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|15645909|ref|NP_208088.1| ribosomal protein S13
(rps13) [Helicobacter pylori 26695]
(120 letters)
Database: NC_000921.faa
1491 sequences; 494,079 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
ref|NP_223934.1| 30S RIBOSOMAL PROTEIN S13 [Helicobacter py... 225 3e-61
ref|NP_223371.1| putative abc transporter, ATP-binding prot... 26 0.36
ref|NP_223088.1| putative [Helicobacter pylori J99] 25 0.47
ref|NP_223731.1| putative [Helicobacter pylori J99] 25 0.61
ref|NP_224035.1| ISOLEUCYL-TRNA SYNTHETASE [Helicobacter py... 25 0.80
ref|NP_223200.1| cag island protein [Helicobacter pylori J99] 24 1.0
ref|NP_224007.1| UDP-N-ACETYLGLUCOSAMINE ACYLTRANSFERASE [H... 23 3.0
ref|NP_223901.1| NADH oxidoreductase I [Helicobacter pylori... 23 3.0
ref|NP_224170.1| LEUCYL-TRNA SYNTHETASE [Helicobacter pylor... 22 4.0
ref|NP_223306.1| GLUTAMYL-TRNA SYNTHETASE [Helicobacter pyl... 22 4.0
ref|NP_222973.1| putative [Helicobacter pylori J99] 22 5.2
ref|NP_224194.1| putative [Helicobacter pylori J99] 22 6.8
ref|NP_224081.1| DNA POLYMERASE I [Helicobacter pylori J99] 21 8.8
ref|NP_223769.1| FKBP-TYPE PEPTIDYL-PROLYL CIS-TRANS ISOMER... 21 8.8
ref|NP_223355.1| 3-OXOACID COA-TRANSFERASE, SUBUNIT A [Heli... 21 8.8
ref|NP_223173.1| putative [Helicobacter pylori J99] 21 8.8
>ref|NP_223934.1| 30S RIBOSOMAL PROTEIN S13 [Helicobacter pylori J99]
Length = 120
Score = 225 bits (573), Expect = 3e-61
Identities = 117/120 (97%), Positives = 117/120 (97%)
Query: 1 MARIAGVDLPKKKRVEYALTYIYGIGLKSSREILEAVGISFDKRVHELSEDEVSSIAKKI 60
MARIAGVDLPKKKRVEYALT GIGLKSSREILEAVGISFDKRVHELSEDEVSSIAKKI
Sbjct: 1 MARIAGVDLPKKKRVEYALTCKNGIGLKSSREILEAVGISFDKRVHELSEDEVSSIAKKI 60
Query: 61 QQSYLVEGDLRKKVQMDIKSLMDLGNYRGIRHRKGLPVRGQTTKNNARTRKGKKKTVGSK 120
QQSYLVEGDLRKKVQMDIKSLMDLGNYRGIRHRKGLPVRGQTTKNNARTRKGKKKTVGSK
Sbjct: 61 QQSYLVEGDLRKKVQMDIKSLMDLGNYRGIRHRKGLPVRGQTTKNNARTRKGKKKTVGSK 120
>ref|NP_223371.1| putative abc transporter, ATP-binding protein [Helicobacter pylori
J99]
Length = 240
Score = 25.8 bits (55), Expect = 0.36
Identities = 11/29 (37%), Positives = 19/29 (64%)
Query: 72 KKVQMDIKSLMDLGNYRGIRHRKGLPVRG 100
K+ + ++SL+D N + IR RKG+ + G
Sbjct: 111 KESEEKMESLLDAFNIQAIRERKGMSLSG 139
>ref|NP_223088.1| putative [Helicobacter pylori J99]
Length = 289
Score = 25.4 bits (54), Expect = 0.47
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 42 DKRVHELSEDEVSSIAKKIQQSYLVEGDLRKKVQM 76
+KR L E + +AKKI + L+E +KK Q+
Sbjct: 54 EKRAQTLELKEENEVAKKIDEKSLLEEIHKKKRQL 88
>ref|NP_223731.1| putative [Helicobacter pylori J99]
Length = 201
Score = 25.0 bits (53), Expect = 0.61
Identities = 13/35 (37%), Positives = 21/35 (59%), Gaps = 1/35 (2%)
Query: 42 DKRVHELSE-DEVSSIAKKIQQSYLVEGDLRKKVQ 75
+K + LSE DE +AK+ +Q L GDL +++
Sbjct: 31 NKEIQNLSENDEKIKLAKQAKQDNLAIGDLESRLK 65
>ref|NP_224035.1| ISOLEUCYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 920
Score = 24.6 bits (52), Expect = 0.80
Identities = 15/49 (30%), Positives = 25/49 (50%)
Query: 5 AGVDLPKKKRVEYALTYIYGIGLKSSREILEAVGISFDKRVHELSEDEV 53
A V + KK YALT + K+ E L A+G+ + HE + +++
Sbjct: 244 ANVAIALKKDAVYALTQKGYLVAKALHEKLAALGVVDNAITHEFNSNDL 292
>ref|NP_223200.1| cag island protein [Helicobacter pylori J99]
Length = 199
Score = 24.3 bits (51), Expect = 1.0
Identities = 9/37 (24%), Positives = 21/37 (56%)
Query: 27 LKSSREILEAVGISFDKRVHELSEDEVSSIAKKIQQS 63
+K R +++++G+ K+V+ L E E + I ++
Sbjct: 69 MKDYRAVIKSIGVDKFKKVYRLLESETMELLHAIAEN 105
Score = 24.3 bits (51), Expect = 1.0
Identities = 10/35 (28%), Positives = 22/35 (62%)
Query: 49 SEDEVSSIAKKIQQSYLVEGDLRKKVQMDIKSLMD 83
S+D+ + + +Q++ L+ D +KK+ IK++ D
Sbjct: 15 SKDKKEKLIESLQENELLNTDEKKKIIDQIKTMHD 49
>ref|NP_224007.1| UDP-N-ACETYLGLUCOSAMINE ACYLTRANSFERASE [Helicobacter pylori J99]
Length = 270
Score = 22.7 bits (47), Expect = 3.0
Identities = 12/36 (33%), Positives = 18/36 (49%)
Query: 6 GVDLPKKKRVEYALTYIYGIGLKSSREILEAVGISF 41
G D+P VE +I G+ R++LE+ I F
Sbjct: 174 GKDVPPYCTVEGNRAFIRGLNRHRMRQLLESKDIDF 209
>ref|NP_223901.1| NADH oxidoreductase I [Helicobacter pylori J99]
Length = 265
Score = 22.7 bits (47), Expect = 3.0
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 18 ALTYIYGIGLKSSREILEAVGISFDK 43
+L+++Y S RE + +GI FDK
Sbjct: 132 SLSFLYRSANWSEREAYDMLGIVFDK 157
>ref|NP_224170.1| LEUCYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 806
Score = 22.3 bits (46), Expect = 4.0
Identities = 9/31 (29%), Positives = 19/31 (61%)
Query: 49 SEDEVSSIAKKIQQSYLVEGDLRKKVQMDIK 79
S++E+ +AKK + YL ++K++ + K
Sbjct: 769 SKEEIIILAKKELEKYLENASVKKEIYVPNK 799
>ref|NP_223306.1| GLUTAMYL-TRNA SYNTHETASE [Helicobacter pylori J99]
Length = 439
Score = 22.3 bits (46), Expect = 4.0
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 32 EILEAVGISFDKRVHE 47
EIL+ +GIS+DK V++
Sbjct: 56 EILKLMGISWDKLVYQ 71
>ref|NP_222973.1| putative [Helicobacter pylori J99]
Length = 409
Score = 21.9 bits (45), Expect = 5.2
Identities = 7/19 (36%), Positives = 14/19 (72%)
Query: 32 EILEAVGISFDKRVHELSE 50
E+LE G+ FD+++ E+ +
Sbjct: 18 EVLEDYGVVFDEKIVEIGD 36
>ref|NP_224194.1| putative [Helicobacter pylori J99]
Length = 185
Score = 21.6 bits (44), Expect = 6.8
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 26 GLKSSREILEAVGISF 41
GLK RE+LE G F
Sbjct: 26 GLKKERELLEITGNQF 41
>ref|NP_224081.1| DNA POLYMERASE I [Helicobacter pylori J99]
Length = 897
Score = 21.2 bits (43), Expect = 8.8
Identities = 7/17 (41%), Positives = 14/17 (82%)
Query: 22 IYGIGLKSSREILEAVG 38
+ GIG K+++E+L+ +G
Sbjct: 194 VKGIGSKNAKELLQRLG 210
>ref|NP_223769.1| FKBP-TYPE PEPTIDYL-PROLYL CIS-TRANS ISOMERASE [Helicobacter pylori
J99]
Length = 185
Score = 21.2 bits (43), Expect = 8.8
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 87 YRGIRHRKGLPVRGQTTKN 105
+ GI KG+ V GQT N
Sbjct: 89 FEGIELEKGMSVFGQTEDN 107
>ref|NP_223355.1| 3-OXOACID COA-TRANSFERASE, SUBUNIT A [Helicobacter pylori J99]
Length = 232
Score = 21.2 bits (43), Expect = 8.8
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 16 EYALTYIYGIGLK 28
EYA+ YIY G+K
Sbjct: 33 EYAIDYIYKKGIK 45
>ref|NP_223173.1| putative [Helicobacter pylori J99]
Length = 251
Score = 21.2 bits (43), Expect = 8.8
Identities = 9/24 (37%), Positives = 14/24 (57%)
Query: 39 ISFDKRVHELSEDEVSSIAKKIQQ 62
IS+ +H ++E+S I K QQ
Sbjct: 153 ISYPLLIHSFDDNELSEIVIKEQQ 176
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
0.315 0.134 0.359
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 113,415
Number of Sequences: 1491
Number of extensions: 4292
Number of successful extensions: 18
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: 1
Number of HSP's gapped (non-prelim): 17
length of query: 120
length of database: 494,079
effective HSP length: 67
effective length of query: 53
effective length of database: 394,182
effective search space: 20891646
effective search space used: 20891646
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 43 (21.2 bits)