RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy3307
(130 letters)
>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase
VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}
Length = 238
Score = 74.2 bits (181), Expect = 7e-18
Identities = 59/117 (50%), Positives = 78/117 (66%), Gaps = 7/117 (5%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
FD++++ I NNI LA Y +PTP+QK AIP I+ RD+MACAQTGSGKTAAFL+PI+N
Sbjct: 23 FDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINH 82
Query: 73 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129
+ + + K +P L+LAPTRELA QI E++KF+ + LR CVV
Sbjct: 83 LVCQDLNQQRYS-------KTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVV 132
>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse
gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}
Length = 237
Score = 68.4 bits (166), Expect = 1e-15
Identities = 22/117 (18%), Positives = 37/117 (31%), Gaps = 21/117 (17%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
+D + E + +P +QK I+ A A TG GKT+ L L
Sbjct: 25 PEDFLLKEFV--EFFRKCVGEPRAIQKMWAKRILRKESFAATAPTGVGKTSFGLAMSLF- 81
Query: 73 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129
V+ PT L Q + +K+A ++ + +
Sbjct: 82 ------------------LALKGKRCYVIFPTSLLVIQAAETIRKYAEKAGVGTENL 120
>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {Human (Homo
sapiens) [TaxId: 9606]}
Length = 218
Score = 65.3 bits (158), Expect = 1e-14
Identities = 38/115 (33%), Positives = 52/115 (45%), Gaps = 16/115 (13%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
FDD+ ++E + I ++KP+ +Q+ AI I G DV+A AQ+G+GKTA F + IL Q
Sbjct: 14 FDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQ 73
Query: 73 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPC 127
+ LVLAPTRELA QI
Sbjct: 74 IE----------------LDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCH 112
>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase
DDX48 {Human (Homo sapiens) [TaxId: 9606]}
Length = 222
Score = 64.5 bits (156), Expect = 3e-14
Identities = 35/117 (29%), Positives = 54/117 (46%), Gaps = 16/117 (13%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
FD + + E + I ++KP+ +Q+ AI II GRDV+A +Q+G+GKTA F + +L
Sbjct: 19 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 78
Query: 73 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129
+ + L+LAPTRELA QI ++
Sbjct: 79 LD----------------IQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHAC 119
>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus
type 2 [TaxId: 11060]}
Length = 305
Score = 64.9 bits (157), Expect = 4e-14
Identities = 18/84 (21%), Positives = 32/84 (38%), Gaps = 18/84 (21%)
Query: 44 VIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAP 103
+ R + G+GKT +L I+ + +RG + L+LAP
Sbjct: 5 IFRKKRLTIMDLHPGAGKTKRYLPAIVREAIKRGL--------------RT----LILAP 46
Query: 104 TRELATQIYDEAKKFAYRSQLRPC 127
TR +A ++ + + R Q
Sbjct: 47 TRVVAAEMEEALRGLPIRYQTPAI 70
>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus
[TaxId: 2234]}
Length = 202
Score = 62.3 bits (150), Expect = 1e-13
Identities = 18/108 (16%), Positives = 42/108 (38%), Gaps = 21/108 (19%)
Query: 13 FDDIQ--MTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPIL 70
+++ ++ + ++ P Q A+ + SG++++ T +GKT + ++
Sbjct: 3 VEELAESISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMV 62
Query: 71 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118
+ + G L + P R LA + Y+ KK+
Sbjct: 63 REAIKGGK-------------------SLYVVPLRALAGEKYESFKKW 91
>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Human (Homo
sapiens) [TaxId: 9606]}
Length = 206
Score = 62.3 bits (150), Expect = 2e-13
Identities = 23/68 (33%), Positives = 45/68 (66%)
Query: 9 KKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVP 68
K F+D + + I ++KP+P+Q+ +IP+ +SGRD++A A+ G+GK+ A+L+P
Sbjct: 1 KGNEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIP 60
Query: 69 ILNQMYER 76
+L ++ +
Sbjct: 61 LLERLDLK 68
>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase
DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId:
4932]}
Length = 206
Score = 59.2 bits (142), Expect = 2e-12
Identities = 27/64 (42%), Positives = 45/64 (70%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
F+D + + I A ++KP+P+Q+ AIPV I+GRD++A A+ G+GKTAAF++P L +
Sbjct: 3 FEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEK 62
Query: 73 MYER 76
+ +
Sbjct: 63 VKPK 66
>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56)
{Human (Homo sapiens) [TaxId: 9606]}
Length = 207
Score = 59.1 bits (142), Expect = 2e-12
Identities = 22/63 (34%), Positives = 33/63 (52%)
Query: 12 GFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILN 71
GF D + + I ++ P+ VQ IP I G DV+ A++G GKTA F++ L
Sbjct: 2 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 61
Query: 72 QMY 74
Q+
Sbjct: 62 QLE 64
>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast
(Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 212
Score = 57.1 bits (137), Expect = 1e-11
Identities = 23/71 (32%), Positives = 40/71 (56%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
FDD+++ E + + +++P+ +Q+ AI II G DV+A AQ+G+GKT F + L +
Sbjct: 12 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 71
Query: 73 MYERGPLPTPP 83
+ P
Sbjct: 72 IDTSVKAPQAL 82
>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia
coli [TaxId: 562]}
Length = 206
Score = 55.8 bits (133), Expect = 4e-11
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 31 YDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQM 73
Y + P Q+ I ++SGRD + TG GK+ + +P L
Sbjct: 23 YQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALLLN 65
>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR
{Bacillus stearothermophilus [TaxId: 1422]}
Length = 209
Score = 55.4 bits (132), Expect = 5e-11
Identities = 21/63 (33%), Positives = 34/63 (53%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
F I I R+ KPT +Q+ IP + G ++ +QTG+GKT A+L+PI+ +
Sbjct: 3 FTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLLPIMEK 62
Query: 73 MYE 75
+
Sbjct: 63 IKP 65
>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase
{Archaeon Methanococcus jannaschii [TaxId: 2190]}
Length = 208
Score = 48.5 bits (115), Expect = 2e-08
Identities = 21/63 (33%), Positives = 42/63 (66%), Gaps = 1/63 (1%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGR-DVMACAQTGSGKTAAFLVPILN 71
F+++ +++ I N I ++KPT +Q IP+ ++ +++A A+TGSGKTA+F +P++
Sbjct: 6 FNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE 65
Query: 72 QMY 74
+
Sbjct: 66 LVN 68
>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase
PF2015 {Pyrococcus furiosus [TaxId: 2261]}
Length = 200
Score = 42.1 bits (97), Expect = 4e-06
Identities = 8/46 (17%), Positives = 17/46 (36%), Gaps = 1/46 (2%)
Query: 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGP 78
+P Q+ + + TG GKT ++ ++ + G
Sbjct: 9 QPRIYQEVIYAKCK-ETNCLIVLPTGLGKTLIAMMIAEYRLTKYGG 53
>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever
virus [TaxId: 11089]}
Length = 140
Score = 32.7 bits (73), Expect = 0.006
Identities = 10/35 (28%), Positives = 15/35 (42%)
Query: 44 VIISGRDVMACAQTGSGKTAAFLVPILNQMYERGP 78
++ G + G+GKT FL IL + R
Sbjct: 3 MLKKGMTTVLDFHPGAGKTRRFLPQILAECARRRL 37
>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25
{Archaeoglobus fulgidus [TaxId: 2234]}
Length = 206
Score = 29.1 bits (64), Expect = 0.11
Identities = 8/30 (26%), Positives = 12/30 (40%)
Query: 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKT 62
Q+ A+ + + TGSGKT
Sbjct: 70 SLRDYQEKALERWLVDKRGCIVLPTGSGKT 99
>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA
{Escherichia coli [TaxId: 562]}
Length = 274
Score = 28.5 bits (62), Expect = 0.21
Identities = 8/36 (22%), Positives = 16/36 (44%)
Query: 28 LARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTA 63
L + P Y +P +++G + G+GK+
Sbjct: 9 LEAFAAAPPPLDYVLPNMVAGTVGALVSPGGAGKSM 44
>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB
{Bacillus caldotenax [TaxId: 1395]}
Length = 413
Score = 28.6 bits (63), Expect = 0.23
Identities = 22/91 (24%), Positives = 35/91 (38%), Gaps = 27/91 (29%)
Query: 33 KPTPVQKYAIPVIISG-----RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRG 87
+P Q AI ++ G + TG+GKT ++ + + PT
Sbjct: 11 EPQGDQPQAIAKLVDGLRRGVKHQTLLGATGTGKTF-----TISNVIAQVNKPT------ 59
Query: 88 YPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118
LV+A + LA Q+Y E K+F
Sbjct: 60 -----------LVIAHNKTLAGQLYSELKEF 79
>d1c4oa1 c.37.1.19 (A:2-409) Nucleotide excision repair enzyme UvrB
{Thermus thermophilus [TaxId: 274]}
Length = 408
Score = 27.9 bits (61), Expect = 0.33
Identities = 25/97 (25%), Positives = 36/97 (37%), Gaps = 29/97 (29%)
Query: 30 RYDKPTPV--QKYAIPVIISG-----RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTP 82
RY P+P Q AI ++ R V TG+GKT + ++ E P
Sbjct: 3 RYRGPSPKGDQPKAIAGLVEALRDGERFVTLLGATGTGKTV-----TMAKVIEALGRPA- 56
Query: 83 PAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
LVLAP + LA Q+ E ++
Sbjct: 57 ----------------LVLAPNKILAAQLAAEFRELF 77
>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein
TrwB {Escherichia coli [TaxId: 562]}
Length = 433
Score = 28.0 bits (61), Expect = 0.34
Identities = 9/36 (25%), Positives = 15/36 (41%), Gaps = 1/36 (2%)
Query: 42 IPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERG 77
+P R ++ TG+GK+ L + RG
Sbjct: 44 MPRDAEPRHLLVNGATGTGKS-VLLRELAYTGLLRG 78
>d2b2na1 c.37.1.19 (A:26-333) Transcription-repair coupling factor,
TRCF {Escherichia coli [TaxId: 562]}
Length = 308
Score = 26.8 bits (58), Expect = 0.70
Identities = 6/21 (28%), Positives = 14/21 (66%)
Query: 99 LVLAPTRELATQIYDEAKKFA 119
+++AP + A +++DE +F
Sbjct: 18 VLIAPDMQNALRLHDEISQFT 38
>d1o54a_ c.66.1.13 (A:) Hypothetical protein TM0748 {Thermotoga
maritima [TaxId: 2336]}
Length = 266
Score = 25.8 bits (56), Expect = 1.6
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 1 MQECLVSLKKQGFDDIQMTEII 22
+QE L L++ F I++ E +
Sbjct: 210 VQETLKKLQELPFIRIEVWESL 231
>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus
stearothermophilus, PcrA [TaxId: 1422]}
Length = 318
Score = 25.8 bits (55), Expect = 1.7
Identities = 15/78 (19%), Positives = 26/78 (33%), Gaps = 17/78 (21%)
Query: 51 VMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQ 110
+MA A GSGKT I M E+ P + L + T + A +
Sbjct: 29 IMAGA--GSGKTRVLTHRIAYLMAEKHVAP-----------WNI----LAITFTNKAARE 71
Query: 111 IYDEAKKFAYRSQLRPCV 128
+ + + + +
Sbjct: 72 MRERVQSLLGGAAEDVWI 89
>d1epwa3 d.92.1.7 (A:1-533) Botulinum neurotoxin {Clostridium
botulinum, serotype B [TaxId: 1491]}
Length = 533
Score = 24.8 bits (54), Expect = 3.5
Identities = 4/28 (14%), Positives = 10/28 (35%)
Query: 15 DIQMTEIITNNIALARYDKPTPVQKYAI 42
+ N+ + Y+K ++K
Sbjct: 504 SENTESLTDFNVDVPVYEKQPAIKKIFT 531
>d1p0ka_ c.1.4.1 (A:) Isopentenyl-diphosphate delta-isomerase
{Bacillus subtilis [TaxId: 1423]}
Length = 329
Score = 24.4 bits (52), Expect = 5.6
Identities = 11/57 (19%), Positives = 22/57 (38%), Gaps = 2/57 (3%)
Query: 9 KKQGFDDIQMTEIITNNIALARYDKPTPV--QKYAIPVIISGRDVMACAQTGSGKTA 63
++ G DDI + ++AL + D T + + P+ I+ T +
Sbjct: 1 RETGLDDITFVHVSLPDLALEQVDISTKIGELSSSSPIFINAMTGGGGKLTYEINKS 57
>d1yb2a1 c.66.1.13 (A:6-255) Hypothetical protein Ta0852
{Thermoplasma acidophilum [TaxId: 2303]}
Length = 250
Score = 23.9 bits (51), Expect = 6.7
Identities = 4/22 (18%), Positives = 12/22 (54%)
Query: 1 MQECLVSLKKQGFDDIQMTEII 22
++ ++SL G ++ E++
Sbjct: 192 SEKTVLSLSASGMHHLETVELM 213
>d1l1sa_ c.114.1.1 (A:) Hypothetical protein MTH1491 {Archaeon
Methanobacterium thermoautotrophicum [TaxId: 145262]}
Length = 111
Score = 23.2 bits (50), Expect = 7.3
Identities = 5/47 (10%), Positives = 18/47 (38%), Gaps = 1/47 (2%)
Query: 11 QGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQT 57
+ +++ E++ ++ + + + + G AC+ T
Sbjct: 28 ADLESVRI-EVVAYSMGVNVLRRDSEYSGDVSELTGQGVRFCACSNT 73
>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis
C virus (HCV), different isolates [TaxId: 11103]}
Length = 136
Score = 23.7 bits (50), Expect = 7.9
Identities = 13/65 (20%), Positives = 16/65 (24%), Gaps = 22/65 (33%)
Query: 54 CAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYD 113
A TGSGK+ Q Y+ LVL P+
Sbjct: 14 HAPTGSGKSTKVPAAYAAQGYKV----------------------LVLNPSVAATLGFGA 51
Query: 114 EAKKF 118
K
Sbjct: 52 YMSKA 56
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 0.138 0.407
Gapped
Lambda K H
0.267 0.0438 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 482,254
Number of extensions: 21209
Number of successful extensions: 58
Number of sequences better than 10.0: 1
Number of HSP's gapped: 55
Number of HSP's successfully gapped: 28
Length of query: 130
Length of database: 2,407,596
Length adjustment: 76
Effective length of query: 54
Effective length of database: 1,364,116
Effective search space: 73662264
Effective search space used: 73662264
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: 48 (23.0 bits)