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|15646014|ref|NP_208195.1| type I restriction enzyme S
protein (hsdS) [Helicobacter pylori 26695]
(96 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223133.1| TYPE I RESTRICTION ENZYME (SPECIFICITY SUB... 62 2e-12
ref|NP_224140.1| putative TYPE I RESTRICTION ENZYME (SPECIF... 45 2e-07
ref|NP_223495.1| putative Outer membrane protein [Helicobac... 25 0.27
ref|NP_222959.1| putative Outer membrane protein [Helicobac... 23 1.4
ref|NP_224082.1| putative TYPE II RESTRICTION ENZYME [Helic... 22 2.3
ref|NP_223568.1| putative Outer membrane protein [Helicobac... 22 3.0
ref|NP_223174.1| putative Outer membrane protein [Helicobac... 22 3.0
ref|NP_223630.1| septum formation protein [Helicobacter pyl... 21 3.9
ref|NP_223214.1| GLUTAMATE RACEMASE [Helicobacter pylori J99] 21 3.9
ref|NP_224174.1| putative [Helicobacter pylori J99] 20 6.7
ref|NP_223352.1| putative Outer membrane protein [Helicobac... 20 6.7
ref|NP_223223.1| BETA-KETOACYL-ACP SYNTHASE I [Helicobacter... 20 6.7
ref|NP_223865.1| OXYGEN-INDEPENDENT COPROPORPHYRINOGEN III ... 20 8.8
ref|NP_223453.1| MOLYBDOPTERIN BIOSYNTHESIS PROTEIN [Helico... 20 8.8
ref|NP_223272.1| putative efflux transporter [Helicobacter ... 20 8.8
ref|NP_223111.1| RNA POLYMERASE SIGMA FACTOR (sigma 28) [He... 20 8.8
>ref|NP_223133.1| TYPE I RESTRICTION ENZYME (SPECIFICITY SUBUNIT) [Helicobacter
pylori J99]
Length = 409
Score = 62.0 bits (149), Expect = 2e-12
Identities = 34/84 (40%), Positives = 45/84 (53%), Gaps = 2/84 (2%)
Query: 14 WQKVRLGDIAEIIGGGTPSTQITSFWSGSINWFTPTEIGIT--KYVYKSQRTITPLGLKK 71
WQ L D+ +I+GG TP T + I W TP ++ +Y+ K R+I+ LG K
Sbjct: 4 WQTFCLKDLGKIVGGATPPTNNPKNYGNKIAWITPKDLSTLQGRYIKKGSRSISRLGFKS 63
Query: 72 SSTKLLPIGTILLTSRASIGDCAI 95
S LLP IL +SRA IG AI
Sbjct: 64 CSCVLLPKHAILFSSRAPIGYVAI 87
>ref|NP_224140.1| putative TYPE I RESTRICTION ENZYME (SPECIFICITY SUBUNIT)
[Helicobacter pylori J99]
Length = 624
Score = 45.4 bits (106), Expect = 2e-07
Identities = 20/26 (76%), Positives = 22/26 (83%)
Query: 1 MTERMDALTTPLNWQKVRLGDIAEII 26
M ERMDAL TP NWQKVRLGDI E++
Sbjct: 1 MMERMDALITPSNWQKVRLGDILELL 26
Score = 30.0 bits (66), Expect = 0.008
Identities = 16/35 (45%), Positives = 20/35 (56%), Gaps = 1/35 (2%)
Query: 13 NWQKVRLGDIAEIIGGGTPSTQITSFWSGSINWFT 47
NWQKVRLGDI I G T+ F +G+ + T
Sbjct: 219 NWQKVRLGDIGITISGLAGKTK-QDFINGNAKYIT 252
Score = 30.0 bits (66), Expect = 0.008
Identities = 16/35 (45%), Positives = 20/35 (56%), Gaps = 1/35 (2%)
Query: 13 NWQKVRLGDIAEIIGGGTPSTQITSFWSGSINWFT 47
NWQKVRLGDI I G T+ F +G+ + T
Sbjct: 423 NWQKVRLGDIGITISGLAGKTK-QDFINGNAKYIT 456
>ref|NP_223495.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 587
Score = 25.0 bits (53), Expect = 0.27
Identities = 11/31 (35%), Positives = 18/31 (57%), Gaps = 6/31 (19%)
Query: 31 PSTQITSFWSGSINWFTPTEIGITKYVYKSQ 61
P TQI + W+G+ N+ P K+ YK++
Sbjct: 166 PDTQIVNGWTGTTNFVLP------KFFYKTR 190
>ref|NP_222959.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 471
Score = 22.7 bits (47), Expect = 1.4
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 40 SGSINWFTPTEIGITKYVYKSQRTITPL 67
+GS N P +GI K +Y SQ + L
Sbjct: 168 NGSNNGVVPEYVGIIKVLYGSQNEFSLL 195
>ref|NP_224082.1| putative TYPE II RESTRICTION ENZYME [Helicobacter pylori J99]
Length = 406
Score = 21.9 bits (45), Expect = 2.3
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 12 LNWQKVRLGDIAEI 25
L WQ +LGD+ EI
Sbjct: 212 LTWQHFKLGDLFEI 225
>ref|NP_223568.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 514
Score = 21.6 bits (44), Expect = 3.0
Identities = 11/36 (30%), Positives = 18/36 (49%)
Query: 46 FTPTEIGITKYVYKSQRTITPLGLKKSSTKLLPIGT 81
F ++I K +Y ++ I + L + LLP GT
Sbjct: 41 FNNSQINTKKGIYPTESFIDIVTLAQVKVNLLPKGT 76
>ref|NP_223174.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 406
Score = 21.6 bits (44), Expect = 3.0
Identities = 10/21 (47%), Positives = 15/21 (70%), Gaps = 1/21 (4%)
Query: 57 VYKSQRTITPLG-LKKSSTKL 76
VYK+ R I PLG ++ + +KL
Sbjct: 347 VYKNSRPINPLGYIRTAKSKL 367
>ref|NP_223630.1| septum formation protein [Helicobacter pylori J99]
Length = 493
Score = 21.2 bits (43), Expect = 3.9
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 2 TERMDALTTPLNWQ---KVRLGDIAEIIGGGTPSTQITSFWSGS 42
T+ L TP + K++ GD++ G TPS + +GS
Sbjct: 261 TDLSHMLNTPFPYAEEVKIKYGDLSFESGAETPSQSVQIPTTGS 304
>ref|NP_223214.1| GLUTAMATE RACEMASE [Helicobacter pylori J99]
Length = 255
Score = 21.2 bits (43), Expect = 3.9
Identities = 11/32 (34%), Positives = 16/32 (49%)
Query: 20 GDIAEIIGGGTPSTQITSFWSGSINWFTPTEI 51
GD A + G T I F ++++F P EI
Sbjct: 32 GDSARVPYGTKDPTTIKQFGLEALDFFKPHEI 63
>ref|NP_224174.1| putative [Helicobacter pylori J99]
Length = 312
Score = 20.4 bits (41), Expect = 6.7
Identities = 8/31 (25%), Positives = 14/31 (44%)
Query: 4 RMDALTTPLNWQKVRLGDIAEIIGGGTPSTQ 34
+MD L R+ D+ E++G P +
Sbjct: 82 QMDEFLDDLQLSGERINDLEEVVGVNRPEEE 112
>ref|NP_223352.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 336
Score = 20.4 bits (41), Expect = 6.7
Identities = 11/28 (39%), Positives = 14/28 (49%)
Query: 30 TPSTQITSFWSGSINWFTPTEIGITKYV 57
TPST +T SIN T + I Y+
Sbjct: 23 TPSTPLTPSKRYSINLMTENDGYINPYI 50
>ref|NP_223223.1| BETA-KETOACYL-ACP SYNTHASE I [Helicobacter pylori J99]
Length = 412
Score = 20.4 bits (41), Expect = 6.7
Identities = 15/43 (34%), Positives = 21/43 (47%), Gaps = 1/43 (2%)
Query: 40 SGSINWFTPTEIGITKYVYKSQRTITPLGLKKSSTKLLPIGTI 82
+G I F PTE+ K V K+ R I L LK + + G +
Sbjct: 49 AGEITDFDPTEVMNPKDVKKAGRFI-QLALKATREAMKDSGIL 90
>ref|NP_223865.1| OXYGEN-INDEPENDENT COPROPORPHYRINOGEN III OXIDASE [Helicobacter
pylori J99]
Length = 345
Score = 20.0 bits (40), Expect = 8.8
Identities = 7/8 (87%), Positives = 8/8 (99%)
Query: 26 IGGGTPST 33
IGGGTP+T
Sbjct: 56 IGGGTPNT 63
>ref|NP_223453.1| MOLYBDOPTERIN BIOSYNTHESIS PROTEIN [Helicobacter pylori J99]
Length = 176
Score = 20.0 bits (40), Expect = 8.8
Identities = 9/17 (52%), Positives = 10/17 (57%)
Query: 62 RTITPLGLKKSSTKLLP 78
R ITP KK K+LP
Sbjct: 81 RDITPEATKKVCQKMLP 97
>ref|NP_223272.1| putative efflux transporter [Helicobacter pylori J99]
Length = 1028
Score = 20.0 bits (40), Expect = 8.8
Identities = 11/22 (50%), Positives = 12/22 (54%)
Query: 17 VRLGDIAEIIGGGTPSTQITSF 38
VRLGDIA+I G SF
Sbjct: 246 VRLGDIAKIEIGLEEDNTFASF 267
>ref|NP_223111.1| RNA POLYMERASE SIGMA FACTOR (sigma 28) [Helicobacter pylori J99]
Length = 255
Score = 20.0 bits (40), Expect = 8.8
Identities = 9/27 (33%), Positives = 16/27 (58%)
Query: 1 MTERMDALTTPLNWQKVRLGDIAEIIG 27
M+ER L ++++ L +I EI+G
Sbjct: 203 MSEREQILIQLYYFEELNLSEIKEILG 229
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 0.135 0.404
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 83,198
Number of Sequences: 1491
Number of extensions: 2829
Number of successful extensions: 19
Number of sequences better than 10.0: 16
Number of HSP's better than 10.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 18
length of query: 96
length of database: 494,079
effective HSP length: 72
effective length of query: 24
effective length of database: 386,727
effective search space: 9281448
effective search space used: 9281448
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.2 bits)
S2: 40 (20.0 bits)