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|15645908|ref|NP_208087.1| ribosomal protein S11
(rps11) [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_223933.1| 30S RIBOSOMAL PROTEIN S11 [Helicobacter py... 264 7e-73
ref|NP_222995.1| putative vacuolating cytotoxin (VacA) para... 28 0.066
ref|NP_223274.1| putative vacuolating cytotoxin (VacA) para... 25 0.56
ref|NP_222935.1| Outer membrane protein/porin [Helicobacter... 25 0.73
ref|NP_223839.1| 50S RIBOSOMAL PROTEIN L7/L12 [Helicobacter... 25 0.95
ref|NP_223567.1| Outer membrane protein/porin [Helicobacter... 24 1.2
ref|NP_222876.1| putative PROTEASE [Helicobacter pylori J99] 24 1.6
ref|NP_224064.1| putative Outer membrane protein [Helicobac... 23 3.6
ref|NP_223367.1| putative Outer membrane protein [Helicobac... 23 3.6
ref|NP_223283.1| DNA MISMATCH REPAIR PROTEIN [Helicobacter ... 22 4.7
ref|NP_223404.1| putative [Helicobacter pylori J99] 22 6.1
>ref|NP_223933.1| 30S RIBOSOMAL PROTEIN S11 [Helicobacter pylori J99]
Length = 131
Score = 264 bits (674), Expect = 7e-73
Identities = 130/131 (99%), Positives = 131/131 (99%)
Query: 1 MAKRNVTAKKKVVKKNIARGVVYISATFNNTNITITDEMGNVICWSTAGGLGFKGSKKST 60
MAKRNVTAKKKVVKKNIARGVVYISATFNNTNITITDEMGNVICWSTAGGLGFKGSKKST
Sbjct: 1 MAKRNVTAKKKVVKKNIARGVVYISATFNNTNITITDEMGNVICWSTAGGLGFKGSKKST 60
Query: 61 PYAAQQAVESALSKAKEHGVKEVGIKVQGPGSGRETAIKSVGATEGIKVLWIKDITPLPH 120
PYAAQQAVESALSKAKEHGVKEVGIKVQGPGSGRETAIKSVGATEG+KVLWIKDITPLPH
Sbjct: 61 PYAAQQAVESALSKAKEHGVKEVGIKVQGPGSGRETAIKSVGATEGVKVLWIKDITPLPH 120
Query: 121 NGCRPPKRRRV 131
NGCRPPKRRRV
Sbjct: 121 NGCRPPKRRRV 131
>ref|NP_222995.1| putative vacuolating cytotoxin (VacA) paralog [Helicobacter pylori
J99]
Length = 2902
Score = 28.5 bits (62), Expect = 0.066
Identities = 21/98 (21%), Positives = 42/98 (42%), Gaps = 5/98 (5%)
Query: 15 KNIARGVVYISATFNNTNITITDEMGNVICWSTAGGLGFKGSKKSTPYAAQQAVESA--- 71
++I+ + YI TFN I +T +G+ W T G + +++ Q + S+
Sbjct: 1802 ESISADLGYIDTTFNAKEIYLTGTLGSGNAWGTGGSASVTFNSQTSLILNQANIVSSQTD 1861
Query: 72 --LSKAKEHGVKEVGIKVQGPGSGRETAIKSVGATEGI 107
S + G+ +V + E A++S+ G+
Sbjct: 1862 GIFSMLGQEGINKVFNQAGLANILGEVAMQSINKAGGL 1899
>ref|NP_223274.1| putative vacuolating cytotoxin (VacA) paralog [Helicobacter pylori
J99]
Length = 3194
Score = 25.4 bits (54), Expect = 0.56
Identities = 11/27 (40%), Positives = 15/27 (54%)
Query: 23 YISATFNNTNITITDEMGNVICWSTAG 49
YI+A F NI IT +G+ W + G
Sbjct: 2071 YINANFKAKNIYITGTIGSGNAWGSGG 2097
>ref|NP_222935.1| Outer membrane protein/porin [Helicobacter pylori J99]
Length = 483
Score = 25.0 bits (53), Expect = 0.73
Identities = 12/18 (66%), Positives = 13/18 (71%)
Query: 58 KSTPYAAQQAVESALSKA 75
K+TP A QAV SALS A
Sbjct: 88 KTTPNTANQAVSSALSSA 105
>ref|NP_223839.1| 50S RIBOSOMAL PROTEIN L7/L12 [Helicobacter pylori J99]
Length = 125
Score = 24.6 bits (52), Expect = 0.95
Identities = 13/42 (30%), Positives = 24/42 (56%), Gaps = 3/42 (7%)
Query: 50 GLGFKGSK---KSTPYAAQQAVESALSKAKEHGVKEVGIKVQ 88
GLG K +K + TP+ ++ V ++ + ++EVG KV+
Sbjct: 82 GLGLKEAKDATEKTPHVLKEGVNKEEAETIKKKLEEVGAKVE 123
>ref|NP_223567.1| Outer membrane protein/porin [Helicobacter pylori J99]
Length = 527
Score = 24.3 bits (51), Expect = 1.2
Identities = 15/28 (53%), Positives = 15/28 (53%), Gaps = 5/28 (17%)
Query: 25 SATFNNTNITITDEMGNVICWSTAGGLG 52
S T NNTNI I GNV AG LG
Sbjct: 78 STTTNNTNINIAGTGGNV-----AGTLG 100
>ref|NP_222876.1| putative PROTEASE [Helicobacter pylori J99]
Length = 422
Score = 23.9 bits (50), Expect = 1.6
Identities = 10/38 (26%), Positives = 20/38 (52%)
Query: 28 FNNTNITITDEMGNVICWSTAGGLGFKGSKKSTPYAAQ 65
FN ++ ++ + ++ + L +G KS+ YAAQ
Sbjct: 228 FNAKDLNLSGHIAEILSSNAISALKIEGRTKSSYYAAQ 265
>ref|NP_224064.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 744
Score = 22.7 bits (47), Expect = 3.6
Identities = 7/21 (33%), Positives = 13/21 (61%)
Query: 23 YISATFNNTNITITDEMGNVI 43
++ NN ++ TD+ GNV+
Sbjct: 134 FLPYNLNNIELSYTDDQGNVV 154
>ref|NP_223367.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 657
Score = 22.7 bits (47), Expect = 3.6
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 23 YISATFNNTNITITDEMGNVI 43
++ NN ++ TD GNVI
Sbjct: 101 FLPYNLNNVKLSFTDAQGNVI 121
>ref|NP_223283.1| DNA MISMATCH REPAIR PROTEIN [Helicobacter pylori J99]
Length = 762
Score = 22.3 bits (46), Expect = 4.7
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 111 WIKDITPLPHNGCRPPK 127
W+K I P N +PPK
Sbjct: 659 WLKQIQKPPKNKFKPPK 675
>ref|NP_223404.1| putative [Helicobacter pylori J99]
Length = 268
Score = 21.9 bits (45), Expect = 6.1
Identities = 11/43 (25%), Positives = 21/43 (48%)
Query: 47 TAGGLGFKGSKKSTPYAAQQAVESALSKAKEHGVKEVGIKVQG 89
T G G K KK+ P+ + + ++ + +KE +K+ G
Sbjct: 82 TLGADGLKELKKNLPFFYSLQLSTFPTQERLENIKEKLLKIPG 124
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
0.313 0.131 0.378
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 124,139
Number of Sequences: 1491
Number of extensions: 4637
Number of successful extensions: 15
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 4
Number of HSP's gapped (non-prelim): 11
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 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 44 (21.6 bits)