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|15645485|ref|NP_207660.1| transcription elongation
factor GreA (greA) [Helicobacter pylori 26695]
(164 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223518.1| TRANSCRIPTION ELONGATION FACTOR (TRANSCRIP... 325 3e-91
ref|NP_223044.1| FLAGELLAR M-RING PROTEIN [Helicobacter pyl... 26 0.62
ref|NP_223365.1| putative [Helicobacter pylori J99] 25 1.4
ref|NP_224197.1| putative Outer membrane protein [Helicobac... 24 1.8
ref|NP_223689.1| GMP SYNTHETASE [Helicobacter pylori J99] 23 5.3
ref|NP_222849.1| L-lactate permease [Helicobacter pylori J99] 23 5.3
ref|NP_224179.1| Ubiquinol cytochrome c oxidoreductase, cyt... 22 6.9
ref|NP_224031.1| UDP-N-ACETYLENOLPYRUVOYLGLUCOSAMINE REDUCT... 22 6.9
ref|NP_223397.1| PHOSPHORIBOSYL PYROPHOSPHATE SYNTHETASE [H... 22 6.9
ref|NP_222743.1| putative Outer membrane protein [Helicobac... 22 6.9
ref|NP_223171.1| DNA GYRASE SUBUNIT B [Helicobacter pylori ... 22 9.0
>ref|NP_223518.1| TRANSCRIPTION ELONGATION FACTOR (TRANSCRIPT CLEAVAGE FACTOR)
[Helicobacter pylori J99]
Length = 164
Score = 325 bits (834), Expect = 3e-91
Identities = 164/164 (100%), Positives = 164/164 (100%)
Query: 1 MNKEPMSMHGYNKICAELKQLKEVERPNIVKEIDIARGHGDLKENAEYHAAKEKQRFIEA 60
MNKEPMSMHGYNKICAELKQLKEVERPNIVKEIDIARGHGDLKENAEYHAAKEKQRFIEA
Sbjct: 1 MNKEPMSMHGYNKICAELKQLKEVERPNIVKEIDIARGHGDLKENAEYHAAKEKQRFIEA 60
Query: 61 RIVDLSEIVANAQVIDPSALAHNKVSFGSTIKILNLDNDKEFSYTIVGSVESDPAKGLIS 120
RIVDLSEIVANAQVIDPSALAHNKVSFGSTIKILNLDNDKEFSYTIVGSVESDPAKGLIS
Sbjct: 61 RIVDLSEIVANAQVIDPSALAHNKVSFGSTIKILNLDNDKEFSYTIVGSVESDPAKGLIS 120
Query: 121 FGSPIAKSLIGKSKGDAVSIQLPNGESDFEILDIYYKEICFDEN 164
FGSPIAKSLIGKSKGDAVSIQLPNGESDFEILDIYYKEICFDEN
Sbjct: 121 FGSPIAKSLIGKSKGDAVSIQLPNGESDFEILDIYYKEICFDEN 164
>ref|NP_223044.1| FLAGELLAR M-RING PROTEIN [Helicobacter pylori J99]
Length = 567
Score = 25.8 bits (55), Expect = 0.62
Identities = 20/71 (28%), Positives = 33/71 (46%), Gaps = 6/71 (8%)
Query: 1 MNKEPMSMHGYNKICAELKQLKEVERPNIVKEIDIARGHGDLKENAEYHAAKE---KQRF 57
M P + G + A +E IV E + G GD+ EN++ A ++ KQ F
Sbjct: 186 MKLSPTQILGIKNLIAAAVPKLTIENVKIVNENGESIGEGDILENSKELALEQLRYKQNF 245
Query: 58 ---IEARIVDL 65
+E +IV++
Sbjct: 246 ENILENKIVNI 256
>ref|NP_223365.1| putative [Helicobacter pylori J99]
Length = 114
Score = 24.6 bits (52), Expect = 1.4
Identities = 11/37 (29%), Positives = 20/37 (53%)
Query: 45 NAEYHAAKEKQRFIEARIVDLSEIVANAQVIDPSALA 81
N + H++ EK+RF+ + E+ A A +P L+
Sbjct: 2 NIKTHSSNEKERFVRIEEDEKKELFAEATNENPHGLS 38
>ref|NP_224197.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 314
Score = 24.3 bits (51), Expect = 1.8
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 5/59 (8%)
Query: 81 AHNKVSFGSTIKILNLDNDKEFSYTIVGSVESDP--AKGLISFGSPIAKSLIGKSKGDA 137
AH + + +K++N+DN+ S TIV + P + +I + A+ + KG A
Sbjct: 145 AHKTLPMNTVVKVINVDNN---SSTIVRINDRGPFVSNRIIDLSNAAARDIDMVQKGTA 200
>ref|NP_223689.1| GMP SYNTHETASE [Helicobacter pylori J99]
Length = 508
Score = 22.7 bits (47), Expect = 5.3
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 55 QRFIEARIVDLSEIVANAQVI 75
Q F + IV L E +ANA+V+
Sbjct: 193 QHFAQREIVRLKEKIANAKVL 213
>ref|NP_222849.1| L-lactate permease [Helicobacter pylori J99]
Length = 549
Score = 22.7 bits (47), Expect = 5.3
Identities = 11/34 (32%), Positives = 16/34 (46%)
Query: 93 ILNLDNDKEFSYTIVGSVESDPAKGLISFGSPIA 126
IL+L D ++G +G I FG P+A
Sbjct: 106 ILSLTPDHRILVILIGFCFGSFLEGAIGFGGPVA 139
>ref|NP_224179.1| Ubiquinol cytochrome c oxidoreductase, cytochrome c1 subunit
[Helicobacter pylori J99]
Length = 285
Score = 22.3 bits (46), Expect = 6.9
Identities = 17/42 (40%), Positives = 22/42 (51%), Gaps = 2/42 (4%)
Query: 64 DLSEIVANAQVIDPSALAHNKVSFGSTIKILNLD--NDKEFS 103
DLS+IVA I P L+ +V S + +LD DK FS
Sbjct: 142 DLSDIVAYLTSILPKNLSDKEVFAQSCQRCHSLDYAKDKAFS 183
>ref|NP_224031.1| UDP-N-ACETYLENOLPYRUVOYLGLUCOSAMINE REDUCTASE [Helicobacter pylori
J99]
Length = 259
Score = 22.3 bits (46), Expect = 6.9
Identities = 10/29 (34%), Positives = 18/29 (61%), Gaps = 2/29 (6%)
Query: 82 HNKVSFGSTIKILNLDNDKEFS--YTIVG 108
++ V G+ +K+ L+ND E S + I+G
Sbjct: 11 YSSVKIGAPLKVSVLENDNEISQEHQIIG 39
>ref|NP_223397.1| PHOSPHORIBOSYL PYROPHOSPHATE SYNTHETASE [Helicobacter pylori J99]
Length = 318
Score = 22.3 bits (46), Expect = 6.9
Identities = 8/21 (38%), Positives = 15/21 (71%)
Query: 122 GSPIAKSLIGKSKGDAVSIQL 142
G P++K++IGK ++IQ+
Sbjct: 33 GFPLSKAVIGKFSDGEINIQI 53
>ref|NP_222743.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 690
Score = 22.3 bits (46), Expect = 6.9
Identities = 10/24 (41%), Positives = 16/24 (66%), Gaps = 2/24 (8%)
Query: 66 SEIVANAQVIDPSALAHNKVSFGS 89
S+++ N I+ A HNK+SFG+
Sbjct: 569 SDLLVN--FINDKATKHNKISFGA 590
>ref|NP_223171.1| DNA GYRASE SUBUNIT B [Helicobacter pylori J99]
Length = 773
Score = 21.9 bits (45), Expect = 9.0
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 141 QLPNGESDFEILDIYYKEICFDE 163
Q P G +F + D +K++ F+E
Sbjct: 645 QTPKGLVEFNLDDNLFKDVLFEE 667
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
0.314 0.134 0.369
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 178,366
Number of Sequences: 1491
Number of extensions: 7781
Number of successful extensions: 19
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 9
Number of HSP's gapped (non-prelim): 11
length of query: 164
length of database: 494,079
effective HSP length: 71
effective length of query: 93
effective length of database: 388,218
effective search space: 36104274
effective search space used: 36104274
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: 45 (21.9 bits)