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|15645918|ref|NP_208097.1| ribosomal protein S8 (rps8)
[Helicobacter pylori 26695]
(131 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223943.1| putative 30S RIBOSOMAL PROTEIN S8 [Helicob... 259 2e-71
ref|NP_223159.1| putative [Helicobacter pylori J99] 29 0.050
ref|NP_223759.1| putative [Helicobacter pylori J99] 28 0.086
ref|NP_223858.1| GLYCINAMIDE RIBONUCLEOTIDE SYNTHETASE [Hel... 25 0.95
ref|NP_222756.1| DNA transformation competancy [Helicobacte... 24 1.2
ref|NP_224112.1| putative Outer membrane protein [Helicobac... 24 1.6
ref|NP_224164.1| putative ATP-DEPENDENT HELICASE [Helicobac... 23 2.1
ref|NP_223528.1| putative IRON-REGULATED OUTER MEMBRANE PRO... 23 2.1
ref|NP_224083.1| putative TYPE II DNA MODIFICATION ENZYME (... 23 2.8
ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [He... 23 2.8
ref|NP_223625.1| putative [Helicobacter pylori J99] 23 3.6
ref|NP_223383.1| putative [Helicobacter pylori J99] 23 3.6
ref|NP_223075.1| ATP-DEPENDENT ZINC METALLOPEPTIDASE [Helic... 23 3.6
ref|NP_223701.1| D-3-PHOSPHOGLYCERATE DEHYDROGENASE [Helico... 22 4.7
ref|NP_223578.1| putative [Helicobacter pylori J99] 22 6.1
ref|NP_223274.1| putative vacuolating cytotoxin (VacA) para... 22 6.1
ref|NP_223702.1| putative [Helicobacter pylori J99] 22 8.0
>ref|NP_223943.1| putative 30S RIBOSOMAL PROTEIN S8 [Helicobacter pylori J99]
Length = 131
Score = 259 bits (662), Expect = 2e-71
Identities = 131/131 (100%), Positives = 131/131 (100%)
Query: 1 MVNDIIADSLTRLRNASMRRLEFTQLYYAKIVVSILEIFKEKGFIKDFNVKDKDKKQSVY 60
MVNDIIADSLTRLRNASMRRLEFTQLYYAKIVVSILEIFKEKGFIKDFNVKDKDKKQSVY
Sbjct: 1 MVNDIIADSLTRLRNASMRRLEFTQLYYAKIVVSILEIFKEKGFIKDFNVKDKDKKQSVY 60
Query: 61 VQLAYDEKGHSKISEVKRLSKPGRRVYKQKNELKRFKNGYGVIVVSTSKGVITNEEAYRQ 120
VQLAYDEKGHSKISEVKRLSKPGRRVYKQKNELKRFKNGYGVIVVSTSKGVITNEEAYRQ
Sbjct: 61 VQLAYDEKGHSKISEVKRLSKPGRRVYKQKNELKRFKNGYGVIVVSTSKGVITNEEAYRQ 120
Query: 121 NVGGEVLCSIW 131
NVGGEVLCSIW
Sbjct: 121 NVGGEVLCSIW 131
>ref|NP_223159.1| putative [Helicobacter pylori J99]
Length = 181
Score = 28.9 bits (63), Expect = 0.050
Identities = 27/127 (21%), Positives = 50/127 (39%), Gaps = 19/127 (14%)
Query: 2 VNDIIADSLTRLRNASMRRLEFTQLYYAKI--VVSILEIFKEKGFIKDFNVKDKDKKQSV 59
V +I + L +L+NA FT+ + +V ILE+ F K+ N D + S
Sbjct: 19 VKEITNELLKQLQNALHSNALFTEQVELSLKGIVRILEVLLSLDFFKNANEIDSSLRNS- 77
Query: 60 YVQLAYDEKGHSKISEVKRLSKPGRRVYKQKNELKRFKNGYGVIVVSTSKGVITNEEAYR 119
++ LS G + + E +RF + + + + + V A
Sbjct: 78 ----------------IEWLSNAGESLKTKMKEYERFFSEFNTSMHANEQEVTATLNANT 121
Query: 120 QNVGGEV 126
+N+ E+
Sbjct: 122 ENIKSEI 128
>ref|NP_223759.1| putative [Helicobacter pylori J99]
Length = 267
Score = 28.1 bits (61), Expect = 0.086
Identities = 26/127 (20%), Positives = 50/127 (38%), Gaps = 19/127 (14%)
Query: 2 VNDIIADSLTRLRNASMRRLEFTQLYYA--KIVVSILEIFKEKGFIKDFNVKDKDKKQSV 59
V +I + L +L+NA F++ K +V ILE+ F K+ N D + S
Sbjct: 19 VKEITNELLKQLQNALRSNAHFSEQVELSLKCIVRILEVLLSLDFFKNANEIDSSLRNS- 77
Query: 60 YVQLAYDEKGHSKISEVKRLSKPGRRVYKQKNELKRFKNGYGVIVVSTSKGVITNEEAYR 119
++ L+ G + + E +RF + + + + + V A
Sbjct: 78 ----------------IEWLTNAGESLKLKMKEYERFFSEFNTSMHANEQEVTNTLNANA 121
Query: 120 QNVGGEV 126
+N+ E+
Sbjct: 122 ENIKSEI 128
>ref|NP_223858.1| GLYCINAMIDE RIBONUCLEOTIDE SYNTHETASE [Helicobacter pylori J99]
Length = 424
Score = 24.6 bits (52), Expect = 0.95
Identities = 20/80 (25%), Positives = 41/80 (51%), Gaps = 13/80 (16%)
Query: 56 KQSVYVQLAYDEKGHSKISEVKR-----LSKPGRRVY---KQKNELKRFKNGYGVIVVST 107
KQ++Y+ ++KGH + EV++ S GR ++ + K+ L+ + Y +
Sbjct: 344 KQTLYIDPVDEKKGHLILGEVEQDNGVFESSGGRVIFAIGRGKSLLEARNHAYEIAQKVH 403
Query: 108 SKGVITNEEAYRQNVGGEVL 127
+G+ YR+++G +VL
Sbjct: 404 FEGMF-----YRKDIGFKVL 418
>ref|NP_222756.1| DNA transformation competancy [Helicobacter pylori J99]
Length = 247
Score = 24.3 bits (51), Expect = 1.2
Identities = 17/59 (28%), Positives = 28/59 (46%), Gaps = 7/59 (11%)
Query: 2 VNDIIADSLTRLRNASMR-------RLEFTQLYYAKIVVSILEIFKEKGFIKDFNVKDK 53
VND+ S+ RL ++ + F L A +++SIL + K + DF +DK
Sbjct: 34 VNDLDMQSVFRLERNRLKIAYRLLGLMSFIALVLAIVLISILPLQKTEHHFVDFLNQDK 92
>ref|NP_224112.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 388
Score = 23.9 bits (50), Expect = 1.6
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 7/38 (18%)
Query: 91 NELKRFKNGYGVIVVSTSKGVITNEEAYRQNVGGEVLC 128
N + FK+GY GV T+ +AY N G + C
Sbjct: 245 NRVGYFKDGYVY-------GVNTDADAYMTNADGTITC 275
>ref|NP_224164.1| putative ATP-DEPENDENT HELICASE [Helicobacter pylori J99]
Length = 946
Score = 23.5 bits (49), Expect = 2.1
Identities = 25/108 (23%), Positives = 44/108 (40%), Gaps = 7/108 (6%)
Query: 22 EFTQLYYAKIVVSILEIFKEKGFIKDFNVKDKDKKQSVYVQLAYDEKGHSKISEVKRLSK 81
E +LYY +++ + K+ KD ++ YV E G +++ K+ SK
Sbjct: 678 ELARLYYRMKNREVVDKDYARALDKEEAAKDHEEINVYYVAFTRAELGLIVVAKDKKESK 737
Query: 82 PGRRVYK--QKNELKRFKNGYGVIVVSTSK-----GVITNEEAYRQNV 122
+ K ++ EL + G V+S K V+ AY + V
Sbjct: 738 KESKNKKMHEQLELAPLEEGEIAPVISPQKEPLMTSVVIKPHAYGEQV 785
>ref|NP_223528.1| putative IRON-REGULATED OUTER MEMBRANE PROTEIN [Helicobacter pylori
J99]
Length = 791
Score = 23.5 bits (49), Expect = 2.1
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 74 SEVKRLSKPGRRVYKQKNELKRFKN 98
S+V R PG VY ++N+L+ KN
Sbjct: 530 SQVTRGVMPGDGVYMRQNDLRYAKN 554
>ref|NP_224083.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
[Helicobacter pylori J99]
Length = 678
Score = 23.1 bits (48), Expect = 2.8
Identities = 8/31 (25%), Positives = 18/31 (57%)
Query: 80 SKPGRRVYKQKNELKRFKNGYGVIVVSTSKG 110
S PG + + L++ ++GY +++ +S G
Sbjct: 488 SAPGNGMVFVEQALEKMQSGYASVIIQSSAG 518
>ref|NP_222803.1| RNA POLYMERASE SIGMA FACTOR (SIGMA-70) [Helicobacter pylori J99]
Length = 681
Score = 23.1 bits (48), Expect = 2.8
Identities = 18/73 (24%), Positives = 27/73 (36%)
Query: 22 EFTQLYYAKIVVSILEIFKEKGFIKDFNVKDKDKKQSVYVQLAYDEKGHSKISEVKRLSK 81
E Q Y K+V S K K N ++K K ++ YD E R
Sbjct: 109 ELCQKYQKKLVSSSEYAKKLNAIDKIKNTEEKQKVLDEELEDGYDFLKEKDFLEWSRSDS 168
Query: 82 PGRRVYKQKNELK 94
P R ++ ++K
Sbjct: 169 PVRMYLREMGDIK 181
>ref|NP_223625.1| putative [Helicobacter pylori J99]
Length = 362
Score = 22.7 bits (47), Expect = 3.6
Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 3/83 (3%)
Query: 45 IKDFNVKDKDKKQSVYVQLAYDEKGHSKISEVKRLSKPGRRVYKQKNELKRFKNGYGVIV 104
+KDFN K K+ ++ Y + + G+ + S G YK N Y +
Sbjct: 65 LKDFNAKQKEVLKAAYQFGSKENLGYEMAGIAWKESCAG--TYK-INFSDPSAGIYHAYI 121
Query: 105 VSTSKGVITNEEAYRQNVGGEVL 127
S K N + +NV GE+L
Sbjct: 122 PSVLKSYGHNNSPFLRNVMGELL 144
>ref|NP_223383.1| putative [Helicobacter pylori J99]
Length = 338
Score = 22.7 bits (47), Expect = 3.6
Identities = 20/83 (24%), Positives = 37/83 (44%), Gaps = 9/83 (10%)
Query: 21 LEFTQLYYAKIVVSILEIFKEKGFIKDFNVKDKDKKQ-------SVYVQLAYDEKGHSKI 73
L+F + + K + L KG I+ F DK+K++ S + + + H+ +
Sbjct: 179 LKFKRNCFRKHYANALMQHYSKGIIQSFKFLDKEKERLYPLIPVSQMHGITFFKHSHNAL 238
Query: 74 SEVKRLSKPGRRV--YKQKNELK 94
V ++ K V + QK E+K
Sbjct: 239 FMVDKILKKKGYVLSFLQKEEIK 261
>ref|NP_223075.1| ATP-DEPENDENT ZINC METALLOPEPTIDASE [Helicobacter pylori J99]
Length = 632
Score = 22.7 bits (47), Expect = 3.6
Identities = 16/43 (37%), Positives = 22/43 (50%), Gaps = 8/43 (18%)
Query: 46 KDFNVKDKDKKQSVYVQLAYDEKGHSKISEVKRLSKPGRRVYK 88
K + K+KK +AY E GH+ ISE ++K RV K
Sbjct: 419 KSRRISPKEKKI-----VAYHESGHAVISE---MTKGSTRVNK 453
>ref|NP_223701.1| D-3-PHOSPHOGLYCERATE DEHYDROGENASE [Helicobacter pylori J99]
Length = 524
Score = 22.3 bits (46), Expect = 4.7
Identities = 10/26 (38%), Positives = 19/26 (72%), Gaps = 2/26 (7%)
Query: 92 ELKRFKNGYGVIVVSTSKGVITNEEA 117
E++R K G VI+++ ++G + NE+A
Sbjct: 218 EIERMKKG--VILINCARGGLYNEDA 241
>ref|NP_223578.1| putative [Helicobacter pylori J99]
Length = 381
Score = 21.9 bits (45), Expect = 6.1
Identities = 13/40 (32%), Positives = 19/40 (47%)
Query: 19 RRLEFTQLYYAKIVVSILEIFKEKGFIKDFNVKDKDKKQS 58
+RLE +++ A V LE FK+K N K Q+
Sbjct: 214 KRLEISKIISAFSVKESLEFFKQKNLSVHSNALKALKNQA 253
>ref|NP_223274.1| putative vacuolating cytotoxin (VacA) paralog [Helicobacter
pylori J99]
Length = 3194
Score = 21.9 bits (45), Expect = 6.1
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 37 EIFKEKGFIKDFNVKDKDKKQSVYVQLAYDEKGHSK 72
+IF GF+ + + +D SVY + +E ++K
Sbjct: 56 KIFLGLGFVSALSAQSEDYNSSVYWLNSVNENNNNK 91
>ref|NP_223702.1| putative [Helicobacter pylori J99]
Length = 616
Score = 21.6 bits (44), Expect = 8.0
Identities = 7/16 (43%), Positives = 12/16 (74%)
Query: 33 VSILEIFKEKGFIKDF 48
+ ++E K+KG +KDF
Sbjct: 581 MEVIENLKKKGLLKDF 596
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
0.318 0.136 0.373
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 143,170
Number of Sequences: 1491
Number of extensions: 6440
Number of successful extensions: 34
Number of sequences better than 10.0: 17
Number of HSP's better than 10.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 17
Number of HSP's gapped (non-prelim): 18
length of query: 131
length of database: 494,079
effective HSP length: 68
effective length of query: 63
effective length of database: 392,691
effective search space: 24739533
effective search space used: 24739533
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 44 (21.6 bits)