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|15645730|ref|NP_207907.1| hypothetical protein
[Helicobacter pylori 26695]
(957 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223761.1| putative [Helicobacter pylori J99] 1604 0.0
ref|NP_223158.1| putative [Helicobacter pylori J99] 941 0.0
ref|NP_223532.1| putative [Helicobacter pylori J99] 62 7e-11
ref|NP_223531.1| putative [Helicobacter pylori J99] 51 1e-07
ref|NP_223189.1| cag island protein [Helicobacter pylori J99] 40 2e-04
ref|NP_222772.1| putative [Helicobacter pylori J99] 39 6e-04
ref|NP_223830.1| putative [Helicobacter pylori J99] 37 0.002
ref|NP_224141.1| TYPE I RESTRICTION ENZYME (MODIFICATION SU... 36 0.004
ref|NP_223561.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [H... 36 0.005
ref|NP_222917.1| 90kDa chaperone [Helicobacter pylori J99] 35 0.007
ref|NP_223706.1| histidine kinase [Helicobacter pylori J99] 35 0.009
ref|NP_223195.1| cag island protein [Helicobacter pylori J99] 35 0.012
ref|NP_222953.1| ATP-DEPENDENT RNA HELICASE DEAD [Helicobac... 33 0.034
ref|NP_223441.1| PREPROTEIN TRANSLOCASE SUBUNIT [Helicobact... 32 0.099
ref|NP_223574.1| putative vacuolating cytotoxin (VacA) para... 31 0.13
ref|NP_222831.1| putative [Helicobacter pylori J99] 31 0.17
ref|NP_224128.1| TYPE III RESTRICTION ENZYME [Helicobacter ... 30 0.22
ref|NP_223213.1| cag island protein, CYTOTOXICITY ASSOCIATE... 30 0.22
ref|NP_223194.1| cag island protein [Helicobacter pylori J99] 30 0.22
ref|NP_224152.1| DNA REPAIR PROTEIN(RECOMBINATION PROTEIN N... 30 0.38
ref|NP_222912.1| putative [Helicobacter pylori J99] 30 0.38
ref|NP_223646.1| putative [Helicobacter pylori J99] 29 0.49
ref|NP_223571.1| CARBAMOYL-PHOSPHATE SYNTHASE LARGE CHAIN [... 29 0.49
ref|NP_222840.1| putative [Helicobacter pylori J99] 29 0.49
ref|NP_223839.1| 50S RIBOSOMAL PROTEIN L7/L12 [Helicobacter... 29 0.64
ref|NP_223764.1| FLAGELLAR HOOK-ASSOCIATED PROTEIN 1 (HAP1)... 29 0.64
ref|NP_223407.1| putative FLAGELLAR HOOK-ASSOCIATED PROTEIN... 29 0.64
ref|NP_223367.1| putative Outer membrane protein [Helicobac... 29 0.64
ref|NP_224131.1| putative [Helicobacter pylori J99] 28 0.84
ref|NP_223889.1| putative [Helicobacter pylori J99] 28 0.84
ref|NP_223274.1| putative vacuolating cytotoxin (VacA) para... 28 0.84
ref|NP_222770.1| Proline/pyrroline-5-carboxylate dehydrogen... 28 0.84
ref|NP_223180.1| putative [Helicobacter pylori J99] 28 1.1
ref|NP_223176.1| putative [Helicobacter pylori J99] 28 1.1
ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [He... 28 1.1
ref|NP_223990.1| putative [Helicobacter pylori J99] 28 1.4
ref|NP_223283.1| DNA MISMATCH REPAIR PROTEIN [Helicobacter ... 28 1.4
ref|NP_223025.1| putative [Helicobacter pylori J99] 28 1.4
ref|NP_222834.1| THREONYL-TRNA SYNTHETASE [Helicobacter pyl... 28 1.4
ref|NP_223645.1| putative [Helicobacter pylori J99] 27 1.9
ref|NP_223617.1| putative [Helicobacter pylori J99] 27 1.9
ref|NP_223038.1| putative [Helicobacter pylori J99] 27 1.9
ref|NP_223648.1| topoisomerase I [Helicobacter pylori J99] 27 2.4
ref|NP_223387.1| putative [Helicobacter pylori J99] 27 2.4
ref|NP_223322.1| putative [Helicobacter pylori J99] 27 2.4
ref|NP_222894.1| putative [Helicobacter pylori J99] 27 2.4
ref|NP_223787.1| putative [Helicobacter pylori J99] 27 3.2
ref|NP_223773.1| putative [Helicobacter pylori J99] 27 3.2
ref|NP_223537.1| vacuolating cytotoxin [Helicobacter pylori... 27 3.2
ref|NP_223402.1| putative [Helicobacter pylori J99] 27 3.2
ref|NP_223344.1| IRON(III) DICITRATE TRANSPORT PROTEIN [Hel... 27 3.2
ref|NP_223766.1| putative [Helicobacter pylori J99] 26 4.2
ref|NP_223258.1| putative [Helicobacter pylori J99] 26 4.2
ref|NP_223797.1| VALYL-TRNA SYNTHETASE [Helicobacter pylori... 26 5.4
ref|NP_223124.1| PROTEASE DO [Helicobacter pylori J99] 26 5.4
ref|NP_222899.1| Fumarate reductase [Helicobacter pylori J99] 26 5.4
ref|NP_223731.1| putative [Helicobacter pylori J99] 25 7.1
ref|NP_223659.1| putative [Helicobacter pylori J99] 25 7.1
ref|NP_223653.1| putative [Helicobacter pylori J99] 25 7.1
ref|NP_223267.1| ENDONUCLEASE III [Helicobacter pylori J99] 25 7.1
ref|NP_223220.1| putative [Helicobacter pylori J99] 25 7.1
ref|NP_223044.1| FLAGELLAR M-RING PROTEIN [Helicobacter pyl... 25 7.1
ref|NP_222822.1| 70kDa chaperone [Helicobacter pylori J99] 25 7.1
ref|NP_222783.1| putative [Helicobacter pylori J99] 25 7.1
ref|NP_224123.1| putative IRON-REGULATED OUTER MEMBRANE PRO... 25 9.3
ref|NP_223430.1| GUANOSINE-3',5'-BIS(DIPHOSPHATE) 3'-PYROPH... 25 9.3
ref|NP_223096.1| TRANSLATION INITIATION FACTOR IF-2 [Helico... 25 9.3
ref|NP_222890.1| putative [Helicobacter pylori J99] 25 9.3
ref|NP_222876.1| putative PROTEASE [Helicobacter pylori J99] 25 9.3
>ref|NP_223761.1| putative [Helicobacter pylori J99]
Length = 1154
Score = 1604 bits (4153), Expect = 0.0
Identities = 820/957 (85%), Positives = 879/957 (91%), Gaps = 6/957 (0%)
Query: 1 MKLPKALNEATAGAALKYHIKRALERSHSISDFSKNLELSTQKSHFSNNTLKIIEELNNG 60
MKLPKALNEATAGAALKYHIKRALERSH ISDFSKNLELS + S F+NNTLKIIEELNNG
Sbjct: 1 MKLPKALNEATAGAALKYHIKRALERSHLISDFSKNLELSAKNSKFTNNTLKIIEELNNG 60
Query: 61 VKQASEEIKEKARDFSNQKLTNEQIKDLLNNAEIPTSGRDAITFGVNNLNPEIVEFLHKN 120
VKQASEEIKEKA DFSN+KLTNEQIK+LLNNA+IPTSGRDAITFG NNLNPE+VEFLHKN
Sbjct: 61 VKQASEEIKEKAFDFSNEKLTNEQIKELLNNAKIPTSGRDAITFGTNNLNPEMVEFLHKN 120
Query: 121 NKKMIIEKASNKELELLKDANFKHPENIRASLDHDAIAHILKRHGVNSVNVRNGEIPITN 180
NKKMIIEKASNKELELLKDANFKHPENIRASLDHDAIAHILKRHGVNSVNV+NGE PIT
Sbjct: 121 NKKMIIEKASNKELELLKDANFKHPENIRASLDHDAIAHILKRHGVNSVNVKNGESPITY 180
Query: 181 EDIANYRYIVNNADAILRTLDNENKELISAFKQINGYAVVVEQAINKKNELVLKTMYKSK 240
EDIANYRYIVNNADAILRTLDNE+KE+ISAFKQINGYAVVVEQAINKKNELVLKTMYKS
Sbjct: 181 EDIANYRYIVNNADAILRTLDNEDKEVISAFKQINGYAVVVEQAINKKNELVLKTMYKSN 240
Query: 241 GDYKDNNAYKKFSSTHTLNADAKVNHRLSSYSGATENTTQKDLIDQENLLKTSENLNEST 300
GDYKDNNAYKKFSST TLNADAKVNH LSS+SGATEN TQK L QE+LLK +ENLNE+T
Sbjct: 241 GDYKDNNAYKKFSSTLTLNADAKVNHGLSSHSGATENLTQKPLTSQEDLLKDTENLNETT 300
Query: 301 PKPTNLSPLEQANAEKLAKLESEKLESEKEFLKAKEQEATRKAALKKKLEHERGNAGNIE 360
PKPT+LSPLE ANAEKLAKLESE+L+SE+EFLKAKEQE RK ALKKKLEHERGNAG+IE
Sbjct: 301 PKPTHLSPLELANAEKLAKLESEQLQSEQEFLKAKEQELKRKEALKKKLEHERGNAGHIE 360
Query: 361 SQTKIEVGEDIPTQTQAQLPKSRVRLNEREIYDLDYAIVKAKDLKPSFTTGGTQKRTDMN 420
SQTKIEVGEDIPTQ QAQ+PKSRVRLNEREIYDLDYAIVKAKDLKPSFTTGGTQKRTDMN
Sbjct: 361 SQTKIEVGEDIPTQVQAQIPKSRVRLNEREIYDLDYAIVKAKDLKPSFTTGGTQKRTDMN 420
Query: 421 EEQIKSIAENFDPKKIFGSGGFEDLPIILHDGQVIAGNHRIQGMLNFTPKSRFSYERAIK 480
EEQIKSIAENFDPKKIFGSGGFEDLPIILHDGQVIAGNHRIQGMLNFTPKSR+ Y +AIK
Sbjct: 421 EEQIKSIAENFDPKKIFGSGGFEDLPIILHDGQVIAGNHRIQGMLNFTPKSRYIYNKAIK 480
Query: 481 EYYHIDLKPDELLVRVPHKRLNNTEINNLAASSNQGRFNSESDHAIAVLSHYEAKLKELD 540
EYYHIDL+PDELLVRVP+KRL+NTEINNLAASSNQGRFNSESDHAIAVLSHYEAKLKEL+
Sbjct: 481 EYYHIDLEPDELLVRVPNKRLDNTEINNLAASSNQGRFNSESDHAIAVLSHYEAKLKELE 540
Query: 541 QKLDADSIYSLKNIVAKNLNFDKATHPNVTDSNLALLMFNMPRTKTQGIELLNRWKKEFS 600
+KLDADSIYSLKNIVA NLNFDKATHPNV DSNLALLMFNMPRTKTQGIELLN W+K FS
Sbjct: 541 KKLDADSIYSLKNIVANNLNFDKATHPNVGDSNLALLMFNMPRTKTQGIELLNCWQKAFS 600
Query: 601 NDIKSYEKVKKMFVDNAGSFHNLIHDLNFPKVSLNAYLSDIMDRSFANLKNYQSTSESLK 660
NDIKSYEKVKKMFVDNAGSFHNLIHD+NFP VSLNAYLSDIMDRSFANLKNYQSTSESLK
Sbjct: 601 NDIKSYEKVKKMFVDNAGSFHNLIHDMNFPNVSLNAYLSDIMDRSFANLKNYQSTSESLK 660
Query: 661 DLSEKFYKTSSLEMFEKSDQSTSDISEILGGAIARFARFDDPSKALFEALRSDNIKKGLK 720
DLSEKFYKTSSL+MFEKSDQ SDISEILGGAIARFARFDDPSKALFEAL+SDNIKKGLK
Sbjct: 661 DLSEKFYKTSSLDMFEKSDQRASDISEILGGAIARFARFDDPSKALFEALKSDNIKKGLK 720
Query: 721 DYKIADVTKDMFNADSKEFKDIDIYDFTHYLLMVNREPNENNPILKRLIEAVKDMQKESE 780
++KIADVTKDMF+ SKEFKDIDIYDFTHYLLMVNREPNENNP+LKRLI+AVKDMQKE +
Sbjct: 721 EFKIADVTKDMFDPKSKEFKDIDIYDFTHYLLMVNREPNENNPVLKRLIQAVKDMQKEKK 780
Query: 781 KGIKQ-KLETPSEWGHNYSEFKGDGLGAINKLLETKKGFVAGAFHKEGLGDIDLVYGNSK 839
KGIK+ KLETPSEWGH+YSEFKGDGLGAINKLL+TKKGFVAGAF+KEGLGDIDLV+GN
Sbjct: 781 KGIKKPKLETPSEWGHHYSEFKGDGLGAINKLLKTKKGFVAGAFYKEGLGDIDLVWGNKD 840
Query: 840 YGLEHIFNRRESDAIDKGMSKEEAKKYALKIINNIPNIISNGKLSKDNLGRLSIEFENQR 899
YGLEHI RRE A++ G+++ EAK YA+ +I IP +I G + N GR++IE++N R
Sbjct: 841 YGLEHILKRREDQALNNGINEAEAKDYAISVIKTIPEVIDKGVKVERN-GRVAIEYQNIR 899
Query: 900 VGLNDSWKGETLNNRWVITSYEID-KSRNGLIESPLAPNYKGKDTNPLNLDSPNPTT 955
VGL D+WKGE N WVIT YE + L SP P KG +T PLN + P+PTT
Sbjct: 900 VGLKDNWKGEKSPNHWVITGYEKRLEDSESLYTSP--PITKG-ETLPLNSNKPDPTT 953
Score = 145 bits (367), Expect = 4e-36
Identities = 88/222 (39%), Positives = 131/222 (58%), Gaps = 21/222 (9%)
Query: 35 KNLELSTQKSHFSNNTLKIIE-----ELNNGVKQASEEIKEKARDFSNQKLTNEQIKDLL 89
+ L L++ K + N +K E EL N K A E ++ + + +KL +IK L+
Sbjct: 940 ETLPLNSNKPDPTTNAIKTQEPLYPLELANAEKLAKLETEKAFKAEAVKKLDFNEIKKLI 999
Query: 90 NNAEIPTSGRDAITFGVNNLNPEIVEFLHKNNKKMIIEKASNKELELLKDANFKHPENIR 149
+ E P +G G+ NLN E VE++ KN+K++ +EK E KD K+P++ R
Sbjct: 1000 D--ESPRTGSSMPILGMQNLNAEAVEYIQKNHKRIAVEKI---EPSFAKDLKLKYPDDAR 1054
Query: 150 ASLDHDAIAHILKRHGVNSVNVRNGEIPITNEDIANYRYIVNNADAILRTLDNENKELIS 209
A +D+ AI HILK H +N + EDIANYR + A+ L+ DN+N+ +++
Sbjct: 1055 AVMDYQAINHILKEH-------KN----LAYEDIANYRELSKQANETLKLKDNQNRPVVA 1103
Query: 210 AFKQINGYAVVVEQAINKKNELVLKTMYKSKGDYKDNNAYKK 251
+F QING+ VVVEQ N KNEL+LKTMYK++G+YKD+ YKK
Sbjct: 1104 SFNQINGFFVVVEQVSNAKNELMLKTMYKARGNYKDSLIYKK 1145
Score = 36.2 bits (82), Expect = 0.004
Identities = 21/37 (56%), Positives = 23/37 (61%), Gaps = 8/37 (21%)
Query: 296 LNESTPKPTN--------LSPLEQANAEKLAKLESEK 324
LN + P PT L PLE ANAEKLAKLE+EK
Sbjct: 944 LNSNKPDPTTNAIKTQEPLYPLELANAEKLAKLETEK 980
>ref|NP_223158.1| putative [Helicobacter pylori J99]
Length = 912
Score = 941 bits (2433), Expect = 0.0
Identities = 512/756 (67%), Positives = 577/756 (75%), Gaps = 50/756 (6%)
Query: 42 QKSHFSNNTLKIIEELNNGVKQASEEIKEKARDFSNQKLTNEQIKDLLNNAEIPTSGRDA 101
+ + FSNNTLKIIEEL NGVKQASEEIK KA + +K E K ++ +++ +
Sbjct: 2 KNAKFSNNTLKIIEELTNGVKQASEEIKAKATKY--EKALQELQK--IDESKLTKEQQQV 57
Query: 102 ITFGVNNLNPEIVEFLHKNNKKMIIEKASNKELELLKDANFKHPENIRASLDHDAIAHIL 161
+ L+ ++ + N+ ++ D +H A ++
Sbjct: 58 LKVFKGELDQTEIKGIDLNDLYIL-------------DQGTRHA---------GAKKILV 95
Query: 162 KRHGVNSVNVRNGEIPITNEDIANYRYIVNNADAILRTLDNENKELISAFKQING---YA 218
K +GV + +TN+++ N ++ N +L + + ++ N
Sbjct: 96 KHYGVENTG------GLTNDELINMSEVIKNGSVLLESFERLKNGFRYGYEWDNNGVKLR 149
Query: 219 VVVEQAI--NKKNELVLKTMYKSKGDYKDNNAYKKFSSTHTLNADAKVNHRLSSYSGATE 276
+VV+ NK + +K D + + K + T + D
Sbjct: 150 LVVDDLNDGNKVFDFYSDRNFKDFRDARPQPSASKDNGTQPITLDGN------------- 196
Query: 277 NTTQKDLIDQENLLKTSENLNESTPKPTNLSPLEQANAEKLAKLESEKLESEKEFLKAKE 336
N TQK L QE+LLK +E NE+T + NLS LEQANAEKLAKLESE SE+EFLKAKE
Sbjct: 197 NPTQKPLTSQEDLLKNTELNNETTQEVKNLSLLEQANAEKLAKLESEAKVSEQEFLKAKE 256
Query: 337 QEATRKAALKKKLEHERGNAGNIESQTKIEVGEDIPTQTQAQLPKSRVRLNEREIYDLDY 396
QEA RK ALKKKLEHERGNAGNIESQTKIEVGEDIPTQ QAQ+PKSRVRLNEREIYDLDY
Sbjct: 257 QEAKRKVALKKKLEHERGNAGNIESQTKIEVGEDIPTQIQAQIPKSRVRLNEREIYDLDY 316
Query: 397 AIVKAKDLKPSFTTGGTQKRTDMNEEQIKSIAENFDPKKIFGSGGFEDLPIILHDGQVIA 456
AIVKAKDLKPSFTTGGTQKRTDMNEEQIKSIAENFDPKKIFGSGGFEDLPIILHDGQVIA
Sbjct: 317 AIVKAKDLKPSFTTGGTQKRTDMNEEQIKSIAENFDPKKIFGSGGFEDLPIILHDGQVIA 376
Query: 457 GNHRIQGMLNFTPKSRFSYERAIKEYYHIDLKPDELLVRVPHKRLNNTEINNLAASSNQG 516
GNHRI GMLNFTPKSR+ Y +AIKEYY IDLKPDELLVRVPH+RL+NTEINNLAASSNQG
Sbjct: 377 GNHRIAGMLNFTPKSRYIYNKAIKEYYRIDLKPDELLVRVPHQRLDNTEINNLAASSNQG 436
Query: 517 RFNSESDHAIAVLSHYEAKLKELDQKLDADSIYSLKNIVAKNLNFDKATHPNVTDSNLAL 576
RFNSESDHAIAVLSHYEAKLKELD+KLDADSIYSLKNIVAKNLNFDKATHPNV DSNLAL
Sbjct: 437 RFNSESDHAIAVLSHYEAKLKELDKKLDADSIYSLKNIVAKNLNFDKATHPNVGDSNLAL 496
Query: 577 LMFNMPRTKTQGIELLNRWKKEFSNDIKSYEKVKKMFVDNAGSFHNLIHDLNFPKVSLNA 636
LM+NMPRTKTQGIELLNRW+KEFSNDIKSYEKVKKMFVDNAGSFHNLIHD+NFP VSLNA
Sbjct: 497 LMYNMPRTKTQGIELLNRWQKEFSNDIKSYEKVKKMFVDNAGSFHNLIHDMNFPNVSLNA 556
Query: 637 YLSDIMDRSFANLKNYQSTSESLKDLSEKFYKTSSLEMFEKSDQSTSDISEILGGAIARF 696
YLSDIMDRSFANLKNY STSESLKDLSEKFYKTSSL+MFEKSDQS SDISEILGGAIARF
Sbjct: 557 YLSDIMDRSFANLKNYPSTSESLKDLSEKFYKTSSLDMFEKSDQSASDISEILGGAIARF 616
Query: 697 ARFDDPSKALFEALRSDNIKKGLKDYKIADVTKDMFNADSKEFKDIDIYDFTHYLLMVNR 756
ARFDDPSKALFE+L+SDNIKKGLKDYKIAD+TKDMFN DSKEFKDIDIYDFTHYLLMVNR
Sbjct: 617 ARFDDPSKALFESLKSDNIKKGLKDYKIADITKDMFNPDSKEFKDIDIYDFTHYLLMVNR 676
Query: 757 EPNENNPILKRLIEAVKDMQKESEKGIKQKLETPSE 792
EPNENNP+L RLI+AVK MQKESEKGIK+ + +E
Sbjct: 677 EPNENNPVLNRLIQAVKGMQKESEKGIKEVSKQAAE 712
Score = 301 bits (772), Expect = 4e-83
Identities = 158/248 (63%), Positives = 195/248 (77%), Gaps = 14/248 (5%)
Query: 30 ISDFSKNLELSTQKSHFSNNTLKII--------EELNNGVKQASEEIKEKA-----RDFS 76
I DF+ L + ++ + +N L + +E G+K+ S++ E+ RDFS
Sbjct: 664 IYDFTHYLLMVNREPNENNPVLNRLIQAVKGMQKESEKGIKEVSKQAAEETEKGIKRDFS 723
Query: 77 NQKLTNEQIKDLLNNAEIPTSGRDAITFGVNNLNPEIVEFLHKNNKKMIIEKASNKELEL 136
+ L+N +IK LLNNA+IPTSGRDA+ FG NNLNPEIVEF+HKN+K+M IEKASNKE+EL
Sbjct: 724 DTNLSNNEIKALLNNAKIPTSGRDAVIFGKNNLNPEIVEFIHKNHKRMAIEKASNKEIEL 783
Query: 137 LKDANFKHPENIRASLDHDAIAHILKRHGVNSVNVRNGEIPITNEDIANYRYIVNNADAI 196
L+DANF+HPE++RASLDH+AI HILKRHGVNSVNVRNGE PIT EDIANYR IVNNAD I
Sbjct: 784 LQDANFRHPEDVRASLDHEAITHILKRHGVNSVNVRNGESPITYEDIANYRDIVNNADEI 843
Query: 197 LRTLDNENKELISAFKQINGYAVVVEQAINKKNELVLKTMYKSKGDYKDNNAYKKFSSTH 256
+R + NKE I+AFKQINGYAVVVEQA+N+ +ELVLKTM+KS G+YK+NNAYKKFSST
Sbjct: 844 IRAIGKGNKENITAFKQINGYAVVVEQAVNRNSELVLKTMFKSNGNYKNNNAYKKFSST- 902
Query: 257 TLNADAKV 264
LNA+AKV
Sbjct: 903 GLNANAKV 910
Score = 26.2 bits (56), Expect = 4.2
Identities = 23/91 (25%), Positives = 40/91 (43%), Gaps = 9/91 (9%)
Query: 873 NIPNIISNGKLSKDNLGRLS------IEFENQRVGLNDSWKGETLNNRWVITSYEIDKSR 926
N+ +I NG + ++ RL E++N V L + LN+ + + D++
Sbjct: 113 NMSEVIKNGSVLLESFERLKNGFRYGYEWDNNGVKLR--LVVDDLNDGNKVFDFYSDRNF 170
Query: 927 NGLIESPLAPNY-KGKDTNPLNLDSPNPTTK 956
++ P+ K T P+ LD NPT K
Sbjct: 171 KDFRDARPQPSASKDNGTQPITLDGNNPTQK 201
>ref|NP_223532.1| putative [Helicobacter pylori J99]
Length = 117
Score = 62.0 bits (149), Expect = 7e-11
Identities = 35/68 (51%), Positives = 44/68 (64%), Gaps = 4/68 (5%)
Query: 889 GRLSIEFENQRVGLNDSWKGETLNNRWVITSYEID-KSRNGLIESPLAPNYKGKDTNPLN 947
GR++IE++N RVGL D+WKGE N WVIT YE + L SP P KG +T PLN
Sbjct: 12 GRVAIEYQNIRVGLKDNWKGEKSPNHWVITGYEKRLEDSESLYTSP--PITKG-ETLPLN 68
Query: 948 LDSPNPTT 955
+ P+PTT
Sbjct: 69 SNKPDPTT 76
Score = 28.9 bits (63), Expect = 0.64
Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 10/51 (19%)
Query: 296 LNESTPKPTN--------LSPLEQANAEKLAKLES--EKLESEKEFLKAKE 336
LN + P PT L PLE ANAEKLAK +K+ + K + K+
Sbjct: 67 LNSNKPDPTTNAIKTQEPLYPLELANAEKLAKPRKTIQKVRTNKRTSQRKD 117
>ref|NP_223531.1| putative [Helicobacter pylori J99]
Length = 155
Score = 51.2 bits (121), Expect = 1e-07
Identities = 37/106 (34%), Positives = 57/106 (52%), Gaps = 9/106 (8%)
Query: 216 GYAVVV----EQAINK-KNELVLKTMYKSKGDYKDNNAYKKFSSTHTLNADAK--VNHRL 268
GYA ++ + ++K K + LK Y D+ ++ + TL+ D + +N+ +
Sbjct: 52 GYAAIILNNSKVILSKFKGDNELKNHYMITSFEVDDKVLRELETIATLSNDYRDGINYSI 111
Query: 269 SSYSGATENTTQKDLIDQENLLKTSENLNESTPKPTNLSPLEQANA 314
S+ + EN T K L QE LLK E+LNE T +PT+LSPL Q A
Sbjct: 112 SNLN--RENPTPKPLTSQEVLLKQQESLNEFTKEPTHLSPLTQMQA 155
Score = 50.8 bits (120), Expect = 2e-07
Identities = 34/111 (30%), Positives = 58/111 (51%), Gaps = 3/111 (2%)
Query: 849 RESDAIDKGMSKEEAKKYALKIINNIPNIISNGKLSKDNLGRLSIEFENQRVGLNDSWKG 908
RE G++ E+AK+ +++ IPNI+ G +D G +I N +V L+
Sbjct: 12 REKQYKKLGLTNEQAKERTNELLKEIPNILQKGVKEEDRPGYAAIILNNSKVILSKFKGD 71
Query: 909 ETLNNRWVITSYEIDKSRNGLIE--SPLAPNYK-GKDTNPLNLDSPNPTTK 956
L N ++ITS+E+D +E + L+ +Y+ G + + NL+ NPT K
Sbjct: 72 NELKNHYMITSFEVDDKVLRELETIATLSNDYRDGINYSISNLNRENPTPK 122
>ref|NP_223189.1| cag island protein [Helicobacter pylori J99]
Length = 481
Score = 40.4 bits (93), Expect = 2e-04
Identities = 64/282 (22%), Positives = 114/282 (39%), Gaps = 33/282 (11%)
Query: 190 VNNADAILRTLDNENKELISAFKQINGYAVVVEQAINKKNELVLKTMYK--SKGDYKDNN 247
VN IL+ L+ N + + YA + K+++ T+ K S + K
Sbjct: 146 VNGYYNILKALNKRNAKFVLKINDKIPYAQATFLRVPKRSDPNAHTLDKGASIDESKLFE 205
Query: 248 AYKKFSSTHTLNADAKVNHRLSS-------YSGATENTTQK-DLIDQENL--LKTSENLN 297
KK + + + N + S ++ TQK ++I +L LK + N N
Sbjct: 206 QQKKMYFNYANDVICRPNDEVCSPLRDEMVAMPTNDSVTQKPNIIAPYSLYRLKETNNAN 265
Query: 298 ESTPKPTNLSPLEQANAEKL-------AKLESEKLESEKEFLKAKEQEATRKAALKKKLE 350
E+ P P + + EKL ++L + + E EK+ L KE++ T A K K
Sbjct: 266 EAQPSPYATQTAPENSKEKLIEELIANSQLIANEEEREKKLLAEKEKQETELAKYKLKDL 325
Query: 351 HERGNAGNIESQTKIE-------VGEDIPTQTQAQLPKSRVRLNEREIYDLDYAIVKAKD 403
+ +E++ K + V IP +T RV + E+E Y+ + K
Sbjct: 326 ENQKKLKALEAELKKKNTKKPRVVEVPIPPKTSDSDETMRV-IKEKENYN-GLLVDKETT 383
Query: 404 LKPSF-----TTGGTQKRTDMNEEQIKSIAENFDPKKIFGSG 440
+K S+ + K+T +N E ++S+ E + +G
Sbjct: 384 IKRSYKGTLISENSYSKKTPINLEDLRSLEEEIKSYYVKSNG 425
>ref|NP_222772.1| putative [Helicobacter pylori J99]
Length = 220
Score = 38.9 bits (89), Expect = 6e-04
Identities = 39/167 (23%), Positives = 72/167 (42%), Gaps = 15/167 (8%)
Query: 227 KKNELVLKTMYKSKGDYKDNNAYKKFSSTHTLNADAKVNHRLSSYSGATENTTQKDLIDQ 286
++N+ + + + + K+ A K+ + +VN L + EN L ++
Sbjct: 37 EENKALTTEKERLERENKNLTADKENLTKEKTELQKQVNE-LKNSKQVLENEKADWLREK 95
Query: 287 ENLLKTSENLNESTPKPTNLSPLEQANAEKLA----KLESEKLESEKEFLKAKEQEATRK 342
ENL K ENL + + T + + E+LA L EK ES+K+ + K
Sbjct: 96 ENLTKDRENLTKEKTELTEKNKVLTTEKERLATEKENLTKEKTESQKQVNELKNS----- 150
Query: 343 AALKKKLEHERGNAGNIESQTKIEVGEDIPTQTQAQLPKSRVRLNER 389
K+ LE+E+ + N TK++ + T+ +L + LN +
Sbjct: 151 ---KQVLENEKADLTN--ENTKLKTDKTDLTEKNQRLTTEKTELNNK 192
Score = 38.1 bits (87), Expect = 0.001
Identities = 41/161 (25%), Positives = 73/161 (44%), Gaps = 10/161 (6%)
Query: 273 GATENTTQKDLIDQENLLKTSENLNESTPKPTNLSPLEQANAEKLAKLESEKLESEKEFL 332
G + N TQ++ ++ LK S N +E KPT + L + N K E E+LE E + L
Sbjct: 3 GKSSNDTQEN---PKDALK-STNFHEKHTKPTETTELVEEN--KALTTEKERLERENKNL 56
Query: 333 KAKEQEATRKAALKKKLEHERGNAGNIESQTKIE--VGEDIPTQTQAQLPKSRVRLNERE 390
A ++ T++ +K +E N+ + K + ++ T+ + L K + L E+
Sbjct: 57 TADKENLTKEKTELQKQVNELKNSKQVLENEKADWLREKENLTKDRENLTKEKTELTEKN 116
Query: 391 IYDLDYAIVKAKDLKPSFTTGGTQKRTDMNE-EQIKSIAEN 430
L + K + T T+ + +NE + K + EN
Sbjct: 117 KV-LTTEKERLATEKENLTKEKTESQKQVNELKNSKQVLEN 156
>ref|NP_223830.1| putative [Helicobacter pylori J99]
Length = 383
Score = 37.0 bits (84), Expect = 0.002
Identities = 24/94 (25%), Positives = 45/94 (47%), Gaps = 6/94 (6%)
Query: 298 ESTPKPTNLSPLEQANAEKLAKLESEKLESEKEFLKAKEQEATRKAALKKKLEHERGNAG 357
E+ N S +E E+ + E +K E EK+ EQE + K+K E E+
Sbjct: 111 ENARDRANKSGIELEQEEQKTEQEKQKTEQEKQ---KTEQEKQKTEQEKQKTEQEKQKTS 167
Query: 358 NIESQTKIEVGEDIPTQTQAQLPKSRVRLNEREI 391
NIE+ +I+V ++ Q + + K + ++++
Sbjct: 168 NIETNNQIKVEQE---QQKTEQEKQKTNNTQKDL 198
>ref|NP_224141.1| TYPE I RESTRICTION ENZYME (MODIFICATION SUBUNIT) [Helicobacter
pylori J99]
Length = 815
Score = 36.2 bits (82), Expect = 0.004
Identities = 38/166 (22%), Positives = 70/166 (41%), Gaps = 10/166 (6%)
Query: 43 KSHFSNNTLKIIEELNNGVKQASEEIKEKARDFSNQKLTNEQIKDLLNNAEIPTSGRDAI 102
K F K +EEL N + + + E + SN++ + +K +N + + ++A
Sbjct: 642 KQRFFEKETKELEELENALNEKEALLDEFIEEHSNEEGLFDGLK--INESVLKKELKNAT 699
Query: 103 TFGVNNLNPEIVEFLHKNNKKMIIEKASNKELELLKDANFKHPE--NIRASLDHDAIAHI 160
+ +E+L NK + ++ + +ELEL +K+ E I+ + D +
Sbjct: 700 DLEDKQILKTALEWLEAKNKALKMKNKAYEELELKAFHQYKNLEINEIKDLIIKDKWLNS 759
Query: 161 LKRHGVNSVNVRNGEIPITNEDIANYRYIVNNADAILRTLDNENKE 206
LK N + R TN + I+++ L LD E KE
Sbjct: 760 LKNALENKIQKR------TNAFASALNEIISSYSNSLLELDKEVKE 799
>ref|NP_223561.1| putative FLAGELLAR BIOSYNTHESIS PROTEIN [Helicobacter pylori J99]
Length = 363
Score = 35.8 bits (81), Expect = 0.005
Identities = 81/360 (22%), Positives = 138/360 (37%), Gaps = 50/360 (13%)
Query: 60 GVKQASEEIKEKARDFSN------QKLTNEQIKDLLNNAEIPTSGRDAITFGVNNLNPEI 113
G K A E KE+ + KL EQ+K+ A + T IT E+
Sbjct: 10 GAKAAQERKKEQPTIANGLDKNAFMKLFLEQLKNQDPTAPMETD--KIITQTAQLTQVEM 67
Query: 114 VEFLHKNNKKMIIEKASNKEL-ELLKD---ANFKHPENIRASLDHDAIAHILKRHGVNSV 169
E K +++ SNKE E LKD A EN+ +D A+ R V+++
Sbjct: 68 QEENKKTMQEVASAMKSNKETNESLKDFQGALKDTMENLNKGMDDSLKANNALRE-VSAL 126
Query: 170 NVRNGEIPITNEDIANYRYIVNNADAILRTLD---------------NENKELISAF--K 212
N + I D++ + NN + D NEN EL+ K
Sbjct: 127 NSVSMIGKIAETDVSGANFDGNNKLSFSLFFDEKIDASKGVPAIQILNENNELVKTIPLK 186
Query: 213 QINGYAVVVE---QAINKKNELVLKTMYKSKGDYKDNNAYKKFSSTHTLNAD-------- 261
NG + N+K E V K YK K +Y ++ K++ T +
Sbjct: 187 DYNGQKGYINFEWDGTNEKGEKVPKGNYKIKAEYNLDSQSKQYLQTRIGRGEVESVIFDK 246
Query: 262 AKVNHRLSSYSGATENTTQKDLIDQENLLKTSENLNESTP-KPTNLSPLEQANAEKLAKL 320
K R+ ++ + DQ+ L + L++ P K + LEQ +E+ +
Sbjct: 247 GKPMLRMGEMILPIDSAIEFYKPDQKPL---DQKLSDQKPQKLSEQKALEQKISEQKPQE 303
Query: 321 ESEKLESEKEFLKAKEQEATRKAALKKKLEHERGNAGNIESQTKIEVGEDIPTQTQAQLP 380
++ S+++ K EQ+ + + L +KL ++ + + ++ E P + Q P
Sbjct: 304 PLDQKLSDQKPQKPLEQKISEQKPLDQKLSDQKP-----QKPLEQKISEQKPLDQKPQTP 358
>ref|NP_222917.1| 90kDa chaperone [Helicobacter pylori J99]
Length = 621
Score = 35.4 bits (80), Expect = 0.007
Identities = 50/183 (27%), Positives = 75/183 (40%), Gaps = 20/183 (10%)
Query: 661 DLSEKFYKTSSLEMFEKSDQSTSDISEILGGAIARFARFDDPSKALFEALRSDNIKKGLK 720
+L EK YK + + S I + G++ F PSKA F+ R D K G+K
Sbjct: 245 ELKEKDYKDFYQSFAHDNSEPLSYIHNKVEGSLEYTTLFYIPSKAPFDLFRVD-YKSGVK 303
Query: 721 DYK----IADVTKDMFNADSKEFKDIDIYDFTHYLLMVNREPNENNPILKRLIEAVKDMQ 776
Y I D K++ + + K + D L V+RE + N IL + A
Sbjct: 304 LYVKRVFITDDDKELLPSYLRFVK--GVIDSEDLPLNVSREILQQNKILANIRSA----- 356
Query: 777 KESEKGIKQKLETPSEWGHNYSEFKGDGLGAINKLLETKKGFVAGAFHKEGLGDIDLVYG 836
S K I ++E S+ NY +F K+L K+G +KE L ++ Y
Sbjct: 357 --SVKKILSEIERLSKDNKNYHKF----YEPFGKVL--KEGLYGDFENKEKLLELLRFYS 408
Query: 837 NSK 839
K
Sbjct: 409 KDK 411
>ref|NP_223706.1| histidine kinase [Helicobacter pylori J99]
Length = 815
Score = 35.0 bits (79), Expect = 0.009
Identities = 33/132 (25%), Positives = 60/132 (45%), Gaps = 6/132 (4%)
Query: 258 LNADAKVNHRLSSYSGATENTTQKDLIDQENLLKTSENLNES-TPKPTNLS---PLEQAN 313
L A N + + T+ +K+ + +EN K E + + TP NL+ PL
Sbjct: 126 LQAITSQNLEGAKETSGTKEAPEKE-VKKENKEKAKEEVKANKTPTTENLTSDNPLADEP 184
Query: 314 AEKLAKLESEKLESEKEFLKAKEQEATRKAALKKKLEHERGNAGNIESQTKIEVGEDIPT 373
A + +E++E+E E L K QEA ++ +KK E + + + E T
Sbjct: 185 DLDYANMSAEEVEAEIERLLNKRQEADKERRAQKKQEDQAKPKQEVAPAKETPKTETPKT 244
Query: 374 QTQAQLPKSRVR 385
+T+ ++PK+ +
Sbjct: 245 ETR-KVPKAETK 255
>ref|NP_223195.1| cag island protein [Helicobacter pylori J99]
Length = 522
Score = 34.7 bits (78), Expect = 0.012
Identities = 37/158 (23%), Positives = 65/158 (40%), Gaps = 17/158 (10%)
Query: 49 NTLKIIEELNNGVKQASEEIKEKARDFSNQKLTNEQIKDLLNNAEIPTSGRDAITFGVNN 108
N LK IEELN KQA E ++++A+D + K Q N+ E+ S T V
Sbjct: 227 NALKQIEELNK--KQAEEAVRQRAKDKISIKTDKSQKSPEDNSIELSPSDSAWRTNLVVR 284
Query: 109 LNPEIVEFLHKNNKK---------MIIEKASNKELELLKDANFKHPENIRASLDHDAIAH 159
N + +F+ + +K + +E E+ + + K E + +
Sbjct: 285 TNKALYQFILRIAQKDNFASAYLTVKLEYPQRHEVSSVIEEELKKREEAKRQRE------ 338
Query: 160 ILKRHGVNSVNVRNGEIPITNEDIANYRYIVNNADAIL 197
++K+ +N+ N + +NE I N I I+
Sbjct: 339 LIKQENLNTTAYINRVMMASNEQIINKEKIREEKQKII 376
Score = 26.9 bits (58), Expect = 2.4
Identities = 59/262 (22%), Positives = 91/262 (34%), Gaps = 43/262 (16%)
Query: 99 RDAITFGVNNLNPEIVEFLHKNNKKMIIEKASNKELELLKDANFKHPE--NIRASLDHDA 156
++A+ F + + + EFL KK+I++ KELE K A K E D
Sbjct: 110 KEAVNFAL--MTRDYQEFL--KTKKLIVDAPDPKELEEQKKALEKEKEAKEQAQKAQKDK 165
Query: 157 IAHILKRHGVNSVNVRNGEIPITNEDIANYRYIVNNADAILRTLDNENKELISAFKQING 216
+ N N+ N + NA + + L N NK L KQ
Sbjct: 166 REKRKEERAKNRANLEN----------------LTNAMSNPQNLSN-NKNLSELIKQ--- 205
Query: 217 YAVVVEQAINKKNELVLKTMYKSKGDYKDNNAYKKFSSTHTLNADAKVNHRLSSYSGATE 276
++NEL + + NA K+ + A+ V R
Sbjct: 206 ---------QRENELDQMERLEDMQEQAQANALKQIEELNKKQAEEAVRQRAKDKISIKT 256
Query: 277 NTTQKDLIDQENLLKTSE-----NLNESTPKPTNLSPLEQANAEKLAKLESEKLESEKEF 331
+ +QK D L S+ NL T K L A + A S L + E+
Sbjct: 257 DKSQKSPEDNSIELSPSDSAWRTNLVVRTNKALYQFILRIAQKDNFA---SAYLTVKLEY 313
Query: 332 LKAKEQEATRKAALKKKLEHER 353
+ E + + LKK+ E +R
Sbjct: 314 PQRHEVSSVIEEELKKREEAKR 335
Score = 26.2 bits (56), Expect = 4.2
Identities = 31/134 (23%), Positives = 53/134 (39%), Gaps = 31/134 (23%)
Query: 319 KLESEKLESEKEFLKAKEQEATRKAALKKKLEHERGNAGNIESQT--------------- 363
+LE +K EKE ++ + +K +K+ E N N+E+ T
Sbjct: 140 ELEEQKKALEKEKEAKEQAQKAQKDKREKRKEERAKNRANLENLTNAMSNPQNLSNNKNL 199
Query: 364 -------------KIEVGEDIPTQTQAQLPKSRVRLNEREIYDLDYAIVKAKDLKPSFTT 410
++E ED+ Q QA K LN+++ + +AKD K S T
Sbjct: 200 SELIKQQRENELDQMERLEDMQEQAQANALKQIEELNKKQAEEA--VRQRAKD-KISIKT 256
Query: 411 GGTQKRTDMNEEQI 424
+QK + N ++
Sbjct: 257 DKSQKSPEDNSIEL 270
>ref|NP_222953.1| ATP-DEPENDENT RNA HELICASE DEAD [Helicobacter pylori J99]
Length = 491
Score = 33.1 bits (74), Expect = 0.034
Identities = 53/236 (22%), Positives = 95/236 (39%), Gaps = 19/236 (8%)
Query: 167 NSVNVRNGEIPITNEDIANYRYIVNN---ADAILRTLDNENKELISAFKQINGYAVVVEQ 223
N + + ITN DI Y++N A+AI+R LD + E F + A + Q
Sbjct: 216 NPIKIHIAPSNITNTDITQRFYVINEHERAEAIMRLLDTQAPEKSIVFTRTKKEADELHQ 275
Query: 224 AINKKNELVLKTMYKSKGDYKDNN----AYKKFSSTHTLNADAKVNHRLSSYSGATENTT 279
+ KN T D +D A+KK + + D V R SG + +
Sbjct: 276 FLASKN--YKSTALHGDMDQRDRRSSIMAFKKNDADVLVATD--VASRGLDISGVSHVFS 331
Query: 280 QKDLIDQENLLKTSENLNESTPKPTNLSPLEQANAEKLAKLESEKLESEKEFLKAKEQEA 339
++ E+ + + K ++ + ++L +++ E ++SE E E
Sbjct: 332 YHLPLNTESYIHRIGRTGRAGKKGMAITLVTPLEYKELLRMQKE-IDSEIELF---EIPT 387
Query: 340 TRKAALKKKLEHERGNAGNI---ESQTKI-EVGEDIPTQTQAQLPKSRVRLNEREI 391
+ + K L + + G I E T+I E + + Q S++ LN++EI
Sbjct: 388 INENQIIKTLHDAKVSEGIISLYEQLTEIFEPSQLVLKLLSLQFETSKIGLNQQEI 443
>ref|NP_223441.1| PREPROTEIN TRANSLOCASE SUBUNIT [Helicobacter pylori J99]
Length = 865
Score = 31.6 bits (70), Expect = 0.099
Identities = 27/133 (20%), Positives = 60/133 (44%), Gaps = 7/133 (5%)
Query: 196 ILRTLDNENKELISAFKQINGYAVVVEQAINKKNELVLKTMYKSKGDYKDNNAYKKFSST 255
+ R ++N K++ + + + + + N++ K++YK + + D N S+
Sbjct: 583 VTRAVENAQKKVENLHFESRKHLLEYDDVANEQR----KSVYKFRDELLDINY--DISAK 636
Query: 256 HTLNADAKVNHRLSSYSGAT-ENTTQKDLIDQENLLKTSENLNESTPKPTNLSPLEQANA 314
N + +N S +N ++++L+ +N+LK N + SP+E+ A
Sbjct: 637 IAENREYALNQIFSKLKAFDHQNLSEEELLGLKNILKEDFNASVELEDLEKASPIEKFVA 696
Query: 315 EKLAKLESEKLES 327
EKL K+++
Sbjct: 697 EKLKSDYENKMKA 709
>ref|NP_223574.1| putative vacuolating cytotoxin (VacA) paralog [Helicobacter pylori
J99]
Length = 2399
Score = 31.2 bits (69), Expect = 0.13
Identities = 55/274 (20%), Positives = 106/274 (38%), Gaps = 44/274 (16%)
Query: 63 QASEEIKEKARDFSNQKLTNEQIK-----------DLLNNAEIPTSGRDAITFG------ 105
+AS+ I +++N + + I+ D NN + S +T+G
Sbjct: 722 KASDNITMDGLNYNNAETVTKMIQTGASQHSYTTFDATNNISVTDSDFSDMTWGKFSFSA 781
Query: 106 --VNNLNPEIVEFLHKNNKKMIIEKASNK----ELELLKDANFKHPENIRASLDHDAIAH 159
++ N F + I ASN + L A + N + A+ +
Sbjct: 782 KNISFSNASFSGFTNPGGSSTISTNASNSLSFTDSRLNGGAIYNLQANSLIFNNTQAVFN 841
Query: 160 ILKRHGVNSVNVRNGEIPITNEDIANYRYIVNNADAILR-----TLDNENKELISAFKQI 214
+L G ++ N + T+ +++ + N D L+ TL N+++ +AFK
Sbjct: 842 VLYSRGTSNFNATTQLLGNTSFTLSSQSLLNFNGDTTLQNNANITLGNKSQ---AAFK-- 896
Query: 215 NGYAVVVEQAINKKNELVLKTMYKSKGDYKD-----NNAYKKFSS------THTLNADAK 263
N + ++ N+ VL S + + N + FSS T +LNA++K
Sbjct: 897 NSLTLDNNSNLSLDNQSVLNANGTSAFNNQASLNIYNGSQAAFSSLFFNGGTLSLNANSK 956
Query: 264 VNHRLSSYSGATENTTQKDLIDQENLLKTSENLN 297
+N +S+S T +++ N + N+N
Sbjct: 957 LNASSASFSNNTTINLDDSVLNANNTSSLNANIN 990
Score = 31.2 bits (69), Expect = 0.13
Identities = 74/376 (19%), Positives = 126/376 (32%), Gaps = 49/376 (13%)
Query: 29 SISDFSKNLELSTQKSHFSNNTLKIIEEL-----NNGVKQASEEIKEKARDFSNQKLTNE 83
+ S + N +S ++ F+ T N+ Q + F N N+
Sbjct: 244 NFSGNNNNSTISFNQTSFNQGTYNFSNSATLSFNNSNFNQGTYHFNSAQSTFENSNF-NQ 302
Query: 84 QIKDLLNNAEIPTSGRDAITFGVNNLNPEIVEFLHKNNKKMIIEKASNK-ELELLKDANF 142
+ +N D G N N V F N AS K + A F
Sbjct: 303 GTYNFNDNTSF---NNDTFNQGTYNFNSSKVSFSGANTLNSSSPFASLKGSVSFNSGAIF 359
Query: 143 KHPENIRASLDHDAIAHILKRHGVNSVNVRN----------GEIPITNEDIANYRYIV-- 190
N+ +L+++ IL +G V G+ I++ +++N Y V
Sbjct: 360 ----NLNQTLNNNQTYDILTTNGAIQYGVYQSYLWDLINYKGDKAISHVEVSNNTYDVTF 415
Query: 191 --NNADAILRTLDNENKELISAFK----QINGYAVVVEQAINKKNELVLKTMYKSKGDYK 244
N D L+ + N+ +I+ F Q E N +N L S
Sbjct: 416 DINGQDETLQETFS-NQSIITQFLGDDLQQQAQQTYQEDVANSQNAL---NKVASDNTIA 471
Query: 245 DNNAYKKFSSTHTLNADAKVNHRLSSYSGATENTTQKDLIDQENLLKTSENLNESTPKPT 304
+N+ SS T+ DA+ ENT Q+ D++ L K + + T
Sbjct: 472 NNDTSYTQSSNPTILKDAQ----------GLENTNQQIQQDEKALEKDLAQIKQLANSTT 521
Query: 305 NLSPLEQANAEKLAKLESEKLESEKEFLKAKEQEATRKAALKKKLEHERGNAGNIESQTK 364
+ A+K + + + L++++ EQE +A K H S T
Sbjct: 522 GFNEQAFTQAQKQEQQDEQALQNDENAFNT-EQEGLEQAIANAK--HANPTPNPTPSPTP 578
Query: 365 IEVGEDIPTQTQAQLP 380
+ P +Q+P
Sbjct: 579 TPIKHTAPNTPPSQVP 594
>ref|NP_222831.1| putative [Helicobacter pylori J99]
Length = 412
Score = 30.8 bits (68), Expect = 0.17
Identities = 23/78 (29%), Positives = 39/78 (49%), Gaps = 3/78 (3%)
Query: 276 ENTTQKDLIDQENLLKTSENLNESTPKPTNLSPLEQANAEKLAKLESEKLESEKEFLKAK 335
E QK +++ K+ L + K TN S +E AN++ A+ E +K E EK+ KA
Sbjct: 144 EQERQKTEQERQKTNKSEIELEQERQK-TNKSGIELANSQIKAEQERQKTEQEKQ--KAN 200
Query: 336 EQEATRKAALKKKLEHER 353
+ E + +K + +R
Sbjct: 201 KSEIELEQQKQKTINTQR 218
>ref|NP_224128.1| TYPE III RESTRICTION ENZYME [Helicobacter pylori J99]
Length = 969
Score = 30.4 bits (67), Expect = 0.22
Identities = 29/90 (32%), Positives = 36/90 (39%), Gaps = 13/90 (14%)
Query: 274 ATENTTQKDLIDQENLLKTSENLNESTPKPTNLSPLEQANAEKLAKLESEKLESEKEFLK 333
AT N T + Q +KT +NL T ++S LE EK+ K E L L
Sbjct: 284 ATINYTTLENKIQSVKVKTHDNLGALT----HISALEDYIVEKITKTEIRFLNGFNLLLD 339
Query: 334 AKE---------QEATRKAALKKKLEHERG 354
KE QE K A+K E E G
Sbjct: 340 QKEPFSHLLEGEQEVMLKEAIKSHFEREEG 369
>ref|NP_223213.1| cag island protein, CYTOTOXICITY ASSOCIATED IMMUNODOMINANT ANTIGEN
[Helicobacter pylori J99]
Length = 1167
Score = 30.4 bits (67), Expect = 0.22
Identities = 49/191 (25%), Positives = 72/191 (37%), Gaps = 34/191 (17%)
Query: 578 MFNMPRTKTQGIELLNRWKKEFSNDIK--SYEKVKKMFVDNAGSFHNLIHD-LNFPKVSL 634
+FN+P I + R E K S ++ K+ D S L+ LNF K
Sbjct: 541 VFNLPNLNNLAITSVVRQDLEDKLIAKGLSPQEANKLVKDFLSSNKELVGKALNFNKAVA 600
Query: 635 NAYLSDIMDRSFANLKNYQSTSESLKDLSEKFYKTSSLE---------------MFEKSD 679
A N NY ++ KDL + K LE E
Sbjct: 601 EA----------KNTGNYDEVKQAQKDLEKSLKKRERLEKDVAKNLESKSGNKNKMEAKS 650
Query: 680 QSTSDISEILGGAIARFARFDDPSKALFEALRSDNIKKGLKDYKIADVTKDM--FNADSK 737
Q+ S EI I + A D ++A+ A IK+ L D K+ ++ KD+ F+
Sbjct: 651 QANSQKDEIF-ALINKEANRD--ARAIAYAQNLKGIKRELSD-KLENINKDLKDFSKSFD 706
Query: 738 EFKDIDIYDFT 748
EFK+ DF+
Sbjct: 707 EFKNGKNKDFS 717
Score = 25.8 bits (55), Expect = 5.4
Identities = 16/68 (23%), Positives = 34/68 (49%), Gaps = 5/68 (7%)
Query: 25 ERSHSISDFSKNLELSTQK-----SHFSNNTLKIIEELNNGVKQASEEIKEKARDFSNQK 79
E + + F NL+++ K + F N I+++ + +QA E+I + +F+N+
Sbjct: 13 EAAFNPQQFINNLQVAFIKVDNVVASFDPNQKPIVDKNDRDNRQAFEKISQLREEFANKA 72
Query: 80 LTNEQIKD 87
+ N K+
Sbjct: 73 IKNPTKKN 80
>ref|NP_223194.1| cag island protein [Helicobacter pylori J99]
Length = 1819
Score = 30.4 bits (67), Expect = 0.22
Identities = 77/362 (21%), Positives = 137/362 (37%), Gaps = 49/362 (13%)
Query: 33 FSKNLELSTQKSHFSN--NTLKIIEELNNGVK----QASEEIKEKARDFSNQKLTNEQIK 86
F K LEL + + + K E N +K +A E +K++A D T+E+ K
Sbjct: 427 FRKELELQKELQEYKDCIKNAKTEAEKNECLKGLSKEAIERLKQQALDCLKNAKTDEERK 486
Query: 87 DLLNN----------AEIPTSG-RDAITFGVNNLNPEIVEFLHKNNKKMIIEKASNKELE 135
+ L N A++ +D ++ N + E L K ++E N+ L+
Sbjct: 487 ECLKNIPQDLQKELLADMSVKAYKDCVSRARNEKEKQECEKLLTPEAKKLLE---NQALD 543
Query: 136 LLKDANF-KHPENIRASLDHDAIAHILKRHGVNSVNVRNGEIPITNEDIANYRYIVNNAD 194
LK+A + + +L D + IL + + + + E + + A
Sbjct: 544 CLKNAKTDEERKECLKNLPKDLQSDILAKESLKAYKDCASQAKTEAEKKECEKLLTPEAK 603
Query: 195 AILRTLDNENKELISAFKQINGYAVV------VEQAINKKNELVLKTMYKSKGDYKD--- 245
+ L+ E KE + A+ A E+ + + + L+ KS Y D
Sbjct: 604 ---KLLEEEAKESVKAYLDCVSQAKTEAEKKECEKLLTPEAKKKLEEAKKSVRAYLDCVS 660
Query: 246 --NNAYKKFSSTHTLNADAK---VNHRLSSYSGATENTTQKDLI-----DQENLLKTSEN 295
N ++ L +AK N L A + +K+ + D + + E+
Sbjct: 661 KAKNEAERKECEKLLTPEAKKLLENQALDCLKNAKTDEERKECLKDLPKDLQKKVLAKES 720
Query: 296 LN---ESTPKPTNLSPLEQANAEKLAKLESEK-LESEKEFLKAKEQEATRKAALKKKLEH 351
+ + K N E+ EKL E+ K LE K+ +KA + R K+K E
Sbjct: 721 VRVYLDCVSKAKN--EAERKECEKLLTPEARKLLEEAKKSVKAYKDCVLRARNEKEKQEC 778
Query: 352 ER 353
E+
Sbjct: 779 EK 780
Score = 28.5 bits (62), Expect = 0.84
Identities = 23/84 (27%), Positives = 34/84 (40%), Gaps = 7/84 (8%)
Query: 250 KKFSSTHTLNADA-KVNHRLSSYSGATENTTQKDLIDQENLLKTSENLNESTPKPTNLSP 308
+ F+ +L+ + K+N + + TQ DLID E KT ++ P +LS
Sbjct: 101 RPFTQQKSLDEETQKLNEEDDQENNEHQEETQTDLIDDETSEKTQQD------SPQDLSN 154
Query: 309 LEQANAEKLAKLESEKLESEKEFL 332
E A L E ES L
Sbjct: 155 EEATEANHFEDLLKESTESSDNHL 178
>ref|NP_224152.1| DNA REPAIR PROTEIN(RECOMBINATION PROTEIN N) [Helicobacter pylori
J99]
Length = 522
Score = 29.6 bits (65), Expect = 0.38
Identities = 28/133 (21%), Positives = 58/133 (43%), Gaps = 1/133 (0%)
Query: 228 KNELVLKTMYKSKGDYKDNNAYKKFSSTHTLNADAKVNHRLSSYSGATENTTQKDLIDQE 287
+ L + M + D K++ + L++ K+N +++ ENT K E
Sbjct: 188 EERLNFEKMKLERLDLKEDEYERLLEQKKLLSSKEKLNDKIALALDVLENT-HKITHALE 246
Query: 288 NLLKTSENLNESTPKPTNLSPLEQANAEKLAKLESEKLESEKEFLKAKEQEATRKAALKK 347
++ ++E L + + L EQA E+ +L+ EK+ + L ++ A K+
Sbjct: 247 SVGHSAEFLKSALLEAGALLEKEQAKLEECERLDIEKVLEKLGMLSGIIKDYGSIAHAKE 306
Query: 348 KLEHERGNAGNIE 360
+L H + N++
Sbjct: 307 RLGHVKNELHNLK 319
>ref|NP_222912.1| putative [Helicobacter pylori J99]
Length = 916
Score = 29.6 bits (65), Expect = 0.38
Identities = 35/176 (19%), Positives = 73/176 (40%), Gaps = 29/176 (16%)
Query: 590 ELLNRWKKEFSNDIKSYEKVKKMFVDNAGSF--------HNLIHDLNFPKVSLNAYLSDI 641
E R EF ++I+ ++++KK F N S N + P+ +N L +I
Sbjct: 212 ENFKRQFNEFESNIEKHDEIKKDFERNKESLIREIENHCKNECNSEEEPEYKINDLLKNI 271
Query: 642 MD--RSFANLKNYQSTSESLKDLSEKFYKTSSLEMFEKSDQSTSDISEILGGAIARFA-- 697
+++ S+ +K + +FY I ++ I R+
Sbjct: 272 QQICKNYIESHAVNDVSKDIKSMMCQFY--------------LKQIDLLVNSEIVRYRYS 317
Query: 698 -RFDDPSKALFEALRSDNIKKGLKDY-KIADVTKDMFNADSKEFKDI-DIYDFTHY 750
F+ ++L+E+++ + + G+ + K KD F A+ ++FK ++ +F Y
Sbjct: 318 NLFEPIQRSLWESIKILDNESGIYLFPKNIGEIKDKFEANKEKFKQSKNVSEFAEY 373
>ref|NP_223646.1| putative [Helicobacter pylori J99]
Length = 150
Score = 29.3 bits (64), Expect = 0.49
Identities = 28/93 (30%), Positives = 49/93 (52%), Gaps = 8/93 (8%)
Query: 281 KDLIDQENLLKTSENLNESTP-KPTNLSPLEQANAEKLAKLESEKLE-SEKEFLKAKEQ- 337
K LID +L K S++ N P + L+ NAEK A LE+E+ E K K+ ++
Sbjct: 53 KTLID--DLAKMSKDRNYKPAFNPKSKEVLKNLNAEKRASLENEREEQGVKGNTKSHDEI 110
Query: 338 EATRKAALKKKLEHERGNAGNI---ESQTKIEV 367
E + ++K++E A N+ E++ ++E+
Sbjct: 111 EPATEQVIEKEIEKGDEIANNVDYYENEQEVEI 143
>ref|NP_223571.1| CARBAMOYL-PHOSPHATE SYNTHASE LARGE CHAIN [Helicobacter pylori J99]
Length = 1085
Score = 29.3 bits (64), Expect = 0.49
Identities = 40/171 (23%), Positives = 71/171 (41%), Gaps = 17/171 (9%)
Query: 271 YSGATENTTQKDLIDQENLLKTSENLNESTPKPTNLSPLEQANAEKLAKL-ESEKLESEK 329
YSG T K L + L+ ++ + P+ ++ + ++ E +A + + EK+++
Sbjct: 28 YSGTQSCKTLKSLGYRVILINSNPATVMTDPEFSHQTYIQPITPENIAAIIKKEKIDA-- 85
Query: 330 EFLKAKEQEATRKAALKKKLEHERGNAGNIESQ-TKIEV---GEDIPTQTQAQL------ 379
L + A ++ H+RG +E KIE GED +A L
Sbjct: 86 -ILPTMGGQTALNAVMQM---HQRGMLEGVELLGAKIEAIKKGEDRQAFKEAMLKIGMDL 141
Query: 380 PKSRVRLNEREIYDLDYAIVKAKDLKPSFTTGGTQKRTDMNEEQIKSIAEN 430
PK R +E E + I ++ SFT G N E+ + +A+N
Sbjct: 142 PKGRYAYSELEALEAISEIGFPAIIRASFTLAGGGSGVAYNIEEFQELAKN 192
>ref|NP_222840.1| putative [Helicobacter pylori J99]
Length = 285
Score = 29.3 bits (64), Expect = 0.49
Identities = 21/81 (25%), Positives = 37/81 (44%), Gaps = 8/81 (9%)
Query: 272 SGATENTTQKDLIDQENLLKTSENLNESTPKPTNLSPLEQANAEKLAKLESEKLESEKEF 331
SG E+ T D + +S+ N S P +L P+ AN K + + S+KE
Sbjct: 200 SGELESHT-----DSPEFISSSKTQNSSNP---DLDPMTNANTLKETASKEPETSSKKEK 251
Query: 332 LKAKEQEATRKAALKKKLEHE 352
K++ ++K ++ L+ E
Sbjct: 252 KPKKKRRLSKKEKQQQALQQE 272
>ref|NP_223839.1| 50S RIBOSOMAL PROTEIN L7/L12 [Helicobacter pylori J99]
Length = 125
Score = 28.9 bits (63), Expect = 0.64
Identities = 24/99 (24%), Positives = 45/99 (45%), Gaps = 5/99 (5%)
Query: 672 LEMFEKSDQSTSDISEILGGAIARFARFDDPSKALFEALRSDNIKKGLKDYKIADVTKDM 731
++MFE+ ++ + + G A+A A + K F + +D+ G + K+ V +++
Sbjct: 24 VKMFEEKFGVSATPTVVAGAAVAGGAAAESEEKTEFNVILADS---GAEKIKVIKVVREI 80
Query: 732 FNADSKEFKDIDIYDFTHYLLMVNREPNENNPILKRLIE 770
KE KD + T ++L E I K+L E
Sbjct: 81 TGLGLKEAKDAT--EKTPHVLKEGVNKEEAETIKKKLEE 117
>ref|NP_223764.1| FLAGELLAR HOOK-ASSOCIATED PROTEIN 1 (HAP1) [Helicobacter pylori
J99]
Length = 606
Score = 28.9 bits (63), Expect = 0.64
Identities = 62/301 (20%), Positives = 111/301 (36%), Gaps = 78/301 (25%)
Query: 7 LNEATAGAALKYHIKRALERSHSISDFSKNLELSTQKSHFSNNTLKIIEELNNGVKQASE 66
++EA+ L+ + E S + D ++ L+ + ++N E L +ASE
Sbjct: 105 IDEASLFTDLQDYFNSWKELSKNAKDSAQKQALAQKTEALTHNIKDTRERLTTLQHKASE 164
Query: 67 EIKEKARDFSNQKLTNEQIKDLLNNAEIPTSGRDAITFGVNNLNPEIVEFLHKNNKKMII 126
E+K ++ VN+L +I E K I
Sbjct: 165 ELKSVIKE-------------------------------VNSLGSQIAEI-----NKRIK 188
Query: 127 EKASNKELELLKDANFKHPE---NIRASLDHDAIAHILKRHGVNSVNVRNGEIPITNEDI 183
E +NK L+ + K E ++R L + +K H +T++D
Sbjct: 189 EVENNKSLKHANELRDKRDELEFHLRELLGGNVFKSSIKTHS------------LTDKDS 236
Query: 184 ANYRYIVNNADAILRTLDNENKELISAFKQING---YAVVVEQAINKKNELVLKTMYKSK 240
A++ ++ N + F I+G + +VV+++ NK L +Y
Sbjct: 237 ADFD-------------ESYNLNIGHGFNIIDGSIFHPLVVKESENKGG---LNQVYFQS 280
Query: 241 GDYKDNNAYKKFSSTHTLNADAKVNHRLSSYSGATENTTQKDLIDQENLLKT-SENLNES 299
D+K N K + KV L+ Y+ + T + L D +LL + + L ES
Sbjct: 281 DDFKLTNITDKLN-------QGKVGALLNVYNDGSNGTLKGKLQDYIDLLDSFARGLIES 333
Query: 300 T 300
T
Sbjct: 334 T 334
>ref|NP_223407.1| putative FLAGELLAR HOOK-ASSOCIATED PROTEIN 2 (HAP2) [Helicobacter
pylori J99]
Length = 685
Score = 28.9 bits (63), Expect = 0.64
Identities = 37/152 (24%), Positives = 65/152 (42%), Gaps = 18/152 (11%)
Query: 1 MKLPKALNEATAGAALKYHIKRALERSHSISDFSKNLELSTQKSHFSNNTLKIIEELNNG 60
++LP++ + AA++ +++ALE + D N ++S H +L I +
Sbjct: 239 LELPESASIKQKNAAIQKAMEQALENDPNFKDLIANGDISIDTLH-GGESLIINDRRGGN 297
Query: 61 VKQASEEIKEKARDFSNQKLTNEQIKDLLNNAEIPTSGRDAITFGVNNLNPEIVEF---- 116
++ + KE FS T Q DLL +A G+ GV +LN + ++
Sbjct: 298 IEVKGSKAKELG--FSQ---TTTQESDLLKSARTIKEGK---LEGVVSLNGQKLDLSALT 349
Query: 117 ----LHKNNKKMIIEKASNKE-LELLKDANFK 143
+ N II+ + KE L K+A K
Sbjct: 350 KESNTSEENTDAIIQAINAKEGLNAFKNAEGK 381
>ref|NP_223367.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 657
Score = 28.9 bits (63), Expect = 0.64
Identities = 22/70 (31%), Positives = 30/70 (42%), Gaps = 17/70 (24%)
Query: 393 DLDYAIVK-------AKDLKPSFTTGGTQKRTDMNEEQIKSIAENFDPKKIFGSG----G 441
DLD ++K D+ PS G + Q+ +A DPKK+FG
Sbjct: 285 DLDVIVLKDSGVVGLGSDITPSNNDDGK------HYGQLGVVASALDPKKLFGDNLKTIN 338
Query: 442 FEDLPIILHD 451
EDL ILH+
Sbjct: 339 LEDLRTILHE 348
>ref|NP_224131.1| putative [Helicobacter pylori J99]
Length = 115
Score = 28.5 bits (62), Expect = 0.84
Identities = 26/116 (22%), Positives = 52/116 (44%), Gaps = 16/116 (13%)
Query: 29 SISDFSKNLELSTQKSHFSNNTLKIIEELNNGVKQASEEIKEKARDFSNQKLTNEQIKDL 88
S+ K+ + +SH NNT NN + Q +++IK+ + ++K+T E + DL
Sbjct: 16 SVLSACKDEPKKSSQSH-QNNTKTT---QNNQINQPNKDIKKIEHEEEDEKVTKE-VNDL 70
Query: 89 LNNAEIPTSGRDAITFGVNNLNPEIVEFLHKNNKKMIIEKASNKELELLKDANFKH 144
+NN ++ +N E + ++++A+N + L N K+
Sbjct: 71 INNEN-----------KIDEINNEENADPSQKRTNNVLQRATNHQDNLSSPLNRKY 115
>ref|NP_223889.1| putative [Helicobacter pylori J99]
Length = 219
Score = 28.5 bits (62), Expect = 0.84
Identities = 21/99 (21%), Positives = 40/99 (40%), Gaps = 1/99 (1%)
Query: 275 TENTTQKDLIDQENLLKTSENLNESTPKPTNLSPLEQANAEKLAKLESEKLESEKEFLKA 334
+E Q + + E P + PL+ A ++ K E K E ++E +
Sbjct: 51 SETERQNSTFSPKEEANATTTATEQNPTKDTVPPLDTATQKQEIKQEI-KQEIKQEIKQE 109
Query: 335 KEQEATRKAALKKKLEHERGNAGNIESQTKIEVGEDIPT 373
+QE ++ + K E E+ N S + ++ + PT
Sbjct: 110 IKQEIKQEIKQETKQEQEKENKPKQNSVSPVQNDQKTPT 148
>ref|NP_223274.1| putative vacuolating cytotoxin (VacA) paralog [Helicobacter pylori
J99]
Length = 3194
Score = 28.5 bits (62), Expect = 0.84
Identities = 48/212 (22%), Positives = 80/212 (37%), Gaps = 26/212 (12%)
Query: 97 SGRDAITFGVNNLNPEIVEFLHKNNKKMIIEKASNKELELLKDANFKHPENIRASLDHDA 156
+G ++F N++ V F + NN ++ ++ + D N ++ L + A
Sbjct: 1689 NGSSLLSFNGNSVFNAPVNF-YANNSQISFTHSATFNADASFDLGNNSTLNFQSVLLNSA 1747
Query: 157 IAHILKRHGVNSVNVRNGEIPITNEDIANYRYI-VNNADAILRTLDNENKELISAFKQIN 215
+ ++L G N G ++ I N Y+ + D D + I + N
Sbjct: 1748 L-NLLGNGGNNLAINAKGNFSFGSQGILNLSYMNLFGGDKKASVYDVLQAQNIDGLRGNN 1806
Query: 216 GYAVVVEQAINKKNELVLKTMYKSKGDYKDNNAYKKFSSTHTLNADAKV-----NHRLS- 269
GY + I + K DY NN +S T+ LN + N+RL
Sbjct: 1807 GYEKIRFYGIQIE-----------KADYSFNNGVHSWSFTNPLNTTETITETLHNNRLKV 1855
Query: 270 --SYSGATEN---TTQKDLID-QENLLKTSEN 295
S +GA+ N L D Q+N SEN
Sbjct: 1856 QISQNGASNNAMFNLAPSLYDYQQNPYDESEN 1887
Score = 26.6 bits (57), Expect = 3.2
Identities = 14/37 (37%), Positives = 21/37 (55%), Gaps = 3/37 (8%)
Query: 833 LVYGNSKYGLEHIFNRRESDAIDKGMSKEEAKKYALK 869
+ Y N K L+ F++ S KG+ K+ AKKY +K
Sbjct: 1 MTYRNGKIDLKERFSKNRSF---KGIKKKIAKKYTIK 34
>ref|NP_222770.1| Proline/pyrroline-5-carboxylate dehydrogenase [Helicobacter pylori
J99]
Length = 1185
Score = 28.5 bits (62), Expect = 0.84
Identities = 28/120 (23%), Positives = 53/120 (43%), Gaps = 16/120 (13%)
Query: 305 NLSPLEQANAEKLAKLESEKLESEKEFLKAKEQEATRKAALKKKLEHE------------ 352
NL+PLE + K+ S L ++ LKA E + K+ +K E
Sbjct: 520 NLTPLEVFDRIHHKKIASVHLADKEAILKALEVAKSDKSRFSQKSFTEIHALLSQTAQLF 579
Query: 353 RGNAGNIESQTKIEVGEDIPTQTQAQLPKSRVRLNEREIYDLDYAIVKAKDLKPSFTTGG 412
R G++ + +EVG+ +T A++ ++ ++ E Y +++ ++ K FT G
Sbjct: 580 RERRGDLIGISALEVGKTF-AETDAEVSEA---IDFLEFYPYSLRVLQEQNKKTKFTPKG 635
Score = 28.1 bits (61), Expect = 1.1
Identities = 68/318 (21%), Positives = 122/318 (37%), Gaps = 28/318 (8%)
Query: 519 NSESDHAIAVLSHYEAKLKELDQKLDADSIYS-LKNIVAKNLNFDKATHPNVTDSNLALL 577
N ES+ IA + + L K D DS Y+ + + V + N+ K H N+ +
Sbjct: 291 NMESEETIASMKDWA--LPTFSSKQDTDSNYNKMLDFVLEGDNY-KYIHIGAASHNIFEI 347
Query: 578 MFNMPRTKTQG---------IELLNRWKKEFSNDIKSYEK-VKKMFVDNAGSFHNLIHDL 627
+ R E+L + S ++K K + V + F+N I L
Sbjct: 348 AYVYTRIHALNDPVVLEHFSFEMLEGMSLQASQELKEMHKLILYAPVCDEAHFNNAIAYL 407
Query: 628 NFPKVSLNAYLSDIMDRSFANLKNYQSTSESLKDLSEKFYKT-SSLEMFEKSDQSTSDIS 686
++ N + M ++F NLK TSE KD ++F + + + + T D +
Sbjct: 408 -VRRLDENTSSDNFM-KAFFNLK--VGTSE-WKDQEQRFLNSLKGIATLDNTTHRTQDRN 462
Query: 687 -EILGGAIARFARFDDPSKALFEALRSDNIKKGLKDYKIADVTKDMFNADSKEFKD---- 741
+ G F + S F + K ++D +++ F+D
Sbjct: 463 AKQTGHTTYPNHSFKNESDTDFILKANREWAKKVRDKMHNAPILELYPEIDGRFEDPNLT 522
Query: 742 -IDIYDFTHYLLMVNREPNENNPILKRLIEAVKDMQKESEKGIKQKLETPSEWGHNYSEF 800
++++D H+ + + + ILK L A D + S+K + S+ + E
Sbjct: 523 PLEVFDRIHHKKIASVHLADKEAILKALEVAKSDKSRFSQKSFTEIHALLSQTAQLFRER 582
Query: 801 KGDGLGAINKLLETKKGF 818
+GD +G LE K F
Sbjct: 583 RGDLIGI--SALEVGKTF 598
>ref|NP_223180.1| putative [Helicobacter pylori J99]
Length = 706
Score = 28.1 bits (61), Expect = 1.1
Identities = 44/210 (20%), Positives = 79/210 (36%), Gaps = 40/210 (19%)
Query: 36 NLELSTQKSHFSNNTLKIIEELNNGVKQASEEIKEKARDFSNQKLTNEQIKDL--LNNAE 93
NL L+ + +SN + + ++ G KQ+S ++ N+ +KDL E
Sbjct: 481 NLTLTGYNAKYSNKSFQEKRDMEKGFKQSSLKL-------------NKNLKDLEPFGEKE 527
Query: 94 IPTSGRDAITFGVNNLNPEIVEFLHKNNKKMIIEKASNKELELLKDANFKHPENIRASLD 153
I D + + + I+E K EK KE + ++ K + +
Sbjct: 528 IEKRASDLVDWALKIWTYPILEAETLEEYKPKKEKKEKKEKKEKEEYKLKKEKKV----- 582
Query: 154 HDAIAHILKRHGVNSVNVRNGEIPITNEDIANYRYIVNNADAILRTLDNENKELIS-AFK 212
+D ++ H ++ EI +E R +N N + I+ F
Sbjct: 583 YDLSSYKFSPHSRELFDILRKEIKTLDE----------------RVTENFNSKYIAYKFF 626
Query: 213 QINGYAVVVEQAINKKNELVLKTMYKSKGD 242
+IN +VV+ NK +L LK + D
Sbjct: 627 KINFVDIVVQ---NKVLKLYLKMEFNELQD 653
Score = 25.4 bits (54), Expect = 7.1
Identities = 23/105 (21%), Positives = 41/105 (38%), Gaps = 13/105 (12%)
Query: 200 LDNENKELISAFKQINGYAVVVEQAINKKNELVLKTMYKSKG-------------DYKDN 246
LD E + F+ +N + + Q +N ++++T + K D+K N
Sbjct: 185 LDKEKDDPQLIFESMNSKGIELTQTDLIRNYIIMETETEEKQKDFYNGYWRAMEEDFKQN 244
Query: 247 NAYKKFSSTHTLNADAKVNHRLSSYSGATENTTQKDLIDQENLLK 291
H L + GA ++ QK+ I+ E+LLK
Sbjct: 245 ETLFNRFVRHYLTIKTGKIPNIKKVYGAFKDYQQKEGIEIEDLLK 289
>ref|NP_223176.1| putative [Helicobacter pylori J99]
Length = 450
Score = 28.1 bits (61), Expect = 1.1
Identities = 31/149 (20%), Positives = 61/149 (40%), Gaps = 15/149 (10%)
Query: 286 QENLLKTSENLNESTPKPTNLSPLEQANAEKLAKLESEKLESEKEFLKAKEQEATRKAAL 345
++ +K + N+ T N LE+ N +K + K E + + K+ +AT+KA
Sbjct: 264 KQEAIKEPKKANQGTE---NAPTLEEKNYQKAERKFDAKEERRRSRDERKKTKATKKAME 320
Query: 346 KKKLEHERGNAGNIESQTKIEVGEDIPTQTQAQLPKSRVRLNEREIYDLDYAIVKAKDLK 405
++ E E E++ + + ++ K ++N +E + I + +
Sbjct: 321 FEEREKEHDERDEKETEER---------RKALEMDKGNEKVNAKE---NEREINQESANE 368
Query: 406 PSFTTGGTQKRTDMNEEQIKSIAENFDPK 434
PS T K T+ +S A+ PK
Sbjct: 369 PSSENNATLKDTENTSVLKESAAKKEAPK 397
>ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [Helicobacter pylori J99]
Length = 681
Score = 28.1 bits (61), Expect = 1.1
Identities = 36/163 (22%), Positives = 63/163 (38%), Gaps = 17/163 (10%)
Query: 291 KTSENLNESTPKPTNLSPLEQA-NAEKLAKLESEKLESEKEFLKAKE-QEATRKAALKKK 348
K + L S+ L+ +++ N E+ K+ E+LE +FLK K+ E +R + +
Sbjct: 113 KYQKKLVSSSEYAKKLNAIDKIKNTEEKQKVLDEELEDGYDFLKEKDFLEWSRSDSPVRM 172
Query: 349 LEHERGNA------GNIESQTKIEVGEDIPTQTQAQLP---------KSRVRLNEREIYD 393
E G+ IE +I +GEDI +P K + ER + +
Sbjct: 173 YLREMGDIKLLSKDEEIELSKQIRLGEDIILDAICSVPYLIDFIYAYKDALINRERRVKE 232
Query: 394 LDYAIVKAKDLKPSFTTGGTQKRTDMNEEQIKSIAENFDPKKI 436
L + + S D E+ K + D K++
Sbjct: 233 LFRSFDDDDENSVSDPKKDDDSEEDEENEERKKVVSEKDKKRV 275
>ref|NP_223990.1| putative [Helicobacter pylori J99]
Length = 1164
Score = 27.7 bits (60), Expect = 1.4
Identities = 78/350 (22%), Positives = 131/350 (37%), Gaps = 37/350 (10%)
Query: 614 VDNAGSFHNLIH-DLNFPKVSLNAYLSDIMDRS-FANLKNYQSTSESLKDLSEKFYKTSS 671
+ NA F N + + K +L AY D S F N K Y S +D S+ F +T +
Sbjct: 158 ITNAKDFANALSAPTRYLKDALIAYQKDDQVSSIFKNFKEYLYEELSFEDFSDAFAQTLT 217
Query: 672 LEMF---EKSDQSTSDISEILGGAIARFARFDDPSKALFEALRSDNIKKGLKDYKIADVT 728
+F D++ + FA + + L + I+ L + I
Sbjct: 218 YSLFLAKLNHPFEKIDLNNVRSSIPKNFAVIREMADFLKKLDAIQEIQWLLNEILILINH 277
Query: 729 KDM--FNADSKEFKDIDIYDFTHYLLMVNREPNENNP-----------ILKRLIEAVKDM 775
DM D + KD ++ + +L + + E I+ L +K
Sbjct: 278 VDMGPIIKDLNDDKDPYLHFYETFLSAYDPKLREKKGVYYTPDSVVEFIINALDSLLKTH 337
Query: 776 QKESEKGIKQKLETPSEWGHNYSEFKGDG-LGAINKLLETKKGFVAGAFHKEGLGDIDLV 834
K++ G+K L+ + +++ G L A K LE +K GA KE L
Sbjct: 338 FKDAPLGLKSALDNKNIKLLDFATGTGTFLLEAFRKALEVRKTSDGGASTKEDKYQNLL- 396
Query: 835 YGNSKYGLEHIFNRRESDAIDKGMSKEEAKKYALKIINNIPNIISNGKLSKDNLGRLSIE 894
YG E++ ++ + +E K LK + + I++N + + I
Sbjct: 397 --KQFYGFEYLIAPYAIAHLNLSQAFKEEFKKPLKENDTLKIILTNTLIQPSEI----IA 450
Query: 895 FENQRVGLNDSWKGETLNNRWVITSYEIDKSRNGLIESPLAPNYKGKDTN 944
+ GLN ++ E N + EI K+ N LI + P Y G N
Sbjct: 451 YR----GLNPIFEKELSN------AQEIKKNENILIITG-NPPYSGASEN 489
>ref|NP_223283.1| DNA MISMATCH REPAIR PROTEIN [Helicobacter pylori J99]
Length = 762
Score = 27.7 bits (60), Expect = 1.4
Identities = 25/109 (22%), Positives = 46/109 (41%), Gaps = 8/109 (7%)
Query: 110 NPEIVEFLHKNNKKMIIEKASNKELELLKDANFKHPEN-----IRASLDHDAIAHILKRH 164
N +IV H +K++ + A NKE+ELL + E ++ + R+
Sbjct: 438 NNQIVITTH--HKRLSVLMAENKEVELLAALYDEEKERPTYTFLKGVIGKSYAFETALRY 495
Query: 165 GVNSVNVRNGEIPITNEDIANYRYIVNNADAILRTLDNENKELISAFKQ 213
GV + + ED ++ N+ + R L +N+ L +A K+
Sbjct: 496 GVPPFLIEKAK-AFYGEDKEKLNVLIENSSTLERELKQKNEHLENALKE 543
>ref|NP_223025.1| putative [Helicobacter pylori J99]
Length = 501
Score = 27.7 bits (60), Expect = 1.4
Identities = 32/166 (19%), Positives = 60/166 (35%), Gaps = 18/166 (10%)
Query: 230 ELVLKTMYKSKGDYKDNNAYKKFSSTHTLNADAKVNHRLSSYSGATENTTQKDLIDQENL 289
E +L T+ + +G+ A ++ +V + +K D E
Sbjct: 159 EQLLPTLNEQEGETPKEEAQEEVKKEEVKEMQEEVKEKQKQEVAENPQDEEKPK-DDETQ 217
Query: 290 LKTSENLNESTPKPTNLSPLEQANAEKLAKLESEKLESEKEFLKAKEQEATRKAALKKKL 349
+E K L E+ K E E ++ E + +K ++QE T+ + ++L
Sbjct: 218 GSVEPPKDEEVSK--ELETQEELETPKEETQEQEPIKEETQEIKEEKQEKTQDSPSAQEL 275
Query: 350 E--------------HERGNAGNIESQTKIEVGEDIPTQTQAQLPK 381
E + E+Q E +DI TQ + ++PK
Sbjct: 276 EAMQELVKEIQENSNDQENKKETQETQENTETPQDIETQ-ELEIPK 320
>ref|NP_222834.1| THREONYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 612
Score = 27.7 bits (60), Expect = 1.4
Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 1/76 (1%)
Query: 603 IKSYEKVKKMFVDNAGSFHNLIHDLNFPKVSLNAYLSDIMDRSFANLKNYQSTSESLKDL 662
+K E +K +G + N ++ F + Y M+ ++K YQS S +DL
Sbjct: 269 VKGPEILKSDVWKISGHYDNYKENMYFTTIDEQEYGIKPMN-CVGHIKVYQSALHSYRDL 327
Query: 663 SEKFYKTSSLEMFEKS 678
+FY+ + EKS
Sbjct: 328 PLRFYEYGVVHRHEKS 343
>ref|NP_223645.1| putative [Helicobacter pylori J99]
Length = 2231
Score = 27.3 bits (59), Expect = 1.9
Identities = 47/235 (20%), Positives = 94/235 (40%), Gaps = 38/235 (16%)
Query: 466 NFTPKSRFSYERAI-KEYYHIDLKP---DELLVRVPHKRLN---NTEINNLAASSNQGRF 518
N K R Y+ + K+ HID+ D L+V H N T + +A NQ
Sbjct: 1497 NKLDKIRAKYDAILEKQGSHIDISQMGIDNLIVDEAHLFKNLAFETSMEKIAGLGNQQGS 1556
Query: 519 NSESDHAIAVLSHYEAKLKELDQKLDADSIYSLKNIVAKNLNFDKATHPNVTDSNLALLM 578
N D + + + Y L + D+K+ + + N +++ + + P+V
Sbjct: 1557 NRARD--LFIKTRY---LHQNDKKIMFLTGTPIANSLSEMYHLQRYLTPDVL-------- 1603
Query: 579 FNMPRTKTQGIELLNRWKKEFSNDIKSYEKVKKMFVDNAGSFHNLIHDLNFPKVSLNAYL 638
K +G+E + W K + + +E +D + + +++ F K S L
Sbjct: 1604 ------KERGLEFFDDWAKTYGEVVNDFE------LDTSAQSYKMVN--RFSKFSDVQGL 1649
Query: 639 SDIMDRSFANLKNYQSTSESLKDLSEKFYKTSSLEMFEKSDQSTSDISEILGGAI 693
S M R+FA++ + + K Y + + K + ++++ +G A+
Sbjct: 1650 S-TMYRAFADIVSNDDILKHNPHFVPKVYGDKPINVVVKRSE---EVAQFIGVAL 1700
>ref|NP_223617.1| putative [Helicobacter pylori J99]
Length = 500
Score = 27.3 bits (59), Expect = 1.9
Identities = 20/73 (27%), Positives = 36/73 (48%), Gaps = 13/73 (17%)
Query: 299 STPKPTNLSPLEQANA----------EKLAKLESEKLESEKEFLKAKEQEATR---KAAL 345
+TP +L+ L+ AN + +A+LE+E + E+EF + E+E + K +L
Sbjct: 86 ATPMTASLTILKYANTLSAEVEFYSLKDIAELENEHEKYEREFNRIVEEEVKKQKEKQSL 145
Query: 346 KKKLEHERGNAGN 358
+ + N GN
Sbjct: 146 SNRAKEGIRNVGN 158
>ref|NP_223038.1| putative [Helicobacter pylori J99]
Length = 112
Score = 27.3 bits (59), Expect = 1.9
Identities = 24/129 (18%), Positives = 59/129 (45%), Gaps = 25/129 (19%)
Query: 28 HSISDFSKNLELSTQKSHFSNNTLKIIEELNNGV-KQASEEIKEKARDFSNQKLTNEQIK 86
H + DF L+ Q H ++N + ++ + K+ S++I+E+A ++L E ++
Sbjct: 5 HQVKDF---LDFCKQTIHKNSN--EAFQKTKRALFKEKSQKIREQAVKIVEKRLIKENMQ 59
Query: 87 DLLNNAEIPTSGRDAITFGVNNLNPEIVEFLHKNNKKMIIEKASNKELELLKDANFKHPE 146
+++ N E ++ + + +K ++E+ KEL+ ++ KH +
Sbjct: 60 -------------------LSDFNEEELKIMFEAEEKRLLEQIHAKELKEKQEKTTKHFK 100
Query: 147 NIRASLDHD 155
+ D++
Sbjct: 101 EVWEKGDNE 109
>ref|NP_223648.1| topoisomerase I [Helicobacter pylori J99]
Length = 686
Score = 26.9 bits (58), Expect = 2.4
Identities = 30/143 (20%), Positives = 60/143 (40%), Gaps = 19/143 (13%)
Query: 199 TLDNENKELISAFKQINGYAVVVEQAINKKNELVLKTMYKSKGDYKDNNAYKKFSSTHTL 258
T ++ K ++ F+ N Y +++ K+ E VL + ++K Y D F S L
Sbjct: 512 TPTHKGKRVVEVFE--NAYQFIIDLTYTKQMEEVLDEIVENKSSYVD------FIS--NL 561
Query: 259 NADAKVNHRLSSYSGATENTTQKDLIDQENLLKTSE-NLNESTPKPTNLSPLEQANAEKL 317
N+ +L + +++ + EN+L+ + NL+E ++
Sbjct: 562 NSKCPKIEKLERNDDEIKPSSEGQITYIENILRDLQLNLSEEFK--------NYKEDNRV 613
Query: 318 AKLESEKLESEKEFLKAKEQEAT 340
AK ++ E EF K ++A+
Sbjct: 614 AKAFLDRYIKEHEFFKKNNKKAS 636
>ref|NP_223387.1| putative [Helicobacter pylori J99]
Length = 371
Score = 26.9 bits (58), Expect = 2.4
Identities = 29/103 (28%), Positives = 49/103 (47%), Gaps = 16/103 (15%)
Query: 2 KLPKALNEATAGAAL-KYHIKRALERSHSISDFSKNLELSTQKSHFSNNTLKIIEELNNG 60
K K L + AG L + H K +E + KN +S+ N LK++EEL N
Sbjct: 37 KKQKFLKDFKAGELLYQSHFKPLVE--FIAEELLKNSRAKIIQSN-CNKALKVVEELQNT 93
Query: 61 VK-----------QASEEIKEKARDFSNQKLTNEQIKDLLNNA 92
+K + ++E +++AR F+ + T++ I DL +A
Sbjct: 94 IKTTIEKQIDPGIKETQEHQQEAR-FNLDRSTDKFISDLEKSA 135
>ref|NP_223322.1| putative [Helicobacter pylori J99]
Length = 413
Score = 26.9 bits (58), Expect = 2.4
Identities = 16/52 (30%), Positives = 27/52 (51%)
Query: 307 SPLEQANAEKLAKLESEKLESEKEFLKAKEQEATRKAALKKKLEHERGNAGN 358
S L++ ++L E + E + + LK KE++ KA K + E G+A N
Sbjct: 36 SSLDKKIRQELKSKELKNKELKNKDLKNKEEKKETKAKRKPRAEVHHGDAKN 87
>ref|NP_222894.1| putative [Helicobacter pylori J99]
Length = 268
Score = 26.9 bits (58), Expect = 2.4
Identities = 21/73 (28%), Positives = 36/73 (48%), Gaps = 8/73 (10%)
Query: 286 QENLLKTSENLNESTPKPTNLSPLEQANAEKLAKLESEKLESEKEFLKAKE-----QEAT 340
++ L K +N+ + + N P++ A+ K EK ES+KE LKA E +
Sbjct: 87 EDKLDKVVDNIKKQESE--NSMPIQTDQAQMEMKTTEEKQESQKE-LKAVEPIPMSTQKE 143
Query: 341 RKAALKKKLEHER 353
+A KK+ H++
Sbjct: 144 SQAVAKKETPHKK 156
>ref|NP_223787.1| putative [Helicobacter pylori J99]
Length = 759
Score = 26.6 bits (57), Expect = 3.2
Identities = 36/155 (23%), Positives = 63/155 (40%), Gaps = 10/155 (6%)
Query: 201 DNENKELISAFKQINGYAVVV--EQAINKKNELVLKTMYKSKGDYKDNNAYKKFSSTHTL 258
D + + + S QI+ V E + +N + +Y + G K + +
Sbjct: 10 DKQQQNVSSGISQISLKKVATFDENGASFENLKSINFIYGANGSGKTTTSSFLKNLAENG 69
Query: 259 NADAKVNHRLSSYSGATENTTQKDLIDQENLLKTSENLNESTPKPTNLSPLEQANAEKLA 318
D N +++ Y+ N + K I+ N E L S K + L + E L
Sbjct: 70 IEDKFANSKIAWYN----NESLK--IEVYNKQFKEEQLRNSQVK--GIFTLGKKTNENLE 121
Query: 319 KLESEKLESEKEFLKAKEQEATRKAALKKKLEHER 353
K+ES+K KE K + EA+ + +KK + E+
Sbjct: 122 KIESKKESINKENEKKIKNEASLQVLTQKKEKEEK 156
>ref|NP_223773.1| putative [Helicobacter pylori J99]
Length = 263
Score = 26.6 bits (57), Expect = 3.2
Identities = 25/105 (23%), Positives = 45/105 (42%), Gaps = 5/105 (4%)
Query: 34 SKNLELSTQKSHFSNNTLKIIEELNNGVKQASEEIKEKARDFSNQKLTNEQIKDLLNNAE 93
++ +E T+K + L+ EE +++ E+I DF + N Q + N E
Sbjct: 62 NEKIEKVTEKQ---GDFLEPKEEPKEEPEESLEDIFSSLNDFQEKTDKNAQKDEQKNEQE 118
Query: 94 IPTSGRDAITFGVNNLNPEIVEFLHKNNKKMI--IEKASNKELEL 136
R+ N N E+++ L +N + +E NK L+L
Sbjct: 119 EQRRLREQQRLKQNQENQEMLKGLQQNLNQFTQKLESVKNKTLDL 163
>ref|NP_223537.1| vacuolating cytotoxin [Helicobacter pylori J99]
Length = 1288
Score = 26.6 bits (57), Expect = 3.2
Identities = 42/226 (18%), Positives = 87/226 (37%), Gaps = 30/226 (13%)
Query: 358 NIESQTKIEVGEDIPTQTQAQLPKSRVRLNEREIYDLDYAIVKAKDLKPSFTTGGTQKRT 417
N+ + + DI + T P ++ + I + ++ ++KAK + + GT +
Sbjct: 689 NVGNAAAMMFNNDIDSATGFYKPLIKINSAQDLIKNTEHVLLKAKIIGYGNVSTGTNGIS 748
Query: 418 DMN-EEQIKSIAENFDPKKIFGSGGFEDLPIILHDGQVIAGNHRI--QGMLNFTPKSRFS 474
++N EEQ K + ++ + D ++ + + A I Q M+N ++
Sbjct: 749 NVNLEEQFK------ERLALYNNNNRMDTCVVRNTDDIKACGMAIGNQSMVNNPDNYKYL 802
Query: 475 YERA--------------IKEYYHIDLKPDE---LLVRVPHKRLNNTEINNLAASSNQGR 517
+A I YY + P E +P NN N A N
Sbjct: 803 IGKAWRNIGISKTANGSKISVYYLGNSTPTENGGNTTNLPTNTTNNAHSANYALVKNAPF 862
Query: 518 FNSESDHAIAVLSH----YEAKLKELDQKLDADSIYSLKNIVAKNL 559
+S + + +A+ H E+ + ++ D D++Y+ ++L
Sbjct: 863 AHSATPNLVAINQHDFGTIESVFELANRSKDIDTLYTHSGAQGRDL 908
>ref|NP_223402.1| putative [Helicobacter pylori J99]
Length = 400
Score = 26.6 bits (57), Expect = 3.2
Identities = 61/272 (22%), Positives = 107/272 (38%), Gaps = 44/272 (16%)
Query: 289 LLKTSENLNESTPKPTNLSPLEQANAEKLAKLESEKLESEKEFLKAKEQEATRKAALKKK 348
LL+ + K +PL++ ++ ++ S+ E L+ + A++K AL
Sbjct: 49 LLQKIRRAGDFLIKSEKATPLKREILKQALRIYSQSFEVISHNLQENSKHASQKKALD-- 106
Query: 349 LEHERGNAGNIESQTKIEVGEDIPTQTQAQLPKSRVRLNEREIYDLDYAIVKAKDLKPSF 408
+E ED + QA + L E + I AK+ P+
Sbjct: 107 ----------------LETFEDFIQKNQAPI------LIEIGFGSGRHLIELAKN-NPTT 143
Query: 409 TTGGTQKRTDMNEEQIKSIAENFDPKKIFGSGGFEDLPIILHDGQVIAG---NHRIQGM- 464
T G + T + +K I E D K +L I+ DG+++ NHR + +
Sbjct: 144 TCLGIEIHTPSIAQALKQI-ELLDLK---------NLHILQGDGRLVLESMPNHRCEKIF 193
Query: 465 LNF-TPKSRFSYERAIKEYYHID----LKPDELLVRVPHKRLNNTEINNLAASSNQGRFN 519
++F P + + R + E + + LKP L L + LA + Q
Sbjct: 194 VHFPVPWNEKKHRRVLSEKFLNEALRVLKPRGFLELRTDDSLCFEDSLKLALKNFQCEIE 253
Query: 520 SESDHAIAVLSHYEAKLKELDQKLDADSIYSL 551
+ + I V+S YEA+ +L + + IYSL
Sbjct: 254 IKKNAQIPVVSKYEARWNKLKKDIYDLKIYSL 285
>ref|NP_223344.1| IRON(III) DICITRATE TRANSPORT PROTEIN [Helicobacter pylori J99]
Length = 767
Score = 26.6 bits (57), Expect = 3.2
Identities = 15/64 (23%), Positives = 31/64 (48%)
Query: 628 NFPKVSLNAYLSDIMDRSFANLKNYQSTSESLKDLSEKFYKTSSLEMFEKSDQSTSDISE 687
N+P + +L + +F N + +K + +++MF +SDQST + ++
Sbjct: 359 NYPGFFIFDHLRRYVMNAFEPNLNLVVNTNKVKQTFNVGMRFMTMDMFIRSDQSTCEKTD 418
Query: 688 ILGG 691
I+ G
Sbjct: 419 IING 422
>ref|NP_223766.1| putative [Helicobacter pylori J99]
Length = 250
Score = 26.2 bits (56), Expect = 4.2
Identities = 21/78 (26%), Positives = 37/78 (46%), Gaps = 6/78 (7%)
Query: 482 YYHIDLKPDELLVRVPHKRL-----NNTEINNLAASSNQGRFNSESDHAIAVLSHYEAKL 536
Y+ +LKP ++ P+KR+ N E L A N + SD + + A+
Sbjct: 120 YFTGELKPTRQDIKYPNKRMLAYEFTNKEQQELLAWLNDNKMLIVSD-ILKGRGEFSAEW 178
Query: 537 KELDQKLDADSIYSLKNI 554
+ QK++ + ++LKNI
Sbjct: 179 VLVIQKINLNMKWALKNI 196
>ref|NP_223258.1| putative [Helicobacter pylori J99]
Length = 591
Score = 26.2 bits (56), Expect = 4.2
Identities = 18/71 (25%), Positives = 31/71 (43%), Gaps = 11/71 (15%)
Query: 112 EIVEFLHKNNKKMIIEKASNKELELLKD----------ANFKHPENIRASL-DHDAIAHI 160
E+ F +NNK++II LE+L+D NF +I + D H+
Sbjct: 106 ELYRFAKENNKRVIIVSDMYLPLEVLEDILISKGFDGYTNFYLSNHIMLTKHSKDLFKHV 165
Query: 161 LKRHGVNSVNV 171
LK+ + + +
Sbjct: 166 LKQENITNTQI 176
>ref|NP_223797.1| VALYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 872
Score = 25.8 bits (55), Expect = 5.4
Identities = 20/53 (37%), Positives = 28/53 (52%), Gaps = 5/53 (9%)
Query: 305 NLSPLEQANAEKLAKLESEKLE---SEKEFLKAKEQEATRKA--ALKKKLEHE 352
+LSPL ++L KLE EKL+ + F+K + KA +LK LE E
Sbjct: 807 DLSPLIARLKKQLEKLEKEKLKLNLHNENFVKNAPKSVLEKARESLKTLLEKE 859
>ref|NP_223124.1| PROTEASE DO [Helicobacter pylori J99]
Length = 476
Score = 25.8 bits (55), Expect = 5.4
Identities = 33/116 (28%), Positives = 46/116 (39%), Gaps = 18/116 (15%)
Query: 355 NAGNIESQTKIEVGEDIPTQTQAQLPKSRVRLNEREIYDLDYAIVKA---KDLKPSFTTG 411
NAGNI+ Q +V E I ++ + + I D A+V K +K +F G
Sbjct: 17 NAGNIQIQNMPKVKERISVPSK----EDTIYSYHDSIKDSIKAVVNISTEKKIKNNFIGG 72
Query: 412 GTQKRTDMNEEQIKSIAENFDPK----KIFGSGGFEDLPIILHDGQVIAGNHRIQG 463
G D +Q PK + GSG II DG ++ NH I G
Sbjct: 73 GVFN--DPFFQQFFGDLGGMIPKERMERALGSG-----VIISKDGYIVTNNHVIDG 121
>ref|NP_222899.1| Fumarate reductase [Helicobacter pylori J99]
Length = 714
Score = 25.8 bits (55), Expect = 5.4
Identities = 13/67 (19%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 607 EKVKKMFVDNAGSFHNLIHDLNFPKV-SLNAYLSDIMDRSFANLKNYQSTSESLKDLSEK 665
+KV+ ++ H L+H+ V + + ++MD + + E+LK+L E
Sbjct: 465 QKVEAFIKESQDYMHFLLHNEGKEDVYEIRERMKEVMDEKVGVFREGKKLEEALKELQEL 524
Query: 666 FYKTSSL 672
+ ++ ++
Sbjct: 525 YARSKNI 531
>ref|NP_223731.1| putative [Helicobacter pylori J99]
Length = 201
Score = 25.4 bits (54), Expect = 7.1
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 2/70 (2%)
Query: 326 ESEKEFLKAKEQEATRKAALKKKLEHERGNAGNIESQTKIEVGEDIPTQTQAQLPKSRVR 385
E KE E + K L K+ + + G++ES+ K G D + + KS
Sbjct: 29 EENKEIQNLSEND--EKIKLAKQAKQDNLAIGDLESRLKSLKGMDKDAKELVGISKSYAH 86
Query: 386 LNEREIYDLD 395
NE++ D +
Sbjct: 87 NNEKDRSDFE 96
>ref|NP_223659.1| putative [Helicobacter pylori J99]
Length = 677
Score = 25.4 bits (54), Expect = 7.1
Identities = 63/312 (20%), Positives = 120/312 (38%), Gaps = 61/312 (19%)
Query: 66 EEIKEKARDFSNQKLTNEQIKDLLNNAEIPTSGRDAITFGVNNLNPEIVEFLHKNNKKMI 125
+ IK + +D ++ EQIK + ++ + L E ++ L NK
Sbjct: 235 DNIKLQLQDLEKEEKALEQIKSPQDEWDLNKA-----------LQKEYLQELKDKNKAKA 283
Query: 126 IEKASN------KELELLKDANFKHPENIRASLDHDAIAHILKRHGVNSVNVRNGEIPIT 179
++ +N +++ K A F H + + +I I KR V S +++N
Sbjct: 284 LDIQNNHSTPLKQKISKFKIALFNHKDTSDDEKESLSIDRIDKRKPV-SEHLKNMSKHEL 342
Query: 180 NEDIANYRYIVNNAD--------AILRTLDNENKELISAFKQINGYAVVV--EQAINK-- 227
E + Y+ ++ AIL LD + + ++ GY+V+ E +NK
Sbjct: 343 YELLGFYQKELDKKQNHSAFKNFAILNGLDRDFE------RETKGYSVLKKKEMLLNKLK 396
Query: 228 --------KNELVLKTMYKSKGDYKDNNAYKKFSS----THTLNADAKVNHRLSSYSGAT 275
KN +L +++ K N Y ++ L L ++ A
Sbjct: 397 HLDKRLLDKNSHLLLAQLRNEVKTKQNTQYNTLTNPILLAKALELSKDKRPTLKTFKNAY 456
Query: 276 ENTTQKDLIDQENLLKTSEN-----LNESTPKPTNLSPLEQANA------EKLAKLESEK 324
+ + + + KT +N LN++T + + + N E+L LE +
Sbjct: 457 FSARKYQFMLES--FKTKQNDPTYKLNDNTYELVSKQLQDYQNTMLLLAKERLLFLEQDL 514
Query: 325 LESEKEFLKAKE 336
+ E+EF +AKE
Sbjct: 515 KQKEEEFERAKE 526
>ref|NP_223653.1| putative [Helicobacter pylori J99]
Length = 177
Score = 25.4 bits (54), Expect = 7.1
Identities = 18/70 (25%), Positives = 36/70 (50%), Gaps = 4/70 (5%)
Query: 24 LERSHSISDFSKNLELSTQKSHFSNNTLKIIEELNNGVKQASEEIKEKARDFSNQKLTNE 83
L+ +H I + N++ + F ++L+ +++ N Q E I +K + K NE
Sbjct: 98 LKLAHIIENKVINIDTMAE---FLESSLEKLKD-NYTSTQEKENIMDKLEQIDSIKPFNE 153
Query: 84 QIKDLLNNAE 93
++K +L NA+
Sbjct: 154 RLKGILENAK 163
>ref|NP_223267.1| ENDONUCLEASE III [Helicobacter pylori J99]
Length = 218
Score = 25.4 bits (54), Expect = 7.1
Identities = 27/95 (28%), Positives = 41/95 (42%), Gaps = 9/95 (9%)
Query: 704 KALFEALRSDNIK-----KGLKDYKIADVTKDMFNADSKEFKDIDIYDFTHYLLMVNREP 758
+AL A+ + N K K L++ K A + + N D K I +F+ V R
Sbjct: 32 EALLGAVLTQNTKFEAVLKSLENLKNAFILE---NDDEINLKKIAYIEFSKLAECV-RPS 87
Query: 759 NENNPILKRLIEAVKDMQKESEKGIKQKLETPSEW 793
N KRLI+ K++ K+ + K E EW
Sbjct: 88 GFYNQKAKRLIDLSKNILKDFQSFENFKQEVTKEW 122
>ref|NP_223220.1| putative [Helicobacter pylori J99]
Length = 273
Score = 25.4 bits (54), Expect = 7.1
Identities = 13/50 (26%), Positives = 26/50 (52%)
Query: 152 LDHDAIAHILKRHGVNSVNVRNGEIPITNEDIANYRYIVNNADAILRTLD 201
LD + + +KRHG + +++R + D A + + NA A++ + D
Sbjct: 134 LDPNILIETMKRHGFDFMDIRRVSLKEWEYDFALQKIKLPNARALVLSSD 183
>ref|NP_223044.1| FLAGELLAR M-RING PROTEIN [Helicobacter pylori J99]
Length = 567
Score = 25.4 bits (54), Expect = 7.1
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 321 ESEKLESEKEFLKAKEQEATRKAALKKKLEHERG-NAGNIESQTKIEV 367
E ++++S E + +E E + L+KK+E + G NA E + + E+
Sbjct: 485 EDKEVKSMFEEMDEEEDELNKLGDLRKKVEDQLGLNASFSEEEVRYEI 532
>ref|NP_222822.1| 70kDa chaperone [Helicobacter pylori J99]
Length = 620
Score = 25.4 bits (54), Expect = 7.1
Identities = 22/87 (25%), Positives = 37/87 (42%), Gaps = 19/87 (21%)
Query: 317 LAKLESEKLESEKEFLKAKEQEATRKAALKKKLEHERGNAGNIESQTKIEVGEDIPTQTQ 376
L+ E EK+ + E K ++ A KK++ R +A + + QTQ
Sbjct: 501 LSDSEIEKMVKDAELHKEED-------ARKKEVIEARNHA------------DSLAHQTQ 541
Query: 377 AQLPKSRVRLNEREIYDLDYAIVKAKD 403
L + + LNE + ++ AI KD
Sbjct: 542 KSLDEHKTNLNENDANEIQNAINALKD 568
>ref|NP_222783.1| putative [Helicobacter pylori J99]
Length = 806
Score = 25.4 bits (54), Expect = 7.1
Identities = 23/89 (25%), Positives = 36/89 (39%), Gaps = 4/89 (4%)
Query: 55 EELNNGVKQASEEIK----EKARDFSNQKLTNEQIKDLLNNAEIPTSGRDAITFGVNNLN 110
+E+ +K E +K EK F + NE KD L + SG DA++
Sbjct: 160 KEIEEALKHLHEYLKVNLQEKLAGFRDFVHYNENAKDSLPLKALFLSGVDALSKDALYYL 219
Query: 111 PEIVEFLHKNNKKMIIEKASNKELELLKD 139
+I+ F KN + S K + +D
Sbjct: 220 EKIMRFGSKNGVLSFVNLESEKNNQSAED 248
>ref|NP_224123.1| putative IRON-REGULATED OUTER MEMBRANE PROTEIN [Helicobacter pylori
J99]
Length = 879
Score = 25.0 bits (53), Expect = 9.3
Identities = 15/49 (30%), Positives = 25/49 (50%), Gaps = 13/49 (26%)
Query: 922 IDKSRNGLIESPLAPN--------YKGKDTN-----PLNLDSPNPTTKN 957
+DK +NG ++ + PN Y+ T+ P NL++PNP +N
Sbjct: 501 LDKGKNGYYKNNIDPNDPNGPGLPYRHYYTDQSSQYPQNLNTPNPLYRN 549
>ref|NP_223430.1| GUANOSINE-3',5'-BIS(DIPHOSPHATE) 3'-PYROPHOSPHOHYDROLASE
[Helicobacter pylori J99]
Length = 776
Score = 25.0 bits (53), Expect = 9.3
Identities = 12/39 (30%), Positives = 22/39 (55%)
Query: 647 ANLKNYQSTSESLKDLSEKFYKTSSLEMFEKSDQSTSDI 685
A+LK+Y++ E L D + T +++ FE + T +I
Sbjct: 532 ADLKDYKNFEEKLTDCGVETTLTEAMKSFENLAKLTEEI 570
>ref|NP_223096.1| TRANSLATION INITIATION FACTOR IF-2 [Helicobacter pylori J99]
Length = 949
Score = 25.0 bits (53), Expect = 9.3
Identities = 15/58 (25%), Positives = 26/58 (43%), Gaps = 1/58 (1%)
Query: 853 AIDKGMSKEEAKKYALKIINNIPNIISNGKLSKDNLGRLSIEFENQRVGLND-SWKGE 909
A D G+ ++ + N+P I + K+ K N+ ++ E +G N W GE
Sbjct: 529 AADDGVKQQTIEALEHAKAANVPVIFAMNKMDKPNVNPDKLKAECAELGYNPVDWGGE 586
>ref|NP_222890.1| putative [Helicobacter pylori J99]
Length = 236
Score = 25.0 bits (53), Expect = 9.3
Identities = 20/88 (22%), Positives = 40/88 (44%), Gaps = 4/88 (4%)
Query: 61 VKQASEEIKEKARDFSNQKLTNEQIKDLLNNAEIPTSGRDAITFGVNNLNPEIVEFLHKN 120
+K A+ ++EK+ F K +I L + + +D + ++ E+ +
Sbjct: 130 MKDANAYLQEKSAIFPTMKSVASKIMRLDGVKHVEKNLKD----NLEEMSDEVKNKGSID 185
Query: 121 NKKMIIEKASNKELELLKDANFKHPENI 148
N K KA++K +E LK+ P+N+
Sbjct: 186 NAKESFNKATDKGVEALKEKAKDLPKNM 213
>ref|NP_222876.1| putative PROTEASE [Helicobacter pylori J99]
Length = 422
Score = 25.0 bits (53), Expect = 9.3
Identities = 24/102 (23%), Positives = 44/102 (42%), Gaps = 24/102 (23%)
Query: 443 EDLPIILHDGQVIAGNH----RIQGMLN---FTPKSRFSYERAIKEYYHIDLKP------ 489
+DL + H ++++ N +I+G + ++ Y A+ ++YH LKP
Sbjct: 231 KDLNLSGHIAEILSSNAISALKIEGRTKSSYYAAQTTRIYRLAVDDFYHNTLKPSFYASE 290
Query: 490 ----------DELLVRVPHKRLNNTEINNLAASSNQGRFNSE 521
D L+R P +RL +T+ + A S + N E
Sbjct: 291 LNTLKNRGFTDGYLMRRPFERL-DTQNHQTAISEGDFQVNGE 331
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
0.311 0.130 0.354
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,088,348
Number of Sequences: 1491
Number of extensions: 56243
Number of successful extensions: 297
Number of sequences better than 10.0: 69
Number of HSP's better than 10.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 51
Number of HSP's that attempted gapping in prelim test: 222
Number of HSP's gapped (non-prelim): 118
length of query: 957
length of database: 494,079
effective HSP length: 87
effective length of query: 870
effective length of database: 364,362
effective search space: 316994940
effective search space used: 316994940
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)