjct: 170 KIEKAL--HEKNEL---KFKQQEEQLEMLRN 195
>ref|NP_223530.1| putative [Helicobacter pylori J99]
Length = 243
Score = 25.4 bits (54), Expect = 4.9
Identities = 14/37 (37%), Positives = 21/37 (55%), Gaps = 2/37 (5%)
Query: 419 EIEELIQGKEEINREEQESEIENF--SLKENDSVPLK 453
+IEE++Q E E+ S++ENF L D V L+
Sbjct: 88 DIEEILQSSEATKWEKIYSDVENFQHDLASLDQVELR 124
>ref|NP_223322.1| putative [Helicobacter pylori J99]
Length = 413
Score = 25.4 bits (54), Expect = 4.9
Identities = 11/42 (26%), Positives = 20/42 (47%)
Query: 573 KLKSTAKFYQTQSTDNNMPTDKQLELIDKICKDKKLQKPSQE 614
K+K ++K Q Q NN P ++ + + + K PS +
Sbjct: 96 KIKGSSKGVQNQGVQNNAPKPEEKDTTPQATEKNKETSPSSQ 137
>ref|NP_224191.1| PENICILLIN-BINDING PROTEIN [Helicobacter pylori J99]
Length = 588
Score = 25.0 bits (53), Expect = 6.4
Identities = 46/208 (22%), Positives = 91/208 (43%), Gaps = 36/208 (17%)
Query: 412 LKEKGFLEIEELIQGKEEINREEQESEIENFSLKENDSVPLKEVFIKKIEKPSPKPYKES 471
LK+K LE E+IQ + +E+ + N+ KEN L + K+ P +S
Sbjct: 79 LKQKELLEKIEVIQ--KFFPNFPKETLLNNYQ-KENS---LYNHNLIKVVGFIPYATMQS 132
Query: 472 AFIPLLESEGIGRPSTYASFLDLLLKRKYISIDTKTNAITPTSQGLEVISFFKKDKEVDF 531
+ L++++GI F+ L KR Y + ++ + G+ + K D+E +
Sbjct: 133 LYTKLIQTQGI--------FVRPLDKRYYPNNALASHVLGYV--GVASLQDLKDDEENQY 182
Query: 532 IALTSKDKSKLGNTTKQFEECLDLIMRGEASYEKFMLEVISKLKSTAKFYQTQSTDNNMP 591
+ K E+ + ++G+ Y+ + +++ +T + S +N++
Sbjct: 183 SQIVGKTG---------IEKEYNKFLQGKVGYKIIHVNALNQELATLEVVPP-SANNHL- 231
Query: 592 TDKQLELIDKICKDKKLQKPSQEILQNK 619
QL L DK+LQK + ++ +NK
Sbjct: 232 ---QLSL------DKRLQKEADKLFENK 250
>ref|NP_224106.1| TRANSALDOLASE [Helicobacter pylori J99]
Length = 316
Score = 25.0 bits (53), Expect = 6.4
Identities = 15/52 (28%), Positives = 26/52 (49%), Gaps = 1/52 (1%)
Query: 256 NKEPKKPFTTSKLLSQASKSLKIPTKEIAQLAQKLFEAGLITYHRTDSEFLS 307
N E + P +++ K LK ++ AQKL + GLI + ++ + LS
Sbjct: 264 NTECQTPLKITEI-EAFKKELKTHNIDLENTAQKLLKEGLIAFKQSFEKLLS 314
>ref|NP_223998.1| REPLICATIVE DNA HELICASE [Helicobacter pylori J99]
Length = 486
Score = 25.0 bits (53), Expect = 6.4
Identities = 16/49 (32%), Positives = 24/49 (48%)
Query: 172 ICQRDQEIRDFDKLDAEEKVEYQIQANIVCNEKEAIIKHVRANEKNELV 220
I Q E DKL E KVE + ++ NE+ I K + E+ E++
Sbjct: 393 IYQMRAEDNKIDKLKKEGKVEEAQELHLKVNEERRIHKQNGSIEEAEII 441
>ref|NP_223764.1| FLAGELLAR HOOK-ASSOCIATED PROTEIN 1 (HAP1) [Helicobacter pylori
J99]
Length = 606
Score = 25.0 bits (53), Expect = 6.4
Identities = 24/108 (22%), Positives = 43/108 (39%), Gaps = 26/108 (24%)
Query: 209 KHVRANEKNELVDFKFKDKNEASQFLKDLKDG----------------------LGSMSV 246
++ +AN +N D +F EAS + D+ +
Sbjct: 77 RYTKANYENTYYDTEFSHLKEASAYFPDIDEASLFTDLQDYFNSWKELSKNAKDSAQKQA 136
Query: 247 LVSLKESLSN--KEPKKPFTTSKLLSQASKSLKIPTKEIAQLAQKLFE 292
L E+L++ K+ ++ TT L +AS+ LK KE+ L ++ E
Sbjct: 137 LAQKTEALTHNIKDTRERLTT--LQHKASEELKSVIKEVNSLGSQIAE 182
>ref|NP_223465.1| putative [Helicobacter pylori J99]
Length = 108
Score = 25.0 bits (53), Expect = 6.4
Identities = 12/32 (37%), Positives = 18/32 (55%)
Query: 352 ALKDLEKVCSDAKISEELALKLYQLIYTNTIC 383
ALK EK C + + S+E +K YT+ +C
Sbjct: 72 ALKISEKPCEEIQFSKEQKIKQLLEEYTHKLC 103
>ref|NP_222759.1| phosphomannose isomerase/GDP-mannose pyrophosphorylase
[Helicobacter pylori J99]
Length = 470
Score = 25.0 bits (53), Expect = 6.4
Identities = 20/103 (19%), Positives = 45/103 (43%), Gaps = 7/103 (6%)
Query: 340 EAHEAIRITHPHALKDLEKVCSDAKISEELALKLYQLIYTNTICSQSRNALYNQYDCIFK 399
+ +A+ + H KDL+ + S+ + + L+ + +Y + ++ C +K
Sbjct: 320 DTKDALLVAHKDKAKDLKALVSEIETHNQELLQTHTKVYR----PWGSYEVLHESGC-YK 374
Query: 400 IKSESFKLSFKLLKEKGFLEIEE--LIQGKEEINREEQESEIE 440
+K K + +L +K F E +I G + + Q E++
Sbjct: 375 VKILEVKPNARLSLQKHFHRSEHWVVISGMASVELDHQSFELQ 417
>ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
[Helicobacter pylori J99]
Length = 1252
Score = 24.6 bits (52), Expect = 8.4
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 394 YDCIFKIKSESFKLSFKLLKEKGF 417
Y+ I + F LSF LL+EKGF
Sbjct: 845 YNSTADIYTYFFALSFHLLREKGF 868
>ref|NP_223915.1| putative [Helicobacter pylori J99]
Length = 123
Score = 24.6 bits (52), Expect = 8.4
Identities = 18/49 (36%), Positives = 25/49 (50%), Gaps = 7/49 (14%)
Query: 400 IKSESFKLSFKLLKEKGFLEIEELIQGKEEINREEQESEIENFSLKEND 448
I+S+ F S K LKE+G IQ KE+ ++QES L E +
Sbjct: 44 IRSKMFAESKKQLKERG-------IQLKEKSKAQQQESFEREKELMEEE 85
>ref|NP_223628.1| ADENOSYLMETHIONINE-8-AMINO-7-OXONONANOATE AMINOTRANSFERASE
[Helicobacter pylori J99]
Length = 439
Score = 24.6 bits (52), Expect = 8.4
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 2/61 (3%)
Query: 278 IPTKEIAQLA--QKLFEAGLITYHRTDSEFLSPEYLKEHEVFFEPIYPSVYQYREYKAGK 335
+ TKE LA +K + GL+ ++ +L P Y+ HE + I V E K +
Sbjct: 378 LQTKERLSLAVFKKALKKGLLLRPLNNTIYLMPPYIITHEEIKKAIAGLVEAIDELKKAE 437
Query: 336 N 336
N
Sbjct: 438 N 438
>ref|NP_223189.1| cag island protein [Helicobacter pylori J99]
Length = 481
Score = 24.6 bits (52), Expect = 8.4
Identities = 26/104 (25%), Positives = 46/104 (44%), Gaps = 5/104 (4%)
Query: 373 LYQLIYTNTICSQSRNALYNQYDCIFKIKSESFKLSFKLLKEKGFLEIEELIQGKEEINR 432
LY+L TN + A + Y ++ KL +L+ + EE + K +
Sbjct: 255 LYRLKETNN----ANEAQPSPYATQTAPENSKEKLIEELIANSQLIANEEEREKKLLAEK 310
Query: 433 EEQESEIENFSLKE-NDSVPLKEVFIKKIEKPSPKPYKESAFIP 475
E+QE+E+ + LK+ + LK + + +K + KP IP
Sbjct: 311 EKQETELAKYKLKDLENQKKLKALEAELKKKNTKKPRVVEVPIP 354
>ref|NP_223025.1| putative [Helicobacter pylori J99]
Length = 501
Score = 24.6 bits (52), Expect = 8.4
Identities = 19/64 (29%), Positives = 32/64 (49%), Gaps = 4/64 (6%)
Query: 413 KEKGFLEIEEL--IQG--KEEINREEQESEIENFSLKENDSVPLKEVFIKKIEKPSPKPY 468
KE+ E+ E +QG KEEI QE EI+ + + ++ +++ E P +
Sbjct: 320 KEEETQEVAEKTQVQGLEKEEIAETPQEKEIQETQDETPQELEAQDEKLQENETPKDESM 379
Query: 469 KESA 472
+ESA
Sbjct: 380 QESA 383
>ref|NP_222792.1| phosphoglucosamine mutase [Helicobacter pylori J99]
Length = 445
Score = 24.6 bits (52), Expect = 8.4
Identities = 20/54 (37%), Positives = 25/54 (46%)
Query: 403 ESFKLSFKLLKEKGFLEIEELIQGKEEINREEQESEIENFSLKENDSVPLKEVF 456
ES K LLKE LEI LI+ N+ E ++ L E+ LKE F
Sbjct: 387 ESLKGYSALLKELDQLEIRHLIRYSGTENKLRILLEAKDEKLLESKMQELKEFF 440
>ref|NP_222738.1| putative [Helicobacter pylori J99]
Length = 469
Score = 24.6 bits (52), Expect = 8.4
Identities = 20/88 (22%), Positives = 40/88 (44%), Gaps = 4/88 (4%)
Query: 87 FYEKIKNVASEIYRAEFHEITPSGIESGLKNAVLFSRSNTNLYQSFLGRI--ASDQVVG- 143
+YE+++ EI ++ H I + + + + SN + Y+++ G + A + G
Sbjct: 157 YYEEVQKAIKEIDSSKKHNINMERSRAEVSEILNNTYSNLDKYEAYQGLLNPAVSYLSGL 216
Query: 144 -FALTSYLRKSLNLSELSAGRVQTPALA 170
+AL K L + G Q+P +A
Sbjct: 217 FYALNGDKNKGLGYLNEAYGISQSPFVA 244
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
0.314 0.132 0.362
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 736,511
Number of Sequences: 1491
Number of extensions: 36747
Number of successful extensions: 189
Number of sequences better than 10.0: 47
Number of HSP's better than 10.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 146
Number of HSP's gapped (non-prelim): 56
length of query: 677
length of database: 494,079
effective HSP length: 84
effective length of query: 593
effective length of database: 368,835
effective search space: 218719155
effective search space used: 218719155
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: 52 (24.6 bits)