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|15645580|ref|NP_207756.1| hypothetical protein
[Helicobacter pylori 26695]
(363 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223616.1| putative [Helicobacter pylori J99] 319 6e-89
ref|NP_223617.1| putative [Helicobacter pylori J99] 103 9e-24
ref|NP_223770.1| putative [Helicobacter pylori J99] 32 0.026
ref|NP_223274.1| putative vacuolating cytotoxin (VacA) para... 31 0.044
ref|NP_224003.1| putative [Helicobacter pylori J99] 30 0.097
ref|NP_223387.1| putative [Helicobacter pylori J99] 30 0.097
ref|NP_223610.1| putative [Helicobacter pylori J99] 30 0.13
ref|NP_223333.1| ASPARTATE AMINOTRANSFERASE [Helicobacter p... 29 0.22
ref|NP_222935.1| Outer membrane protein/porin [Helicobacter... 29 0.22
ref|NP_223659.1| putative [Helicobacter pylori J99] 28 0.28
ref|NP_224067.1| conserved lipoprotein [Helicobacter pylori... 28 0.37
ref|NP_223695.1| PHENYLALANYL-TRNA SYNTHETASE ALPHA CHAIN [... 28 0.48
ref|NP_222816.1| methyl-accepting chemotaxis protein (MCP) ... 28 0.48
ref|NP_224071.1| DNA POLYMERASE III, ALPHA CHAIN [Helicobac... 27 0.82
ref|NP_223070.1| putative [Helicobacter pylori J99] 27 1.1
ref|NP_222822.1| 70kDa chaperone [Helicobacter pylori J99] 27 1.1
ref|NP_223402.1| putative [Helicobacter pylori J99] 26 1.4
ref|NP_223320.1| putative PROCESSING PROTEASE [Helicobacter... 26 1.4
ref|NP_223801.1| putative Outer membrane protein [Helicobac... 26 1.8
ref|NP_222970.1| HEAT SHOCK PROTEIN [Helicobacter pylori J99] 26 1.8
ref|NP_222797.1| methyl-accepting chemotaxis protein (MCP) ... 26 1.8
ref|NP_222780.1| putative [Helicobacter pylori J99] 26 1.8
ref|NP_223979.1| putative Outer membrane protein [Helicobac... 25 2.4
ref|NP_223479.1| HOMOSERINE DEHYDROGENASE [Helicobacter pyl... 25 2.4
ref|NP_223421.1| putative [Helicobacter pylori J99] 25 2.4
ref|NP_223193.1| cag island protein [Helicobacter pylori J99] 25 2.4
ref|NP_222933.1| putative Outer membrane protein [Helicobac... 25 2.4
ref|NP_222839.1| putative [Helicobacter pylori J99] 25 2.4
ref|NP_223971.1| putative [Helicobacter pylori J99] 25 3.1
ref|NP_223632.1| putative [Helicobacter pylori J99] 25 4.1
ref|NP_223376.1| putative [Helicobacter pylori J99] 25 4.1
ref|NP_222782.1| putative [Helicobacter pylori J99] 25 4.1
ref|NP_223502.1| TYPE I RESTRICTION ENZYME (RESTRICTION SUB... 24 5.3
ref|NP_223264.1| methyl-accepting chemotaxis protein (MCP) ... 24 5.3
ref|NP_223171.1| DNA GYRASE SUBUNIT B [Helicobacter pylori ... 24 5.3
ref|NP_223102.1| FLAGELLAR BIOSYNTHESIS PROTEIN [Helicobact... 24 5.3
ref|NP_222866.1| SHIKIMATE KINASE I [Helicobacter pylori J99] 24 5.3
ref|NP_224128.1| TYPE III RESTRICTION ENZYME [Helicobacter ... 24 7.0
ref|NP_223781.1| ATP synthase F0, subunit b [Helicobacter p... 24 7.0
ref|NP_223569.1| putative IRON-REGULATED OUTER MEMBRANE PRO... 23 9.1
ref|NP_223271.1| putative efflux transporter [Helicobacter ... 23 9.1
ref|NP_223147.1| putative Outer membrane protein [Helicobac... 23 9.1
ref|NP_222961.1| putative [Helicobacter pylori J99] 23 9.1
>ref|NP_223616.1| putative [Helicobacter pylori J99]
Length = 244
Score = 319 bits (818), Expect = 6e-89
Identities = 174/244 (71%), Positives = 195/244 (79%), Gaps = 1/244 (0%)
Query: 120 HFIKNTRDGLNETLTKAIQKASALAREEEEEERYTERVKQGGLFGSFKRNFLWWADDDAG 179
HFI N R GL ETL KAIQ A A EEE ERYTERV+QGGL G + + + D G
Sbjct: 2 HFINNIRVGLEETLKKAIQTAKVGA-EEEGVERYTERVEQGGLGGWARWFGSVFGEKDWG 60
Query: 180 YDEVSRTRATIKAGAVLDYLTEMHERCENALNDSADSFKVVFRKELYAKVFSQLREIISD 239
Y+EV RTRA IKAGAVLDYLTEMH CE ALNDSA+S KV F KELYAKVF QLREIISD
Sbjct: 61 YEEVGRTRAVIKAGAVLDYLTEMHGSCEGALNDSANSSKVAFTKELYAKVFPQLREIISD 120
Query: 240 DLIDEVAFQKSVMAVLDSIEFKEFDYTDKLPSEIRGKTGFLKGDEADAFIQSVGNYVRNF 299
DLIDEVAF+KSV AVL+ IEF+EFDY DKLP +IRGKTGFLKGDEA+AFIQSV N+VR F
Sbjct: 121 DLIDEVAFKKSVDAVLNPIEFEEFDYADKLPGQIRGKTGFLKGDEANAFIQSVENHVRGF 180
Query: 300 ESEAKKDVKGYIQGLREALERQNFASDTLQKLKENMQNLQNQVQNKEQSIAQLDAQIQAL 359
E+EAK+DVKG+IQGLRE L Q+FA+ L KL+++MQNL NQ QNK QSIAQLDA+I AL
Sbjct: 181 EAEAKQDVKGHIQGLREDLGEQDFANGVLSKLQQDMQNLHNQAQNKAQSIAQLDAKINAL 240
Query: 360 KGIQ 363
K IQ
Sbjct: 241 KEIQ 244
>ref|NP_223617.1| putative [Helicobacter pylori J99]
Length = 500
Score = 103 bits (256), Expect = 9e-24
Identities = 51/82 (62%), Positives = 66/82 (80%)
Query: 14 PDAFNSVDKSEESLLFLSNMGAIKERLEKAASRKEEIISQRLQDYAQSQANNLHNLIAQL 73
PDAF+S DKS+ES LFL NMGAI+ERL+KAA KE+I+SQ+LQ+YA+SQANNLH+ I QL
Sbjct: 419 PDAFSSDDKSKESSLFLINMGAIEERLKKAAQEKEKIMSQKLQNYAESQANNLHSFITQL 478
Query: 74 FQDLEDEKKRVKNADMGAIKKQ 95
QDLE+EK+ +K + K +
Sbjct: 479 LQDLEEEKRGLKTLTLALSKSK 500
>ref|NP_223770.1| putative [Helicobacter pylori J99]
Length = 331
Score = 32.0 bits (71), Expect = 0.026
Identities = 20/76 (26%), Positives = 38/76 (49%), Gaps = 4/76 (5%)
Query: 284 EADAFIQSVGNYVRNFESEAKKDVKGYIQGLREALER----QNFASDTLQKLKENMQNLQ 339
EA+ Q V ++ KD+ I E+L Q ++TL++ + +++L+
Sbjct: 55 EANTLSQEGLRSVYEGQANKIKDLNNAILSQEESLRALKASQEVQANTLKQQSQTLEDLR 114
Query: 340 NQVQNKEQSIAQLDAQ 355
N++ +Q+I QLD Q
Sbjct: 115 NEIHANQQAIQQLDKQ 130
>ref|NP_223274.1| putative vacuolating cytotoxin (VacA) paralog [Helicobacter pylori
J99]
Length = 3194
Score = 31.2 bits (69), Expect = 0.044
Identities = 35/131 (26%), Positives = 62/131 (46%), Gaps = 16/131 (12%)
Query: 233 LREIISDDLIDEVAFQKSVMAVLDSIEFKEFDYTDKLPSEIRG-KTGFLKGDEADAFIQS 291
+ EI++ + +V + ++ LD ++ KE D L +I+ +GF K I++
Sbjct: 2199 IMEILNSKTVGDVFGENGLLNALDPVKRKEID--QMLLEQIQAHSSGFEKFIVKTLGIEN 2256
Query: 292 VGNYVRNF------ESEAKKDVKGYIQGLREALERQNFASDT--LQKL--KENMQNLQNQ 341
V N++ N+ S A V G GL +AL++ +SD LQ K ++ NQ
Sbjct: 2257 VENFINNWYGKQSLSSFANNFVPG---GLNQALDKIGSSSDAKDLQSFLDKTTFGDILNQ 2313
Query: 342 VQNKEQSIAQL 352
+ N+ I +L
Sbjct: 2314 MINQAPLINKL 2324
>ref|NP_224003.1| putative [Helicobacter pylori J99]
Length = 972
Score = 30.0 bits (66), Expect = 0.097
Identities = 23/76 (30%), Positives = 41/76 (53%), Gaps = 11/76 (14%)
Query: 9 NQRLPPDAFNSVDKSEESLLFLSNMGAIKERLEKAASRKEEIIS--QRLQDYAQSQANNL 66
NQ++P D FN++D +E+ + F +R++ A +KE++I Q ++++A L
Sbjct: 725 NQKVPKDEFNALD-NEKIVHF--------KRVKVKADKKEKLIQTIQEVKEHAPLDKETL 775
Query: 67 HNLIAQLFQDLEDEKK 82
IAQ D D +K
Sbjct: 776 RKKIAQGEIDPYDTEK 791
>ref|NP_223387.1| putative [Helicobacter pylori J99]
Length = 371
Score = 30.0 bits (66), Expect = 0.097
Identities = 20/72 (27%), Positives = 36/72 (49%), Gaps = 16/72 (22%)
Query: 57 DYAQSQAN-----NLHNLIAQLFQDLEDEKKRVKNADMGAIK-------KQIEAYEKLSG 104
DY +SQ NLH + ++ QD++ + KN +G I+ K ++ YE++
Sbjct: 283 DYKKSQQRKEVDKNLHQICEKIVQDVKSRIESYKNGALGMIEELNAGFNKLVDHYERMKR 342
Query: 105 NIEIGFREAYEE 116
+E EA+E+
Sbjct: 343 QLE----EAHEK 350
>ref|NP_223610.1| putative [Helicobacter pylori J99]
Length = 267
Score = 29.6 bits (65), Expect = 0.13
Identities = 29/162 (17%), Positives = 71/162 (42%), Gaps = 15/162 (9%)
Query: 199 LTEMHERCENALNDSADSFKVVFRKE---LYAKV-FSQLREIISDDLIDEVAFQKSVMAV 254
+ E + + ALND K + E L K+ S+ + + D + QK + +
Sbjct: 25 IREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEI 84
Query: 255 LDSIEFKEFDYTDKLPSEIRGKTGFLKGDEADAFIQSVGNYVRNFESEAKKDVKGYIQGL 314
E + + + + E + ++A+ I+++ N +++ + + K ++
Sbjct: 85 KSERELRSLNIEEDIAKE--------RSNQANREIENLQNEIKHKSEKQEVLKKEMLELE 136
Query: 315 REALERQNFASDTLQKLKENMQNLQNQVQNKEQSIAQLDAQI 356
+ ALE +N + ++ +KE Q + + KE+ + + + +I
Sbjct: 137 KLALELENLVENEVKNIKETQQII---FKKKEELVEKTEPKI 175
Score = 27.7 bits (60), Expect = 0.48
Identities = 28/110 (25%), Positives = 45/110 (40%), Gaps = 11/110 (10%)
Query: 22 KSEESLLFLSNMGAIKERLEKAASRKEEIISQRL------QDYAQSQANNLHNLIAQLFQ 75
KSE L L+ I + A+R+ E + + Q+ + + L L +L
Sbjct: 85 KSERELRSLNIEEDIAKERSNQANREIENLQNEIKHKSEKQEVLKKEMLELEKLALELEN 144
Query: 76 DLEDEKKRVKNADMGAIKKQIEAYEKLSGNIEIGFREAYEEFIFHFIKNT 125
+E+E K +K KK+ E EK I ++ E I + KNT
Sbjct: 145 LVENEVKNIKETQQIIFKKKEELVEKTEPKI-----YSFYERIRRWAKNT 189
>ref|NP_223333.1| ASPARTATE AMINOTRANSFERASE [Helicobacter pylori J99]
Length = 390
Score = 28.9 bits (63), Expect = 0.22
Identities = 23/66 (34%), Positives = 35/66 (52%), Gaps = 5/66 (7%)
Query: 301 SEAKKDVKGYIQGLREALE----RQNFASDTLQKLKENMQNLQNQVQNKEQSIAQLDAQI 356
SE K I GL +++ R +A+ +KL + M NLQ+Q + SI Q+ A I
Sbjct: 221 SEEMKKRTITINGLSKSVAMTGWRMGYAASKDKKLVKLMSNLQSQCTSNINSITQM-ASI 279
Query: 357 QALKGI 362
AL+G+
Sbjct: 280 VALEGL 285
>ref|NP_222935.1| Outer membrane protein/porin [Helicobacter pylori J99]
Length = 483
Score = 28.9 bits (63), Expect = 0.22
Identities = 16/61 (26%), Positives = 27/61 (44%)
Query: 289 IQSVGNYVRNFESEAKKDVKGYIQGLREALERQNFASDTLQKLKENMQNLQNQVQNKEQS 348
+++ N S A G Q + L + +S +KLK Q LQN ++NK +
Sbjct: 87 LKTTPNTANQAVSSALSSAVGMWQVIASNLANNSLSSSEYEKLKATSQLLQNTLENKNNN 146
Query: 349 I 349
+
Sbjct: 147 L 147
>ref|NP_223659.1| putative [Helicobacter pylori J99]
Length = 677
Score = 28.5 bits (62), Expect = 0.28
Identities = 30/128 (23%), Positives = 54/128 (41%), Gaps = 28/128 (21%)
Query: 49 EIISQRLQDYAQSQANNLHNLIAQLFQDLEDEKKRVKNADMGAIK--------------- 93
E++S++LQDY + + L QDL+ +++ + A +K
Sbjct: 486 ELVSKQLQDYQNTMLLLAKERLLFLEQDLKQKEEEFERAKEHYVKSSKHYRETSLSPKEK 545
Query: 94 ----KQIEAYEKLSGNIEIGFRE--AYEEFIFHFIKNTRDGLNETLTKAIQKASALAREE 147
KQI+ + K+S +I E F+ H+ D LN L K ++ A E+
Sbjct: 546 QGFLKQIKQFSKISKDILYTCNEIIGANRFLTHY-----DNLN--LEKVLEHAKDTKLEQ 598
Query: 148 EEEERYTE 155
+E + T+
Sbjct: 599 KEIQAITK 606
>ref|NP_224067.1| conserved lipoprotein [Helicobacter pylori J99]
Length = 175
Score = 28.1 bits (61), Expect = 0.37
Identities = 18/48 (37%), Positives = 28/48 (57%), Gaps = 6/48 (12%)
Query: 46 RKEEIISQRLQDY------AQSQANNLHNLIAQLFQDLEDEKKRVKNA 87
R E++I+ DY A+++AN NL + L +DLE+EK R +A
Sbjct: 68 RAEDLITNNDVDYSTNQATAKARANLAANLKSTLQKDLENEKTRTVDA 115
>ref|NP_223695.1| PHENYLALANYL-TRNA SYNTHETASE ALPHA CHAIN [Helicobacter pylori J99]
Length = 328
Score = 27.7 bits (60), Expect = 0.48
Identities = 16/67 (23%), Positives = 32/67 (46%), Gaps = 1/67 (1%)
Query: 280 LKGDEADAFIQSVGNYVRNFESEAKKDVKGYIQ-GLREALERQNFASDTLQKLKENMQNL 338
L G+E +AF + + +Y + FE + K ++ L E L+++ +K + +
Sbjct: 41 LNGEEKNAFAKEIHHYKQAFEKAFELKKKAIMELELEERLKKEKIDVSLFNAIKTSSSHP 100
Query: 339 QNQVQNK 345
N +NK
Sbjct: 101 LNYTKNK 107
Score = 23.9 bits (50), Expect = 7.0
Identities = 20/69 (28%), Positives = 29/69 (41%), Gaps = 7/69 (10%)
Query: 33 MGAIKERLEKAASRKEEIISQRLQDYAQSQANNLHNLIAQLFQDLEDEKKRVKNADMGAI 92
M + ERLEK + KE + A+ A + A F L++ KNA I
Sbjct: 1 MHTLIERLEKVTNSKE-------LEEARLNALGKKGVFADKFNQLKNLNGEEKNAFAKEI 53
Query: 93 KKQIEAYEK 101
+A+EK
Sbjct: 54 HHYKQAFEK 62
>ref|NP_222816.1| methyl-accepting chemotaxis protein (MCP) [Helicobacter pylori J99]
Length = 564
Score = 27.7 bits (60), Expect = 0.48
Identities = 22/86 (25%), Positives = 41/86 (47%), Gaps = 5/86 (5%)
Query: 282 GDEADAFIQSVGNYVRNFESEAK---KDVKGYIQGLREALERQNFASDTLQKLKENMQNL 338
GD D I VG + F A+ +++KG + ++++ + QK +N
Sbjct: 262 GDRNDE-ISQVGRGINLFVENARLIMEEIKGISTLNKTSMDKLVQITQETQKSMKNSSTT 320
Query: 339 QNQVQNKEQSIA-QLDAQIQALKGIQ 363
N V+NK IA ++A I+ +G++
Sbjct: 321 LNSVKNKATDIASMMNASIEQSQGLR 346
>ref|NP_224071.1| DNA POLYMERASE III, ALPHA CHAIN [Helicobacter pylori J99]
Length = 1211
Score = 26.9 bits (58), Expect = 0.82
Identities = 28/131 (21%), Positives = 53/131 (40%), Gaps = 20/131 (15%)
Query: 30 LSNMGAIKERLEKAASRKEEIISQRLQDYAQSQANNLHNLIAQLFQ-DLEDEKKRVKNAD 88
L++ G +K + + + E +++ D ++ N + + DL+D+KK
Sbjct: 240 LNDKGRLKHSVHEFYIKSPEEMAKLFADIPEALENTQEIADKCVLEIDLKDDKKNPPTPP 299
Query: 89 MGAIKKQIEAYEKLSGNIEIGFREAYEEFIFHFIKNTRDGLNETLTKAIQKASALAREEE 148
K E LS +E+ +F R+GL E L + EE
Sbjct: 300 SFKFTKAYAQNEGLS----------FEDDASYFAHKAREGLRERL---------ILVPEE 340
Query: 149 EEERYTERVKQ 159
+ E+Y ER+++
Sbjct: 341 KHEQYKERLEK 351
>ref|NP_223070.1| putative [Helicobacter pylori J99]
Length = 272
Score = 26.6 bits (57), Expect = 1.1
Identities = 19/76 (25%), Positives = 36/76 (47%), Gaps = 6/76 (7%)
Query: 181 DEVSRTRATIKAGAVLDYLTEMHERCENALNDSADSFKVVFRKELYAKVFSQLREIISD- 239
+ + R A +A D++ M ++ + D S K F + ++ + + LRE ++D
Sbjct: 11 ETLKREIAQAEASLEQDFIKHMVDKTNEKVEDLFFSNKPEFYRFVFTEQNNYLREKLTDK 70
Query: 240 -----DLIDEVAFQKS 250
DLIDE+ K+
Sbjct: 71 VGRAMDLIDEIQRDKT 86
>ref|NP_222822.1| 70kDa chaperone [Helicobacter pylori J99]
Length = 620
Score = 26.6 bits (57), Expect = 1.1
Identities = 17/79 (21%), Positives = 33/79 (41%), Gaps = 11/79 (13%)
Query: 290 QSVGNYVRNFESEAKKDVKGYIQGLREALERQNFASDTL-----------QKLKENMQNL 338
+S+ + N +++ I L++ ++ N L QKL E M N
Sbjct: 542 KSLDEHKTNLNENDANEIQNAINALKDCIKNDNATKAELEDKTKALTQAAQKLGEAMANK 601
Query: 339 QNQVQNKEQSIAQLDAQIQ 357
N Q K++ +DA+++
Sbjct: 602 NNAEQPKKKDDDVIDAEVE 620
>ref|NP_223402.1| putative [Helicobacter pylori J99]
Length = 400
Score = 26.2 bits (56), Expect = 1.4
Identities = 14/29 (48%), Positives = 17/29 (58%)
Query: 41 EKAASRKEEIISQRLQDYAQSQANNLHNL 69
EKA K EI+ Q L+ Y+QS HNL
Sbjct: 64 EKATPLKREILKQALRIYSQSFEVISHNL 92
>ref|NP_223320.1| putative PROCESSING PROTEASE [Helicobacter pylori J99]
Length = 435
Score = 26.2 bits (56), Expect = 1.4
Identities = 16/56 (28%), Positives = 27/56 (47%), Gaps = 7/56 (12%)
Query: 280 LKGDEADAFIQSVGNYVRNFESEAKKDVKGYIQGLREALERQNFASDTLQKLKENM 335
L D + +Q +++ +E EA I L+E L+ NF + L+K+K M
Sbjct: 98 LNVDTSAEDLQITLEFLKEYEDEA-------IMRLKELLKSPNFTQNALEKVKTRM 146
>ref|NP_223801.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 1237
Score = 25.8 bits (55), Expect = 1.8
Identities = 16/49 (32%), Positives = 25/49 (50%), Gaps = 1/49 (2%)
Query: 307 VKGYIQGLREALERQNFASDTLQKLKENMQNLQNQVQNKEQSIAQLDAQ 355
++ + Q LR+ L + F QKL + M N +NQVQN + +Q
Sbjct: 997 IQSFSQTLRQLLGDKTFFM-VQQKLIDAMINARNQVQNAQNQANNYGSQ 1044
Score = 24.3 bits (51), Expect = 5.3
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 334 NMQNLQNQVQNKEQSIAQLDAQIQ 357
N Q ++ Q+QN QS+A+L QI+
Sbjct: 172 NSQEVKAQLQNTAQSMAELLQQIE 195
>ref|NP_222970.1| HEAT SHOCK PROTEIN [Helicobacter pylori J99]
Length = 856
Score = 25.8 bits (55), Expect = 1.8
Identities = 21/86 (24%), Positives = 36/86 (41%), Gaps = 4/86 (4%)
Query: 279 FLKGDEADAFIQSVGNYVRNFESEAKK--DVKGYIQGLREALERQNFASDTLQKLKENMQ 336
FL D + ESE K VK IQ L +E+Q + + + MQ
Sbjct: 382 FLPDKAIDLIDEGAAQLKMQMESEPAKLSSVKRSIQRLE--MEKQALEMENKESNHKRMQ 439
Query: 337 NLQNQVQNKEQSIAQLDAQIQALKGI 362
+ ++ + ++ QL+AQ + K +
Sbjct: 440 EILKELSDLKEEKIQLEAQFENEKEV 465
>ref|NP_222797.1| methyl-accepting chemotaxis protein (MCP) [Helicobacter pylori J99]
Length = 673
Score = 25.8 bits (55), Expect = 1.8
Identities = 18/53 (33%), Positives = 27/53 (49%), Gaps = 9/53 (16%)
Query: 36 IKERLEKAASRKE---EIISQRLQDYAQS------QANNLHNLIAQLFQDLED 79
+ ER +K+ S E I+ Q + D A+S N+HN I L QD++D
Sbjct: 590 LAERTQKSLSEIEANINILVQSIADNAESIKMQNKGVENIHNSINALQQDVQD 642
>ref|NP_222780.1| putative [Helicobacter pylori J99]
Length = 500
Score = 25.8 bits (55), Expect = 1.8
Identities = 34/129 (26%), Positives = 49/129 (37%), Gaps = 21/129 (16%)
Query: 89 MGAIKKQIEAYEKLSGNIEIGFREAYEEFIFHFIKNT----------RDGLNETLTKAIQ 138
M K E +K+ G R EE FIK+ R L KAI
Sbjct: 1 MAEWKTDTEEVKKVVGRCREFKRSLQEEKCSPFIKDLDSYALKIIVERRKTEMQLEKAIG 60
Query: 139 KASALAREEEEEERYTERVKQGGLFGSFKRNFLWWADDDAGYDEVSRTRATIKAGAVLDY 198
+ A+ E++ + RV QG S W A ++ T A + A AVL +
Sbjct: 61 ELKK-AKSNEDDAKVALRVLQGASVVS-------WIWPPA---RIAATAAIVAAEAVLKF 109
Query: 199 LTEMHERCE 207
+ E E+C+
Sbjct: 110 MKEDTEKCK 118
>ref|NP_223979.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 696
Score = 25.4 bits (54), Expect = 2.4
Identities = 18/77 (23%), Positives = 35/77 (45%), Gaps = 5/77 (6%)
Query: 3 QCMAEFNQRLPPDAFNSVDKSEESLLFLSNMGAIKERLEKAASRKEEIISQRLQDYAQSQ 62
Q + E Q+L + + + + + S + + A+ + EI+S AQ
Sbjct: 313 QAVLEKTQQLNANENTQITQPDNFNPYTSKDTQFAQEMLNRANAQAEILS-----LAQQV 367
Query: 63 ANNLHNLIAQLFQDLED 79
A+N H++ + QDLE+
Sbjct: 368 ADNFHSIQGPIQQDLEE 384
>ref|NP_223479.1| HOMOSERINE DEHYDROGENASE [Helicobacter pylori J99]
Length = 421
Score = 25.4 bits (54), Expect = 2.4
Identities = 15/50 (30%), Positives = 26/50 (52%)
Query: 227 AKVFSQLREIISDDLIDEVAFQKSVMAVLDSIEFKEFDYTDKLPSEIRGK 276
AK+ + +EII D E+ +K+V+ + + F+ +D L S I K
Sbjct: 20 AKILQENQEIIKDRAGVEIKIKKAVVRDVKKHKGYAFEISDDLESVIEDK 69
>ref|NP_223421.1| putative [Helicobacter pylori J99]
Length = 286
Score = 25.4 bits (54), Expect = 2.4
Identities = 27/106 (25%), Positives = 44/106 (41%), Gaps = 11/106 (10%)
Query: 38 ERLEKAASRKEEIISQRLQDYAQSQANNLHNLIAQLFQDLEDEKKRVKNADMGAIKKQIE 97
E ++KA S KEE A +A + + + F L ++K V + +
Sbjct: 139 EFIKKAESLKEE---------ATKKAESAESDCRRAFMRLGEKKLHVLSHTVSNFLDHFH 189
Query: 98 AYEKLSGNIEIGFREAYEEFIFHFIKNTRDGLNETLTKAIQKASAL 143
+L I IG ++ + + I N R+ LN+ T I SAL
Sbjct: 190 RLNRL--RITIGIKDIDMQDLRKQISNARNLLNQLNTNGIDGDSAL 233
>ref|NP_223193.1| cag island protein [Helicobacter pylori J99]
Length = 199
Score = 25.4 bits (54), Expect = 2.4
Identities = 16/66 (24%), Positives = 32/66 (48%), Gaps = 2/66 (3%)
Query: 106 IEIGFREAYEEFIFHFIKNTRDGLNETLTKAIQKASALAREEEEEERYTERVKQGGLFGS 165
+E+GF EA + I + NE K IQ + ++ + + + RV++ L +
Sbjct: 1 MELGFNEAERQKILDSNSSLIRNANEVRDKFIQNYAISLKDSNDPQDFLRRVQE--LRIN 58
Query: 166 FKRNFL 171
++NF+
Sbjct: 59 MQKNFI 64
Score = 24.6 bits (52), Expect = 4.1
Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 284 EADAFIQSVGNYVRNFESEAKKDVKGYIQGLREALERQNFASDTLQKLKENMQ 336
E + S + +RN K ++ Y L+++ + Q+F +Q+L+ NMQ
Sbjct: 9 ERQKILDSNSSLIRNANEVRDKFIQNYAISLKDSNDPQDFLR-RVQELRINMQ 60
>ref|NP_222933.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 696
Score = 25.4 bits (54), Expect = 2.4
Identities = 18/77 (23%), Positives = 35/77 (45%), Gaps = 5/77 (6%)
Query: 3 QCMAEFNQRLPPDAFNSVDKSEESLLFLSNMGAIKERLEKAASRKEEIISQRLQDYAQSQ 62
Q + E Q+L + + + + + S + + A+ + EI+S AQ
Sbjct: 313 QAVLEKTQQLNANENTQITQPDNFNPYTSKDTQFAQEMLNRANAQAEILS-----LAQQV 367
Query: 63 ANNLHNLIAQLFQDLED 79
A+N H++ + QDLE+
Sbjct: 368 ADNFHSIQGPIQQDLEE 384
>ref|NP_222839.1| putative [Helicobacter pylori J99]
Length = 143
Score = 25.4 bits (54), Expect = 2.4
Identities = 12/59 (20%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 289 IQSVGNYVRNFESEAKKDVKGYIQGLREALERQNFASDTLQKLKENMQNLQNQVQNKEQ 347
++ G + E + +V ++ ++E ERQ + +D + + +N+ +L + +NK +
Sbjct: 33 LEQAGKVAPSEVPEFRTEVNKRLEAMKEE-ERQKYKADFKKAMDKNLASLSQEDRNKRK 90
>ref|NP_223971.1| putative [Helicobacter pylori J99]
Length = 376
Score = 25.0 bits (53), Expect = 3.1
Identities = 14/47 (29%), Positives = 26/47 (54%), Gaps = 3/47 (6%)
Query: 317 ALERQNFASDTLQKLKENMQNLQNQVQNKEQSI---AQLDAQIQALK 360
AL +F + +LK+ LQ+Q+Q KE ++ L+ +++ LK
Sbjct: 204 ALMNHDFQAYKAMRLKKIKNKLQSQIQAKEDALKTFLPLEKRLETLK 250
>ref|NP_223632.1| putative [Helicobacter pylori J99]
Length = 411
Score = 24.6 bits (52), Expect = 4.1
Identities = 30/104 (28%), Positives = 47/104 (44%), Gaps = 17/104 (16%)
Query: 134 TKAIQKASALAREEEEEERYT-----ERVKQGGLFGSFKRNFLWWADDDAGYDEVSRTRA 188
++A K ++E + RYT ER +Q F +FKR+FL GY EV
Sbjct: 156 SEAPMKDFMSSKEFVKRYRYTSKDNMERTRQPKSFLNFKRDFL-------GYIEVV-GYW 207
Query: 189 TIKAGAVLDYLTEMHERCENALNDSADSFKVVFRKELYAKVFSQ 232
++K G + D T N+ +D+F + + A+ FSQ
Sbjct: 208 SLKDGLLTDKETSFFV----FQNEPSDTFNLKKTLLVLARAFSQ 247
>ref|NP_223376.1| putative [Helicobacter pylori J99]
Length = 152
Score = 24.6 bits (52), Expect = 4.1
Identities = 13/52 (25%), Positives = 24/52 (46%), Gaps = 6/52 (11%)
Query: 36 IKERLEKAASRKEEIISQRLQDYAQSQANNLHNLIAQLFQDLEDEKKRVKNA 87
+K+R+EK K + ++L +YA + + D E +K +K A
Sbjct: 50 LKKRMEKMPEDKRKAFHKQLHEYATKNTDKM------TVADFEARQKAIKEA 95
>ref|NP_222782.1| putative [Helicobacter pylori J99]
Length = 117
Score = 24.6 bits (52), Expect = 4.1
Identities = 10/69 (14%), Positives = 34/69 (48%)
Query: 295 YVRNFESEAKKDVKGYIQGLREALERQNFASDTLQKLKENMQNLQNQVQNKEQSIAQLDA 354
++ +E ++ +++G + Q S+ L+ + + +L+N Q + + +++
Sbjct: 8 FLEGCTNELRRICDSFVEGAMQDDLGQKLKSEALENMLKIAHDLENLEQETQYEMRKINE 67
Query: 355 QIQALKGIQ 363
Q++ K ++
Sbjct: 68 QLEEAKRLE 76
>ref|NP_223502.1| TYPE I RESTRICTION ENZYME (RESTRICTION SUBUNIT) [Helicobacter
pylori J99]
Length = 875
Score = 24.3 bits (51), Expect = 5.3
Identities = 30/116 (25%), Positives = 50/116 (42%), Gaps = 13/116 (11%)
Query: 234 REIISDDLIDEVAFQKSVMAVLDSIEFKEFDYTDKLPSEIRGKTGFLKGDEADAFIQSVG 293
+E I+DDLI E+ K V +D I Y + EI+G I+ +
Sbjct: 693 KEEINDDLIFEIELIKQVEVNIDYILTLIEKYAKEPDLEIQG---------VKTQIEPIL 743
Query: 294 NYVRNFESEAKKD-VKGYIQGLREALERQNFASDTL-QKLKENMQNLQNQVQNKEQ 347
N + E KKD + G+I + E + + + QK +E QN+ + + E+
Sbjct: 744 N--SSIELRNKKDLIMGFIDKYNKDEEVHAYFQNYIHQKREEEFQNIIEENRLNEE 797
>ref|NP_223264.1| methyl-accepting chemotaxis protein (MCP) [Helicobacter pylori J99]
Length = 433
Score = 24.3 bits (51), Expect = 5.3
Identities = 12/53 (22%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 36 IKERLEKAASRKEEIISQRLQDYAQSQAN--NLHNLIAQLFQDLEDEKKRVKN 86
+ E+ +KA ++ Q+ Q N ++++++ + D+E+ K VKN
Sbjct: 235 LAEKTQKATKEIAVVVKSMQQEANDIQTNTHDINSIVGSIKGDVEELKSTVKN 287
>ref|NP_223171.1| DNA GYRASE SUBUNIT B [Helicobacter pylori J99]
Length = 773
Score = 24.3 bits (51), Expect = 5.3
Identities = 24/92 (26%), Positives = 42/92 (45%), Gaps = 24/92 (26%)
Query: 40 LEKAASRKEEIIS-QRLQDYAQSQANNLH----------NLIAQLFQDLEDEKKR----- 83
LEK+ K E ++ Q L+ +A ++ +LH NL LF+D+ E+
Sbjct: 615 LEKSILEKLEGLNYQILRSFATEESLHLHAQTPKGLVEFNLDDNLFKDVLFEEAHYTYQK 674
Query: 84 --------VKNADMGAIKKQIEAYEKLSGNIE 107
++N D+ A +++E Y K NI+
Sbjct: 675 LMEYNLDFLENKDILAFLEEVENYAKKGANIQ 706
>ref|NP_223102.1| FLAGELLAR BIOSYNTHESIS PROTEIN [Helicobacter pylori J99]
Length = 733
Score = 24.3 bits (51), Expect = 5.3
Identities = 14/66 (21%), Positives = 29/66 (43%)
Query: 279 FLKGDEADAFIQSVGNYVRNFESEAKKDVKGYIQGLREALERQNFASDTLQKLKENMQNL 338
F+ DE + ++ + E+KK G I+ + +AL + + + E + ++
Sbjct: 538 FITKDEVKSLLERLAKDYPTIVEESKKIPTGAIRSVLQALLHEKIPIKDMLTILETITDI 597
Query: 339 QNQVQN 344
VQN
Sbjct: 598 APLVQN 603
>ref|NP_222866.1| SHIKIMATE KINASE I [Helicobacter pylori J99]
Length = 162
Score = 24.3 bits (51), Expect = 5.3
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 9/60 (15%)
Query: 79 DEKKRVKNADMGAIKKQIEAYEKLSGNIEIGFREAYEEFIFHFIKNTRDGLNETLTKAIQ 138
++K+R K + + + E +EK R+A E FI + R GLN +L + +Q
Sbjct: 109 NQKEREKRPLLNNLTQAKELFEK---------RQALYEKNASFIIDARGGLNNSLKQVLQ 159
>ref|NP_224128.1| TYPE III RESTRICTION ENZYME [Helicobacter pylori J99]
Length = 969
Score = 23.9 bits (50), Expect = 7.0
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 258 IEFKEFDYTDKLPSEIRGKTGFLKGDEADAFIQSVGNYVRNFESEAKKDV 307
I+FK DY ++ +I G + E + IQ + N V FE A KD+
Sbjct: 3 IKFKRLDYQEQCRDQILGVFKGIDLREPENDIQRIANPV--FEIGAIKDL 50
>ref|NP_223781.1| ATP synthase F0, subunit b [Helicobacter pylori J99]
Length = 171
Score = 23.9 bits (50), Expect = 7.0
Identities = 19/77 (24%), Positives = 35/77 (44%), Gaps = 7/77 (9%)
Query: 38 ERLEKAASRKEEIISQR-------LQDYAQSQANNLHNLIAQLFQDLEDEKKRVKNADMG 90
+ LE+A + E IIS Q Y ++ NLI ++ E K++K +
Sbjct: 85 KELEQAKEKAELIISDANKEAYTITQKYELQTKMDVENLIKNSKALMDLEVKKIKRELVE 144
Query: 91 AIKKQIEAYEKLSGNIE 107
++ K + +K+S N +
Sbjct: 145 SVFKDLRESKKVSFNAQ 161
>ref|NP_223569.1| putative IRON-REGULATED OUTER MEMBRANE PROTEIN [Helicobacter pylori
J99]
Length = 815
Score = 23.5 bits (49), Expect = 9.1
Identities = 10/15 (66%), Positives = 13/15 (86%)
Query: 144 AREEEEEERYTERVK 158
A+EEE+EE+ TER K
Sbjct: 26 AKEEEKEEKKTERNK 40
>ref|NP_223271.1| putative efflux transporter [Helicobacter pylori J99]
Length = 234
Score = 23.5 bits (49), Expect = 9.1
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 93 KKQIEAYEKLSGNIEIGFREAYE 115
KKQ + Y K+ G ++ E+YE
Sbjct: 84 KKQYQRYSKIGGAVDKNTLESYE 106
>ref|NP_223147.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 371
Score = 23.5 bits (49), Expect = 9.1
Identities = 14/44 (31%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 314 LREALERQNFASDTLQKLKENMQNLQNQV-QNKEQSIAQLDAQI 356
L +ALE+ +L EN++NL+ Q Q++ ++ L +QI
Sbjct: 131 LAQALEKMQEPITNPLELVENLKNLELQFSQSQNSMLSSLSSQI 174
>ref|NP_222961.1| putative [Helicobacter pylori J99]
Length = 142
Score = 23.5 bits (49), Expect = 9.1
Identities = 8/33 (24%), Positives = 20/33 (60%)
Query: 328 LQKLKENMQNLQNQVQNKEQSIAQLDAQIQALK 360
L+K++ +++ + ++Q E+ + AQ+ A K
Sbjct: 16 LEKIERKLESKRLELQQNEREVLDKQAQLSAFK 48
Database: NC_000921.faa
Posted date: Dec 10, 2001 4:36 PM
Number of letters in database: 494,079
Number of sequences in database: 1491
Lambda K H
0.315 0.132 0.355
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 370,218
Number of Sequences: 1491
Number of extensions: 17428
Number of successful extensions: 129
Number of sequences better than 10.0: 43
Number of HSP's better than 10.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 93
Number of HSP's gapped (non-prelim): 59
length of query: 363
length of database: 494,079
effective HSP length: 79
effective length of query: 284
effective length of database: 376,290
effective search space: 106866360
effective search space used: 106866360
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)