RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10478
(451 letters)
>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix,
helix-turn-helix, ATP binding, Zn(2+) binding,
hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43
c.37.1.19 c.37.1.19 PDB: 1oyy_A*
Length = 523
Score = 337 bits (867), Expect = e-111
Identities = 107/287 (37%), Positives = 150/287 (52%), Gaps = 18/287 (6%)
Query: 125 FLSRIPRIVLIAIDEAHCVSQWGHDFRPSYRCLSELRLPLPDVPILAVTATATPVVIDDI 184
L+ VL+A+DEAHC+SQWGHDFRP Y L +LR P +P +A+TATA DI
Sbjct: 134 HLAHWN-PVLLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTLPFMALTATADDTTRQDI 192
Query: 185 CTSLMLRDPNIINTGFDRPNLYLAASVKQDDIMADLRKLTNFENQFEG-STIIYCPTKVI 243
L L DP I + FDRPN+ K L +L + + G S IIYC ++
Sbjct: 193 VRLLGLNDPLIQISSFDRPNIRYMLMEKFKP----LDQLMRYVQEQRGKSGIIYCNSRAK 248
Query: 244 CEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGMGIDKPDVRCV 303
E L GI YHA + R ++ F +D +++VVAT AFGMGI+KP+VR V
Sbjct: 249 VEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFV 308
Query: 304 IHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFYKTADFTKNNMIFQPNLNDSEIQEHSKTM 363
+H+ P+++ +YYQE GRAGRDGL + FY AD + ++Q+ +
Sbjct: 309 VHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLRRCLE-EKPQGQLQDIERHK 367
Query: 364 MKRVEKYLELRTCRRKYLLNHFKGSSVTVAESQVPPDKC--CDNCRH 408
+ + + E +TCRR LLN+F + + C CD C
Sbjct: 368 LNAMGAFAEAQTCRRLVLLNYF---------GEGRQEPCGNCDICLD 405
Score = 41.0 bits (97), Expect = 6e-04
Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 11/58 (18%)
Query: 8 NDSEIQEHSKTMMKRVEKYLELRTCRRKYLLNHFKGSSVTMAESQVPPDKC--CDNCR 63
++Q+ + + + + E +TCRR LLN+F + + C CD C
Sbjct: 356 PQGQLQDIERHKLNAMGAFAEAQTCRRLVLLNYF---------GEGRQEPCGNCDICL 404
>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch
repair, nucleotide-binding, DNA-binding, polymorphism,
nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens}
PDB: 2wwy_A*
Length = 591
Score = 329 bits (845), Expect = e-107
Identities = 98/289 (33%), Positives = 143/289 (49%), Gaps = 21/289 (7%)
Query: 131 RIVLIAIDEAHCVSQWGHDFRPSYRCLSELRLPLPDVPILAVTATATPVVIDDICTSLML 190
R IA+DE HC SQWGHDFRP Y+ L L+ P+ ++ +TATAT V+ D L +
Sbjct: 165 RFTRIAVDEVHCCSQWGHDFRPDYKALGILKRQFPNASLIGLTATATNHVLTDAQKILCI 224
Query: 191 RDPNIINTGFDRPNLYLAASVKQDDIMADLRKLTNF-ENQFEGST-IIYCPTKVICEKVC 248
F+RPNLY K + + + +++G + IIYC ++ E+V
Sbjct: 225 EKCFTFTASFNRPNLYYEVRQKPSNTEDFIEDIVKLINGRYKGQSGIIYCFSQKDSEQVT 284
Query: 249 DVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGMGIDKPDVRCVIHYGA 308
L GI YHA++ + + +H + + I+VVVAT AFGMGIDKPDVR VIH+
Sbjct: 285 VSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSM 344
Query: 309 PKDLSAYYQEIGRAGRDGLSSVCYTFYKTADFTK-NNMIFQPNLNDSEIQEHSKTMMKRV 367
K + YYQE GRAGRD + + C +Y D + ++M+ + + + +
Sbjct: 345 SKSMENYYQESGRAGRDDMKADCILYYGFGDIFRISSMVVM-----ENVGQQ---KLYEM 396
Query: 368 EKYLE-LRTCRRKYLLNHFKGSSVTVAESQVPPD--KCCDNCRHNEMLE 413
Y + + CRR + HF E K CDNC + E
Sbjct: 397 VSYCQNISKCRRVLMAQHF-------DEVWNSEACNKMCDNCCKDSAFE 438
Score = 38.4 bits (90), Expect = 0.004
Identities = 15/92 (16%), Positives = 27/92 (29%), Gaps = 22/92 (23%)
Query: 1 MIFQPNLNDSEIQEHSKTMMKRVEKYLE-LRTCRRKYLLNHFKGSSVTMAESQVPPD--K 57
M+ + + + + Y + + CRR + HF E K
Sbjct: 382 MVVM-----ENVGQQ---KLYEMVSYCQNISKCRRVLMAQHF-------DEVWNSEACNK 426
Query: 58 CCDNCRQVVYMTPEYVTNNT----SFLSRIPR 85
CDNC + + +T L +
Sbjct: 427 MCDNCCKDSAFERKNITEYCRDLIKILKQAEE 458
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 66.1 bits (162), Expect = 7e-13
Identities = 30/154 (19%), Positives = 59/154 (38%), Gaps = 8/154 (5%)
Query: 190 LRDPNIINTGFDRPNLYLAAS----VKQDDIMAD----LRKLTNFENQFEGSTIIYCPTK 241
+ ++ G + + V Q+ + L + +I+ K
Sbjct: 5 HHHSSGVDLGTENLYFQSMGAASLDVIQEVEYVKEEAKMVYLLECLQKTPPPVLIFAEKK 64
Query: 242 VICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGMGIDKPDVR 301
+ + + L G++ H ++R + F + V+VAT G+D P ++
Sbjct: 65 ADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQ 124
Query: 302 CVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFY 335
VI+Y P+++ Y IGR G G + + TF
Sbjct: 125 HVINYDMPEEIENYVHRIGRTGCSGNTGIATTFI 158
>3eaq_A Heat resistant RNA dependent ATPase; DEAD box RNA helicase, dimer,
ATP-binding, helicase, hydrolase, nucleotide-binding;
2.30A {Thermus thermophilus} PDB: 3ear_A 3eas_A
Length = 212
Score = 65.8 bits (161), Expect = 1e-12
Identities = 31/104 (29%), Positives = 47/104 (45%)
Query: 232 GSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAF 291
+++ TK E++ L R G + H +S +R+ + G F + ++V+VAT
Sbjct: 32 DRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVA 91
Query: 292 GMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFY 335
G+D P V V+HY P AY GR GR G Y
Sbjct: 92 ARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLY 135
>1t5i_A C_terminal domain of A probable ATP-dependent RNA helicase;
RECA-like fold, PRE-mRNA processing protein; 1.90A {Homo
sapiens} SCOP: c.37.1.19
Length = 172
Score = 63.4 bits (155), Expect = 4e-12
Identities = 29/149 (19%), Positives = 58/149 (38%), Gaps = 10/149 (6%)
Query: 220 LRKLTN-FENQFEGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFV 278
RKL + + +I+ + C + +L H + ++R + F
Sbjct: 19 NRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFK 78
Query: 279 KDLIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFYKTA 338
+++VAT FG G+D V +Y P+D Y + RAGR G + TF +
Sbjct: 79 DFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFV-SD 137
Query: 339 DFTKNNMIFQPNLNDSEIQEHSKTMMKRV 367
+ + +++Q+ + + +
Sbjct: 138 ENDAKIL--------NDVQDRFEVNISEL 158
>3i32_A Heat resistant RNA dependent ATPase; RNA helicase, dimer, RNA
recognition motif, ATP-BIND helicase,
nucleotide-binding; 2.80A {Thermus thermophilus}
Length = 300
Score = 65.5 bits (160), Expect = 4e-12
Identities = 31/104 (29%), Positives = 47/104 (45%)
Query: 232 GSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAF 291
+++ TK E++ L R G + H +S +R+ + G F + ++V+VAT
Sbjct: 29 DRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVA 88
Query: 292 GMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFY 335
G+D P V V+HY P AY GR GR G Y
Sbjct: 89 ARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGRVVLLY 132
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 66.8 bits (162), Expect = 7e-12
Identities = 87/500 (17%), Positives = 149/500 (29%), Gaps = 143/500 (28%)
Query: 8 NDSEIQEHSKTMMKRVEKYLELRTC-----RRKYLLNH-FKGS--SVTMAESQVPPDKCC 59
ND+ Q +K + R++ YL+LR K +L GS + + + C
Sbjct: 121 NDN--QVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQC 178
Query: 60 DNCRQVVYMT------PEYVTNN-TSFLSRIPRIVLIAIDEAHCVSQWGHDFR------- 105
++ ++ PE V L +I D + + H +
Sbjct: 179 KMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238
Query: 106 --PSY-RCLSELRLPLPDV-------------PILFLSRIPRI--VLIAIDEAH-CVSQW 146
Y CL L L +V IL +R ++ L A H +
Sbjct: 239 KSKPYENCL----LVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHH 294
Query: 147 GHDFRPSYR---CLSELRLPLPDVPILAVTATATPVVIDDICTSLMLRD-PNIINT---- 198
P L L D+P + T P + I + +RD +
Sbjct: 295 SMTLTPDEVKSLLLKYLDCRPQDLPREVL--TTNPRRLSII--AESIRDGLATWDNWKHV 350
Query: 199 GFDRPNLYLAASVKQDDIMADLRKLTNFENQ--FEGSTIIYCPTKVIC--------EKVC 248
D+ + +S+ + A+ RK+ F+ F S I PT ++ V
Sbjct: 351 NCDKLTTIIESSLNVLE-PAEYRKM--FDRLSVFPPSAHI--PTILLSLIWFDVIKSDVM 405
Query: 249 DVLSRNGIQNRPYHAHISL--KQRKE----IHGLFVKDLIKVVVATCAFGMGIDKPDV-- 300
V+ N + SL KQ KE I ++++ +K+ ++ +
Sbjct: 406 VVV--NKLHKY------SLVEKQPKESTISIPSIYLELKVKLE----------NEYALHR 447
Query: 301 RCVIHYGAPK-----DLSA------YYQEIGR----AGRDGLSSVCYTFYKTADFTKNNM 345
V HY PK DL +Y IG ++ + F + +
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI 507
Query: 346 I-----------FQPNLNDSE-----IQEHSKTMMKRVEKYLE-LRTC-----RRKYL-- 381
L + I ++ + V L+ L KY
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDL 567
Query: 382 ----LNHFKGSSVTVAESQV 397
L + A QV
Sbjct: 568 LRIALMAEDEAIFEEAHKQV 587
Score = 39.5 bits (91), Expect = 0.002
Identities = 28/190 (14%), Positives = 65/190 (34%), Gaps = 50/190 (26%)
Query: 215 DIMADLRKLTNFENQFEGSTIIYCPTKVICEKVCD-VLSRNGIQNRPYHAHISLK-QRKE 272
DI++ F + F+ + P ++ ++ D ++ + +L +++E
Sbjct: 20 DILSVFED--AFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEE 77
Query: 273 IHGLFVKDLIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCY 332
+ FV+++ + + Y L + + R S+
Sbjct: 78 MVQKFVEEV--------------LRIN------YKF---LMSPIKTEQRQ-----PSMMT 109
Query: 333 TFYKTADFTKNNMIFQPNLNDSEIQEHSKTMMKRVEKYLELRTC-----RRKYLLNH-FK 386
Y ++ + ND+ Q +K + R++ YL+LR K +L
Sbjct: 110 RMYIE---QRDRL-----YNDN--QVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVL 159
Query: 387 GS--SVTVAE 394
GS + +
Sbjct: 160 GSGKTWVALD 169
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 62.2 bits (152), Expect = 9e-12
Identities = 30/149 (20%), Positives = 60/149 (40%), Gaps = 11/149 (7%)
Query: 220 LRKLTN-FENQFEGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFV 278
LT+ +++ +I+C T+ E++ L + ++ + ++R I F
Sbjct: 18 YECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFR 77
Query: 279 KDLIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFYKTA 338
+++++T GID V VI+Y P + Y IGR GR G V F
Sbjct: 78 SGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNE 137
Query: 339 DFTKNNMIFQPNLNDSEIQEHSKTMMKRV 367
D + + +++ T ++ +
Sbjct: 138 DVGA--------MRE--LEKFYSTQIEEL 156
>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene
regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19
c.37.1.19 PDB: 1xtj_A* 1xtk_A
Length = 391
Score = 63.0 bits (154), Expect = 6e-11
Identities = 39/166 (23%), Positives = 63/166 (37%), Gaps = 11/166 (6%)
Query: 176 AT-PVVIDDICTSLMLRDPNIINTGFDRPNLYLAASVKQDDIMAD----LRKLTNF--EN 228
AT I +C M +DP I D ++Q + RKL +
Sbjct: 192 ATLSKEIRPVCRKFM-QDPMEIFV--DDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVL 248
Query: 229 QFEGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVAT 288
+F +I+ + C + +L H + ++R + F +++VAT
Sbjct: 249 EFNQV-VIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVAT 307
Query: 289 CAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTF 334
FG G+D V +Y P+D Y + RAGR G + TF
Sbjct: 308 NLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITF 353
>2jgn_A DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosphorylation,
nucleotide-binding, hydrolase, RNA-binding, ATP-binding,
DNA-binding, nuclear protein; 1.91A {Homo sapiens}
Length = 185
Score = 59.1 bits (144), Expect = 1e-10
Identities = 36/134 (26%), Positives = 58/134 (43%), Gaps = 6/134 (4%)
Query: 211 VKQDDIMADLRKLTNFENQFEGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQR 270
V++ D + L L N + T+++ TK + + D L G H S + R
Sbjct: 27 VEESDKRSFLLDLLN-ATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDR 85
Query: 271 KEIHGLFVKDLIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSV 330
+E F ++VAT G+D +V+ VI++ P D+ Y IGR GR G +
Sbjct: 86 EEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGL 145
Query: 331 CYTFYKTADFTKNN 344
+F F + N
Sbjct: 146 ATSF-----FNERN 154
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 61.7 bits (150), Expect = 1e-10
Identities = 36/178 (20%), Positives = 64/178 (35%), Gaps = 20/178 (11%)
Query: 159 ELRLPLPDVPILAVTATATPVVIDDICTSLMLRDPNIINTGFDRPNLYLAASVKQDDIMA 218
E L ++ +ATA P I L+ RD G R A ++ I +
Sbjct: 186 ERPKNLKPGILVVSSATAKPRGI----RPLLFRDLLNFTVG--RLVSV-ARNITHVRISS 238
Query: 219 -DLRKLTNFENQFEGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLF 277
KL F +I+ T+ +++ + L R + + ++ F
Sbjct: 239 RSKEKLVELLEIFRDGILIFAQTEEEGKELYEYLKRFKFNVGETWS-----EFEKNFEDF 293
Query: 278 VKDLIKVVVATCAFGM----GIDKPD-VRCVIHYGAPKDLSA--YYQEIGRAGRDGLS 328
I +++ A+ G+D P+ ++ VI +G P Y Q GR+ R
Sbjct: 294 KVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQASGRSSRILNG 351
>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein,
translation; 2.50A {Saccharomyces cerevisiae} SCOP:
c.37.1.19 PDB: 2vso_A* 2vsx_A*
Length = 394
Score = 61.4 bits (150), Expect = 2e-10
Identities = 41/201 (20%), Positives = 77/201 (38%), Gaps = 25/201 (12%)
Query: 176 AT-PVVIDDICTSLMLRDPNIINTGFDRPNL------YLAASVKQD--DIMADLRKLTNF 226
AT P + ++ T M R+P I D L Y+ ++ + + DL +
Sbjct: 201 ATMPNDVLEVTTKFM-RNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISV 259
Query: 227 ENQFEGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVV 286
+I+C T+ E++ L + ++ + ++R I F ++++
Sbjct: 260 T-----QAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILI 314
Query: 287 ATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFYKTADFTKNNMI 346
+T GID V VI+Y P + Y IGR GR G V F D
Sbjct: 315 STDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNED------- 367
Query: 347 FQPNLNDSEIQEHSKTMMKRV 367
+ + +++ T ++ +
Sbjct: 368 -VGAMRE--LEKFYSTQIEEL 385
>2rb4_A ATP-dependent RNA helicase DDX25; rossmann fold, structural
genomics, structural consortium, SGC, alternative
initiation, ATP-binding, devel protein; 2.80A {Homo
sapiens}
Length = 175
Score = 58.4 bits (142), Expect = 2e-10
Identities = 33/143 (23%), Positives = 58/143 (40%), Gaps = 16/143 (11%)
Query: 232 GSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAF 291
G II+C T+ + + + ++G Q ++++QR I F KV++ T
Sbjct: 35 GQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVC 94
Query: 292 GMGIDKPDVRCVIHYGAP------KDLSAYYQEIGRAGRDGLSSVCYTFYKTADFTKNNM 345
GID V V+++ P D Y IGR GR G + + + +
Sbjct: 95 ARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDELPS--- 151
Query: 346 IFQPNLNDSEIQEHSKTMMKRVE 368
L IQ+H + +K++
Sbjct: 152 -----LMK--IQDHFNSSIKQLN 167
>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein,
ATPase, RNA binding protein; 3.00A {Methanocaldococcus
jannaschii} SCOP: c.37.1.19 c.37.1.19
Length = 367
Score = 60.2 bits (147), Expect = 4e-10
Identities = 35/136 (25%), Positives = 65/136 (47%), Gaps = 10/136 (7%)
Query: 233 STIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFG 292
+++C TK +++ +L G + H +S QR+++ LF + I++++AT
Sbjct: 240 YGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVMS 299
Query: 293 MGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFYKTADFTKNNMIFQPNLN 352
GID D+ CVI+Y P++ +Y IGR GR G + ++ K L
Sbjct: 300 RGIDVNDLNCVINYHLPQNPESYMHRIGRTGRAGKKGKAISIINRREYKK--------LR 351
Query: 353 DSEIQEHSKTMMKRVE 368
I+ K +K+++
Sbjct: 352 Y--IERAMKLKIKKLK 365
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 57.5 bits (140), Expect = 4e-10
Identities = 38/158 (24%), Positives = 68/158 (43%), Gaps = 12/158 (7%)
Query: 211 VKQDDIMADLRKLTNFENQFEGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQR 270
V++++ + L+ + EN S II+C TK ++ D L G H + + R
Sbjct: 17 VREENKFSLLKDVLMTENPD--SCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDR 74
Query: 271 KEIHGLFVKDLIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSV 330
++ F + + +VAT GID ++ VI+Y P + +Y GR GR G
Sbjct: 75 FDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGK 134
Query: 331 CYTFYKTADFTKNNMIFQPNLNDSEIQEHSKTMMKRVE 368
+F + L D I+E+ ++++E
Sbjct: 135 AISFVTAFEKRF--------LAD--IEEYIGFEIQKIE 162
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA
repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 60.2 bits (145), Expect = 5e-10
Identities = 25/113 (22%), Positives = 47/113 (41%), Gaps = 8/113 (7%)
Query: 226 FENQFEGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAH--------ISLKQRKEIHGLF 277
+ + I++ + +K+ + L ++GI+ + + +S +++K I F
Sbjct: 356 LQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEF 415
Query: 278 VKDLIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSV 330
+ V+VAT G+D P+V V+ Y Q GR GR V
Sbjct: 416 ARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGRHMPGRV 468
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 60.3 bits (147), Expect = 6e-10
Identities = 46/218 (21%), Positives = 75/218 (34%), Gaps = 50/218 (22%)
Query: 176 AT-PVVIDDICTSLMLRDPNIINTGFDRPNLYLAASVKQDDIMADLRK-----LTNFENQ 229
AT ++ + N I +K +++ + K + E++
Sbjct: 299 ATFSERVEKY-AERFAPNANEI-------------RLKTEELSVEGIKQLYMDCQSEEHK 344
Query: 230 FE-----------GSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFV 278
+ G +II+C K E++ ++ +G ++ QR I F
Sbjct: 345 YNVLVELYGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFR 404
Query: 279 KDLIKVVVAT--CAFGMGIDKPDVRCVIHYGAP------KDLSAYYQEIGRAGRDGLSSV 330
KV+V T A GID V V++Y P D Y IGR GR G V
Sbjct: 405 VGTSKVLVTTNVIA--RGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGV 462
Query: 331 CYTFYKTADFTKNNMIFQPNLNDSEIQEHSKTMMKRVE 368
F + +N IQE+ + + RV
Sbjct: 463 SINFVHDKKSWE-------EMNA--IQEYFQRPITRVP 491
>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding,
RNA binding protein; 2.10A {Saccharomyces cerevisiae}
SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A
Length = 400
Score = 59.5 bits (145), Expect = 7e-10
Identities = 41/202 (20%), Positives = 71/202 (35%), Gaps = 29/202 (14%)
Query: 176 AT-PVVIDDICTSLMLRDPNIINTGFDRPNLYLA------ASVKQD---DIMADLRKLTN 225
AT P+ + + + P IN L L A V++ + L
Sbjct: 202 ATFPLTVKEFMVKHL-HKPYEINL---MEELTLKGITQYYAFVEERQKLHCLNTLFSKLQ 257
Query: 226 FENQFEGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVV 285
II+C + E + ++ G HA + ++R ++ F + ++ +
Sbjct: 258 IN-----QAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTL 312
Query: 286 VATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFYKTADFTKNNM 345
V + GID V VI++ PK Y IGR+GR G + D
Sbjct: 313 VCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDR----- 367
Query: 346 IFQPNLNDSEIQEHSKTMMKRV 367
NL I++ T + +
Sbjct: 368 ---FNLYK--IEQELGTEIAAI 384
>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation,
rRNA processing, mRNA splicing, mRNA transport; HET:
ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB:
2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B
2zu6_A
Length = 410
Score = 59.1 bits (144), Expect = 1e-09
Identities = 36/154 (23%), Positives = 61/154 (39%), Gaps = 15/154 (9%)
Query: 215 DIMADLRKLTNFENQFEGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIH 274
D + DL +I+C TK + + + + H + K+R+ I
Sbjct: 265 DTLCDLYDTLTIT-----QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIM 319
Query: 275 GLFVKDLIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTF 334
F +V+++T + G+D P V +I+Y P + Y IGR+GR G V F
Sbjct: 320 KEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINF 379
Query: 335 YKTADFTKNNMIFQPNLNDSEIQEHSKTMMKRVE 368
K D L D I+++ T + +
Sbjct: 380 VKNDDI--------RILRD--IEQYYSTQIDEMP 403
>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis,
cell cycle, nucleus, phosph RNA-binding, ATP-binding,
helicase, hydrolase; 3.50A {Homo sapiens}
Length = 414
Score = 58.7 bits (143), Expect = 1e-09
Identities = 43/202 (21%), Positives = 70/202 (34%), Gaps = 25/202 (12%)
Query: 176 AT-PVVIDDICTSLMLRDPNIINTGFDRPNL------YLAASVKQD--DIMADLRKLTNF 226
AT P + ++ M RDP I + L Y+ ++ D + DL +
Sbjct: 222 ATMPSDVLEVTKKFM-RDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYETLTI 280
Query: 227 ENQFEGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVV 286
+I+ T+ + + + + H + K+R I F +V++
Sbjct: 281 T-----QAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLI 335
Query: 287 ATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFYKTADFTKNNMI 346
T GID V VI+Y P + Y IGR GR G V D
Sbjct: 336 TTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDK------ 389
Query: 347 FQPNLNDSEIQEHSKTMMKRVE 368
L D I+ T ++ +
Sbjct: 390 --RTLRD--IETFYNTSIEEMP 407
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 56.8 bits (138), Expect = 6e-09
Identities = 31/114 (27%), Positives = 50/114 (43%), Gaps = 5/114 (4%)
Query: 231 EGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCA 290
+ T+++ TK + + D L G H S + R+E F ++VAT
Sbjct: 276 DSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAV 335
Query: 291 FGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFYKTADFTKNN 344
G+D +V+ VI++ P D+ Y IGR GR G + +F F + N
Sbjct: 336 AARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSF-----FNERN 384
>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex,
ATPase, riken structural genomics/proteomics initiative,
RSGI; HET: ANP; 2.20A {Drosophila melanogaster}
Length = 434
Score = 56.8 bits (138), Expect = 6e-09
Identities = 30/115 (26%), Positives = 50/115 (43%)
Query: 221 RKLTNFENQFEGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKD 280
KL ++ TI++ TK + + LS H QR++ F
Sbjct: 290 SKLIEILSEQADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNG 349
Query: 281 LIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFY 335
+KV++AT G+D +++ VI+Y P + Y IGR GR G + +F+
Sbjct: 350 SMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFF 404
>2yjt_D ATP-dependent RNA helicase SRMB, regulator of ribonuclease activity
A; hydrolase inhibitor-hydrolase complex, DEAD box RNA
helicase; 2.90A {Escherichia coli}
Length = 170
Score = 51.0 bits (123), Expect = 7e-08
Identities = 29/139 (20%), Positives = 52/139 (37%), Gaps = 21/139 (15%)
Query: 234 TIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGM 293
+I++ + ++ + L GI N + +R E + + V+VAT
Sbjct: 33 SIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAAR 92
Query: 294 GIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFYKTADFTKNNMIFQPNLND 353
GID PDV V ++ P+ Y IGR R G +
Sbjct: 93 GIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISL------------------- 133
Query: 354 SEIQEHSKTMMKRVEKYLE 372
++ H ++ +V +Y+E
Sbjct: 134 --VEAHDHLLLGKVGRYIE 150
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal
helicase, DNA repair,, DNA binding protein/DNA complex;
3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2
c.37.1.19 c.37.1.19 PDB: 2p6u_A
Length = 702
Score = 53.7 bits (129), Expect = 9e-08
Identities = 33/141 (23%), Positives = 47/141 (33%), Gaps = 39/141 (27%)
Query: 232 GSTIIYCPTKVICEKVCDVLSRNGIQNRP------------------------------Y 261
G +++ T+ EK LS + +
Sbjct: 243 GGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSRKLAECVRKGAAFH 302
Query: 262 HAHISLKQRKEIHGLFVKDLIKVVVATCAFGMGIDKPDVRCVI------HYGAPKDLSA- 314
HA + QR+ + F + IKVVVAT G++ P R VI G K +
Sbjct: 303 HAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLP-ARRVIVRSLYRFDGYSKRIKVS 361
Query: 315 -YYQEIGRAGRDGLSSVCYTF 334
Y Q GRAGR G+
Sbjct: 362 EYKQMAGRAGRPGMDERGEAI 382
>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA
dependent ATPase, RNA helicase; HET: ANP; 1.91A
{Saccharomyces cerevisiae S288C}
Length = 579
Score = 53.3 bits (128), Expect = 1e-07
Identities = 38/240 (15%), Positives = 80/240 (33%), Gaps = 32/240 (13%)
Query: 176 AT-PVVIDDICTSLMLRDPNIINTGFDRPNLYLAAS-VKQDDIMAD-------------L 220
AT + + + ++ + N A + Q ++++
Sbjct: 221 ATLDDKVQKL-ANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIK 279
Query: 221 RKLTNFENQFEGSTIIYCPTKVICEKVCDVLSRN---GIQNRPYHAHISLKQRKEIHGLF 277
+++ ++ + II+ PT +C +L + +H I+ +R + F
Sbjct: 280 KQIKERDSNY--KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRF 337
Query: 278 VKDLIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFY-- 335
KD ++V T G+D P+V V+ G P +L+ Y IGR R G F
Sbjct: 338 KKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICK 397
Query: 336 ---------KTADFTKNNMIFQPNLNDSEIQEHSKTMMKRVEKYLELRTCRRKYLLNHFK 386
+ A + ++ E + + + E ++ + K
Sbjct: 398 DELPFVRELEDAKNIVIAKQEKYEPSEEIKSEVLEAVTEEPEDISDIVISLISSYRSCIK 457
>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase,
mRNA-export, nuclear pore, hydrolase-RNA complex; HET:
ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A*
3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A
3pev_A* 3peu_A*
Length = 395
Score = 52.6 bits (127), Expect = 1e-07
Identities = 36/151 (23%), Positives = 62/151 (41%), Gaps = 17/151 (11%)
Query: 232 GSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAF 291
GS+II+ TK + L G + H + ++R + F + KV++ T
Sbjct: 244 GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 303
Query: 292 GMGIDKPDVRCVIHYGAP------KDLSAYYQEIGRAGRDGLSSVCYTFYKTAD------ 339
GID P V V++Y P D + Y IGR GR G V +F +
Sbjct: 304 ARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILS 363
Query: 340 ----FTKNNMIFQ-PNLNDSEIQEHSKTMMK 365
+ + + + P + E+++ K ++K
Sbjct: 364 AIQKYFGDIEMTRVPTDDWDEVEKIVKKVLK 394
>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore
complex, nucleocytoplasmic trans mRNA export, protein
interaction, beta-propeller; HET: ADP; 3.19A {Homo
sapiens}
Length = 479
Score = 52.3 bits (126), Expect = 2e-07
Identities = 57/261 (21%), Positives = 97/261 (37%), Gaps = 40/261 (15%)
Query: 124 LFLSRIPRIVLIAIDEA-HCVSQWGHDFRP-SYRCLSELRLPLPDVPILAVTATATPVVI 181
+ +I VL DEA ++ G + S R L P + +L +AT +
Sbjct: 231 IDPKKIKVFVL---DEADVMIATQG--HQDQSIRIQRML--P-RNCQMLLFSAT-FEDSV 281
Query: 182 DDICTSLMLRDPNIINTGFDRPNL------YLAASVKQD--DIMADLRKLTNFENQFEGS 233
++ DPN+I + L Y+ S + + + +L
Sbjct: 282 WKF-AQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITI-----AQ 335
Query: 234 TIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGM 293
+I+C T+ + LS+ G Q + ++QR + F + KV+V T
Sbjct: 336 AMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCAR 395
Query: 294 GIDKPDVRCVIHYGAP------KDLSAYYQEIGRAGRDGLSSVCYTFYKTADFTKNNMIF 347
GID V VI++ P D Y IGR GR G + + + N +
Sbjct: 396 GIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKH-SMNIL-- 452
Query: 348 QPNLNDSEIQEHSKTMMKRVE 368
+ IQEH ++R++
Sbjct: 453 ------NRIQEHFNKKIERLD 467
>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA
dependent ATPase, mRNA export, nucleocytoplasmic
transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens}
PDB: 3ews_A* 3g0h_A* 3fhc_B
Length = 412
Score = 52.2 bits (126), Expect = 2e-07
Identities = 57/261 (21%), Positives = 97/261 (37%), Gaps = 40/261 (15%)
Query: 124 LFLSRIPRIVLIAIDEA-HCVSQWGHDFRP-SYRCLSELRLPLPDVPILAVTATATPVVI 181
+ +I VL DEA ++ G + S R L P + +L +AT +
Sbjct: 164 IDPKKIKVFVL---DEADVMIATQG--HQDQSIRIQRML--P-RNCQMLLFSAT-FEDSV 214
Query: 182 DDICTSLMLRDPNIINTGFDRPNL------YLAASVKQD--DIMADLRKLTNFENQFEGS 233
++ DPN+I + L Y+ S + + + +L
Sbjct: 215 WKF-AQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITI-----AQ 268
Query: 234 TIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGM 293
+I+C T+ + LS+ G Q + ++QR + F + KV+V T
Sbjct: 269 AMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCAR 328
Query: 294 GIDKPDVRCVIHYGAP------KDLSAYYQEIGRAGRDGLSSVCYTFYKTADFTKNNMIF 347
GID V VI++ P D Y IGR GR G + + N++
Sbjct: 329 GIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKH--SMNIL- 385
Query: 348 QPNLNDSEIQEHSKTMMKRVE 368
+ IQEH ++R++
Sbjct: 386 ------NRIQEHFNKKIERLD 400
>3o8b_A HCV NS3 protease/helicase; ntpase, RNA, translocation, protein-RNA
compl protease/ntpase/helicase, hydrolase; 1.95A
{Hepatitis c virus} PDB: 3o8c_A* 3o8d_A* 3o8r_A* 4a92_A*
1cu1_A 2zjo_A* 1a1v_A* 1hei_A 3kqn_A* 3kql_A* 3kqu_A*
3kqh_A 3kqk_A 8ohm_A 2f55_A 1jr6_A 1onb_A
Length = 666
Score = 52.3 bits (125), Expect = 2e-07
Identities = 44/234 (18%), Positives = 62/234 (26%), Gaps = 52/234 (22%)
Query: 126 LSRIPRIVLIAIDEAHCVSQWGHDFRPSYRCLSELRLPLPDVPILAVTATATPVVIDDIC 185
+I DE H + + L V ATATP
Sbjct: 313 GCSGGAYDIIICDECHSTD---STTILGIGTVLDQAETAGA--RLVVLATATPP------ 361
Query: 186 TSLMLRDPNIINTGFDRPNLYLAASVKQDDIMADLRKLTNFENQFEGSTIIYCPTKVICE 245
S+ + PNI + K E G +I+C +K C+
Sbjct: 362 GSVTVPHPNIEEVALSNTG-----------EIPFYGKAIPIEAIRGGRHLIFCHSKKKCD 410
Query: 246 KVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGMGIDKPDVRCVIH 305
++ LS GI Y+ + + VVVAT A G D VI
Sbjct: 411 ELAAKLSGLGINAVAYYRGLDVSVIP-------TIGDVVVVATDALMTGY-TGDFDSVID 462
Query: 306 YG---------------------APKDLSAYYQEIGRAGRDGLSSVCYTFYKTA 338
P+D + Q GR GR +
Sbjct: 463 CNTCVTQTVDFSLDPTFTIETTTVPQDAVSRSQRRGRTGRGR-RGIYRFVTPGE 515
>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA
helicase, DEAD-BOX, ATP-binding, HE hydrolase,
mitochondrion; HET: ANP; 1.90A {Saccharomyces
cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A*
Length = 563
Score = 52.1 bits (125), Expect = 2e-07
Identities = 38/240 (15%), Positives = 80/240 (33%), Gaps = 32/240 (13%)
Query: 176 AT-PVVIDDICTSLMLRDPNIINTGFDRPNLYLAAS-VKQDDIMAD-------------L 220
AT + + + ++ + N A + Q ++++
Sbjct: 272 ATLDDKVQKLA-NNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIK 330
Query: 221 RKLTNFENQFEGSTIIYCPTKVICEKVCDVLSRN---GIQNRPYHAHISLKQRKEIHGLF 277
+++ ++ + II+ PT +C +L + +H I+ +R + F
Sbjct: 331 KQIKERDSNY--KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRF 388
Query: 278 VKDLIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFY-- 335
KD ++V T G+D P+V V+ G P +L+ Y IGR R G F
Sbjct: 389 KKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICK 448
Query: 336 ---------KTADFTKNNMIFQPNLNDSEIQEHSKTMMKRVEKYLELRTCRRKYLLNHFK 386
+ A + ++ E + + + E ++ + K
Sbjct: 449 DELPFVRELEDAKNIVIAKQEKYEPSEEIKSEVLEAVTEEPEDISDIVISLISSYRSCIK 508
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding,
hydrolase, nucleotide- binding; 2.00A {Pyrococcus
furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Length = 720
Score = 51.8 bits (124), Expect = 3e-07
Identities = 24/83 (28%), Positives = 34/83 (40%), Gaps = 10/83 (12%)
Query: 261 YHAHISLKQRKEIHGLFVKDLIKVVVATCAFGMGIDKPDVRCVI-----HY--GAPKDLS 313
+HA + +R + F K +IK VVAT GI+ P VI Y + +
Sbjct: 300 HHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTP-AFRVIIRDIWRYSDFGMERIP 358
Query: 314 A--YYQEIGRAGRDGLSSVCYTF 334
+Q +GRAGR V
Sbjct: 359 IIEVHQMLGRAGRPKYDEVGEGI 381
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 50.5 bits (121), Expect = 8e-07
Identities = 24/84 (28%), Positives = 34/84 (40%), Gaps = 11/84 (13%)
Query: 262 HAHISLKQRKEIHGLFVKDLIKVVVATCAFGMGIDKPDVRCVIH---------YGAPKDL 312
HA +S R I F + IKV+VAT G++ P +I G ++
Sbjct: 319 HAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEI 378
Query: 313 SA--YYQEIGRAGRDGLSSVCYTF 334
Y Q GRAGR G + +
Sbjct: 379 PIMEYKQMSGRAGRPGFDQIGESI 402
>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD;
ATP-binding, hydrolase, nucleotide-binding, RNA binding
protein, structural genomics; 1.90A {Sulfolobus
tokodaii}
Length = 337
Score = 48.7 bits (117), Expect = 2e-06
Identities = 35/164 (21%), Positives = 61/164 (37%), Gaps = 17/164 (10%)
Query: 176 AT-PVVIDDICTSLMLRDPNIINTGFDRPNL---YLAASVKQDDIMADLRKLTNFENQFE 231
AT P I + + + I N+ ++ + ++ L EN+ +
Sbjct: 168 ATIPEEIRKVVKDFI-TNYEEIEACIGLANVEHKFVHVKDDWR---SKVQALR--ENKDK 221
Query: 232 GSTIIYCPTKVICEKVCDVLSR-NGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCA 290
G I++ T+ K+ + + + R F + +++ T
Sbjct: 222 GV-IVFVRTRNRVAKLVRLFDNAIEL-----RGDLPQSVRNRNIDAFREGEYDMLITTDV 275
Query: 291 FGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTF 334
G+D P V VI++ AP+DL Y IGR GR G TF
Sbjct: 276 ASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITF 319
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 47.6 bits (112), Expect = 7e-06
Identities = 30/165 (18%), Positives = 60/165 (36%), Gaps = 14/165 (8%)
Query: 223 LTNFENQFEGSTIIYCPTKVICEKVCDVLSRN------------GIQNRPYHAHISLKQR 270
+ + E TI++ T+ + + + + N G ++L +
Sbjct: 381 QEEYHLKPETKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGMTLPAQ 440
Query: 271 KEIHGLFVKD-LIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRA-GRDGLS 328
K + F +++AT GID + VI Y ++ Q GR RD
Sbjct: 441 KCVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKMIQTRGRGRARDSKC 500
Query: 329 SVCYTFYKTADFTKNNMIFQPNLNDSEIQEHSKTMMKRVEKYLEL 373
+ + + K NMI + +N+S ++ + MK + +
Sbjct: 501 FLLTSSADVIEKEKANMIKEKIMNESILRLQTWDEMKFGKTVHRI 545
Score = 29.1 bits (64), Expect = 3.2
Identities = 9/38 (23%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 64 QVVYMTPEYVTN--NTSFLSRIPRIVLIAIDEAHCVSQ 99
++ +TP+ + N N + + L+ DE H S+
Sbjct: 104 DIIILTPQILVNNLNNGAIPSLSVFTLMIFDECHNTSK 141
>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*
Length = 556
Score = 46.9 bits (110), Expect = 1e-05
Identities = 19/117 (16%), Positives = 40/117 (34%), Gaps = 13/117 (11%)
Query: 223 LTNFENQFEGSTIIYCPTKVICEKVCDVLSRN------------GIQNRPYHAHISLKQR 270
+ + T+++ T+ + + + N G R ++L +
Sbjct: 382 DDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQ 441
Query: 271 KEIHGLFVK-DLIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDG 326
K + F ++++AT GID V+ Y +++ Q GR G
Sbjct: 442 KGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAG 498
Score = 27.6 bits (60), Expect = 9.9
Identities = 8/34 (23%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 64 QVVYMTPEYVTN--NTSFLSRIPRIVLIAIDEAH 95
++ +TP+ + N L+ + L+ DE H
Sbjct: 107 DIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECH 140
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.70A {Anas platyrhynchos}
Length = 936
Score = 46.1 bits (108), Expect = 2e-05
Identities = 19/114 (16%), Positives = 40/114 (35%), Gaps = 13/114 (11%)
Query: 226 FENQFEGSTIIYCPTKVICEKVCDVLSRN------------GIQNRPYHAHISLKQRKEI 273
+ + T+++ T+ + + + N G R ++L +K +
Sbjct: 626 YRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGV 685
Query: 274 HGLFVK-DLIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDG 326
F ++++AT GID V+ Y +++ Q GR G
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAG 739
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.40A {Anas platyrhynchos}
Length = 797
Score = 45.4 bits (106), Expect = 3e-05
Identities = 19/114 (16%), Positives = 40/114 (35%), Gaps = 13/114 (11%)
Query: 226 FENQFEGSTIIYCPTKVICEKVCDVLSRN------------GIQNRPYHAHISLKQRKEI 273
+ + T+++ T+ + + + N G R ++L +K +
Sbjct: 626 YRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGV 685
Query: 274 HGLFVK-DLIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDG 326
F ++++AT GID V+ Y +++ Q GR G
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAG 739
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 45.3 bits (106), Expect = 3e-05
Identities = 18/117 (15%), Positives = 36/117 (30%), Gaps = 1/117 (0%)
Query: 211 VKQDDIMADLRKLTNFENQFEGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQR 270
+ KL Q + + + + + D++ + + + R
Sbjct: 327 TGLSKRNKWIAKLAIKLAQKDENAFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETR 386
Query: 271 KEIHGLFVKDLIKVVVATCA-FGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDG 326
+ L ++VA+ F GI ++ V+ K Q IGR R
Sbjct: 387 NIMKTLAENGKGIIIVASYGVFSTGISVKNLHHVVLAHGVKSKIIVLQTIGRVLRKH 443
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 44.8 bits (106), Expect = 4e-05
Identities = 46/299 (15%), Positives = 85/299 (28%), Gaps = 63/299 (21%)
Query: 128 RIPRIVLIAIDEAHCVSQWGHDFRPSYRCLSELRLPLPDVPILAVTATATPVVIDDICTS 187
R+P L +DEAH + R E R+ + D + +TAT +
Sbjct: 90 RVPNYNLYIMDEAHFLDPASVAAR----GYIETRVSMGDAGAIFMTAT-----PPGTTEA 140
Query: 188 LMLRDPNIINTGFDRPNLYLAASVKQDDIMADLRKLTNFENQFEGSTIIYCPTKVICEKV 247
+ II+ P A + + I +F+G T+ + + ++
Sbjct: 141 FPPSNSPIIDEETRIP--DKAWNSGYEWI-----------TEFDGRTVWFVHSIKQGAEI 187
Query: 248 CDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGMG--IDKPDVRCVIH 305
L + G + + + + + V+ T MG VI
Sbjct: 188 GTCLQKAGKKVLYLNRKTFESEYPKCK----SEKWDFVITTDISEMGANF---KADRVID 240
Query: 306 YG---APKDL---------------SAYYQEIGRAGRDGL-SSVCYTFYKTADFTKNNM- 345
P L SA Q GR GR+ Y +
Sbjct: 241 PRKTIKPILLDGRVSMQGPIAITPASA-AQRRGRIGRNPEKLGDIYAYSGNVSSDNEGHV 299
Query: 346 -----------IFQPNLNDSEIQEHSKTMMKRVEKYLELRTCRRKYLLNHFKGSSVTVA 393
+ +++ + + E +L+T +RK + + V
Sbjct: 300 SWTEARMLLDNVHVQGGVVAQLYTPEREKTEAYEGEFKLKTNQRKVFSELIRTGDLPVW 358
>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase,
ATP-binding, reticulum, nucleotidyltransferase,
multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4}
PDB: 2vbc_A 2wzq_A
Length = 618
Score = 44.2 bits (104), Expect = 7e-05
Identities = 36/240 (15%), Positives = 67/240 (27%), Gaps = 52/240 (21%)
Query: 128 RIPRIVLIAIDEAHCVSQWGHDFRPSYRCLSELRLPLPDVPILAVTATATPVVIDDICTS 187
R+P LI +DEAH R R+ + + + +TAT
Sbjct: 274 RVPNYNLIVMDEAHFTDPCSVAAR----GYISTRVEMGEAAAIFMTAT------------ 317
Query: 188 LMLRDPNIINTGFDRPNLYLAASVKQDDIMADLRKLTNFENQFEGSTIIYCPTKVICEKV 247
P F + N ++++ ++ ++G T+ + P+ +
Sbjct: 318 -----PPGSTDPFPQSN-SPIEDIEREIPERSWNTGFDWITDYQGKTVWFVPSIKAGNDI 371
Query: 248 CDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGMG--IDKPDVRCVIH 305
+ L ++G + + + VV T MG VI
Sbjct: 372 ANCLRKSGKRVIQLSRKTFDTEYPKTK----LTDWDFVVTTDISEMGANF---RAGRVID 424
Query: 306 YGAPKDLSAYY--------------------QEIGRAGRDGLSSVCYTFYKTADFTKNNM 345
Q GR GR+ + + + D KN+
Sbjct: 425 PRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIGRNP-AQEDDQYVFSGDPLKNDE 483
>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold,
winged-helix-turn-helix, antiparallel-coiled-COI domain,
ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces
cerevisiae}
Length = 1108
Score = 44.1 bits (103), Expect = 9e-05
Identities = 25/92 (27%), Positives = 39/92 (42%), Gaps = 11/92 (11%)
Query: 244 CEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGMGIDKPDVRCV 303
+ + +L R GI +H+ + ++ I LF + +KV+ AT F +G++ P V
Sbjct: 496 IKHILPLLRR-GI--GIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVV 552
Query: 304 I--------HYGAPKDLSAYYQEIGRAGRDGL 327
Y Q GRAGR GL
Sbjct: 553 FTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGL 584
>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase,
tramp, exosome, DEAD, nucleotide-binding; HET: ADP;
2.90A {Saccharomyces cerevisiae}
Length = 1010
Score = 43.6 bits (102), Expect = 1e-04
Identities = 25/92 (27%), Positives = 39/92 (42%), Gaps = 11/92 (11%)
Query: 244 CEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGMGIDKPDVRCV 303
+ + +L R GI +H+ + ++ I LF + +KV+ AT F +G++ P V
Sbjct: 398 IKHILPLLRR-GI--GIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVV 454
Query: 304 I--------HYGAPKDLSAYYQEIGRAGRDGL 327
Y Q GRAGR GL
Sbjct: 455 FTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGL 486
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 43.0 bits (100), Expect = 2e-04
Identities = 22/114 (19%), Positives = 40/114 (35%), Gaps = 13/114 (11%)
Query: 226 FENQFEGSTIIYCPTKVICEKVCDVLSRN------------GIQNRPYHAHISLKQRKEI 273
+ E TI++ T+ + + + + + N G + ++L +K I
Sbjct: 393 YHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCI 452
Query: 274 HGLF-VKDLIKVVVATCAFGMGIDKPDVRCVIHYGAPKDLSAYYQEIGRAGRDG 326
F +++AT GID VI Y ++ Q GR G
Sbjct: 453 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARG 506
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 43.1 bits (101), Expect = 2e-04
Identities = 38/287 (13%), Positives = 78/287 (27%), Gaps = 72/287 (25%)
Query: 181 IDDICT-SLMLRDPNIINTGFDRP-NLYLAASVKQDDIMADLRKLT-NFENQFEGSTIIY 237
+D T L L ++ P + AS Q+ L + T F E +T
Sbjct: 1 MDAYSTRPLTLSHGSL-EHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPA- 58
Query: 238 CPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVA--TCAFGMGI 295
+++ + + ++S G F ++ + + + G
Sbjct: 59 -----------ELVGK-------FLGYVSSLVEPSKVGQF-DQVLNLCLTEFENCYLEGN 99
Query: 296 DKPDVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFYKTADFTKNNMIFQPNLNDSE 355
D IH L+A + + + K ++S
Sbjct: 100 D-------IH-----ALAAKLLQENDTTLVKTKELIKNYITARIMAKRPF---DKKSNSA 144
Query: 356 IQEHSKTMMKRV----------EKYL-ELRTCRRKY--LLNHF-KGSSVTVAESQVPPDK 401
+ ++ + Y ELR + Y L+ K S+ T++E
Sbjct: 145 LFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLD 204
Query: 402 CCDNCRHNEMLELEQVPRGGRMVVENSEVWMST-EARPGREAFEFLP 447
L + + W+ P ++ +P
Sbjct: 205 AEKVFTQG--LNILE--------------WLENPSNTPDKDYLLSIP 235
Score = 42.3 bits (99), Expect = 3e-04
Identities = 60/361 (16%), Positives = 103/361 (28%), Gaps = 116/361 (32%)
Query: 3 FQPN-LNDSEIQEHS----------KTMMKR---VEKYLELRTC-RRKY-------LLNH 40
F+ L ++I H+ T++K ++ Y+ R +R + L
Sbjct: 91 FENCYLEGNDI--HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRA 148
Query: 41 FK-GSSVTMAE--SQVPPDKCCDNCRQVVYMTPEYVTNNTSFLSRI-PRIVLIAIDEAHC 96
G++ +A Q D + R + Y T Y + + +
Sbjct: 149 VGEGNAQLVAIFGGQGNTDDYFEELRDL-YQT--YHVLVGDLIKFSAETLSELIRTTLDA 205
Query: 97 VSQWGHDFRPSYRCLSELRLP--LPDVPIL---FLSRIPRIVLIAIDEAH-CVSQWGHDF 150
+ L L P PD L +S P I +I + AH V+ F
Sbjct: 206 EKVFTQGLNI----LEWLENPSNTPDKDYLLSIPIS-CPLIGVIQL--AHYVVTAKLLGF 258
Query: 151 RPSYRCLSELRLPLPDV-----PILAVTATATPVVIDDI--CTSLMLRDPNIINTGFDR- 202
P ELR L ++ A A + + I G R
Sbjct: 259 TPG-----ELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFI--GV-RC 310
Query: 203 ----PNLYLAASVKQDDIMADLRKLTNFENQFEGS-----TIIYCPTKVICEKVCDVLSR 253
PN L S+ +D + EN EG +I + + + + +
Sbjct: 311 YEAYPNTSLPPSILEDSL----------ENN-EGVPSPMLSISNLTQEQV-QDYVNKTNS 358
Query: 254 NGIQNRPYHAHISLK--QRKEIHGLFVKDLIKVVVATCAFGMGIDKPDVRCVIHYGAPKD 311
+ + ISL + +VV+ G P+
Sbjct: 359 HLPAGK--QVEISLVNGAK------------NLVVS-------------------GPPQS 385
Query: 312 L 312
L
Sbjct: 386 L 386
Score = 38.1 bits (88), Expect = 0.006
Identities = 34/255 (13%), Positives = 73/255 (28%), Gaps = 86/255 (33%)
Query: 30 RTCRRKYLLNHFKGSSVTMAESQVPPDKCCDNCRQVVYMTPE---YVTNNTSFLSRIPRI 86
+ R Y F+ +++ + ++ + + + T T P +
Sbjct: 1682 KRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQ-----PAL 1736
Query: 87 VLIAIDEAHCVSQWGHDFRPSYRCLSELRLPLPDVPILFLSR--IPRIVLIAIDEAHCVS 144
L+ +L+ S+ IP A
Sbjct: 1737 TLM-----------------EKAAFEDLK-----------SKGLIPADATFA-------- 1760
Query: 145 QWGHDFRPS---Y---RCLSELRLPLPD-VPILAV----TATATPVVIDDICTS---LML 190
GH S Y L+++ + + V ++ A P D++ S ++
Sbjct: 1761 --GH----SLGEYAALASLADV-MSIESLVEVVFYRGMTMQVAVPR--DELGRSNYGMIA 1811
Query: 191 RDPNIINTGFDRPNLYLAASVKQDDIMADLRKLT-------NFENQFEGSTIIYCPTKVI 243
+P + F + L ++ + K T N+ N E +
Sbjct: 1812 INPGRVAASFSQEAL--------QYVVERVGKRTGWLVEIVNY-N-VENQQYVAAGDLRA 1861
Query: 244 CEKVCDVLSRNGIQN 258
+ V +VL+ +Q
Sbjct: 1862 LDTVTNVLNFIKLQK 1876
Score = 33.9 bits (77), Expect = 0.14
Identities = 34/217 (15%), Positives = 66/217 (30%), Gaps = 79/217 (36%)
Query: 292 GMGID----KPDVRCV-----IH----YG---------APKDLSAYYQ-EIGRAGRDGLS 328
GMG+D + V H YG P +L+ ++ E G+ R+ S
Sbjct: 1630 GMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYS 1689
Query: 329 SVCYTFYKTADFTKNNMIFQPNLNDSEIQ-EHSKTMMKR----------VEKYLELRTCR 377
++ + + + N + + K ++ +E +
Sbjct: 1690 AMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLME-KAAFEDLK 1748
Query: 378 RKYLLN---HFKGSS-------VTVAESQVPPDKCCDNCRHNEMLELEQV-----PRG-- 420
K L+ F G S ++A+ + +E + RG
Sbjct: 1749 SKGLIPADATFAGHSLGEYAALASLADV----------------MSIESLVEVVFYRGMT 1792
Query: 421 GRMVVENSEVWMSTEA----RPGR-------EAFEFL 446
++ V E+ S PGR EA +++
Sbjct: 1793 MQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYV 1829
>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic
subunit]; helicase, flavivirus, DEAD-BOX, ATPase,
rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP:
c.37.1.14 c.37.1.14 PDB: 1ymf_A*
Length = 440
Score = 42.1 bits (99), Expect = 3e-04
Identities = 36/236 (15%), Positives = 66/236 (27%), Gaps = 48/236 (20%)
Query: 128 RIPRIVLIAIDEAHCVSQWGHDFRPSYRCLSELRLPLPDVPILAVTATATPVVIDDICTS 187
R+ +I +DEAH + R + R + + +TAT +
Sbjct: 96 RVVNWEVIIMDEAHFLDPASIAAR----GWAAHRARANESATILMTATPPGTSDE----- 146
Query: 188 LMLRDPNIINTGFDRPNLYLAASVKQDDIMADLRKLTNFENQFEGSTIIYCPTKVICEKV 247
+ I + D P + D I + T + P+ +
Sbjct: 147 FPHSNGEIEDVQTDIP--SEPWNTGHDWI-----------LADKRPTAWFLPSIRAANVM 193
Query: 248 CDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGMGIDKPDVRCVIHYG 307
L + G + ++ I + ++AT MG + V V+
Sbjct: 194 AASLRKAGKSVVVLNRKTFEREYPTIK----QKKPDFILATDIAEMGANL-CVERVLDCR 248
Query: 308 -------------------APKDLSAYYQEIGRAGRDGLSSVCYTFYKTADFTKNN 344
S+ Q GR GR+ + Y ++ T N
Sbjct: 249 TAFKPVLVDEGRKVAIKGPLRISASSAAQRRGRIGRNP--NRDGDSYYYSEPTSEN 302
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 40.6 bits (95), Expect = 8e-04
Identities = 21/94 (22%), Positives = 37/94 (39%), Gaps = 11/94 (11%)
Query: 234 TIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGM 293
II+ + ++ V I S ++R+EI F + +V++
Sbjct: 352 IIIFTRHNELVYRISKVFLIPAI-----THRTSREEREEILEGFRTGRFRAIVSSQVLDE 406
Query: 294 GIDKPDVRCVI---HYGAPKDLSAYYQEIGRAGR 324
GID PD + G+ ++ Y Q +GR R
Sbjct: 407 GIDVPDANVGVIMSGSGSARE---YIQRLGRILR 437
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 38.0 bits (87), Expect = 0.002
Identities = 8/19 (42%), Positives = 11/19 (57%), Gaps = 1/19 (5%)
Query: 158 SELRLPLPD-VPILAVTAT 175
+ L+L D P LA+ AT
Sbjct: 27 ASLKLYADDSAPALAIKAT 45
Score = 28.0 bits (61), Expect = 3.7
Identities = 7/28 (25%), Positives = 10/28 (35%), Gaps = 12/28 (42%)
Query: 212 KQDDIMADLRKLTNFENQFEGSTIIYCP 239
KQ L+KL + S +Y
Sbjct: 19 KQA-----LKKL-------QASLKLYAD 34
>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane,
nucleotide-binding, RNA replication, transmembrane,
viral protein; 1.80A {Japanese encephalitis virus} PDB:
2v8o_A 2qeq_A
Length = 459
Score = 39.0 bits (91), Expect = 0.002
Identities = 40/300 (13%), Positives = 81/300 (27%), Gaps = 64/300 (21%)
Query: 128 RIPRIVLIAIDEAHCVSQWGHDFRPSYRCLSELRLPLPDVPILAVTATATPVVIDDICTS 187
R+P L +DEAH R ++ L + + +TAT
Sbjct: 109 RVPNYNLFVMDEAHFTDPASIAAR----GYIATKVELGEAAAIFMTATPPGTTDPF---- 160
Query: 188 LMLRDPNIINTGFDRPNLYLAASVKQDDIMADLRKLTNFENQFEGSTIIYCPTKVICEKV 247
P+ D + + + ++ G T+ + + + ++
Sbjct: 161 -----PDSNAPIHDLQDEIPDRAWS--SGYEWIT-------EYAGKTVWFVASVKMGNEI 206
Query: 248 CDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGMGIDKPDVRCVI--- 304
L R G + + + + V+ T MG + VI
Sbjct: 207 AMCLQRAGKKVIQLNRKSYDTEYPKCK----NGDWDFVITTDISEMGANF-GASRVIDCR 261
Query: 305 -------HYGAPKDLSAYY----------QEIGRAGRDGLSSVCYTFYKT---------- 337
+ Q GR GR + Y
Sbjct: 262 KSVKPTILEEGEGRVILGNPSPITSASAAQRRGRVGR--NPNQVGDEYHYGGATSEDDSN 319
Query: 338 -ADFTKNNMIFQ----PNLNDSEIQEHSKTMMKRVEKYLELRTCRRKYLLNHFKGSSVTV 392
A +T+ ++ PN +++ + ++ LR +K L + + + V
Sbjct: 320 LAHWTEAKIMLDNIHMPNGLVAQLYGPEREKAFTMDGEYRLRGEEKKNFLELLRTADLPV 379
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 39.1 bits (90), Expect = 0.003
Identities = 26/75 (34%), Positives = 33/75 (44%), Gaps = 10/75 (13%)
Query: 262 HAHISLKQRKEIHGLFVKDLIKVVVATCAFGMGIDKPDVRCVIHYGAPK---------DL 312
H + ++ I LF K IKV+ AT F MG++ P R VI K
Sbjct: 406 HGGLLPIVKELIEILFSKGFIKVLFATETFAMGLNLP-TRTVIFSSIRKHDGNGLRELTP 464
Query: 313 SAYYQEIGRAGRDGL 327
+ Q GRAGR GL
Sbjct: 465 GEFTQMAGRAGRRGL 479
>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding,
viral nucleoprotein, endoplasmic reticulum, helicase,
hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A*
2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A
2bhr_A
Length = 451
Score = 38.3 bits (89), Expect = 0.005
Identities = 37/240 (15%), Positives = 66/240 (27%), Gaps = 52/240 (21%)
Query: 128 RIPRIVLIAIDEAHCVSQWGHDFRPSYRCLSELRLPLPDVPILAVTATATPVVIDDICTS 187
R+P LI +DEAH R R+ + + + +TAT
Sbjct: 107 RVPNYNLIVMDEAHFTDPCSVAAR----GYISTRVEMGEAAAIFMTAT-----PPGSTDP 157
Query: 188 LMLRDPNIINTGFDRPNLYLAASVKQDDIMADLRKLTNFENQFEGSTIIYCPTKVICEKV 247
+ I + + P + + D I ++G T+ + P+ +
Sbjct: 158 FPQSNSPIEDIEREIP--ERSWNTGFDWI-----------TDYQGKTVWFVPSIKAGNDI 204
Query: 248 CDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGMG--IDKPDVRCVIH 305
+ L ++G + + + VV T MG VI
Sbjct: 205 ANCLRKSGKRVIQLSRKTFDTEYPKTK----LTDWDFVVTTDISEMGANF---RAGRVID 257
Query: 306 YGAPKDLSAYY--------------------QEIGRAGRDGLSSVCYTFYKTADFTKNNM 345
Q GR GR+ + + + D KN+
Sbjct: 258 PRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIGRNP-AQEDDQYVFSGDPLKNDE 316
>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3
catalytic subunit; nucleotide-binding, capsid protein;
2.75A {Murray valley encephalitis virus}
Length = 673
Score = 38.4 bits (89), Expect = 0.005
Identities = 26/179 (14%), Positives = 45/179 (25%), Gaps = 31/179 (17%)
Query: 128 RIPRIVLIAIDEAHCVSQWGHDFRPSYRCLSELRLPLPDVPILAVTATATPVVIDDICTS 187
R+P L +DEAH R R+ + + +TAT T+
Sbjct: 329 RVPNYNLFVMDEAHFTDPASIAAR----GYIATRVEAGEAAAIFMTATPPGTSDPFPDTN 384
Query: 188 LMLRDPNIINTGFDRPNLYLAASVKQDDIMADLRKLTNFENQFEGSTIIYCPTKVICEKV 247
V + + + G T+ + + + ++
Sbjct: 385 ------------------SPVHDVSSEIPDRAWSSGFEWITDYAGKTVWFVASVKMSNEI 426
Query: 248 CDVLSRNGIQNRPYHAHISLKQRKEIHGLFVKDLIKVVVATCAFGMG--IDKPDVRCVI 304
L R G + + E V+ T MG VI
Sbjct: 427 AQCLQRAGKRVIQLNRKS---YDTEYP-KCKNGDWDFVITTDISEMGANF---GASRVI 478
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 37.0 bits (85), Expect = 0.012
Identities = 16/78 (20%), Positives = 30/78 (38%), Gaps = 2/78 (2%)
Query: 251 LSRNGIQNRPYHAHISLKQRKEIHGLF--VKDLIKVVVATCAFGMGIDKPDVRCVIHYGA 308
R GI+ +H +S+ +R F +V++ + G + ++ +
Sbjct: 524 REREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDL 583
Query: 309 PKDLSAYYQEIGRAGRDG 326
P + Q IGR R G
Sbjct: 584 PFNPDLLEQRIGRLDRIG 601
Score = 29.3 bits (65), Expect = 3.3
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 4/46 (8%)
Query: 134 LIAIDEAHCVSQWGHDFRPSYRCLSELRLPLPDVPILAVTATATPV 179
L+ +DEAH + Y+ + +L +P V +L TATP
Sbjct: 276 LLVVDEAHHLVWSEDAPSREYQAIEQLAEHVPGVLLL----TATPE 317
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 34.0 bits (78), Expect = 0.10
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 64 QVVYMTPEYVTNNTSFLSRIPRIVLIAIDEAH 95
V+ T EY+ + + L I + +DEAH
Sbjct: 347 NVLLTTYEYILKDRAELGSIKWQFMA-VDEAH 377
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 33.0 bits (74), Expect = 0.25
Identities = 31/185 (16%), Positives = 53/185 (28%), Gaps = 29/185 (15%)
Query: 166 DVPILAVTATATPVVIDDICTSLMLRDPNIINTGFDRPNLYLAASVKQDDIMADLRKLTN 225
+ V P ID + + + + R + +
Sbjct: 266 GLCAEEVHLCGEPAAIDLVMELMYTTGEEVEVRDYKRLTPISVLDHALESL--------- 316
Query: 226 FENQFEGSTIIYCPTKVICEKVCDVLSRNGIQNRPYHAHISLKQRKEIHGLF--VKDLIK 283
+ I C +K V + G+++ + + + F D K
Sbjct: 317 --DNLRPGDCIVCFSKNDIYSVSRQIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCK 374
Query: 284 VVVATCAFGMGIDKPDVRCVIHYGAPK--------------DLSAYYQEIGRAGRDGLS- 328
++VAT A GMG++ +R +I Y K S Q GRAGR
Sbjct: 375 ILVATDAIGMGLNLS-IRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGRFSSRF 433
Query: 329 SVCYT 333
Sbjct: 434 KEGEV 438
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H
RNA-binding helicase, innate immunity, IFIH1, S
genomics; 1.60A {Homo sapiens}
Length = 216
Score = 30.9 bits (70), Expect = 0.58
Identities = 10/74 (13%), Positives = 24/74 (32%), Gaps = 9/74 (12%)
Query: 30 RTCRRKYLLNHFKGSSVTMAESQVPPDKCCDNCRQVVYMTPEYVTNN--------TSFLS 81
R + +L ++ ++ ++ T + + N+ + +
Sbjct: 100 RKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLENGEDAGVQ 159
Query: 82 RIPRIVLIAIDEAH 95
+ LI IDE H
Sbjct: 160 -LSDFSLIIIDECH 172
>1r8e_A Multidrug-efflux transporter regulator; protein-DNA complex,
MERR-family transcription activator, MU binding protein;
HET: P4P; 2.40A {Bacillus subtilis} SCOP: a.6.1.3
d.60.1.1 PDB: 1exi_A* 1exj_A* 3iao_A 3q5p_A* 3d71_A*
3q3d_A* 3q1m_A* 3q2y_A* 3q5r_A* 3q5s_A* 3d70_A 3d6z_A*
3d6y_A* 1bow_A 2bow_A*
Length = 278
Score = 28.6 bits (64), Expect = 3.6
Identities = 15/76 (19%), Positives = 28/76 (36%), Gaps = 8/76 (10%)
Query: 254 NGIQNRPYHAHISLKQRKEIH-----GLFVKDLIKVVVATCAFGMGI-DKPDVR--CVIH 305
+G N Y A S + I +F L +++ M I P R C+ +
Sbjct: 163 DGFTNNSYGATFSFQPYTSIDEMTYRHIFTPVLTNKQISSITPDMEITTIPKGRYACIAY 222
Query: 306 YGAPKDLSAYYQEIGR 321
+P+ Q++ +
Sbjct: 223 NFSPEHYFLNLQKLIK 238
>1rtq_A Bacterial leucyl aminopeptidase; bimetallic, zinc, high resolution,
hydrolase; 0.95A {Vibrio proteolyticus} SCOP: c.56.5.4
PDB: 1txr_A* 1xry_A* 2dea_A 2nyq_A 3fh4_A 3vh9_A* 1lok_A
1cp6_A 1ft7_A* 1igb_A* 1amp_A 2iq6_A 2prq_A 3b3v_A
3b3w_A 3b7i_A* 3b3t_A 3b35_A 3b3c_A* 3b3s_A ...
Length = 299
Score = 28.6 bits (64), Expect = 3.9
Identities = 7/28 (25%), Positives = 11/28 (39%)
Query: 207 LAASVKQDDIMADLRKLTNFENQFEGST 234
V I + L +F N+F +T
Sbjct: 13 WLPQVDASQITGTISSLESFTNRFYTTT 40
>1z3i_X Similar to RAD54-like; recombination ATPase helicase,
recombination-DNA binding COM; 3.00A {Danio rerio} SCOP:
c.37.1.19 c.37.1.19
Length = 644
Score = 28.8 bits (65), Expect = 4.6
Identities = 6/54 (11%), Positives = 16/54 (29%), Gaps = 1/54 (1%)
Query: 42 KGSSVTMAESQVPPDKCCDNCRQVVYMTPEYVTNNTSFLSRIPRIVLIAIDEAH 95
+ + ++ ++ E + L + + L+ DE H
Sbjct: 150 SKDEIDSKLVNFISQQGMRIPTPILIISYETFRLHAEVLHKGK-VGLVICDEGH 202
>2vf7_A UVRA2, excinuclease ABC, subunit A.; DNA-binding protein,
nucleotide-binding, zinc-binding domain, SOS response,
metal-binding; HET: ADP; 2.30A {Deinococcus radiodurans}
PDB: 2vf8_A*
Length = 842
Score = 27.9 bits (63), Expect = 8.6
Identities = 15/93 (16%), Positives = 30/93 (32%), Gaps = 10/93 (10%)
Query: 290 AFGMGIDKP------DVRCVIHYGAPKDLSAYYQEIGRAGRDGLSSVCYTFYKTADFTKN 343
G+ +D P + R I + + + Y + A F +
Sbjct: 199 TLGIDVDVPWRELPEETRHWILFTDEQPVVPVYPGLTPAETQRALKKKMEPSYMGTF--S 256
Query: 344 NMIFQPNLNDSEIQEHSKTMMKRVEKYLELRTC 376
+ ++ + S +M KRV+ Y+ C
Sbjct: 257 SAR--RHVLHTFANTESASMKKRVQGYMISEEC 287
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.323 0.138 0.425
Gapped
Lambda K H
0.267 0.0478 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,105,111
Number of extensions: 432945
Number of successful extensions: 1077
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1012
Number of HSP's successfully gapped: 79
Length of query: 451
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 354
Effective length of database: 3,993,456
Effective search space: 1413683424
Effective search space used: 1413683424
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 59 (27.1 bits)