RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 033150
(126 letters)
>d2gy9m1 a.156.1.1 (M:1-114) Ribosomal protein S13 {Escherichia coli
[TaxId: 562]}
Length = 114
Score = 78.7 bits (194), Expect = 9e-21
Identities = 28/68 (41%), Positives = 48/68 (70%), Gaps = 1/68 (1%)
Query: 48 ARVGGVEIPNNKRIEYSLQYIHGVGRTRARQILVDLKM-ENKITKDMSEEELITIRDEVS 106
AR+ G+ IP++K +L I+GVG+TR++ IL + E+ ++SE ++ T+RDEV+
Sbjct: 1 ARIAGINIPDHKHAVIALTSIYGVGKTRSKAILAAAGIAEDVKISELSEGQIDTLRDEVA 60
Query: 107 KYMIEGDL 114
K+++EGDL
Sbjct: 61 KFVVEGDL 68
>d2uubm1 a.156.1.1 (M:2-126) Ribosomal protein S13 {Thermus
thermophilus [TaxId: 274]}
Length = 125
Score = 73.3 bits (180), Expect = 1e-18
Identities = 27/69 (39%), Positives = 46/69 (66%), Gaps = 2/69 (2%)
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 -KYMIEGDL 114
+ +EG+L
Sbjct: 61 NTWKLEGEL 69
>d1x2ia1 a.60.2.5 (A:2-69) ATP-dependent RNA helicase PF2015
{Pyrococcus furiosus [TaxId: 2261]}
Length = 68
Score = 26.7 bits (59), Expect = 0.25
Identities = 9/54 (16%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 58 NKRIEYSLQYIHGVGRTRARQILVDLKMENKITKDMSEEELITIRDEVSKYMIE 111
+R ++ + V T AR++L ++ S EL+ + + + + + +
Sbjct: 5 AERQRLIVEGLPHVSATLARRLLKHFGSVERV-FTASVAELMKV-EGIGEKIAK 56
>d1ixra1 a.60.2.1 (A:63-135) DNA helicase RuvA subunit, middle
domain {Thermus thermophilus [TaxId: 274]}
Length = 73
Score = 26.2 bits (58), Expect = 0.43
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
>d1vqon1 c.55.4.1 (N:1-186) Ribosomal protein L18 (L18p) {Archaeon
Haloarcula marismortui [TaxId: 2238]}
Length = 186
Score = 27.2 bits (60), Expect = 0.44
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
>d2a1ja1 a.60.2.5 (A:837-898) DNA repair endonuclease XPF {Human
(Homo sapiens) [TaxId: 9606]}
Length = 62
Score = 25.9 bits (57), Expect = 0.52
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
>d2crua1 a.5.6.1 (A:8-112) Programmed cell death protein 5 {Human
(Homo sapiens) [TaxId: 9606]}
Length = 105
Score = 26.2 bits (58), Expect = 0.61
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
>d1edya_ b.2.4.1 (A:) alpha-1-macroglobulin {Rat (Rattus norvegicus)
[TaxId: 10116]}
Length = 134
Score = 26.4 bits (58), Expect = 0.71
Identities = 9/78 (11%), Positives = 32/78 (41%), Gaps = 1/78 (1%)
Query: 43 LSIQCARVGGVEIPNNKRIEYSLQYIHGVGRTRARQILVDLKMENKITKDMSEEELITIR 102
L + + + ++++ + + + R + ++VD+KM + + + +
Sbjct: 6 LKVNTLPLNFDKAEHHRKFQIHINVSYIGERPNSNMVIVDVKMVSGFIPVKPSVKKLQDQ 65
Query: 103 DEVSKYMIEGDLVIIPYF 120
+ + + + V+I Y
Sbjct: 66 SNIQRTEVNTNHVLI-YI 82
>d3bzka1 a.60.2.6 (A:474-563) Transcriptional accessory factor Tex
{Pseudomonas aeruginosa [TaxId: 287]}
Length = 90
Score = 25.4 bits (56), Expect = 0.93
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
>d1eija_ a.5.6.1 (A:) Hypothetical protein MTH1615 {Archaeon
Methanobacterium thermoautotrophicum [TaxId: 145262]}
Length = 72
Score = 24.6 bits (54), Expect = 1.6
Identities = 7/36 (19%), Positives = 16/36 (44%), Gaps = 3/36 (8%)
Query: 75 RARQI---LVDLKMENKITKDMSEEELITIRDEVSK 107
QI L+ L ++ +++E+L + V+
Sbjct: 35 FVEQIELQLIQLAQMGRVRSKITDEQLKELLKRVAG 70
>d1eu1a1 b.52.2.2 (A:626-780) Dimethylsulfoxide reductase (DMSO
reductase) {Rhodobacter sphaeroides [TaxId: 1063]}
Length = 155
Score = 25.4 bits (55), Expect = 1.8
Identities = 3/42 (7%), Positives = 14/42 (33%)
Query: 16 ICNGHNNNLLTNASLSFPVSKQPQYPGLSIQCARVGGVEIPN 57
+ + N+L+ + +++ + + G +
Sbjct: 105 LDKYGDVNVLSLDVGTSKLAQGNCGQTILADVEKYAGAPVTV 146
>d2a1jb1 a.60.2.5 (B:219-296) DNA excision repair protein ERCC-1
{Human (Homo sapiens) [TaxId: 9606]}
Length = 78
Score = 24.5 bits (53), Expect = 2.3
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 = 24.3 bits (53), Expect = 2.3
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
>d2p6ra2 a.289.1.2 (A:489-686) Hel308 helicase {Archaeoglobus
fulgidus [TaxId: 2234]}
Length = 198
Score = 24.8 bits (54), Expect = 2.7
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
>d1cuka2 a.60.2.1 (A:65-142) DNA helicase RuvA subunit, middle
domain {Escherichia coli [TaxId: 562]}
Length = 78
Score = 24.0 bits (52), Expect = 3.0
Identities = 6/28 (21%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 64 SLQYIHGVGRTRARQILVDLKMENKITK 91
+L + G+G+ A +++V++K ++
Sbjct: 45 ALVKLPGIGKKTAERLIVEMK--DRFKG 70
>d1pzna1 a.60.4.1 (A:35-95) DNA repair protein Rad51, N-terminal
domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}
Length = 61
Score = 23.4 bits (51), Expect = 3.7
Identities = 8/38 (21%), Positives = 15/38 (39%)
Query: 64 SLQYIHGVGRTRARQILVDLKMENKITKDMSEEELITI 101
S++ + GVG A ++ + S EL +
Sbjct: 2 SIEDLPGVGPATAEKLREAGYDTLEAIAVASPIELKEV 39
>d1sbza_ c.34.1.1 (A:) Probable aromatic acid decarboxylase Pad1
{Escherichia coli O157:H7 [TaxId: 83334]}
Length = 186
Score = 24.2 bits (52), Expect = 4.7
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
>d2bgwa1 a.60.2.5 (A:160-229) DNA repair endonuclease XPF
{Aeropyrum pernix [TaxId: 56636]}
Length = 70
Score = 23.2 bits (50), Expect = 5.0
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 58 NKRIEYSLQYIHGVGRTRARQIL 80
+ Y LQ G+GR A +IL
Sbjct: 8 REWQLYILQSFPGIGRRTAERIL 30
>d1vlfm1 b.52.2.2 (M:729-875) Transhydroxylase alpha subunit, AthL
{Pelobacter acidigallici [TaxId: 35816]}
Length = 147
Score = 23.6 bits (50), Expect = 8.0
Identities = 7/50 (14%), Positives = 14/50 (28%)
Query: 7 MPVAPALSVICNGHNNNLLTNASLSFPVSKQPQYPGLSIQCARVGGVEIP 56
P+ A G N+LT + ++ + G +
Sbjct: 96 DPLGTAGKSADRGGCINILTPDRYISKYACGMANNTALVEIEKWDGDKYE 145
>d1kfta_ a.60.2.3 (A:) Excinuclease UvrC C-terminal domain
{Escherichia coli [TaxId: 562]}
Length = 56
Score = 22.4 bits (48), Expect = 8.2
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 64 SLQYIHGVGRTRARQIL 80
SL+ I GVG R + +L
Sbjct: 3 SLETIEGVGPKRRQMLL 19
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 0.137 0.394
Gapped
Lambda K H
0.267 0.0692 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 451,430
Number of extensions: 19158
Number of successful extensions: 71
Number of sequences better than 10.0: 1
Number of HSP's gapped: 71
Number of HSP's successfully gapped: 25
Length of query: 126
Length of database: 2,407,596
Length adjustment: 75
Effective length of query: 51
Effective length of database: 1,377,846
Effective search space: 70270146
Effective search space used: 70270146
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 (21.8 bits)
S2: 48 (22.3 bits)