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|15646057|ref|NP_208239.1| ribonuclease P, protein
component (rnpA) [Helicobacter pylori 26695]
(161 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_224059.1| putative RIBONUCLEASE P PROTEIN COMPONENT ... 303 1e-84
ref|NP_223135.1| putative [Helicobacter pylori J99] 26 0.46
ref|NP_222997.1| putative [Helicobacter pylori J99] 26 0.60
ref|NP_224170.1| LEUCYL-TRNA SYNTHETASE [Helicobacter pylor... 25 1.0
ref|NP_222808.1| putative [Helicobacter pylori J99] 25 1.0
ref|NP_223973.1| putative [Helicobacter pylori J99] 24 1.7
ref|NP_224000.1| putative histidine kinase sensor protein [... 23 3.9
ref|NP_223272.1| putative efflux transporter [Helicobacter ... 23 3.9
ref|NP_222832.1| PHOSPHOENOLPYRUVATE SYNTHASE [Helicobacter... 23 3.9
ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (... 23 5.1
ref|NP_223648.1| topoisomerase I [Helicobacter pylori J99] 23 5.1
ref|NP_223478.1| EXCINUCLEASE ABC SUBUNIT C [Helicobacter p... 23 5.1
ref|NP_224152.1| DNA REPAIR PROTEIN(RECOMBINATION PROTEIN N... 22 6.6
ref|NP_223062.1| multi-drug resistance protein [Helicobacte... 22 6.6
ref|NP_223772.1| putative TONB-INDEPENDENT PROTEIN-UPTAKE P... 22 8.7
ref|NP_223436.1| putative [Helicobacter pylori J99] 22 8.7
ref|NP_222888.1| abc transporter, ATP-binding protein [Heli... 22 8.7
>ref|NP_224059.1| putative RIBONUCLEASE P PROTEIN COMPONENT [Helicobacter pylori J99]
Length = 161
Score = 303 bits (776), Expect = 1e-84
Identities = 147/161 (91%), Positives = 154/161 (95%)
Query: 1 MPDELRAEKSFPSKPYDSLKNKSEFDRVYQKGFKKHNPFFSLFVLDLSQEPPKEKAGFKD 60
MPDELRAEKSFPSKPYDSLKNKSEFDRVY+KGFKKHNPFFSLFVLDLS+EPPKEK GFKD
Sbjct: 1 MPDELRAEKSFPSKPYDSLKNKSEFDRVYRKGFKKHNPFFSLFVLDLSKEPPKEKEGFKD 60
Query: 61 PLFCRLKDKKTLYLLGLSVSKKVGNAVKRNLIKRRLRSLTLKHAALCQGLALVFVPRSDC 120
PL CRLKD+ TL LLGLSVSKKVGNAVKRNLIKRRLRSL +HAALCQG ALVFVPRSDC
Sbjct: 61 PLSCRLKDRNTLCLLGLSVSKKVGNAVKRNLIKRRLRSLVTRHAALCQGFALVFVPRSDC 120
Query: 121 YHLDFWALEKHFLEMLTSIKNYMNKALKDLKKGITHTYAKQ 161
YHLDFWALEKHFLEMLTSIK+YMNKALKDLKKG+THT+AKQ
Sbjct: 121 YHLDFWALEKHFLEMLTSIKDYMNKALKDLKKGMTHTHAKQ 161
>ref|NP_223135.1| putative [Helicobacter pylori J99]
Length = 631
Score = 26.2 bits (56), Expect = 0.46
Identities = 36/144 (25%), Positives = 62/144 (43%), Gaps = 29/144 (20%)
Query: 26 DRVYQKGFKKH--NPFF---------SLFVLDLSQEPPKEKAGFKDPLFCRLKDK----- 69
D Y KGFKKH N ++ SL ++ + E + F D LF K++
Sbjct: 414 DCAYIKGFKKHAQNSYYGDEKEIDTSSLISVEGNVEGYET---FSDSLFLLSKERIEEAL 470
Query: 70 -----KTLYLLGLSVSKKVGNAVKRNLIKRRLRSLTLKHAALCQGLALVFVPRSDCYHLD 124
K +Y LS K+ +AV N + +L+ + + A + + +F PRS+ + D
Sbjct: 471 HYYQPKKVY--NLSYGAKIKHAVSLNHSQVKLKQINKQDAIV--RIKSMFSPRSN-HAKD 525
Query: 125 FWALEKHFLEMLTSIKNYMNKALK 148
L+K+ + ++N K
Sbjct: 526 LKNLQKNLIRFKEDFFTHLNTPCK 549
>ref|NP_222997.1| putative [Helicobacter pylori J99]
Length = 100
Score = 25.8 bits (55), Expect = 0.60
Identities = 19/74 (25%), Positives = 34/74 (45%)
Query: 79 VSKKVGNAVKRNLIKRRLRSLTLKHAALCQGLALVFVPRSDCYHLDFWALEKHFLEMLTS 138
+ K++G A+K LIK+ + + L + + HL+ L + E+
Sbjct: 27 LDKRLGIALKIALIKQESPQENPIYCPKREQEILKRLSQRGFKHLNGEILASFYAEVFKI 86
Query: 139 IKNYMNKALKDLKK 152
+N+ ALK+LKK
Sbjct: 87 SRNFQENALKELKK 100
>ref|NP_224170.1| LEUCYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 806
Score = 25.0 bits (53), Expect = 1.0
Identities = 10/32 (31%), Positives = 16/32 (49%)
Query: 120 CYHLDFWALEKHFLEMLTSIKNYMNKALKDLK 151
C+ D ++K + I NY + LKDL+
Sbjct: 172 CWRCDTEVIQKELYQYYLKITNYAEELLKDLE 203
>ref|NP_222808.1| putative [Helicobacter pylori J99]
Length = 176
Score = 25.0 bits (53), Expect = 1.0
Identities = 26/81 (32%), Positives = 34/81 (41%), Gaps = 12/81 (14%)
Query: 67 KDKKTLYLLGLSVSKKVGNAVKRNLIKRRLRSLTLKHAALCQGLALVFVPRSDCYHLDFW 126
K KK LSV R LIK R RSL+ K L Q L+++ + L+
Sbjct: 3 KPKKNTLPCSLSVKMSY---FMRLLIKWRTRSLSHKMMTLVQILSILALASKASEDLE-- 57
Query: 127 ALEKHFLEMLTSIKNYMNKAL 147
E L IK+Y+ K L
Sbjct: 58 -------EQLKKIKDYIYKTL 71
>ref|NP_223973.1| putative [Helicobacter pylori J99]
Length = 253
Score = 24.3 bits (51), Expect = 1.7
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 6/59 (10%)
Query: 32 GFKKHNPFFSLFVLDLSQEPPKEKAGFKDPLFCRLKDKKTLYLLGLSVSKKVGNAVKRN 90
GF KH F + ++ E A P C LK+KK LY ++ ++ + +K++
Sbjct: 200 GFIKHENFSEV------KKRYLELAKTYHPDLCDLKEKKALYAKRFAIIQEAYSHIKKH 252
>ref|NP_224000.1| putative histidine kinase sensor protein [Helicobacter pylori J99]
Length = 344
Score = 23.1 bits (48), Expect = 3.9
Identities = 16/50 (32%), Positives = 21/50 (42%)
Query: 42 LFVLDLSQEPPKEKAGFKDPLFCRLKDKKTLYLLGLSVSKKVGNAVKRNL 91
L V +L E PK+K + R Y +GL + KKV K L
Sbjct: 272 LKVKNLGYEIPKDKITKLSVRYARFNSSVLGYGIGLDLVKKVCEKYKMRL 321
>ref|NP_223272.1| putative efflux transporter [Helicobacter pylori J99]
Length = 1028
Score = 23.1 bits (48), Expect = 3.9
Identities = 27/104 (25%), Positives = 48/104 (45%), Gaps = 13/104 (12%)
Query: 13 SKPYDSLKNKSEFDRVYQKGFKKHN--PFFSLFV-LDLSQEPPKEKAGFKDPLFCR---L 66
+KP S+ ++ +++QK +KH+ F +L V +Q P FK +F + L
Sbjct: 554 AKPGVSIDYMTQKSKIFQKAIEKHDEVEFTTLQVGYGTTQNP------FKAKIFVQLKPL 607
Query: 67 KDKKTLYLLG-LSVSKKVGNAVKRNLIKRRLRSLTLKHAALCQG 109
K++K + LG + + +K + L S+ L AL G
Sbjct: 608 KERKKEHELGQFELMSALKKELKSMPEAKDLDSINLSEVALIGG 651
>ref|NP_222832.1| PHOSPHOENOLPYRUVATE SYNTHASE [Helicobacter pylori J99]
Length = 812
Score = 23.1 bits (48), Expect = 3.9
Identities = 12/42 (28%), Positives = 21/42 (49%)
Query: 48 SQEPPKEKAGFKDPLFCRLKDKKTLYLLGLSVSKKVGNAVKR 89
SQ+ +E F+ F +KK + L G ++ K+G+ R
Sbjct: 343 SQKTKEENQVFEKFKFKNPNEKKEIILQGRAIGSKIGSGKVR 384
>ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
[Helicobacter pylori J99]
Length = 1252
Score = 22.7 bits (47), Expect = 5.1
Identities = 10/23 (43%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 20 KNKSEFDRVYQKGFKKHNPFFSL 42
K K+E ++ +K KK+N FF+L
Sbjct: 718 KTKAELEKTIEKHIKKYN-FFAL 739
>ref|NP_223648.1| topoisomerase I [Helicobacter pylori J99]
Length = 686
Score = 22.7 bits (47), Expect = 5.1
Identities = 20/95 (21%), Positives = 40/95 (42%), Gaps = 13/95 (13%)
Query: 67 KDKKTLYLLGLSVSKKVGNAVKRNLIKRRLRSLTLKHAALCQGLALVFVPRSDCYHLDFW 126
+D++ L ++KV ++ + R +T+KH +G + F + +
Sbjct: 176 RDREIEKFKALPENEKVSYQIQAKINDSANREVTIKHCDE-KGEEIKFNDKEEA------ 228
Query: 127 ALEKHFLEMLTSIKNYMNKALKDLKKGITHTYAKQ 161
L++ S+K+ LKDLK + T K+
Sbjct: 229 ------LKLFESLKDNKACLLKDLKNSVVETKPKK 257
>ref|NP_223478.1| EXCINUCLEASE ABC SUBUNIT C [Helicobacter pylori J99]
Length = 594
Score = 22.7 bits (47), Expect = 5.1
Identities = 8/18 (44%), Positives = 15/18 (82%)
Query: 144 NKALKDLKKGITHTYAKQ 161
N+ LK+L++ I+H Y+K+
Sbjct: 324 NETLKELQEFISHQYSKK 341
>ref|NP_224152.1| DNA REPAIR PROTEIN(RECOMBINATION PROTEIN N) [Helicobacter pylori
J99]
Length = 522
Score = 22.3 bits (46), Expect = 6.6
Identities = 13/30 (43%), Positives = 18/30 (59%), Gaps = 1/30 (3%)
Query: 66 LKDKKTLYLLG-LSVSKKVGNAVKRNLIKR 94
+K +KT Y L S+SK A+ + LIKR
Sbjct: 93 IKKEKTRYFLNQTSLSKNTLKALLKGLIKR 122
>ref|NP_223062.1| multi-drug resistance protein [Helicobacter pylori J99]
Length = 551
Score = 22.3 bits (46), Expect = 6.6
Identities = 8/22 (36%), Positives = 15/22 (67%)
Query: 75 LGLSVSKKVGNAVKRNLIKRRL 96
+GL + KK+ NA+ +L+K +
Sbjct: 84 IGLDIVKKIRNAMLESLLKMEM 105
>ref|NP_223772.1| putative TONB-INDEPENDENT PROTEIN-UPTAKE PROTEIN [Helicobacter
pylori J99]
Length = 417
Score = 21.9 bits (45), Expect = 8.7
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 63 FCRLKDKKTLYLLGLSVSKKVGNAVKR 89
+ LKDKK + +SV+ + GN + R
Sbjct: 76 YAELKDKKVHLVALVSVAVENGNKISR 102
>ref|NP_223436.1| putative [Helicobacter pylori J99]
Length = 429
Score = 21.9 bits (45), Expect = 8.7
Identities = 11/29 (37%), Positives = 16/29 (54%), Gaps = 2/29 (6%)
Query: 29 YQKGFKKHNPFFSLFVLDLSQEPPKEKAG 57
+ K F+KH+ FF L L+ P K+G
Sbjct: 277 FSKNFRKHDAFFKNSTLILN--TPTTKSG 303
>ref|NP_222888.1| abc transporter, ATP-binding protein [Helicobacter pylori J99]
Length = 213
Score = 21.9 bits (45), Expect = 8.7
Identities = 12/29 (41%), Positives = 19/29 (65%), Gaps = 4/29 (13%)
Query: 58 FKDPLF----CRLKDKKTLYLLGLSVSKK 82
F+ PL+ R+K K++L +LG+S S K
Sbjct: 11 FEKPLYNGVNLRIKPKESLAILGVSGSGK 39
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
0.322 0.138 0.408
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 188,094
Number of Sequences: 1491
Number of extensions: 8786
Number of successful extensions: 37
Number of sequences better than 10.0: 17
Number of HSP's better than 10.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 28
Number of HSP's gapped (non-prelim): 17
length of query: 161
length of database: 494,079
effective HSP length: 71
effective length of query: 90
effective length of database: 388,218
effective search space: 34939620
effective search space used: 34939620
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)