RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 030930
(169 letters)
>d2uubm1 a.156.1.1 (M:2-126) Ribosomal protein S13 {Thermus
thermophilus [TaxId: 274]}
Length = 125
Score = 144 bits (365), Expect = 6e-46
Identities = 60/124 (48%), Positives = 85/124 (68%), Gaps = 2/124 (1%)
Query: 48 ARVGGVEIPNNKRIEYSLQYIHGVGRTRARQILVDLKME-NKITKDMSEEELITIRDEVS 106
AR+ GVEIP NKR++ +L YI+G+G+ RA++ L + KD++E E++ +R+ V
Sbjct: 1 ARIAGVEIPRNKRVDVALTYIYGIGKARAKEALEKTGINPATRVKDLTEAEVVRLREYVE 60
Query: 107 -KYMIEGDLRRFNALAIRRLKEIQCYRGIRHIQGLPCRGQHTKNNCRTLKGKRVAIAGKK 165
+ +EG+LR A I+RL +I CYRG+RH +GLP RGQ T+ N RT KG R +AGKK
Sbjct: 61 NTWKLEGELRAEVAANIKRLMDIGCYRGLRHRRGLPVRGQRTRTNARTRKGPRKTVAGKK 120
Query: 166 KAPR 169
KAPR
Sbjct: 121 KAPR 124
>d2gy9m1 a.156.1.1 (M:1-114) Ribosomal protein S13 {Escherichia coli
[TaxId: 562]}
Length = 114
Score = 134 bits (338), Expect = 7e-42
Identities = 53/112 (47%), Positives = 81/112 (72%), Gaps = 1/112 (0%)
Query: 48 ARVGGVEIPNNKRIEYSLQYIHGVGRTRARQILVDLKM-ENKITKDMSEEELITIRDEVS 106
AR+ G+ IP++K +L I+GVG+TR++ IL + E+ ++SE ++ T+RDEV+
Sbjct: 1 ARIAGINIPDHKHAVIALTSIYGVGKTRSKAILAAAGIAEDVKISELSEGQIDTLRDEVA 60
Query: 107 KYMIEGDLRRFNALAIRRLKEIQCYRGIRHIQGLPCRGQHTKNNCRTLKGKR 158
K+++EGDLRR +++I+RL ++ CYRG+RH +GLP RGQ TK N RT KG R
Sbjct: 61 KFVVEGDLRREISMSIKRLMDLGCYRGLRHRRGLPVRGQRTKTNARTRKGPR 112
>d1x2ia1 a.60.2.5 (A:2-69) ATP-dependent RNA helicase PF2015
{Pyrococcus furiosus [TaxId: 2261]}
Length = 68
Score = 25.9 bits (57), Expect = 0.85
Identities = 11/60 (18%), Positives = 28/60 (46%), Gaps = 3/60 (5%)
Query: 58 NKRIEYSLQYIHGVGRTRARQILVDLKMENKITKDMSEEELITIRDEVSKYMIEGDLRRF 117
+R ++ + V T AR++L ++ S EL+ + + + + + + ++RR
Sbjct: 5 AERQRLIVEGLPHVSATLARRLLKHFGSVERV-FTASVAELMKV-EGIGEKIAK-EIRRV 61
>d2a1ja1 a.60.2.5 (A:837-898) DNA repair endonuclease XPF {Human
(Homo sapiens) [TaxId: 9606]}
Length = 62
Score = 25.5 bits (56), Expect = 0.91
Identities = 9/37 (24%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 65 LQYIHGVGRTRARQILVDLKMENKITKDMSEEELITI 101
L + GV R ++ +K ++ +S++EL +I
Sbjct: 5 LLKMPGVNAKNCRSLMHHVKNIAEL-AALSQDELTSI 40
>d1ixra1 a.60.2.1 (A:63-135) DNA helicase RuvA subunit, middle
domain {Thermus thermophilus [TaxId: 274]}
Length = 73
Score = 25.5 bits (56), Expect = 1.3
Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 64 SLQYIHGVGRTRARQILVDLKMENKITKDM 93
L GVGR A +I ++LK K+ +
Sbjct: 46 LLTSASGVGRRLAERIALELK--GKVPPHL 73
>d3bzka1 a.60.2.6 (A:474-563) Transcriptional accessory factor Tex
{Pseudomonas aeruginosa [TaxId: 287]}
Length = 90
Score = 25.0 bits (55), Expect = 2.2
Identities = 12/58 (20%), Positives = 20/58 (34%), Gaps = 5/58 (8%)
Query: 45 IQCARVGGVEIPNNKRIEYSLQYIHGVGRTRARQILVDLKMENKITKDMSEEELITIR 102
C GV++ N L I G+ T A+ I+ + +EL +
Sbjct: 19 EDCVNAVGVDV--NTASAALLARISGLNSTLAQNIVAHRDANGAFR---TRDELKKVS 71
>d1vqon1 c.55.4.1 (N:1-186) Ribosomal protein L18 (L18p) {Archaeon
Haloarcula marismortui [TaxId: 2238]}
Length = 186
Score = 25.3 bits (55), Expect = 3.3
Identities = 15/67 (22%), Positives = 28/67 (41%), Gaps = 4/67 (5%)
Query: 48 ARVGGVEIPNNKRIEYSLQYIHGVGRTRARQILVDLKMENKITKDMSEEELITIRDEVSK 107
A G++IP+N + Q G + L E + D +L DE+ +
Sbjct: 122 AIDAGLDIPHNDDVLADWQRTRGAHIAEYDEQL----EEPLYSGDFDAADLPEHFDELRE 177
Query: 108 YMIEGDL 114
+++GD+
Sbjct: 178 TLLDGDI 184
>d1eu1a1 b.52.2.2 (A:626-780) Dimethylsulfoxide reductase (DMSO
reductase) {Rhodobacter sphaeroides [TaxId: 1063]}
Length = 155
Score = 25.0 bits (54), Expect = 3.8
Identities = 3/42 (7%), Positives = 14/42 (33%)
Query: 16 ICNGHNNNLLTNASLSFPVSKQPQYPGLSIQCARVGGVEIPN 57
+ + N+L+ + +++ + + G +
Sbjct: 105 LDKYGDVNVLSLDVGTSKLAQGNCGQTILADVEKYAGAPVTV 146
>d2p6ra2 a.289.1.2 (A:489-686) Hel308 helicase {Archaeoglobus
fulgidus [TaxId: 2234]}
Length = 198
Score = 24.8 bits (54), Expect = 5.6
Identities = 12/46 (26%), Positives = 22/46 (47%), Gaps = 2/46 (4%)
Query: 68 IHGVGRTRARQILVDLKMENKIT-KDMSEEELITIRDEVSKYMIEG 112
I +GR RAR+ L + + N E+ I +++ ++EG
Sbjct: 149 IRHIGRVRARK-LYNAGIRNAEDIVRHREKVASLIGRGIAERVVEG 193
>d2a1jb1 a.60.2.5 (B:219-296) DNA excision repair protein ERCC-1
{Human (Homo sapiens) [TaxId: 9606]}
Length = 78
Score = 23.8 bits (51), Expect = 5.7
Identities = 5/21 (23%), Positives = 11/21 (52%)
Query: 60 RIEYSLQYIHGVGRTRARQIL 80
R+ L + V +T ++ +L
Sbjct: 16 RVTECLTTVKSVNKTDSQTLL 36
>d1bvsa2 a.60.2.1 (A:64-134) DNA helicase RuvA subunit, middle
domain {Mycobacterium leprae [TaxId: 1769]}
Length = 71
Score = 23.5 bits (51), Expect = 6.3
Identities = 9/28 (32%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 64 SLQYIHGVGRTRARQILVDLKMENKITK 91
SL + G+GR A +I+++L +K+
Sbjct: 45 SLTRVPGIGRRGAERIVLELA--DKVGP 70
>d1sbza_ c.34.1.1 (A:) Probable aromatic acid decarboxylase Pad1
{Escherichia coli O157:H7 [TaxId: 83334]}
Length = 186
Score = 24.6 bits (53), Expect = 6.7
Identities = 8/39 (20%), Positives = 14/39 (35%), Gaps = 4/39 (10%)
Query: 6 AMPVAPA----LSVICNGHNNNLLTNASLSFPVSKQPQY 40
M V P L+ I G+ + L+ A+ +
Sbjct: 80 GMIVIPCSMKTLAGIRAGYADGLVGRAADVVLKEGRKLV 118
>d1cuka2 a.60.2.1 (A:65-142) DNA helicase RuvA subunit, middle
domain {Escherichia coli [TaxId: 562]}
Length = 78
Score = 23.6 bits (51), Expect = 6.9
Identities = 6/21 (28%), Positives = 15/21 (71%)
Query: 64 SLQYIHGVGRTRARQILVDLK 84
+L + G+G+ A +++V++K
Sbjct: 45 ALVKLPGIGKKTAERLIVEMK 65
>d2crua1 a.5.6.1 (A:8-112) Programmed cell death protein 5 {Human
(Homo sapiens) [TaxId: 9606]}
Length = 105
Score = 23.9 bits (52), Expect = 7.5
Identities = 8/36 (22%), Positives = 21/36 (58%), Gaps = 3/36 (8%)
Query: 75 RARQI---LVDLKMENKITKDMSEEELITIRDEVSK 107
+ + + L+ + ++++ +SE+ LI I +VS+
Sbjct: 58 KTKAVENYLIQMARYGQLSEKVSEQGLIEILKKVSQ 93
>d1eyva_ a.79.1.1 (A:) Antitermination factor NusB {Mycobacterium
tuberculosis [TaxId: 1773]}
Length = 131
Score = 24.0 bits (51), Expect = 8.5
Identities = 10/46 (21%), Positives = 17/46 (36%)
Query: 72 GRTRARQILVDLKMENKITKDMSEEELITIRDEVSKYMIEGDLRRF 117
GR +AR+ V L E ++ + E + T L +
Sbjct: 1 GRHQARKRAVALLFEAEVRGISAAEVVDTRAALAEAKPDIARLHPY 46
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
0.321 0.136 0.397
Gapped
Lambda K H
0.267 0.0632 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 616,148
Number of extensions: 28511
Number of successful extensions: 106
Number of sequences better than 10.0: 1
Number of HSP's gapped: 104
Number of HSP's successfully gapped: 23
Length of query: 169
Length of database: 2,407,596
Length adjustment: 79
Effective length of query: 90
Effective length of database: 1,322,926
Effective search space: 119063340
Effective search space used: 119063340
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.2 bits)