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|15645860|ref|NP_208038.1| ribosomal protein S6 (rps6)
[Helicobacter pylori 26695]
(142 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223885.1| 30S RIBOSOMAL PROTEIN S6 [Helicobacter pyl... 280 1e-77
ref|NP_223022.1| ARGINYL-TRNA SYNTHETASE [Helicobacter pylo... 30 0.034
ref|NP_224000.1| putative histidine kinase sensor protein [... 28 0.13
ref|NP_224115.1| putative [Helicobacter pylori J99] 26 0.49
ref|NP_224153.1| putative [Helicobacter pylori J99] 25 0.84
ref|NP_223648.1| topoisomerase I [Helicobacter pylori J99] 25 0.84
ref|NP_223870.1| putative DNA poymerase III subunit delta' ... 25 1.1
ref|NP_224039.1| putative histidine and glutamine-rich meta... 24 1.4
ref|NP_223775.1| BIOPOLYMER TRANSPORT PROTEIN [Helicobacter... 24 1.4
ref|NP_223904.1| putative NADH oxidoreductase I [Helicobact... 24 1.9
ref|NP_223830.1| putative [Helicobacter pylori J99] 24 1.9
ref|NP_223761.1| putative [Helicobacter pylori J99] 23 2.4
ref|NP_222921.1| putative transporter [Helicobacter pylori ... 23 2.4
ref|NP_223743.1| PHOSPHOGLUCONATE DEHYDRATASE [Helicobacter... 23 3.2
ref|NP_222953.1| ATP-DEPENDENT RNA HELICASE DEAD [Helicobac... 23 3.2
ref|NP_223427.1| putative PROBABLE N-ACETYLMURAMOYL-L-ALANI... 22 5.4
ref|NP_222848.1| putative [Helicobacter pylori J99] 22 5.4
ref|NP_224203.1| ABC transporter, permease [Helicobacter py... 22 7.1
ref|NP_223487.1| GLU-TRNA AMIDOTRANSFERASE, SUBUNIT A [Heli... 22 7.1
ref|NP_223210.1| DNA transfer protein (Agrobacterium VirB4 ... 22 7.1
ref|NP_223674.1| putative [Helicobacter pylori J99] 22 9.3
ref|NP_223569.1| putative IRON-REGULATED OUTER MEMBRANE PRO... 22 9.3
ref|NP_223453.1| MOLYBDOPTERIN BIOSYNTHESIS PROTEIN [Helico... 22 9.3
>ref|NP_223885.1| 30S RIBOSOMAL PROTEIN S6 [Helicobacter pylori J99]
Length = 142
Score = 280 bits (715), Expect = 1e-77
Identities = 135/142 (95%), Positives = 139/142 (97%)
Query: 1 MRHYETMFILKPTLVEEEIKSKIEFYKEVITKHHGVIETSLDMGMRNLAYEIKKHKRGYY 60
MRHYETMFILKPTLVEEEIKSKIEFY+EVITKHHGVIETSLDMGMRNLAYEIKKHKRGYY
Sbjct: 1 MRHYETMFILKPTLVEEEIKSKIEFYREVITKHHGVIETSLDMGMRNLAYEIKKHKRGYY 60
Query: 61 YVAYFKAEPSMIVELERLYRINEDVLRFIVIKYESKKEVEAWHALVDRANKKPSHAKEKH 120
YVAYFKA+PSMI+ELERLYRINEDVLRFIVIKYESKKEVEAWHALVDRANKKPSHAKEKH
Sbjct: 61 YVAYFKADPSMILELERLYRINEDVLRFIVIKYESKKEVEAWHALVDRANKKPSHAKEKH 120
Query: 121 EKTEHTHSHHTEEAESVGSHSE 142
EKTEHTHSHH EEA+S SHSE
Sbjct: 121 EKTEHTHSHHAEEAKSTESHSE 142
>ref|NP_223022.1| ARGINYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 541
Score = 29.6 bits (65), Expect = 0.034
Identities = 33/129 (25%), Positives = 55/129 (42%), Gaps = 14/129 (10%)
Query: 9 ILKPTLVEEEIKSKIEFYKEVITKHHGVIETSLDMGMRNLAYEIKKHKRGYYYVAYFKAE 68
+LK ++ E+ K E+ E+ K H +E SL K+++ V A+
Sbjct: 178 VLKESVTYPEVFYKGEYIIEIAKKAHNDLEPSL----------FKENEETIIEVLSDYAK 227
Query: 69 PSMIVELERLYRINEDVLRFIVIKYESKKEVEAWHALVDRANKKPSHAKEKHEKTEHTHS 128
M++E++ N D L Y S+KEV V +K + EK KT S
Sbjct: 228 DLMLLEIKG----NLDALDIHFDSYASEKEVFKHKDAVFDRLEKANALYEKDSKTWLKSS 283
Query: 129 HHTEEAESV 137
+ +E++ V
Sbjct: 284 LYQDESDRV 292
>ref|NP_224000.1| putative histidine kinase sensor protein [Helicobacter pylori J99]
Length = 344
Score = 27.7 bits (60), Expect = 0.13
Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 8/71 (11%)
Query: 34 HGVIETSLD---MGMRNLAYEIKKHKRGYYYVAYFKAEPSMIVELERLYRINEDVLRFIV 90
HG I L + ++NL YEI K K V Y + S++ Y I D+++ +
Sbjct: 260 HGYIHIELTPEFLKVKNLGYEIPKDKITKLSVRYARFNSSVLG-----YGIGLDLVKKVC 314
Query: 91 IKYESKKEVEA 101
KY+ + E+ +
Sbjct: 315 EKYKMRLEIHS 325
>ref|NP_224115.1| putative [Helicobacter pylori J99]
Length = 238
Score = 25.8 bits (55), Expect = 0.49
Identities = 29/136 (21%), Positives = 53/136 (38%), Gaps = 16/136 (11%)
Query: 4 YETMFILKPTLVEEEIKSKIEFYKEVITKHHGVIETSLDMGMRNLAYEIKK--HKRGYYY 61
Y+ + P IKS+I K H ++ LD +L ++KK +GY+
Sbjct: 100 YDAIVCNPPFYALGSIKSQI--------KGHARHQSELDFA--SLVAKVKKCLKPKGYFI 149
Query: 62 VAYFKAEPSMIVELERLYRINEDVLRFIVIKYESKKEVEAWHALVDRANKKPSHAKEKHE 121
Y +++E + ++ + LRF+ +S K+ A L N S K
Sbjct: 150 FCYEALSLCLVIESLKSVKLTLETLRFV----QSFKDKNAHLMLGAARNNSKSALKVLPP 205
Query: 122 KTEHTHSHHTEEAESV 137
H + ++ + V
Sbjct: 206 LITHNSKNQSDNTKEV 221
>ref|NP_224153.1| putative [Helicobacter pylori J99]
Length = 435
Score = 25.0 bits (53), Expect = 0.84
Identities = 14/52 (26%), Positives = 23/52 (43%)
Query: 84 DVLRFIVIKYESKKEVEAWHALVDRANKKPSHAKEKHEKTEHTHSHHTEEAE 135
D+L + Y+ K+ + ++ R N + KEK EK E + E E
Sbjct: 167 DILEKDFLSYQHKELEHKKNQIIKRLNAQKERLKEKLEKLEDPKTLQLEAKE 218
>ref|NP_223648.1| topoisomerase I [Helicobacter pylori J99]
Length = 686
Score = 25.0 bits (53), Expect = 0.84
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 118 EKHEKTEHTHSHHTEEAESV 137
E HE TH H TE+ ES+
Sbjct: 336 EAHEAIRITHPHTTEDLESI 355
>ref|NP_223870.1| putative DNA poymerase III subunit delta' [Helicobacter pylori
J99]
Length = 218
Score = 24.6 bits (52), Expect = 1.1
Identities = 23/68 (33%), Positives = 34/68 (49%), Gaps = 3/68 (4%)
Query: 20 KSKIEFYKEVITKHHGVIET-SLDMGMRNLAYEIKK-HKRGYYYVAYFKAEPSMIVELER 77
K I+FY E+I K VI+T + D + + I K H + A+ A PS VE +
Sbjct: 25 KHHIKFYTEIIEKDKKVIKTFNKDFKIEHAKEVISKAHLKHSELNAFLIAAPSYGVEAQN 84
Query: 78 -LYRINED 84
L +I E+
Sbjct: 85 ALLKILEE 92
>ref|NP_224039.1| putative histidine and glutamine-rich metal-binding protein
[Helicobacter pylori J99]
Length = 77
Score = 24.3 bits (51), Expect = 1.4
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 101 AWHALVDRANKKPSHAKEKHEKTEHTHSHH 130
A H +A ++ A +H H H HH
Sbjct: 2 AHHEQQHQAQQQQQQANSQHHHHHHVHHHH 31
>ref|NP_223775.1| BIOPOLYMER TRANSPORT PROTEIN [Helicobacter pylori J99]
Length = 189
Score = 24.3 bits (51), Expect = 1.4
Identities = 10/44 (22%), Positives = 23/44 (51%)
Query: 89 IVIKYESKKEVEAWHALVDRANKKPSHAKEKHEKTEHTHSHHTE 132
IV+K E ++E+++ +++ A P H ++ + T + E
Sbjct: 39 IVLKIELRREMQSLSNILNGAQDAPEHFMFNKKRNDETKRYSNE 82
>ref|NP_223904.1| putative NADH oxidoreductase I [Helicobacter pylori J99]
Length = 328
Score = 23.9 bits (50), Expect = 1.9
Identities = 16/61 (26%), Positives = 27/61 (44%)
Query: 74 ELERLYRINEDVLRFIVIKYESKKEVEAWHALVDRANKKPSHAKEKHEKTEHTHSHHTEE 133
+LE L R+ E F+ + Y+S K + + + K H+K K + T EE
Sbjct: 237 DLELLERMGEANGSFVYVSYKSLKTPKLSFSKQFKIANKIKHSKAKFQILNQTLECELEE 296
Query: 134 A 134
+
Sbjct: 297 S 297
>ref|NP_223830.1| putative [Helicobacter pylori J99]
Length = 383
Score = 23.9 bits (50), Expect = 1.9
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 6/47 (12%)
Query: 94 ESKKEV-----EAWHALVDRANKKPSHAKEKHEKTEHTHSHHTEEAE 135
+SKKEV EA +A DRANK +++ +KTE +E +
Sbjct: 98 QSKKEVAQAQKEAENAR-DRANKSGIELEQEEQKTEQEKQKTEQEKQ 143
>ref|NP_223761.1| putative [Helicobacter pylori J99]
Length = 1154
Score = 23.5 bits (49), Expect = 2.4
Identities = 13/45 (28%), Positives = 23/45 (50%), Gaps = 2/45 (4%)
Query: 11 KPTLVEEEIKSKIEFYKEVITKHHGVIETSLDMGMRNLAYEIKKH 55
K ++E+ ++E K+ KH I SLD +A+ +K+H
Sbjct: 122 KKMIIEKASNKELELLKDANFKHPENIRASLDHDA--IAHILKRH 164
>ref|NP_222921.1| putative transporter [Helicobacter pylori J99]
Length = 548
Score = 23.5 bits (49), Expect = 2.4
Identities = 14/41 (34%), Positives = 24/41 (58%)
Query: 14 LVEEEIKSKIEFYKEVITKHHGVIETSLDMGMRNLAYEIKK 54
LV +E S + KE ITK HG I +++ +++A I++
Sbjct: 187 LVGKENASNAFYQKEEITKAHGGIMSNIVHKGKDIAQVIQE 227
>ref|NP_223743.1| PHOSPHOGLUCONATE DEHYDRATASE [Helicobacter pylori J99]
Length = 608
Score = 23.1 bits (48), Expect = 3.2
Identities = 18/91 (19%), Positives = 37/91 (39%), Gaps = 12/91 (13%)
Query: 34 HGVIETSLDMGMRNLAYEIKKHKRGYYYVAYFKAEPSMIVELERLYRINEDVLRFIVIKY 93
H +++T GM+N Y F ++ + + +N D+LR + +
Sbjct: 366 HTIMDTETQKGMQN------------YTKTPFLENDQLVYKDAVSHSLNTDILRPVSEPF 413
Query: 94 ESKKEVEAWHALVDRANKKPSHAKEKHEKTE 124
+ ++ + RA K S K++H K +
Sbjct: 414 AANGGLKILKGNLGRAVIKISAIKDEHRKVK 444
>ref|NP_222953.1| ATP-DEPENDENT RNA HELICASE DEAD [Helicobacter pylori J99]
Length = 491
Score = 23.1 bits (48), Expect = 3.2
Identities = 16/81 (19%), Positives = 35/81 (42%), Gaps = 20/81 (24%)
Query: 70 SMIVELERLYRINEDVLRFIVIKYESKK------EVEAWHALVDRANKKP---------- 113
S+ +L ++ ++ VL+ + +++E+ K E++A ++ K P
Sbjct: 408 SLYEQLTEIFEPSQLVLKLLSLQFETSKIGLNQQEIDAIQNPKEKTPKPPNKKTQHEPAH 467
Query: 114 ----SHAKEKHEKTEHTHSHH 130
SH +++H KT H
Sbjct: 468 SFKKSHHRDRHPKTNRYSKKH 488
>ref|NP_223427.1| putative PROBABLE N-ACETYLMURAMOYL-L-ALANINE AMIDASE [Helicobacter
pylori J99]
Length = 469
Score = 22.3 bits (46), Expect = 5.4
Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 6/47 (12%)
Query: 90 VIKYESKKEVEAWHALVDRANK------KPSHAKEKHEKTEHTHSHH 130
+I+++ + HAL + K K K K + T+H HS H
Sbjct: 120 LIRHQMTPKPPKHHALKHQTPKPTPKPIKKEAKKAKEKTTKHAHSKH 166
>ref|NP_222848.1| putative [Helicobacter pylori J99]
Length = 242
Score = 22.3 bits (46), Expect = 5.4
Identities = 13/41 (31%), Positives = 24/41 (57%), Gaps = 3/41 (7%)
Query: 67 AEPSMIVEL-ERLYRINEDVLRFIVIKYESKKE--VEAWHA 104
AE +M+ + R+Y ++E + + + +KYE K E WH+
Sbjct: 96 AEFNMVKDFCSRVYELSEFLDKKLQVKYEDKGEPLKITWHS 136
>ref|NP_224203.1| ABC transporter, permease [Helicobacter pylori J99]
Length = 215
Score = 21.9 bits (45), Expect = 7.1
Identities = 9/24 (37%), Positives = 14/24 (57%)
Query: 25 FYKEVITKHHGVIETSLDMGMRNL 48
F ++ HG IET+L +G +L
Sbjct: 105 FENSLMEVEHGKIETTLSLGASHL 128
>ref|NP_223487.1| GLU-TRNA AMIDOTRANSFERASE, SUBUNIT A [Helicobacter pylori J99]
Length = 453
Score = 21.9 bits (45), Expect = 7.1
Identities = 10/28 (35%), Positives = 16/28 (56%)
Query: 58 GYYYVAYFKAEPSMIVELERLYRINEDV 85
GYY Y KA+ ++ E+ +I E+V
Sbjct: 341 GYYDAYYLKAQQMRLMIKEQYNKIFEEV 368
>ref|NP_223210.1| DNA transfer protein (Agrobacterium VirB4 homolog) [Helicobacter
pylori J99]
Length = 983
Score = 21.9 bits (45), Expect = 7.1
Identities = 7/18 (38%), Positives = 13/18 (71%)
Query: 17 EEIKSKIEFYKEVITKHH 34
E K +IE +E+++K+H
Sbjct: 306 ENFKDRIELIEELLSKYH 323
>ref|NP_223674.1| putative [Helicobacter pylori J99]
Length = 200
Score = 21.6 bits (44), Expect = 9.3
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 6/47 (12%)
Query: 63 AYFKAEPSMIVE----LERLY--RINEDVLRFIVIKYESKKEVEAWH 103
AY E ++ +E LE+ + + N L F+ SKK E W+
Sbjct: 8 AYRYGEENITIENLPTLEKNFFNKHNNSALEFLKESIHSKKNTEKWY 54
>ref|NP_223569.1| putative IRON-REGULATED OUTER MEMBRANE PROTEIN [Helicobacter pylori
J99]
Length = 815
Score = 21.6 bits (44), Expect = 9.3
Identities = 8/35 (22%), Positives = 18/35 (50%)
Query: 107 DRANKKPSHAKEKHEKTEHTHSHHTEEAESVGSHS 141
++ KK K+K + +HT T +A + +++
Sbjct: 30 EKEEKKTERNKDKEKNAQHTLGKVTTQAAKIFNYN 64
>ref|NP_223453.1| MOLYBDOPTERIN BIOSYNTHESIS PROTEIN [Helicobacter pylori J99]
Length = 176
Score = 21.6 bits (44), Expect = 9.3
Identities = 8/28 (28%), Positives = 17/28 (60%)
Query: 14 LVEEEIKSKIEFYKEVITKHHGVIETSL 41
++ E + + +EF+ E++ +IE SL
Sbjct: 31 VLSEYLLNPLEFHYEIVADERDLIEKSL 58
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 0.131 0.370
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 156,140
Number of Sequences: 1491
Number of extensions: 6668
Number of successful extensions: 42
Number of sequences better than 10.0: 23
Number of HSP's better than 10.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 24
Number of HSP's gapped (non-prelim): 24
length of query: 142
length of database: 494,079
effective HSP length: 69
effective length of query: 73
effective length of database: 391,200
effective search space: 28557600
effective search space used: 28557600
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: 44 (21.6 bits)