RPS-BLAST 2.2.22 [Sep-27-2009]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= gi|254780776|ref|YP_003065189.1| ribosome recycling factor
[Candidatus Liberibacter asiaticus str. psy62]
(186 letters)
>d1wqga1 d.67.3.1 (A:2-184) Ribosome recycling factor, RRF
{Mycobacterium tuberculosis [TaxId: 1773]}
Length = 183
Score = 166 bits (422), Expect = 1e-42
Identities = 65/178 (36%), Positives = 110/178 (61%)
Query: 7 LQNIKDRMGDTISFLKKDMMTLRTGRVSPSMLDLVKVEAYGSHVPLNQVANVTVLEPRML 66
L + +++M ++ + D+ T+RTGR +P M + ++ YG+ P+ Q+A++ V E R++
Sbjct: 5 LFDAEEKMEKAVAVARDDLSTIRTGRANPGMFSRITIDYYGAATPITQLASINVPEARLV 64
Query: 67 VVSVWDKEMVASVERGIHESNLGLNPIVEGQVLRIPVPETTEERRLALVKVAHAYAEKSK 126
V+ ++ + ++E I S+LG+NP +G ++R+ VP+ TEERR LVK A E++K
Sbjct: 65 VIKPYEANQLRAIETAIRNSDLGVNPTNDGALIRVAVPQLTEERRRELVKQAKHKGEEAK 124
Query: 127 ISVRNIRRDGMDHLKKSRKSGKASEDMVASLENDIQKITDSTIKNIDSFFEEKKKEIM 184
+SVRNIRR M+ L + RK G+A ED V E D+ K T + ID + K+ E++
Sbjct: 125 VSVRNIRRKAMEELHRIRKEGEAGEDEVGRAEKDLDKTTHQYVTQIDELVKHKEGELL 182
>d1eh1a_ d.67.3.1 (A:) Ribosome recycling factor, RRF {Thermus
thermophilus [TaxId: 274]}
Length = 185
Score = 162 bits (411), Expect = 2e-41
Identities = 78/178 (43%), Positives = 113/178 (63%)
Query: 7 LQNIKDRMGDTISFLKKDMMTLRTGRVSPSMLDLVKVEAYGSHVPLNQVANVTVLEPRML 66
+ M ++ L+ ++ LRTGR +P++L +KVE YG+HVPLNQ+A VT +PR L
Sbjct: 7 YAETRSHMQKSLEVLEHNLAGLRTGRANPALLLHLKVEYYGAHVPLNQIATVTAPDPRTL 66
Query: 67 VVSVWDKEMVASVERGIHESNLGLNPIVEGQVLRIPVPETTEERRLALVKVAHAYAEKSK 126
VV WD+ + ++E+ I +S+LGLNP +G L I +P TEERR LV+ YAE+ +
Sbjct: 67 VVQSWDQNALKAIEKAIRDSDLGLNPSNKGDALYINIPPLTEERRKDLVRAVRQYAEEGR 126
Query: 127 ISVRNIRRDGMDHLKKSRKSGKASEDMVASLENDIQKITDSTIKNIDSFFEEKKKEIM 184
+++RNIRR+ +D LKK K SED E +IQKITD I D E+K++EI+
Sbjct: 127 VAIRNIRREALDKLKKLAKELHLSEDETKRAEAEIQKITDEFIAKADQLAEKKEQEIL 184
>d1is1a_ d.67.3.1 (A:) Ribosome recycling factor, RRF {Vibrio
parahaemolyticus [TaxId: 670]}
Length = 185
Score = 160 bits (406), Expect = 6e-41
Identities = 77/178 (43%), Positives = 113/178 (63%)
Query: 7 LQNIKDRMGDTISFLKKDMMTLRTGRVSPSMLDLVKVEAYGSHVPLNQVANVTVLEPRML 66
++ ++RM ++ LK ++ +RTGR PS+L + VE YG+ PLNQVANV + R L
Sbjct: 6 KKDAQERMDKSVEALKNNLSKVRTGRAHPSLLSGISVEYYGAATPLNQVANVVAEDARTL 65
Query: 67 VVSVWDKEMVASVERGIHESNLGLNPIVEGQVLRIPVPETTEERRLALVKVAHAYAEKSK 126
++V+DKE+ VE+ I S+LGLNP+ G ++R+P+P TEERR LVK+ AE +
Sbjct: 66 AITVFDKELTQKVEKAIMMSDLGLNPMSAGTIIRVPLPPLTEERRKDLVKIVRGEAEGGR 125
Query: 127 ISVRNIRRDGMDHLKKSRKSGKASEDMVASLENDIQKITDSTIKNIDSFFEEKKKEIM 184
++VRNIRRD + LK K + SED + +IQK+TD +K ID K+KE+M
Sbjct: 126 VAVRNIRRDANNDLKALLKDKEISEDEDRKAQEEIQKLTDVAVKKIDEVLAAKEKELM 183
>d1dd5a_ d.67.3.1 (A:) Ribosome recycling factor, RRF {Thermotoga
maritima [TaxId: 2336]}
Length = 184
Score = 160 bits (406), Expect = 7e-41
Identities = 74/180 (41%), Positives = 120/180 (66%)
Query: 7 LQNIKDRMGDTISFLKKDMMTLRTGRVSPSMLDLVKVEAYGSHVPLNQVANVTVLEPRML 66
++ K++M T+ ++ ++ +RTG+ SP++L+ +KV+ YG P+NQ+A +++ E R L
Sbjct: 5 IKEAKEKMKRTLEKIEDELRKMRTGKPSPAILEEIKVDYYGVPTPVNQLATISISEERTL 64
Query: 67 VVSVWDKEMVASVERGIHESNLGLNPIVEGQVLRIPVPETTEERRLALVKVAHAYAEKSK 126
V+ WDK +++ +E+ I+ S+LGLNPI +G V+R+ P T E+R VK A E+ K
Sbjct: 65 VIKPWDKSVLSLIEKAINASDLGLNPINDGNVIRLVFPSPTTEQREKWVKKAKEIVEEGK 124
Query: 127 ISVRNIRRDGMDHLKKSRKSGKASEDMVASLENDIQKITDSTIKNIDSFFEEKKKEIMHF 186
I++RNIRR+ + +K+ +K G ED LEN+IQK+TD I+ +D FE KK+EIM F
Sbjct: 125 IAIRNIRREILKKIKEDQKEGLIPEDDAKRLENEIQKLTDEFIEKLDEVFEIKKEEIMEF 184
>d1ek8a_ d.67.3.1 (A:) Ribosome recycling factor, RRF {Escherichia
coli [TaxId: 562]}
Length = 185
Score = 155 bits (394), Expect = 2e-39
Identities = 74/180 (41%), Positives = 115/180 (63%)
Query: 7 LQNIKDRMGDTISFLKKDMMTLRTGRVSPSMLDLVKVEAYGSHVPLNQVANVTVLEPRML 66
++ + RM + K + +RTGR SPS+LD + VE YG+ PL Q+A+VTV + R L
Sbjct: 6 RKDAEVRMDKCVEAFKTQISKIRTGRASPSLLDGIVVEYYGTPTPLRQLASVTVEDSRTL 65
Query: 67 VVSVWDKEMVASVERGIHESNLGLNPIVEGQVLRIPVPETTEERRLALVKVAHAYAEKSK 126
++V+D+ M +VE+ I S+LGLNP G +R+P+P TEERR L K+ AE+++
Sbjct: 66 KINVFDRSMSPAVEKAIMASDLGLNPNSAGSDIRVPLPPLTEERRKDLTKIVRGEAEQAR 125
Query: 127 ISVRNIRRDGMDHLKKSRKSGKASEDMVASLENDIQKITDSTIKNIDSFFEEKKKEIMHF 186
++VRN+RRD D +K K + SED ++D+QK+TD+ IK I++ +K+ E+M F
Sbjct: 126 VAVRNVRRDANDKVKALLKDKEISEDDDRRSQDDVQKLTDAAIKKIEAALADKEAELMQF 185
>d1ge9a_ d.67.3.1 (A:) Ribosome recycling factor, RRF {Aquifex
aeolicus [TaxId: 63363]}
Length = 184
Score = 147 bits (373), Expect = 4e-37
Identities = 65/186 (34%), Positives = 109/186 (58%), Gaps = 6/186 (3%)
Query: 1 MNQVID--LQNIKDRMGDTISFLKKDMMTLRTGRVSPSMLDLVKVEAYGSHVPLNQVANV 58
M + ++ + + M + + K ++ LRT R S ++++ +KVE YGS VP+ Q+ +
Sbjct: 1 MIKELEDIFKEAEKDMKKAVEYYKNEIAGLRTSRASTALVEEIKVEYYGSKVPIKQLGTI 60
Query: 59 TVLEPRMLVVSVWDKEMVASVERGIHESNLGLNPIVEGQVLRIPVPETTEERRLALVKVA 118
+V E +V+ VWD+ V ++E+ I E L LNP V+G V+R+ +P TEERR LV++
Sbjct: 61 SVPEHNQIVIQVWDQNAVPAIEKAIRE-ELNLNPTVQGNVIRVTLPPLTEERRRELVRLL 119
Query: 119 HAYAEKSKISVRNIRRDGMDHLKKSRKSGKASEDMVASLENDIQKITDSTIKNIDSFFEE 178
H E++++ VRN+RR+ + +++ SED +QK+TD I I+ E
Sbjct: 120 HKITEEARVRVRNVRREAKEMIEELE---GISEDEKKRALERLQKLTDKYIDEINKLMEA 176
Query: 179 KKKEIM 184
K+KEIM
Sbjct: 177 KEKEIM 182
>d1wiha_ d.67.3.1 (A:) Ribosome recycling factor, RRF {Mouse (Mus
musculus), mitochondrial [TaxId: 10090]}
Length = 84
Score = 99 bits (249), Expect = 1e-22
Identities = 26/82 (31%), Positives = 45/82 (54%), Gaps = 1/82 (1%)
Query: 31 GRVSPSMLDLVKVEAYGSHVPLNQVANVTVLEPRMLVVSVWD-KEMVASVERGIHESNLG 89
G S LD + V V LNQ+ +++ P++++V++ E A+ + I ES +
Sbjct: 1 GSSGSSGLDHITVVTADGKVALNQIGQISMKSPQVILVNMASFPECTAAAIKAIRESGMN 60
Query: 90 LNPIVEGQVLRIPVPETTEERR 111
LNP VEG ++R+P+P+ T
Sbjct: 61 LNPEVEGTLIRVPIPKVTSGPS 82
>d2arza1 b.45.1.1 (A:2-239) Hypothetical protein PA4388 {Pseudomonas
aeruginosa [TaxId: 287]}
Length = 238
Score = 27.0 bits (59), Expect = 0.96
Identities = 9/37 (24%), Positives = 15/37 (40%), Gaps = 3/37 (8%)
Query: 88 LGLNPIVEGQVLRIPVPE---TTEERRLALVKVAHAY 121
G + + + +P P R ALV++A A
Sbjct: 197 EGFHLRIGQGLHWLPFPAACGNPGAVRQALVQLARAE 233
>d1iyjb5 b.40.4.3 (B:2980-3117) OB-fold domains of BRCA2 {Rat
(Rattus norvegicus) [TaxId: 10116]}
Length = 138
Score = 25.9 bits (57), Expect = 1.9
Identities = 7/18 (38%), Positives = 15/18 (83%)
Query: 168 TIKNIDSFFEEKKKEIMH 185
I+NID+F++E +K+++
Sbjct: 113 AIENIDTFYKEAEKKLIQ 130
>d2fgca1 d.58.18.6 (A:105-187) Acetolactate synthase small subunit,
IlvH {Thermotoga maritima [TaxId: 2336]}
Length = 83
Score = 25.0 bits (55), Expect = 4.0
Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 3/31 (9%)
Query: 102 PVPETTEERRLALVKVAHAYAEKSKISVRNI 132
P+PE ER +AL+KV ++ K + +
Sbjct: 1 PLPENRVEREMALIKVR---FDEDKQEIFQL 28
>d1xsza2 d.129.9.1 (A:198-354) RalF, C-terminal domain {Legionella
pneumophila [TaxId: 446]}
Length = 157
Score = 24.6 bits (53), Expect = 5.0
Identities = 8/25 (32%), Positives = 9/25 (36%)
Query: 159 NDIQKITDSTIKNIDSFFEEKKKEI 183
DST K +DSF I
Sbjct: 9 TSTTLNKDSTFKKLDSFLHSTDVNI 33
>d1zy9a2 c.1.8.13 (A:178-525) Alpha-galactosidase GalA catalytic
domain {Thermotoga maritima [TaxId: 2336]}
Length = 348
Score = 24.4 bits (52), Expect = 6.3
Identities = 7/57 (12%), Positives = 19/57 (33%), Gaps = 1/57 (1%)
Query: 109 ERRLALVKVAHAYAEKSKISVRNIRRDGMDHLKKSRKSGKASEDMVASLENDIQKIT 165
+ ++K V+NI + + + S + + +V L + +
Sbjct: 291 DHGKKVLKETLELLGGRP-RVQNIMSEDLRYEIVSSGTLSGNVKIVVDLNSREYHLE 346
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.316 0.131 0.355
Gapped
Lambda K H
0.267 0.0697 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 649,796
Number of extensions: 28586
Number of successful extensions: 91
Number of sequences better than 10.0: 1
Number of HSP's gapped: 88
Number of HSP's successfully gapped: 17
Length of query: 186
Length of database: 2,407,596
Length adjustment: 80
Effective length of query: 106
Effective length of database: 1,309,196
Effective search space: 138774776
Effective search space used: 138774776
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.1 bits)