RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy6850
(118 letters)
>d2rb4a1 c.37.1.19 (A:307-474) ATP-dependent RNA helicase DDX25
{Human (Homo sapiens) [TaxId: 9606]}
Length = 168
Score = 70.4 bits (171), Expect = 4e-17
Identities = 52/87 (59%), Positives = 65/87 (74%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
KEKVLITTNV ARGIDV+QVTIV+NFD+P+ + D ETYLHRIGRTGRFGK G+A N+
Sbjct: 82 KEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNM 141
Query: 80 VDEHSVGVLKDIEKHFGKKIELLDTED 106
++ + L I+ HF I+ L+ ED
Sbjct: 142 IEVDELPSLMKIQDHFNSSIKQLNAED 168
>d1a1va2 c.37.1.14 (A:326-624) HCV helicase domain {Human hepatitis
C virus (HCV), different isolates [TaxId: 11103]}
Length = 299
Score = 71.5 bits (175), Expect = 1e-16
Identities = 15/71 (21%), Positives = 24/71 (33%), Gaps = 10/71 (14%)
Query: 13 LNSFTSCKEKVLITTNVLARG---IDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGR 69
L + + +I N ++ + +P D + R GRTGR
Sbjct: 89 LMTGFTGDFDSVIDCNTCVTQTVDFSLDPTFTIETTTLPQDA------VSRTQRRGRTGR 142
Query: 70 FGKCGIAINLV 80
GK GI +
Sbjct: 143 -GKPGIYRFVA 152
>d1fuka_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast
(Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 162
Score = 68.4 bits (166), Expect = 2e-16
Identities = 43/105 (40%), Positives = 67/105 (63%), Gaps = 6/105 (5%)
Query: 1 MGKGPNTSSSSSLNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETY 60
P + + F S ++LI+T++LARGIDV+QV++VIN+D+ A+ E Y
Sbjct: 58 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDL------PANKENY 111
Query: 61 LHRIGRTGRFGKCGIAINLVDEHSVGVLKDIEKHFGKKIELLDTE 105
+HRIGR GRFG+ G+AIN V VG ++++EK + +IE L ++
Sbjct: 112 IHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSD 156
>d1hv8a2 c.37.1.19 (A:211-365) Putative DEAD box RNA helicase
{Archaeon Methanococcus jannaschii [TaxId: 2190]}
Length = 155
Score = 66.5 bits (161), Expect = 1e-15
Identities = 34/82 (41%), Positives = 52/82 (63%), Gaps = 6/82 (7%)
Query: 19 CKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAIN 78
K ++LI T+V++RGIDV + VIN+ +P + E+Y+HRIGRTGR GK G AI+
Sbjct: 77 KKIRILIATDVMSRGIDVNDLNCVINYHLPQNP------ESYMHRIGRTGRAGKKGKAIS 130
Query: 79 LVDEHSVGVLKDIEKHFGKKIE 100
+++ L+ IE+ KI+
Sbjct: 131 IINRREYKKLRYIERAMKLKIK 152
>d2j0sa2 c.37.1.19 (A:244-411) Probable ATP-dependent RNA helicase
DDX48 {Human (Homo sapiens) [TaxId: 9606]}
Length = 168
Score = 66.5 bits (161), Expect = 1e-15
Identities = 38/96 (39%), Positives = 63/96 (65%), Gaps = 6/96 (6%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ F S +VLI+T+V ARG+DV QV+++IN+D+ + E Y+HRIGR+GR+G+
Sbjct: 77 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDL------PNNRELYIHRIGRSGRYGR 130
Query: 73 CGIAINLVDEHSVGVLKDIEKHFGKKIELLDTEDID 108
G+AIN V + +L+DIE+++ +I+ + D
Sbjct: 131 KGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVAD 166
>d1wp9a2 c.37.1.19 (A:201-486) putative ATP-dependent RNA helicase
PF2015 {Pyrococcus furiosus [TaxId: 2261]}
Length = 286
Score = 63.8 bits (154), Expect = 6e-14
Identities = 20/73 (27%), Positives = 34/73 (46%), Gaps = 7/73 (9%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
L+ F + VL+ T+V G+DV +V +V+ ++ + R GRTGR
Sbjct: 212 LDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSA------IRSIQRRGRTGRHMP 265
Query: 73 CGIAINLVDEHSV 85
G I L+ + +
Sbjct: 266 -GRVIILMAKGTR 277
>d1gkub2 c.37.1.16 (B:251-498) Helicase-like "domain" of reverse
gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}
Length = 248
Score = 55.2 bits (132), Expect = 5e-11
Identities = 13/93 (13%), Positives = 28/93 (30%), Gaps = 15/93 (16%)
Query: 13 LNSFTSCKEKVLITT----NVLARGIDV-EQVTIVINFDMPIDMNGQADCETYLHRIGRT 67
F + LI T L RG+D+ E++ + P + I
Sbjct: 62 YEKFVEGEIDHLIGTAHYYGTLVRGLDLPERIRFAVFVGCPS----------FRVTIEDI 111
Query: 68 GRFGKCGIAINLVDEHSVGVLKDIEKHFGKKIE 100
+ + +V ++ + + I+
Sbjct: 112 DSLSPQMVKLLAYLYRNVDEIERLLPAVERHID 144
Score = 30.5 bits (68), Expect = 0.032
Identities = 13/59 (22%), Positives = 22/59 (37%), Gaps = 5/59 (8%)
Query: 56 DCETYLHRIGRTGRFGKC----GIAINLVD-EHSVGVLKDIEKHFGKKIELLDTEDIDD 109
D TY+ GRT R G + L D + + K + + + +D D +
Sbjct: 175 DLRTYIQGSGRTSRLFAGGLTKGASFLLEDDSELLSAFIERAKLYDIEFKSIDEVDFEK 233
>d1s2ma2 c.37.1.19 (A:252-422) Putative ATP-dependent RNA helicase
DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId:
4932]}
Length = 171
Score = 51.2 bits (121), Expect = 8e-10
Identities = 34/81 (41%), Positives = 49/81 (60%), Gaps = 6/81 (7%)
Query: 25 ITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVDEHS 84
+ +++L RGID++ V +VINFD ETYLHRIGR+GRFG G+AINL++ +
Sbjct: 87 VCSDLLTRGIDIQAVNVVINFDF------PKTAETYLHRIGRSGRFGHLGLAINLINWND 140
Query: 85 VGVLKDIEKHFGKKIELLDTE 105
L IE+ G +I +
Sbjct: 141 RFNLYKIEQELGTEIAAIPAT 161
>d1jr6a_ c.37.1.14 (A:) HCV helicase domain {Human hepatitis C virus
(HCV), different isolates [TaxId: 11103]}
Length = 138
Score = 47.0 bits (111), Expect = 2e-08
Identities = 16/63 (25%), Positives = 26/63 (41%), Gaps = 10/63 (15%)
Query: 16 FTSCKEKVLITTNVLARGIDVEQVTI---VINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ + V++ T+ L G + ++ + P D + R GRTGR GK
Sbjct: 74 IPTNGDVVVVATDALMTGFTGDFDSVIDCNTSDGKPQDA------VSRTQRRGRTGR-GK 126
Query: 73 CGI 75
GI
Sbjct: 127 PGI 129
>d1t5la2 c.37.1.19 (A:415-595) Nucleotide excision repair enzyme
UvrB {Bacillus caldotenax [TaxId: 1395]}
Length = 181
Score = 47.5 bits (112), Expect = 3e-08
Identities = 16/100 (16%), Positives = 33/100 (33%), Gaps = 1/100 (1%)
Query: 1 MGKGPNTSSSSSLNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETY 60
+ + K VL+ N+L G+D+ +V++V D + +
Sbjct: 62 HSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGF-LRSERSL 120
Query: 61 LHRIGRTGRFGKCGIAINLVDEHSVGVLKDIEKHFGKKIE 100
+ IGR R + + + E + I+
Sbjct: 121 IQTIGRAARNANGHVIMYADTITKSMEIAIQETKRRRAIQ 160
>d1t5ia_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human
(Homo sapiens) [TaxId: 9606]}
Length = 168
Score = 47.0 bits (110), Expect = 3e-08
Identities = 23/63 (36%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 44 NFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLV-DEHSVGVLKDIEKHFGKKIELL 102
++ + + D +TYLHR+ R GRFG G+AI V DE+ +L D++ F I L
Sbjct: 95 RVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISEL 154
Query: 103 DTE 105
E
Sbjct: 155 PDE 157
>d2fwra1 c.37.1.19 (A:257-456) DNA repair protein RAD25
{Archaeoglobus fulgidus [TaxId: 2234]}
Length = 200
Score = 44.1 bits (103), Expect = 6e-07
Identities = 11/50 (22%), Positives = 16/50 (32%), Gaps = 6/50 (12%)
Query: 32 RGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
GIDV + + Y+ R+GR R K L +
Sbjct: 150 EGIDVPDANVGVIMSGSGSA------REYIQRLGRILRPSKGKKEAVLYE 193
>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus
type 2 [TaxId: 11060]}
Length = 305
Score = 44.1 bits (103), Expect = 7e-07
Identities = 12/74 (16%), Positives = 22/74 (29%), Gaps = 13/74 (17%)
Query: 19 CKEKVLITTNVLARGIDVE---------QVTIVINFDMPIDMNGQADC----ETYLHRIG 65
++TT++ G + + + VI D + + R G
Sbjct: 223 NDWDFVVTTDISEMGANFKAERVIDPRRCMKPVILTDGEERVILAGPMPVTHSSAAQRRG 282
Query: 66 RTGRFGKCGIAINL 79
R GR K +
Sbjct: 283 RVGRNPKNENDQYI 296
>d2p6ra4 c.37.1.19 (A:203-403) Hel308 helicase {Archaeoglobus
fulgidus [TaxId: 2234]}
Length = 201
Score = 41.8 bits (97), Expect = 4e-06
Identities = 18/86 (20%), Positives = 34/86 (39%), Gaps = 5/86 (5%)
Query: 18 SCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQA-DCETYLHRIGRTGRFGK--CG 74
KV++ T LA G+++ +++ D + Y GR GR G G
Sbjct: 118 RGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERG 177
Query: 75 IAINLVDEHSVGVLKDIEKHFGKKIE 100
AI +V + ++++ + E
Sbjct: 178 EAIIIVGKRD--REIAVKRYIFGEPE 201
>d1c4oa2 c.37.1.19 (A:410-583) Nucleotide excision repair enzyme
UvrB {Thermus thermophilus [TaxId: 274]}
Length = 174
Score = 34.7 bits (79), Expect = 8e-04
Identities = 17/81 (20%), Positives = 32/81 (39%), Gaps = 2/81 (2%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ L+ N+L G+D+ +V++V D + + + + IGR R
Sbjct: 74 IRDLRLGHYDCLVGINLLREGLDIPEVSLVAILDADKEGFLR-SERSLIQTIGRAARNA- 131
Query: 73 CGIAINLVDEHSVGVLKDIEK 93
G D S + + IE+
Sbjct: 132 RGEVWLYADRVSEAMQRAIEE 152
>d1oywa3 c.37.1.19 (A:207-406) RecQ helicase domain {Escherichia
coli [TaxId: 562]}
Length = 200
Score = 35.0 bits (79), Expect = 0.001
Identities = 19/95 (20%), Positives = 35/95 (36%), Gaps = 6/95 (6%)
Query: 1 MGKGPNTSSSSSLNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETY 60
N + F ++++ T GI+ V V++FD+P ++ +Y
Sbjct: 61 HAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIE------SY 114
Query: 61 LHRIGRTGRFGKCGIAINLVDEHSVGVLKDIEKHF 95
GR GR G A+ D + L+ +
Sbjct: 115 YQETGRAGRDGLPAEAMLFYDPADMAWLRRCLEEK 149
>d1z3ix1 c.37.1.19 (X:390-735) Rad54-like, Rad54L {Zebra fish (Danio
rerio) [TaxId: 7955]}
Length = 346
Score = 29.1 bits (64), Expect = 0.11
Identities = 6/66 (9%), Positives = 24/66 (36%), Gaps = 1/66 (1%)
Query: 19 CKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGR-FGKCGIAI 77
+ ++++ G+++ ++ FD + + R G+ + ++
Sbjct: 170 PEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQKKTCYIYRLLST 229
Query: 78 NLVDEH 83
++E
Sbjct: 230 GTIEEK 235
>d2o3aa1 c.116.1.8 (A:1-167) Uncharacterized protein AF0751
{Archaeoglobus fulgidus [TaxId: 2234]}
Length = 167
Score = 25.4 bits (56), Expect = 1.4
Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 11/50 (22%)
Query: 62 HRIGRTGR-----------FGKCGIAINLVDEHSVGVLKDIEKHFGKKIE 100
HR R R FG GI + D+ ++D+ + +G
Sbjct: 10 HRPERDKRISTHVALTARAFGAKGIYFDTEDKSVFESVRDVVERWGGDFF 59
>d1yksa2 c.37.1.14 (A:325-623) YFV helicase domain {Yellow fever
virus [TaxId: 11089]}
Length = 299
Score = 25.7 bits (56), Expect = 1.7
Identities = 12/69 (17%), Positives = 24/69 (34%), Gaps = 15/69 (21%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDM---PIDMNGQADCETY----------LHRIGR 66
K ++ T++ G ++ V V++ P+ ++ R GR
Sbjct: 82 KPDFILATDIAEMGANLC-VERVLDCRTAFKPVLVDEGRKVAIKGPLRISASSAAQRRGR 140
Query: 67 TGRF-GKCG 74
GR + G
Sbjct: 141 IGRNPNRDG 149
>d1p2xa_ a.40.1.1 (A:) Ras GTPase-activating-like protein rng2
{Fission yeast (Schizosaccharomyces pombe) [TaxId:
4896]}
Length = 159
Score = 25.4 bits (55), Expect = 1.7
Identities = 6/31 (19%), Positives = 10/31 (32%)
Query: 88 LKDIEKHFGKKIELLDTEDIDDEGNFRNLTN 118
L I +I + DI + N +
Sbjct: 77 LDFIHGIGLPEIFHFELTDIYEGKNLPKVIY 107
>d2oeza1 e.68.1.1 (A:1-245) Uncharacterized protein VP2528 {Vibrio
parahaemolyticus [TaxId: 670]}
Length = 245
Score = 24.8 bits (54), Expect = 3.2
Identities = 8/24 (33%), Positives = 12/24 (50%)
Query: 87 VLKDIEKHFGKKIELLDTEDIDDE 110
+ KD+EK L+ E +D E
Sbjct: 62 LAKDLEKQRLSYRHWLNVEGVDQE 85
>d1egaa2 d.52.3.1 (A:183-295) GTPase Era C-terminal domain
{Escherichia coli [TaxId: 562]}
Length = 113
Score = 24.1 bits (52), Expect = 3.5
Identities = 20/87 (22%), Positives = 31/87 (35%), Gaps = 15/87 (17%)
Query: 20 KEKVLITTN-VLARGIDVEQVTIVINFDMPIDMNGQADCETYLHR---IGRTG-RFGKCG 74
+EK++ L + VE V N D+NG E + IG G + G
Sbjct: 17 REKLMRFLGAELPYSVTVEIERFVSNERGGYDINGLILVEREGQKKMVIGNKGAKIKTIG 76
Query: 75 IAINLVDEHSVGVLKDIEKHFGKKIEL 101
I KD+++ F + L
Sbjct: 77 IE----------ARKDMQEMFEAPVHL 93
>d1u55a_ d.278.1.1 (A:) Methyl-accepting chemotaxis protein
{Thermoanaerobacter tengcongensis [TaxId: 119072]}
Length = 188
Score = 23.6 bits (51), Expect = 7.6
Identities = 6/27 (22%), Positives = 16/27 (59%)
Query: 85 VGVLKDIEKHFGKKIELLDTEDIDDEG 111
+G+++ K F ++I + + E + +G
Sbjct: 142 LGLIEGSSKFFKEEISVEEVERGEKDG 168
>d2p12a1 b.175.1.1 (A:8-172) Hypothetical protein RHA1_ro00977
{Rhodococcus sp. RHA1 [TaxId: 101510]}
Length = 165
Score = 23.2 bits (50), Expect = 8.5
Identities = 6/20 (30%), Positives = 12/20 (60%)
Query: 90 DIEKHFGKKIELLDTEDIDD 109
D+ G+ ELLD +++ +
Sbjct: 99 DLVVRTGRDTELLDVDELME 118
>d1hc1a2 a.86.1.1 (A:136-398) Arthropod hemocyanin {Spiny lobster
(Panulirus interruptus) [TaxId: 6735]}
Length = 263
Score = 23.5 bits (51), Expect = 8.7
Identities = 5/22 (22%), Positives = 10/22 (45%)
Query: 91 IEKHFGKKIELLDTEDIDDEGN 112
I G I++ + I+ G+
Sbjct: 170 ITDSDGHTIDIRQPKGIELLGD 191
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 0.137 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: 444,086
Number of extensions: 18984
Number of successful extensions: 86
Number of sequences better than 10.0: 1
Number of HSP's gapped: 76
Number of HSP's successfully gapped: 29
Length of query: 118
Length of database: 2,407,596
Length adjustment: 74
Effective length of query: 44
Effective length of database: 1,391,576
Effective search space: 61229344
Effective search space used: 61229344
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: 47 (22.6 bits)