RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780776|ref|YP_003065189.1| ribosome recycling factor
[Candidatus Liberibacter asiaticus str. psy62]
(186 letters)
>1y69_8 Ribosome recycling factor; RRF; 3.33A {Deinococcus
radiodurans} (8:)
Length = 113
Score = 126 bits (319), Expect = 1e-30
Identities = 37/120 (30%), Positives = 65/120 (54%), Gaps = 7/120 (5%)
Query: 67 VVSVWDKEMVASVERGIHESNLGLNPIVEGQVLRIPVPETTEERRLALVKVAHAYAEKSK 126
++S K+ +++ + ++ I G TEERR L K+ AE+++
Sbjct: 1 MISDIRKDAEVRMDKCVEAFKTQISKIRTG-------GGGTEERRKDLTKIVRGEAEQAR 53
Query: 127 ISVRNIRRDGMDHLKKSRKSGKASEDMVASLENDIQKITDSTIKNIDSFFEEKKKEIMHF 186
++VRN+RRD D +K K + SED ++D+QK+TD+ IK I++ +K+ E+M F
Sbjct: 54 VAVRNVRRDANDKVKALLKDKEISEDDDRRSQDDVQKLTDAAIKKIEAALADKEAELMQF 113
>1wih_A Mitochondrial ribosome recycling factor; structural
genomics, riken structural genomics/proteomics
initiative, RSGI, unknown function; NMR {Mus musculus}
(A:)
Length = 84
Score = 119 bits (300), Expect = 3e-28
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
>1wqg_A Ribosome recycling factor; translation factor, triple-helix
bundle, protein synthesis; 2.15A {Mycobacterium
tuberculosis} (A:33-104)
Length = 72
Score = 109 bits (275), Expect = 2e-25
Identities = 22/72 (30%), Positives = 46/72 (63%)
Query: 34 SPSMLDLVKVEAYGSHVPLNQVANVTVLEPRMLVVSVWDKEMVASVERGIHESNLGLNPI 93
+P M + ++ YG+ P+ Q+A++ V E R++V+ ++ + ++E I S+LG+NP
Sbjct: 1 NPGMFSRITIDYYGAATPITQLASINVPEARLVVIKPYEANQLRAIETAIRNSDLGVNPT 60
Query: 94 VEGQVLRIPVPE 105
+G ++R+ VP+
Sbjct: 61 NDGALIRVAVPQ 72
>1dd5_A Ribosome recycling factor; three-helix bundle,
beta-alpha-beta sandwich; 2.55A {Thermotoga maritima}
(A:34-104)
Length = 71
Score = 109 bits (275), Expect = 2e-25
Identities = 30/71 (42%), Positives = 51/71 (71%)
Query: 35 PSMLDLVKVEAYGSHVPLNQVANVTVLEPRMLVVSVWDKEMVASVERGIHESNLGLNPIV 94
P++L+ +KV+ YG P+NQ+A +++ E R LV+ WDK +++ +E+ I+ S+LGLNPI
Sbjct: 1 PAILEEIKVDYYGVPTPVNQLATISISEERTLVIKPWDKSVLSLIEKAINASDLGLNPIN 60
Query: 95 EGQVLRIPVPE 105
+G V+R+ P
Sbjct: 61 DGNVIRLVFPS 71
>1ise_A Ribosome recycling factor; translation; 2.20A {Escherichia
coli} (A:33-104)
Length = 72
Score = 108 bits (272), Expect = 5e-25
Identities = 34/72 (47%), Positives = 50/72 (69%)
Query: 34 SPSMLDLVKVEAYGSHVPLNQVANVTVLEPRMLVVSVWDKEMVASVERGIHESNLGLNPI 93
SPS+LD + VE YG+ PL Q+A+VTV + R L ++V+D+ M +VE+ I S+LGLNP
Sbjct: 1 SPSLLDGIVVEYYGTPTPLRQLASVTVEDSRTLKINVFDRSMSPAVEKAIMASDLGLNPN 60
Query: 94 VEGQVLRIPVPE 105
G +R+P+P
Sbjct: 61 SAGSDIRVPLPP 72
>1is1_A Ribosome recycling factor; translation; 2.20A {Vibrio
parahaemolyticus} (A:33-104)
Length = 72
Score = 107 bits (268), Expect = 1e-24
Identities = 34/70 (48%), Positives = 49/70 (70%)
Query: 35 PSMLDLVKVEAYGSHVPLNQVANVTVLEPRMLVVSVWDKEMVASVERGIHESNLGLNPIV 94
PS+L + VE YG+ PLNQVANV + R L ++V+DKE+ VE+ I S+LGLNP+
Sbjct: 2 PSLLSGISVEYYGAATPLNQVANVVAEDARTLAITVFDKELTQKVEKAIMMSDLGLNPMS 61
Query: 95 EGQVLRIPVP 104
G ++R+P+P
Sbjct: 62 AGTIIRVPLP 71
>1eh1_A Ribosome recycling factor; translation, hinge variability;
2.60A {Thermus thermophilus} (A:36-105)
Length = 70
Score = 104 bits (261), Expect = 8e-24
Identities = 34/69 (49%), Positives = 49/69 (71%)
Query: 36 SMLDLVKVEAYGSHVPLNQVANVTVLEPRMLVVSVWDKEMVASVERGIHESNLGLNPIVE 95
++L +KVE YG+HVPLNQ+A VT +PR LVV WD+ + ++E+ I +S+LGLNP +
Sbjct: 1 ALLLHLKVEYYGAHVPLNQIATVTAPDPRTLVVQSWDQNALKAIEKAIRDSDLGLNPSNK 60
Query: 96 GQVLRIPVP 104
G L I +P
Sbjct: 61 GDALYINIP 69
>1ge9_A Ribosome recycling factor; three-helix bundle; NMR {Aquifex
aeolicus} (A:37-106)
Length = 70
Score = 102 bits (256), Expect = 4e-23
Identities = 27/69 (39%), Positives = 46/69 (66%), Gaps = 1/69 (1%)
Query: 36 SMLDLVKVEAYGSHVPLNQVANVTVLEPRMLVVSVWDKEMVASVERGIHESNLGLNPIVE 95
++++ +KVE YGS VP+ Q+ ++V E +V+ VWD+ V ++E+ I L LNP V+
Sbjct: 2 ALVEEIKVEYYGSKVPIKQLGTISVPEHNQIVIQVWDQNAVPAIEKAI-REELNLNPTVQ 60
Query: 96 GQVLRIPVP 104
G V+R+ +P
Sbjct: 61 GNVIRVTLP 69
>1eh1_A Ribosome recycling factor; translation, hinge variability;
2.60A {Thermus thermophilus} (A:1-35,A:106-185)
Length = 115
Score = 101 bits (254), Expect = 5e-23
Identities = 36/78 (46%), Positives = 49/78 (62%)
Query: 107 TEERRLALVKVAHAYAEKSKISVRNIRRDGMDHLKKSRKSGKASEDMVASLENDIQKITD 166
TEERR LV+ YAE+ ++++RNIRR+ +D LKK K SED E +IQKITD
Sbjct: 37 TEERRKDLVRAVRQYAEEGRVAIRNIRREALDKLKKLAKELHLSEDETKRAEAEIQKITD 96
Query: 167 STIKNIDSFFEEKKKEIM 184
I D E+K++EI+
Sbjct: 97 EFIAKADQLAEKKEQEIL 114
>1ise_A Ribosome recycling factor; translation; 2.20A {Escherichia
coli} (A:1-32,A:105-185)
Length = 113
Score = 101 bits (253), Expect = 8e-23
Identities = 32/80 (40%), Positives = 51/80 (63%)
Query: 107 TEERRLALVKVAHAYAEKSKISVRNIRRDGMDHLKKSRKSGKASEDMVASLENDIQKITD 166
TEERR L K+ AE+++++VRN+ RD D +K K + SED ++D+QK+TD
Sbjct: 34 TEERRKDLTKIVRGEAEQARVAVRNVGRDANDKVKALLKDKEISEDDDRRSQDDVQKLTD 93
Query: 167 STIKNIDSFFEEKKKEIMHF 186
+ IK I++ +K+ E+M F
Sbjct: 94 AAIKKIEAALADKEAELMQF 113
>1wqg_A Ribosome recycling factor; translation factor, triple-helix
bundle, protein synthesis; 2.15A {Mycobacterium
tuberculosis} (A:1-32,A:105-185)
Length = 113
Score = 100 bits (252), Expect = 1e-22
Identities = 35/78 (44%), Positives = 47/78 (60%)
Query: 107 TEERRLALVKVAHAYAEKSKISVRNIRRDGMDHLKKSRKSGKASEDMVASLENDIQKITD 166
TEERR LVK A E++K+SVRNIRR M+ L + RK G+A ED V E D+ K T
Sbjct: 34 TEERRRELVKQAKHKGEEAKVSVRNIRRKAMEELHRIRKEGEAGEDEVGRAEKDLDKTTH 93
Query: 167 STIKNIDSFFEEKKKEIM 184
+ ID + K+ E++
Sbjct: 94 QYVTQIDELVKHKEGELL 111
>1is1_A Ribosome recycling factor; translation; 2.20A {Vibrio
parahaemolyticus} (A:1-32,A:105-185)
Length = 113
Score = 100 bits (251), Expect = 1e-22
Identities = 35/80 (43%), Positives = 47/80 (58%)
Query: 107 TEERRLALVKVAHAYAEKSKISVRNIRRDGMDHLKKSRKSGKASEDMVASLENDIQKITD 166
TEERR LVK+ AE +++VRNIRRD + LK K + SED + +IQK+TD
Sbjct: 34 TEERRKDLVKIVRGEAEGGRVAVRNIRRDANNDLKALLKDKEISEDEDRKAQEEIQKLTD 93
Query: 167 STIKNIDSFFEEKKKEIMHF 186
+K ID K+KE+M
Sbjct: 94 VAVKKIDEVLAAKEKELMEV 113
>1dd5_A Ribosome recycling factor; three-helix bundle,
beta-alpha-beta sandwich; 2.55A {Thermotoga maritima}
(A:1-33,A:105-185)
Length = 114
Score = 100 bits (250), Expect = 2e-22
Identities = 39/88 (44%), Positives = 54/88 (61%)
Query: 99 LRIPVPETTEERRLALVKVAHAYAEKSKISVRNIRRDGMDHLKKSRKSGKASEDMVASLE 158
+R P T E+R VK A E+ KI++RNIRR+ + +K+ +K G ED LE
Sbjct: 27 MRTGKPSPTTEQREKWVKKAKEIVEEGKIAIRNIRREILKKIKEDQKEGLIPEDDAKRLE 86
Query: 159 NDIQKITDSTIKNIDSFFEEKKKEIMHF 186
N+IQK+TD I+ +D FE KK+EIM F
Sbjct: 87 NEIQKLTDEFIEKLDEVFEIKKEEIMEF 114
>1ge9_A Ribosome recycling factor; three-helix bundle; NMR {Aquifex
aeolicus} (A:1-36,A:107-184)
Length = 114
Score = 92.5 bits (230), Expect = 3e-20
Identities = 29/78 (37%), Positives = 45/78 (57%), Gaps = 3/78 (3%)
Query: 107 TEERRLALVKVAHAYAEKSKISVRNIRRDGMDHLKKSRKSGKASEDMVASLENDIQKITD 166
TEERR LV++ H E++++ VRN+RR+ + ++ + SED +QK+TD
Sbjct: 38 TEERRRELVRLLHKITEEARVRVRNVRREAKEMIE---ELEGISEDEKKRALERLQKLTD 94
Query: 167 STIKNIDSFFEEKKKEIM 184
I I+ E K+KEIM
Sbjct: 95 KYIDEINKLMEAKEKEIM 112
>2gu1_A Zinc peptidase; alpha/beta, beta barrel, structural
genomics, PSI, protein structure initiative; 1.90A
{Vibrio cholerae} (A:1-95)
Length = 95
Score = 26.4 bits (58), Expect = 2.3
Identities = 9/71 (12%), Positives = 22/71 (30%), Gaps = 8/71 (11%)
Query: 68 VSVWDKEMVASVERGIHESNLGLNPIVEGQVLRIPVPETTEERRLALVKVA----HAYAE 123
V + + SV+ + ++ I G+ L + + + + RL E
Sbjct: 27 VPYSILQKILSVDLDHLQLDM----IQPGEELELMMDDMGQLSRLIYHMSIVEKAIYTRE 82
Query: 124 KSKISVRNIRR 134
+ +
Sbjct: 83 NDGSFSYDFQE 93
>1miu_A BRCA2, breast cancer type 2 susceptibility protein; tumor
suppressor, breast cancer susceptibility, DNA-binding;
3.10A {Mus musculus} (A:597-738)
Length = 142
Score = 26.3 bits (58), Expect = 2.4
Identities = 8/18 (44%), Positives = 16/18 (88%)
Query: 168 TIKNIDSFFEEKKKEIMH 185
I+NID+F++E +K+++H
Sbjct: 110 AIENIDTFYKEAEKKLIH 127
>1r71_A Transcriptional repressor protein KORB; INCP, plasmid
partitioning, protein-DNA complex, heilx-turn- helix
motif, transcription factor; HET: BRU; 2.20A
{Escherichia coli} (A:77-178)
Length = 102
Score = 26.0 bits (57), Expect = 3.3
Identities = 13/35 (37%), Positives = 23/35 (65%)
Query: 148 KASEDMVASLENDIQKITDSTIKNIDSFFEEKKKE 182
K E++ A L++D Q+IT T+K + F +EK ++
Sbjct: 30 KRPEEVEAWLDDDTQEITRGTVKLLREFLDEKGRD 64
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase
class II, ligase; 3.23A {Methanococcus maripaludis S2}
(C:359-648)
Length = 290
Score = 24.8 bits (54), Expect = 7.4
Identities = 5/24 (20%), Positives = 8/24 (33%), Gaps = 2/24 (8%)
Query: 103 VPETTEERRLA--LVKVAHAYAEK 124
VP E L L++ +
Sbjct: 23 VPVMDEIYDLTKELIESCVKNKDL 46
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase
class II, ligase; 3.23A {Methanococcus maripaludis S2}
(D:363-647)
Length = 285
Score = 24.8 bits (54), Expect = 8.5
Identities = 5/24 (20%), Positives = 8/24 (33%), Gaps = 2/24 (8%)
Query: 103 VPETTEERRLA--LVKVAHAYAEK 124
VP E L L++ +
Sbjct: 19 VPVMDEIYDLTKELIESCVKNKDL 42
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.316 0.131 0.355
Gapped
Lambda K H
0.267 0.0555 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,311,441
Number of extensions: 54950
Number of successful extensions: 199
Number of sequences better than 10.0: 1
Number of HSP's gapped: 195
Number of HSP's successfully gapped: 33
Length of query: 186
Length of database: 4,956,049
Length adjustment: 83
Effective length of query: 103
Effective length of database: 2,150,234
Effective search space: 221474102
Effective search space used: 221474102
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: 52 (24.2 bits)