RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 031812
(152 letters)
>d2uubm1 a.156.1.1 (M:2-126) Ribosomal protein S13 {Thermus
thermophilus [TaxId: 274]}
Length = 125
Score = 111 bits (279), Expect = 3e-33
Identities = 39/141 (27%), Positives = 64/141 (45%), Gaps = 24/141 (17%)
Query: 14 RVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVAN 73
R+ + +++ ALT I GIG+ A +K ++ R +L+ AE+ +L
Sbjct: 2 RIAGVEIPRNKRVDVALTYIYGIGKARAKEALEKTGINPATRVKDLTEAEVVRL------ 55
Query: 74 PRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRG 133
R++ W L L ++ +++RL I +RGLRH GL VRG
Sbjct: 56 -REYVENTWKL---------------EGELRAEVAANIKRLMDIGCYRGLRHRRGLPVRG 99
Query: 134 QHTKTTGR--RGKTVGVSKKR 152
Q T+T R +G V+ K+
Sbjct: 100 QRTRTNARTRKGPRKTVAGKK 120
>d2gy9m1 a.156.1.1 (M:1-114) Ribosomal protein S13 {Escherichia coli
[TaxId: 562]}
Length = 114
Score = 107 bits (269), Expect = 8e-32
Identities = 36/131 (27%), Positives = 56/131 (42%), Gaps = 23/131 (17%)
Query: 14 RVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVAN 73
R+ N+ + + ALTSI G+G+ + + A + + + ELS ++D
Sbjct: 2 RIAGINIPDHKHAVIALTSIYGVGKTRSKAILAAAGIAEDVKISELSEGQIDT------- 54
Query: 74 PRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRG 133
+D VV L ++ ++RL + +RGLRH GL VRG
Sbjct: 55 ----------------LRDEVAKFVVEGDLRREISMSIKRLMDLGCYRGLRHRRGLPVRG 98
Query: 134 QHTKTTGRRGK 144
Q TKT R K
Sbjct: 99 QRTKTNARTRK 109
>d1iega_ b.57.1.1 (A:) Human cytomegalovirus protease {Human
cytomegalovirus [TaxId: 10359]}
Length = 248
Score = 29.8 bits (67), Expect = 0.090
Identities = 24/122 (19%), Positives = 50/122 (40%), Gaps = 17/122 (13%)
Query: 18 TNVDGKQKIMFALTSIKGIGRRLANIVCKKADVD-MNKRAGELSAAELDQLMVVVANPRQ 76
T++ G + F ++ +GRR + D + + +R +L+AA+ D L
Sbjct: 137 TSLSGSETTPFKAVALCSVGRRRGTLAVYGRDPEWVTQRFPDLTAADRDGLRAQWQRCGS 196
Query: 77 FKIP-DWFLNRQKDYKDGRYSQVVSNALD-MKLRDDLERLKKIRNHRGLRHYWGLRVRGQ 134
+ R Y ++ N++D + +R+ RL K+R + L + V +
Sbjct: 197 TAVDASGDPFRSDSYG------LLGNSVDALYIRE---RLPKLRYDKQL-----VGVTER 242
Query: 135 HT 136
+
Sbjct: 243 ES 244
>d1vdka_ a.127.1.1 (A:) Fumarase {Thermus thermophilus [TaxId: 274]}
Length = 460
Score = 26.7 bits (58), Expect = 1.2
Identities = 14/72 (19%), Positives = 24/72 (33%), Gaps = 14/72 (19%)
Query: 3 LVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKAD------VDMNKRA 56
+ N + + + + AL K IG A + KKA
Sbjct: 388 IEPNLE------RIEEYLQKNPMLATALN--KAIGYDKAAEIVKKALKEKKTLKQAALEL 439
Query: 57 GELSAAELDQLM 68
G L+ E D+++
Sbjct: 440 GYLTEEEFDRIV 451
>d1yeya1 c.1.11.2 (A:184-435) RTS beta protein {Xanthomonas
campestris pv. campestris [TaxId: 340]}
Length = 252
Score = 26.4 bits (57), Expect = 1.6
Identities = 5/30 (16%), Positives = 11/30 (36%)
Query: 107 LRDDLERLKKIRNHRGLRHYWGLRVRGQHT 136
++DD+ R + R G + +
Sbjct: 42 VQDDIRRCRLARAAIGPDIAMAVDANQRWD 71
>d1o6ea_ b.57.1.1 (A:) Epstein-Barr virus protease {Human
herpesvirus 4 [TaxId: 10376]}
Length = 232
Score = 25.9 bits (57), Expect = 2.3
Identities = 22/109 (20%), Positives = 40/109 (36%), Gaps = 11/109 (10%)
Query: 13 LRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVD-MNKRAGELSAAELDQLMVVV 71
+ T DG + F SI +GRR D+ + K +L + Q+
Sbjct: 119 PDIPQTTADGGKLSFFDHVSICALGRRRGTTAVYGTDLAWVLKHFSDLEPSIAAQIENDA 178
Query: 72 ANP-RQFKIPDWFLNRQKDYKDGRYSQVVSNALD-MKLRDDLERLKKIR 118
R+ P+ +++ A+D LR+ +E L++ R
Sbjct: 179 NAAKRESGCPEDH---PLPLTK-----LIAKAIDAGFLRNRVETLRQDR 219
>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 = 4.3
Identities = 4/27 (14%), Positives = 12/27 (44%)
Query: 21 DGKQKIMFALTSIKGIGRRLANIVCKK 47
D ++ LT++K + + + +
Sbjct: 12 DFVSRVTECLTTVKSVNKTDSQTLLTT 38
>d2bgwa1 a.60.2.5 (A:160-229) DNA repair endonuclease XPF
{Aeropyrum pernix [TaxId: 56636]}
Length = 70
Score = 23.6 bits (51), Expect = 4.3
Identities = 11/50 (22%), Positives = 20/50 (40%), Gaps = 5/50 (10%)
Query: 21 DGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVV 70
D ++ ++ L S GIGRR A + ++ A ++ V
Sbjct: 6 DVREWQLYILQSFPGIGRRTA-----ERILERFGSLERFFTASKAEISKV 50
>d2pbka1 b.57.1.1 (A:3-230) KSHV protease {Kaposi's
sarcoma-associated herpesvirus [TaxId: 37296]}
Length = 228
Score = 24.3 bits (53), Expect = 6.2
Identities = 20/94 (21%), Positives = 40/94 (42%), Gaps = 9/94 (9%)
Query: 27 MFALTSIKGIGRRLANIVCKKADVD-MNKRAGELSAAELDQLMVVVANPRQFKIPDWFLN 85
+F S+ +GRR + D + + R +S +E ++ V++ R + N
Sbjct: 129 VFQHVSLCALGRRRGTVAVYGHDAEWVVSRFSSVSKSERAHILQHVSSCRLEDLSTP--N 186
Query: 86 RQKDYKDGRYSQVVSNALD-MKLRDDLERLKKIR 118
+ +++ A+D +RD L+ LK R
Sbjct: 187 FVSPLET-----LMAKAIDAGFIRDRLDLLKTDR 215
>d2a6ca1 a.35.1.13 (A:1-69) HTH-motif protein NE1354 {Nitrosomonas
europaea [TaxId: 915]}
Length = 69
Score = 22.8 bits (48), Expect = 8.6
Identities = 7/24 (29%), Positives = 12/24 (50%), Gaps = 1/24 (4%)
Query: 105 MKLRDDL-ERLKKIRNHRGLRHYW 127
MK+R L L++ + GL +
Sbjct: 1 MKMRSQLLIVLQEHLRNSGLTQFK 24
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
0.322 0.136 0.397
Gapped
Lambda K H
0.267 0.0629 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 562,085
Number of extensions: 24580
Number of successful extensions: 134
Number of sequences better than 10.0: 1
Number of HSP's gapped: 131
Number of HSP's successfully gapped: 24
Length of query: 152
Length of database: 2,407,596
Length adjustment: 78
Effective length of query: 74
Effective length of database: 1,336,656
Effective search space: 98912544
Effective search space used: 98912544
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: 49 (22.9 bits)