RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy7792
(138 letters)
>d1a1va2 c.37.1.14 (A:326-624) HCV helicase domain {Human hepatitis
C virus (HCV), different isolates [TaxId: 11103]}
Length = 299
Score = 75.3 bits (185), Expect = 8e-18
Identities = 11/63 (17%), Positives = 20/63 (31%), Gaps = 4/63 (6%)
Query: 1 MVATDVASKG---LDFEEIKHVINYDMPDDVENYVHRIGRTGRSGKTGLATTFINKSNDE 57
++ + + + +P D + R GRTGR GK G+
Sbjct: 100 VIDCNTCVTQTVDFSLDPTFTIETTTLPQDAVSRTQRRGRTGR-GKPGIYRFVAPGERPS 158
Query: 58 SVL 60
+
Sbjct: 159 GMF 161
>d1hv8a2 c.37.1.19 (A:211-365) Putative DEAD box RNA helicase
{Archaeon Methanococcus jannaschii [TaxId: 2190]}
Length = 155
Score = 65.7 bits (159), Expect = 4e-15
Identities = 30/75 (40%), Positives = 49/75 (65%), Gaps = 4/75 (5%)
Query: 1 MVATDVASKGLDFEEIKHVINYDMPDDVENYVHRIGRTGRSGKTGLATTFINKSNDESVL 60
++ATDV S+G+D ++ VINY +P + E+Y+HRIGRTGR+GK G A + IN+ + L
Sbjct: 82 LIATDVMSRGIDVNDLNCVINYHLPQNPESYMHRIGRTGRAGKKGKAISIINR-REYKKL 140
Query: 61 LDLKHLLLEARQRIP 75
++ + + +I
Sbjct: 141 RYIERAM---KLKIK 152
>d1wp9a2 c.37.1.19 (A:201-486) putative ATP-dependent RNA helicase
PF2015 {Pyrococcus furiosus [TaxId: 2261]}
Length = 286
Score = 66.8 bits (162), Expect = 8e-15
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 1/57 (1%)
Query: 1 MVATDVASKGLDFEEIKHVINYDMPDDVENYVHRIGRTGRSGKTGLATTFINKSNDE 57
+VAT V +GLD E+ V+ Y+ + R GRTGR G + K +
Sbjct: 223 LVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGRHMP-GRVIILMAKGTRD 278
>d1fuka_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast
(Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 162
Score = 62.6 bits (151), Expect = 6e-14
Identities = 29/81 (35%), Positives = 51/81 (62%), Gaps = 1/81 (1%)
Query: 1 MVATDVASKGLDFEEIKHVINYDMPDDVENYVHRIGRTGRSGKTGLATTFINKSNDESVL 60
+++TD+ ++G+D +++ VINYD+P + ENY+HRIGR GR G+ G+A F+ D +
Sbjct: 81 LISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNE-DVGAM 139
Query: 61 LDLKHLLLEARQRIPPFLAEL 81
+L+ + +P +A L
Sbjct: 140 RELEKFYSTQIEELPSDIATL 160
>d2j0sa2 c.37.1.19 (A:244-411) Probable ATP-dependent RNA helicase
DDX48 {Human (Homo sapiens) [TaxId: 9606]}
Length = 168
Score = 62.3 bits (150), Expect = 1e-13
Identities = 30/81 (37%), Positives = 53/81 (65%), Gaps = 1/81 (1%)
Query: 1 MVATDVASKGLDFEEIKHVINYDMPDDVENYVHRIGRTGRSGKTGLATTFINKSNDESVL 60
+++TDV ++GLD ++ +INYD+P++ E Y+HRIGR+GR G+ G+A F+ +D +L
Sbjct: 88 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN-DDIRIL 146
Query: 61 LDLKHLLLEARQRIPPFLAEL 81
D++ +P +A+L
Sbjct: 147 RDIEQYYSTQIDEMPMNVADL 167
>d1gkub2 c.37.1.16 (B:251-498) Helicase-like "domain" of reverse
gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}
Length = 248
Score = 55.9 bits (134), Expect = 5e-11
Identities = 18/137 (13%), Positives = 41/137 (29%), Gaps = 13/137 (9%)
Query: 1 MVAT----DVASKGLDF-EEIKHVINYDMPDDVENYVHRIGRTGRSGKTGLATTFINKSN 55
++ T +GLD E I+ + P ++ I + N
Sbjct: 73 LIGTAHYYGTLVRGLDLPERIRFAVFVGCP----SFRVTIEDIDSLSPQMVKLLAYLYRN 128
Query: 56 ---DESVLLDLKHLLLEARQRIPPFLAELESETEKFLDLGGDERGCAYCGGLGHRITACP 112
E +L ++ + E R+ + + + + + + G+ +
Sbjct: 129 VDEIERLLPAVERHIDEVREILKKVMGKERPQAKDVVVREGEVIFPDLRTYI-QGSGRTS 187
Query: 113 KLEAVQTKAASSIGRRD 129
+L A +S D
Sbjct: 188 RLFAGGLTKGASFLLED 204
Score = 26.3 bits (57), Expect = 1.3
Identities = 18/83 (21%), Positives = 30/83 (36%), Gaps = 2/83 (2%)
Query: 14 EEIKHVINYDMPDDVENYVHRIGRTGRSGKTGLATTFINKSNDESVLLDLKHLLLEARQR 73
+++ + D+ Y+ GRT R GL D+S L L + A+
Sbjct: 162 KDVVVREGEVIFPDLRTYIQGSGRTSRLFAGGLTKGASFLLEDDSEL--LSAFIERAKLY 219
Query: 74 IPPFLAELESETEKFLDLGGDER 96
F + E + EK + R
Sbjct: 220 DIEFKSIDEVDFEKLSRELDESR 242
>d1s2ma2 c.37.1.19 (A:252-422) Putative ATP-dependent RNA helicase
DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId:
4932]}
Length = 171
Score = 53.5 bits (127), Expect = 2e-10
Identities = 31/86 (36%), Positives = 46/86 (53%), Gaps = 1/86 (1%)
Query: 1 MVATDVASKGLDFEEIKHVINYDMPDDVENYVHRIGRTGRSGKTGLATTFINKSNDESVL 60
+V +D+ ++G+D + + VIN+D P E Y+HRIGR+GR G GLA IN ND L
Sbjct: 86 LVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINW-NDRFNL 144
Query: 61 LDLKHLLLEARQRIPPFLAELESETE 86
++ L IP + + E
Sbjct: 145 YKIEQELGTEIAAIPATIDKSLYVAE 170
>d1jr6a_ c.37.1.14 (A:) HCV helicase domain {Human hepatitis C virus
(HCV), different isolates [TaxId: 11103]}
Length = 138
Score = 52.4 bits (125), Expect = 3e-10
Identities = 17/53 (32%), Positives = 22/53 (41%), Gaps = 4/53 (7%)
Query: 1 MVATDVASKGLDFEE---IKHVINYDMPDDVENYVHRIGRTGRSGKTGLATTF 50
+VATD G + I + P D + R GRTGR GK G+
Sbjct: 82 VVATDALMTGFTGDFDSVIDCNTSDGKPQDAVSRTQRRGRTGR-GKPGIYRFV 133
>d2fwra1 c.37.1.19 (A:257-456) DNA repair protein RAD25
{Archaeoglobus fulgidus [TaxId: 2234]}
Length = 200
Score = 53.0 bits (126), Expect = 5e-10
Identities = 7/41 (17%), Positives = 11/41 (26%)
Query: 12 DFEEIKHVINYDMPDDVENYVHRIGRTGRSGKTGLATTFIN 52
D + + Y+ R+GR R K
Sbjct: 153 DVPDANVGVIMSGSGSAREYIQRLGRILRPSKGKKEAVLYE 193
>d1t5ia_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human
(Homo sapiens) [TaxId: 9606]}
Length = 168
Score = 49.3 bits (116), Expect = 8e-09
Identities = 31/87 (35%), Positives = 51/87 (58%), Gaps = 1/87 (1%)
Query: 1 MVATDVASKGLDFEEIKHVINYDMPDDVENYVHRIGRTGRSGKTGLATTFINKSNDESVL 60
+VAT++ +G+D E + NYDMP+D + Y+HR+ R GR G GLA TF++ ND +L
Sbjct: 81 LVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 140
Query: 61 LDLKHLLLEARQRIPPFLAELESETEK 87
D++ +P + ++ S E+
Sbjct: 141 NDVQDRFEVNISELPDEI-DISSYIEQ 166
>d2rb4a1 c.37.1.19 (A:307-474) ATP-dependent RNA helicase DDX25
{Human (Homo sapiens) [TaxId: 9606]}
Length = 168
Score = 48.5 bits (114), Expect = 2e-08
Identities = 29/86 (33%), Positives = 47/86 (54%), Gaps = 10/86 (11%)
Query: 1 MVATDVASKGLDFEEIKHVINYDMP------DDVENYVHRIGRTGRSGKTGLATTFINKS 54
++ T+V ++G+D +++ V+N+D+P D E Y+HRIGRTGR GK GLA I
Sbjct: 86 LITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEV- 144
Query: 55 NDESVLLDLKHLLLEARQRIPPFLAE 80
++ L+ ++ I AE
Sbjct: 145 DELPSLMKIQDHF---NSSIKQLNAE 167
>d1t5la2 c.37.1.19 (A:415-595) Nucleotide excision repair enzyme
UvrB {Bacillus caldotenax [TaxId: 1395]}
Length = 181
Score = 47.1 bits (111), Expect = 6e-08
Identities = 11/58 (18%), Positives = 20/58 (34%), Gaps = 2/58 (3%)
Query: 1 MVATDVASKGLDFEEIKHVINYDMPDDVENYVHR--IGRTGRSGKTGLATTFINKSND 56
+V ++ +GLD E+ V D + R I GR+ + +
Sbjct: 85 LVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVIMYADTI 142
>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus
type 2 [TaxId: 11060]}
Length = 305
Score = 45.7 bits (107), Expect = 3e-07
Identities = 18/76 (23%), Positives = 26/76 (34%), Gaps = 19/76 (25%)
Query: 1 MVATDVASKGLDFE---------EIKHVINYD----------MPDDVENYVHRIGRTGRS 41
+V TD++ G +F+ +K VI D MP + R GR GR+
Sbjct: 228 VVTTDISEMGANFKAERVIDPRRCMKPVILTDGEERVILAGPMPVTHSSAAQRRGRVGRN 287
Query: 42 GKTGLATTFINKSNDE 57
K E
Sbjct: 288 PKNENDQYIYMGEPLE 303
>d2p6ra4 c.37.1.19 (A:203-403) Hel308 helicase {Archaeoglobus
fulgidus [TaxId: 2234]}
Length = 201
Score = 41.8 bits (97), Expect = 5e-06
Identities = 16/69 (23%), Positives = 26/69 (37%), Gaps = 9/69 (13%)
Query: 1 MVATDVASKGLDFEEIKHVI-------NYDMPDDVENYVHRIGRTGRSGK--TGLATTFI 51
+VAT + G++ + ++ Y V Y GR GR G G A +
Sbjct: 124 VVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIV 183
Query: 52 NKSNDESVL 60
K + E +
Sbjct: 184 GKRDREIAV 192
>d1oywa3 c.37.1.19 (A:207-406) RecQ helicase domain {Escherichia
coli [TaxId: 562]}
Length = 200
Score = 39.6 bits (91), Expect = 3e-05
Identities = 16/52 (30%), Positives = 29/52 (55%)
Query: 1 MVATDVASKGLDFEEIKHVINYDMPDDVENYVHRIGRTGRSGKTGLATTFIN 52
+VAT G++ ++ V+++D+P ++E+Y GR GR G A F +
Sbjct: 84 VVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYD 135
>d1c4oa2 c.37.1.19 (A:410-583) Nucleotide excision repair enzyme
UvrB {Thermus thermophilus [TaxId: 274]}
Length = 174
Score = 36.2 bits (83), Expect = 4e-04
Identities = 14/78 (17%), Positives = 28/78 (35%), Gaps = 11/78 (14%)
Query: 1 MVATDVASKGLDFEEIKHVINYDM-----PDDVENYVHRIGRTGRSGKTGLATTFINKSN 55
+V ++ +GLD E+ V D + + IGR R+ + + S
Sbjct: 85 LVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNARGEVWLYADRVSE 144
Query: 56 DESVLLDLKHLLLEARQR 73
++ + E +R
Sbjct: 145 ------AMQRAIEETNRR 156
>d1tf5a4 c.37.1.19 (A:396-570) Translocation ATPase SecA,
nucleotide-binding domains {Bacillus subtilis [TaxId:
1423]}
Length = 175
Score = 32.6 bits (74), Expect = 0.008
Identities = 14/64 (21%), Positives = 29/64 (45%), Gaps = 8/64 (12%)
Query: 1 MVATDVASKGLDF---EEIK-----HVINYDMPDDVENYVHRIGRTGRSGKTGLATTFIN 52
+AT++A +G D E +K V+ + + GR+GR G G+ +++
Sbjct: 86 TIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYLS 145
Query: 53 KSND 56
++
Sbjct: 146 MEDE 149
>d1z3ix1 c.37.1.19 (X:390-735) Rad54-like, Rad54L {Zebra fish (Danio
rerio) [TaxId: 7955]}
Length = 346
Score = 30.3 bits (67), Expect = 0.059
Identities = 8/44 (18%), Positives = 18/44 (40%)
Query: 1 MVATDVASKGLDFEEIKHVINYDMPDDVENYVHRIGRTGRSGKT 44
M+++ GL+ ++ +D + N + R R G+
Sbjct: 175 MLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQK 218
>d1a6bb_ g.40.1.1 (B:) Zinc finger protein ncp10 {Moloney murine
leukemia virus, MoMLV [TaxId: 11801]}
Length = 40
Score = 27.7 bits (61), Expect = 0.088
Identities = 9/16 (56%), Positives = 9/16 (56%)
Query: 98 CAYCGGLGHRITACPK 113
CAYC GH CPK
Sbjct: 13 CAYCKEKGHWAKDCPK 28
>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus
solfataricus [TaxId: 2287]}
Length = 283
Score = 27.8 bits (60), Expect = 0.44
Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 1/57 (1%)
Query: 35 IGRTGRSGKTGLATTFINKSNDESVLLDLKHLLLEARQRIPPFLAELESETEKFLDL 91
+G +GK+ + IN+ N + LDL+ FL EL+ E K +
Sbjct: 35 LGLRR-TGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDFLLELQKEINKLVKR 90
>d2q66a3 d.58.16.1 (A:352-529) Poly(A) polymerase, PAP, C-terminal
domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId:
4932]}
Length = 178
Score = 26.1 bits (57), Expect = 1.2
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 15 EIKHVINYDMPDDV 28
++ V YD+PD+V
Sbjct: 157 ALRFVKGYDLPDEV 170
>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency
virus type 1, different isolates [TaxId: 11676]}
Length = 42
Score = 24.4 bits (53), Expect = 1.2
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 95 ERGCAYCGGLGHRITACPK 113
++GC CG GH++ C +
Sbjct: 22 KKGCWKCGKEGHQMKDCTE 40
Score = 24.1 bits (52), Expect = 1.7
Identities = 6/16 (37%), Positives = 6/16 (37%)
Query: 98 CAYCGGLGHRITACPK 113
C CG GH C
Sbjct: 4 CFNCGKEGHTARNCRA 19
>d1mioa_ c.92.2.3 (A:) Nitrogenase iron-molybdenum protein, alpha
chain {Clostridium pasteurianum [TaxId: 1501]}
Length = 525
Score = 25.5 bits (55), Expect = 2.9
Identities = 7/11 (63%), Positives = 7/11 (63%)
Query: 95 ERGCAYCGGLG 105
RGCAY G G
Sbjct: 49 ARGCAYAGCKG 59
>d1m1na_ c.92.2.3 (A:) Nitrogenase iron-molybdenum protein, alpha
chain {Azotobacter vinelandii [TaxId: 354]}
Length = 477
Score = 24.6 bits (53), Expect = 5.5
Identities = 7/11 (63%), Positives = 7/11 (63%)
Query: 95 ERGCAYCGGLG 105
RGCAY G G
Sbjct: 56 IRGCAYAGSKG 66
>d1w36c1 c.37.1.19 (C:1-347) Exodeoxyribonuclease V gamma chain
(RecC), N-terminal domain {Escherichia coli [TaxId:
562]}
Length = 347
Score = 24.2 bits (52), Expect = 8.1
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 51 INKSNDESVLLDLKHLLLEARQRIPPFLAE 80
+ SN VL L ++E + PF E
Sbjct: 4 VYHSNRLDVLEALMEFIVERERLDDPFEPE 33
>d1yqea1 c.56.7.1 (A:1-278) Hypothetical protein AF0625
{Archaeoglobus fulgidus [TaxId: 2234]}
Length = 278
Score = 24.1 bits (52), Expect = 8.2
Identities = 6/37 (16%), Positives = 14/37 (37%)
Query: 51 INKSNDESVLLDLKHLLLEARQRIPPFLAELESETEK 87
+ S E +++D K + ++ + E K
Sbjct: 231 VKLSEAEYIIIDEKSVNSAVKKIVNEAAEVAGVEVLK 267
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
0.317 0.136 0.392
Gapped
Lambda K H
0.267 0.0429 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 494,266
Number of extensions: 20785
Number of successful extensions: 98
Number of sequences better than 10.0: 1
Number of HSP's gapped: 91
Number of HSP's successfully gapped: 29
Length of query: 138
Length of database: 2,407,596
Length adjustment: 76
Effective length of query: 62
Effective length of database: 1,364,116
Effective search space: 84575192
Effective search space used: 84575192
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: 48 (23.0 bits)