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|15645859|ref|NP_208037.1| single-strand DNA-binding
protein (ssb) [Helicobacter pylori 26695]
(179 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223884.1| SINGLE-STRAND BINDING PROTEIN [Helicobacte... 337 1e-94
ref|NP_223551.1| outer membrane protein - adhesin [Helicoba... 26 0.71
ref|NP_223761.1| putative [Helicobacter pylori J99] 24 2.1
ref|NP_223732.1| putative SUGAR NUCLEOTIDE BIOSYNTHESIS [He... 24 2.7
ref|NP_223664.1| putative [Helicobacter pylori J99] 23 3.5
ref|NP_223661.1| putative [Helicobacter pylori J99] 23 3.5
ref|NP_223054.1| septum formation protein [Helicobacter pyl... 23 3.5
ref|NP_223469.1| putative CHEMOTAXIS PROTEIN (MOTILITY PROT... 23 4.6
ref|NP_224003.1| putative [Helicobacter pylori J99] 23 6.0
ref|NP_223790.1| putative [Helicobacter pylori J99] 22 7.9
>ref|NP_223884.1| SINGLE-STRAND BINDING PROTEIN [Helicobacter pylori J99]
Length = 181
Score = 337 bits (864), Expect = 1e-94
Identities = 169/181 (93%), Positives = 173/181 (95%), Gaps = 2/181 (1%)
Query: 1 MFNKVIMVGRLTRNVELKYLPSGSAAATIGLATSRRFKKQDGTLGEEVCFIDARLFGRTA 60
MFNKVIMVGRLTRNVELKYLPSGSAAATIGLATSRRFKKQDGTLGEEVCFIDARLFGRTA
Sbjct: 1 MFNKVIMVGRLTRNVELKYLPSGSAAATIGLATSRRFKKQDGTLGEEVCFIDARLFGRTA 60
Query: 61 EIANQYLSKGSSVLIEGRLTYESWMDQTGKKNSRHTITADSLQFMDKKSDNPQANAMQDS 120
EIANQYLSKGSSVLIEGRLTYESWMDQTGKKNSRHTITADSLQFMDKKSDNPQAN+MQDS
Sbjct: 61 EIANQYLSKGSSVLIEGRLTYESWMDQTGKKNSRHTITADSLQFMDKKSDNPQANSMQDS 120
Query: 121 IMHENSNNAYPANHNAPSQDPFNQA--YAQNAYAKENLQAQPSKYQNSVPEINIDEEEIP 178
+ HEN NNAYP N+NAPSQDPF+QA Y QNAY KEN QAQPSKYQNSVPEINIDEEEIP
Sbjct: 121 MTHENFNNAYPTNYNAPSQDPFSQAQSYPQNAYTKENSQAQPSKYQNSVPEINIDEEEIP 180
Query: 179 F 179
F
Sbjct: 181 F 181
>ref|NP_223551.1| outer membrane protein - adhesin [Helicobacter pylori J99]
Length = 744
Score = 25.8 bits (55), Expect = 0.71
Identities = 15/62 (24%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 99 ADSLQFMDKKSDNPQANAMQDSIMHENSNNAYPANHNAPSQDPFNQA-YAQNAYAKENLQ 157
++ + + K + Q Q S+++E+ N+N +PF A +AQ A + Q
Sbjct: 325 SEEISAIQKMITDAQELVNQTSVINEHEQTTPVGNNNGKPFNPFTDASFAQGMLANASAQ 384
Query: 158 AQ 159
A+
Sbjct: 385 AK 386
>ref|NP_223761.1| putative [Helicobacter pylori J99]
Length = 1154
Score = 24.3 bits (51), Expect = 2.1
Identities = 25/121 (20%), Positives = 46/121 (37%), Gaps = 14/121 (11%)
Query: 65 QYLSKGSSVLIEGRLTYE----------SWMDQTGKKNSRH-TITADSLQFMDKKSDNPQ 113
+ + KG V GR+ E +W G+K+ H IT + D +S
Sbjct: 877 EVIDKGVKVERNGRVAIEYQNIRVGLKDNWK---GEKSPNHWVITGYEKRLEDSESLYTS 933
Query: 114 ANAMQDSIMHENSNNAYPANHNAPSQDPFNQAYAQNAYAKENLQAQPSKYQNSVPEINID 173
+ + NSN P + +Q+P NA L+ + + +V +++ +
Sbjct: 934 PPITKGETLPLNSNKPDPTTNAIKTQEPLYPLELANAEKLAKLETEKAFKAEAVKKLDFN 993
Query: 174 E 174
E
Sbjct: 994 E 994
>ref|NP_223732.1| putative SUGAR NUCLEOTIDE BIOSYNTHESIS [Helicobacter pylori J99]
Length = 378
Score = 23.9 bits (50), Expect = 2.7
Identities = 8/22 (36%), Positives = 13/22 (58%)
Query: 110 DNPQANAMQDSIMHENSNNAYP 131
DNP + + H++SN+ YP
Sbjct: 266 DNPYFTPLHPLLKHQSSNHLYP 287
>ref|NP_223664.1| putative [Helicobacter pylori J99]
Length = 466
Score = 23.5 bits (49), Expect = 3.5
Identities = 10/31 (32%), Positives = 18/31 (57%)
Query: 112 PQANAMQDSIMHENSNNAYPANHNAPSQDPF 142
P + + S ++ NSNN P++ N S +P+
Sbjct: 436 PNGSVGKASGVNSNSNNEAPSSDNIQSFNPY 466
>ref|NP_223661.1| putative [Helicobacter pylori J99]
Length = 255
Score = 23.5 bits (49), Expect = 3.5
Identities = 20/82 (24%), Positives = 35/82 (42%), Gaps = 2/82 (2%)
Query: 90 KKNSRHTITADSLQFMDKKSDNPQANAMQDSIMHENSNNAYPANHNAPSQDPFNQAYAQN 149
+K + A+ Q ++ +N + +A S A + NA + Q ++
Sbjct: 91 EKEILQPLNANEKQVLNTALENNEIDARTFKPWDLGSKEA--SKENASMSEELTQNNSKL 148
Query: 150 AYAKENLQAQPSKYQNSVPEIN 171
++ EN AQ S QN+V E N
Sbjct: 149 SHFNENSIAQNSVGQNNVKEPN 170
>ref|NP_223054.1| septum formation protein [Helicobacter pylori J99]
Length = 844
Score = 23.5 bits (49), Expect = 3.5
Identities = 10/39 (25%), Positives = 16/39 (40%)
Query: 104 FMDKKSDNPQANAMQDSIMHENSNNAYPANHNAPSQDPF 142
F + SD+ + D N NHN P+++ F
Sbjct: 176 FENTPSDSQKKETNNDKEKENLKENPIDENHNTPNEESF 214
>ref|NP_223469.1| putative CHEMOTAXIS PROTEIN (MOTILITY PROTEIN A) [Helicobacter
pylori J99]
Length = 257
Score = 23.1 bits (48), Expect = 4.6
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 55 LFGRTAEIANQYLSKGSSVLIEGR 78
L GR A+I + + G S++I+G+
Sbjct: 96 LEGRVAQIEDDFTRNGLSMIIDGK 119
>ref|NP_224003.1| putative [Helicobacter pylori J99]
Length = 972
Score = 22.7 bits (47), Expect = 6.0
Identities = 13/48 (27%), Positives = 24/48 (49%), Gaps = 7/48 (14%)
Query: 66 YLSKGSSVLIEGRLTYESWMDQTGKKNSRHTITADSLQFMDKKSDNPQ 113
+L KG + +I ++D G K++ + AD+ Q + K NP+
Sbjct: 887 WLQKGGTQII-------CFIDPKGSKHTDYEHKADAYQLFEDKVFNPK 927
>ref|NP_223790.1| putative [Helicobacter pylori J99]
Length = 285
Score = 22.3 bits (46), Expect = 7.9
Identities = 11/47 (23%), Positives = 19/47 (40%)
Query: 107 KKSDNPQANAMQDSIMHENSNNAYPANHNAPSQDPFNQAYAQNAYAK 153
KKS N + + + + + N P N +PFN + + K
Sbjct: 238 KKSCNVRERNVAEIVDNLPKNQYTPKKKNFSPNEPFNNPFKDQLFKK 284
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
0.312 0.127 0.355
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 176,639
Number of Sequences: 1491
Number of extensions: 7367
Number of successful extensions: 20
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 11
Number of HSP's gapped (non-prelim): 11
length of query: 179
length of database: 494,079
effective HSP length: 72
effective length of query: 107
effective length of database: 386,727
effective search space: 41379789
effective search space used: 41379789
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: 46 (22.3 bits)