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|15644714|ref|NP_206884.1| ribosomal protein L13
(rpl13) [Helicobacter pylori 26695]
(141 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_222799.1| 50S RIBOSOMAL PROTEIN L13 [Helicobacter py... 285 3e-79
ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (... 24 1.4
ref|NP_223629.1| putative [Helicobacter pylori J99] 24 1.8
ref|NP_223236.1| putative [Helicobacter pylori J99] 23 2.4
ref|NP_223990.1| putative [Helicobacter pylori J99] 23 4.1
ref|NP_223446.1| putative [Helicobacter pylori J99] 23 4.1
ref|NP_223736.1| PSEUDOURIDYLATE SYNTHASE I [Helicobacter p... 22 7.0
ref|NP_222789.1| UREASE BETA SUBUNIT [Helicobacter pylori J99] 22 7.0
ref|NP_223380.1| putative Outer membrane protein [Helicobac... 22 9.1
ref|NP_223377.1| putative Outer membrane protein [Helicobac... 22 9.1
ref|NP_223194.1| cag island protein [Helicobacter pylori J99] 22 9.1
>ref|NP_222799.1| 50S RIBOSOMAL PROTEIN L13 [Helicobacter pylori J99]
Length = 141
Score = 285 bits (730), Expect = 3e-79
Identities = 140/141 (99%), Positives = 140/141 (99%)
Query: 1 MTKTAKVNDIVRDWVVLDAKDKVFGRLITEIAVLLRGKHRPFYTPNVDCGDFVVVINANK 60
MTKTAKVNDIVRDWVVLDAKDKVFGRLITEIAVLLRGKHRPFYTPNVDCGDFVVVINANK
Sbjct: 1 MTKTAKVNDIVRDWVVLDAKDKVFGRLITEIAVLLRGKHRPFYTPNVDCGDFVVVINANK 60
Query: 61 VKFSGMKLEDKEYFTHSGYFGSTKSKTLQEMLEKAPEKLYHLAVRGMLPKTKLGKAMIKK 120
VKFSGMKLEDKEYFTHSGYFGSTKSKTLQEMLEK PEKLYHLAVRGMLPKTKLGKAMIKK
Sbjct: 61 VKFSGMKLEDKEYFTHSGYFGSTKSKTLQEMLEKTPEKLYHLAVRGMLPKTKLGKAMIKK 120
Query: 121 LKVYRDDKHPHTAQTSKKDAK 141
LKVYRDDKHPHTAQTSKKDAK
Sbjct: 121 LKVYRDDKHPHTAQTSKKDAK 141
>ref|NP_224127.1| putative TYPE II DNA MODIFICATION ENZYME (METHYLTRANSFERASE)
[Helicobacter pylori J99]
Length = 1252
Score = 24.3 bits (51), Expect = 1.4
Identities = 12/28 (42%), Positives = 15/28 (52%)
Query: 75 THSGYFGSTKSKTLQEMLEKAPEKLYHL 102
TH+GY + KSK +EK P HL
Sbjct: 1053 THNGYTSNLKSKIPPIDIEKYPATKAHL 1080
>ref|NP_223629.1| putative [Helicobacter pylori J99]
Length = 487
Score = 23.9 bits (50), Expect = 1.8
Identities = 22/83 (26%), Positives = 37/83 (44%), Gaps = 16/83 (19%)
Query: 53 VVVINANKVKFSGMKLEDKEYF--------------THSGYFGSTKSKTLQEMLEK--AP 96
++++N N VK S + E K+Y+ T S YF ++ KT + LE+
Sbjct: 193 ILILNPNDVKISLNEEEMKKYYENHRKDFKKPTSFKTRSLYFDASLEKTDLKELEEYYHK 252
Query: 97 EKLYHLAVRGMLPKTKLGKAMIK 119
K+ +L G L K + +K
Sbjct: 253 NKVSYLDKEGKLQDFKSVQEQVK 275
>ref|NP_223236.1| putative [Helicobacter pylori J99]
Length = 192
Score = 23.5 bits (49), Expect = 2.4
Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 12/70 (17%)
Query: 30 EIAVLLRGKHRPFYTPNVDCGDFVVVINANKVKFSGMKLEDKEYFTHSGYFGSTKSKTLQ 89
EI ++L G R YT ++ G ++V G + D+ YF Y G T +Q
Sbjct: 30 EIGLILAGIAR--YTGHMHLGLAILVAGI------GGFVGDQIYF----YIGRTNKAYIQ 77
Query: 90 EMLEKAPEKL 99
+ LEK KL
Sbjct: 78 KKLEKQRRKL 87
>ref|NP_223990.1| putative [Helicobacter pylori J99]
Length = 1164
Score = 22.7 bits (47), Expect = 4.1
Identities = 10/19 (52%), Positives = 11/19 (57%)
Query: 62 KFSGMKLEDKEYFTHSGYF 80
K S KLE + Y HS YF
Sbjct: 970 KPSHKKLEQRLYINHSAYF 988
>ref|NP_223446.1| putative [Helicobacter pylori J99]
Length = 506
Score = 22.7 bits (47), Expect = 4.1
Identities = 13/42 (30%), Positives = 21/42 (49%), Gaps = 5/42 (11%)
Query: 57 NANKVKFSGMKLEDKEYFTHSGYFGSTKSKTLQEMLEKAPEK 98
+ K+ F ++L DKEY YF T + +E+ +A K
Sbjct: 175 HTKKLPFKTIELNDKEY-----YFSDTYALDFKEVKGQAVAK 211
>ref|NP_223736.1| PSEUDOURIDYLATE SYNTHASE I [Helicobacter pylori J99]
Length = 242
Score = 21.9 bits (45), Expect = 7.0
Identities = 10/35 (28%), Positives = 17/35 (48%), Gaps = 6/35 (17%)
Query: 18 DAKDKVFGRLITEIAVLLRGKHRPFYTPNVDCGDF 52
DA+ + + L+T + PF P + CGD+
Sbjct: 101 DAQKRAYRYLLT------KNLKTPFLAPYIACGDY 129
>ref|NP_222789.1| UREASE BETA SUBUNIT [Helicobacter pylori J99]
Length = 569
Score = 21.9 bits (45), Expect = 7.0
Identities = 10/21 (47%), Positives = 10/21 (47%)
Query: 10 IVRDWVVLDAKDKVFGRLITE 30
I R W D K FGRL E
Sbjct: 373 ITRTWQTADKNKKEFGRLKEE 393
>ref|NP_223380.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 651
Score = 21.6 bits (44), Expect = 9.1
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 47 VDCGDFVVVINANKVKFSGMKLEDKEYFT 75
V+ G + IN N F G KLE + ++
Sbjct: 614 VELGIKIPTINTNYYSFLGTKLEYRRLYS 642
>ref|NP_223377.1| putative Outer membrane protein [Helicobacter pylori J99]
Length = 638
Score = 21.6 bits (44), Expect = 9.1
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 47 VDCGDFVVVINANKVKFSGMKLEDKEYFT 75
V+ G + IN N F G KLE + ++
Sbjct: 601 VELGIKIPTINTNYYSFLGTKLEYRRLYS 629
>ref|NP_223194.1| cag island protein [Helicobacter pylori J99]
Length = 1819
Score = 21.6 bits (44), Expect = 9.1
Identities = 10/24 (41%), Positives = 12/24 (49%)
Query: 113 LGKAMIKKLKVYRDDKHPHTAQTS 136
L + KK + DDK P T Q S
Sbjct: 85 LADKLFKKARKLVDDKRPFTQQKS 108
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
0.319 0.135 0.390
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 146,807
Number of Sequences: 1491
Number of extensions: 6148
Number of successful extensions: 20
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 10
Number of HSP's gapped (non-prelim): 12
length of query: 141
length of database: 494,079
effective HSP length: 69
effective length of query: 72
effective length of database: 391,200
effective search space: 28166400
effective search space used: 28166400
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 44 (21.6 bits)