RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12983
(838 letters)
>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 = 613 bits (1583), Expect = 0.0
Identities = 133/468 (28%), Positives = 231/468 (49%), Gaps = 30/468 (6%)
Query: 378 VISADVSLSIPSILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLL--EGRD 435
+I + + + E + + KAI M F +T +Q +TI P+L E D
Sbjct: 5 LIHVPKEDNSKEVTLDSLLEEGV--LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHD 62
Query: 436 LVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYH 495
++ AKTG+GKT AFL+P + + N KF + +I++PTR+L++Q +K++ +
Sbjct: 63 VIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMN 122
Query: 496 HHTYGL----IMGGASRQAEAQKLAK-GINIIVATPGRLLDHLQNTPEFLYKNLQCLIID 550
+ ++GG +A K+ K NI++ATPGRL+D L+ ++ + ++D
Sbjct: 123 YGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLD 182
Query: 551 EADRILDIGFEEDMKQIVNLLPKRR-------QTMLFSATTTAKTETLTKLALKK-EPVY 602
EADR+L+IGF +D++ I +L ++ +T+LFSAT K + L + K E ++
Sbjct: 183 EADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLF 242
Query: 603 IGVDDTKEEATVAGLEQGYVVCPS-EKRFLLLFTFLKKN-----RKKKVMVFFSSCMSVK 656
+ D E ++Q V+ +KK K ++F +
Sbjct: 243 LDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTS 302
Query: 657 FHHELLN---YIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDW 713
F +L DLP++ HGK Q KRT+ +F E+GIL+CTDV ARG+D P V
Sbjct: 303 FLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHE 362
Query: 714 IVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQAKIPLNEFEFSWS 773
++Q P + YIHR+GRTAR G G ++L + +EL F+R L+ AK + + +
Sbjct: 363 VLQIGVPSELANYIHRIGRTARS-GKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYE 421
Query: 774 KISDIQLQLEKLISKNYFLNMSGKEAFKAYVRAYDSHHLKQIFDIDTM 821
+I+ ++ + +++ + + + +Y S + F +
Sbjct: 422 PSEEIKSEVLEAVTEE---PEDISDIVISLISSYRSCIKEYRFSERRI 466
Score = 86.4 bits (214), Expect = 1e-17
Identities = 18/75 (24%), Positives = 30/75 (40%), Gaps = 2/75 (2%)
Query: 172 TSAERRQTMLFSATTTAKTETLTKLALKK-EPVYIGVDDTKEEATVAGLEQGYVVCPS-E 229
SA+ +T+LFSAT K + L + K E +++ D E ++Q V+
Sbjct: 209 KSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFA 268
Query: 230 KRFLLLFTFLKKNHI 244
+KK
Sbjct: 269 NSIFAAVEHIKKQIK 283
>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 = 609 bits (1573), Expect = 0.0
Identities = 133/468 (28%), Positives = 231/468 (49%), Gaps = 30/468 (6%)
Query: 378 VISADVSLSIPSILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLL--EGRD 435
+I + + + E + + KAI M F +T +Q +TI P+L E D
Sbjct: 56 LIHVPKEDNSKEVTLDSLLEEGV--LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHD 113
Query: 436 LVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYH 495
++ AKTG+GKT AFL+P + + N KF + +I++PTR+L++Q +K++ +
Sbjct: 114 VIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMN 173
Query: 496 HHTYGL----IMGGASRQAEAQKLAK-GINIIVATPGRLLDHLQNTPEFLYKNLQCLIID 550
+ ++GG +A K+ K NI++ATPGRL+D L+ ++ + ++D
Sbjct: 174 YGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLD 233
Query: 551 EADRILDIGFEEDMKQIVNLLPKRR-------QTMLFSATTTAKTETLTKLALKK-EPVY 602
EADR+L+IGF +D++ I +L ++ +T+LFSAT K + L + K E ++
Sbjct: 234 EADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLF 293
Query: 603 IGVDDTKEEATVAGLEQGYVVCPS-EKRFLLLFTFLKKN-----RKKKVMVFFSSCMSVK 656
+ D E ++Q V+ +KK K ++F +
Sbjct: 294 LDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTS 353
Query: 657 FHHELLN---YIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDW 713
F +L DLP++ HGK Q KRT+ +F E+GIL+CTDV ARG+D P V
Sbjct: 354 FLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHE 413
Query: 714 IVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQAKIPLNEFEFSWS 773
++Q P + YIHR+GRTAR G G ++L + +EL F+R L+ AK + + +
Sbjct: 414 VLQIGVPSELANYIHRIGRTARS-GKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYE 472
Query: 774 KISDIQLQLEKLISKNYFLNMSGKEAFKAYVRAYDSHHLKQIFDIDTM 821
+I+ ++ + +++ + + + +Y S + F +
Sbjct: 473 PSEEIKSEVLEAVTEE---PEDISDIVISLISSYRSCIKEYRFSERRI 517
Score = 86.0 bits (213), Expect = 1e-17
Identities = 19/77 (24%), Positives = 31/77 (40%), Gaps = 2/77 (2%)
Query: 170 NLTSAERRQTMLFSATTTAKTETLTKLALKK-EPVYIGVDDTKEEATVAGLEQGYVVCPS 228
N SA+ +T+LFSAT K + L + K E +++ D E ++Q V+
Sbjct: 258 NSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEK 317
Query: 229 -EKRFLLLFTFLKKNHI 244
+KK
Sbjct: 318 FANSIFAAVEHIKKQIK 334
>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics,
structural genomics consort ATP-binding, hydrolase,
nucleotide-binding, RNA-B; 2.80A {Homo sapiens}
Length = 262
Score = 376 bits (967), Expect = e-125
Identities = 159/224 (70%), Positives = 188/224 (83%)
Query: 381 ADVSLSIPSILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSA 440
+ L + T F +L V ENTLKAI +MGFT MTEIQ ++I PLLEGRDL+ +A
Sbjct: 39 PSLPLGLTGAFEDTSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAA 98
Query: 441 KTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYG 500
KTGSGKTLAFL+PAVELI L+FMPRNGTG++I+SPTREL+MQTFGVLKELM +H HTYG
Sbjct: 99 KTGSGKTLAFLIPAVELIVKLRFMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYG 158
Query: 501 LIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGF 560
LIMGG++R AEAQKL GINIIVATPGRLLDH+QNTP F+YKNLQCL+IDEADRILD+GF
Sbjct: 159 LIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGF 218
Query: 561 EEDMKQIVNLLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIG 604
EE++KQI+ LLP RRQTMLFSAT T K E L +++LKKEP+Y+G
Sbjct: 219 EEELKQIIKLLPTRRQTMLFSATQTRKVEDLARISLKKEPLYVG 262
Score = 54.2 bits (131), Expect = 4e-08
Identities = 21/31 (67%), Positives = 26/31 (83%)
Query: 176 RRQTMLFSATTTAKTETLTKLALKKEPVYIG 206
RRQTMLFSAT T K E L +++LKKEP+Y+G
Sbjct: 232 RRQTMLFSATQTRKVEDLARISLKKEPLYVG 262
>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural
genomics, structural genomic consortium, SGC, hydrolase;
HET: ADP; 2.15A {Homo sapiens}
Length = 236
Score = 347 bits (893), Expect = e-114
Identities = 102/219 (46%), Positives = 150/219 (68%), Gaps = 4/219 (1%)
Query: 389 SILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTL 448
++ T+F + + TLK + + + +TEIQ +TI L+G+D++G+AKTGSGKTL
Sbjct: 20 NVNEITRFSDFP--LSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTL 77
Query: 449 AFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASR 508
AFLVP +E +Y L++ +G G++IISPTREL+ QTF VL+++ K H + GLI+GG
Sbjct: 78 AFLVPVLEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDL 137
Query: 509 QAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIV 568
+ EA+++ INI+V TPGRLL H+ T F +LQ L++DEADRILD+GF + M ++
Sbjct: 138 KHEAERI-NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVI 196
Query: 569 NLLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVDD 607
LPK+RQT+LFSAT T + L +L+LK P Y+ V +
Sbjct: 197 ENLPKKRQTLLFSATQTKSVKDLARLSLKN-PEYVWVHE 234
Score = 51.1 bits (123), Expect = 3e-07
Identities = 16/35 (45%), Positives = 24/35 (68%), Gaps = 1/35 (2%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDD 209
++RQT+LFSAT T + L +L+LK P Y+ V +
Sbjct: 201 KKRQTLLFSATQTKSVKDLARLSLKN-PEYVWVHE 234
>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 = 302 bits (775), Expect = 5e-95
Identities = 109/370 (29%), Positives = 188/370 (50%), Gaps = 14/370 (3%)
Query: 393 STQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLV 452
FE K L I + GF K + IQ IP + GRD++ AK G+GKT AF++
Sbjct: 20 GNTFEDFYLK--RELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVI 77
Query: 453 PAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEA 512
P +E + K N +I+ PTREL++QT V++ L K+ + + GG + + +
Sbjct: 78 PTLEKV-KPK---LNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDI 133
Query: 513 QKLAKGINIIVATPGRLLDHL-QNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLL 571
+L + ++I+V TPGR+LD + + + I+DEAD++L F+ ++QI++ L
Sbjct: 134 LRLNETVHILVGTPGRVLDLASRKVADL--SDCSLFIMDEADKMLSRDFKTIIEQILSFL 191
Query: 572 PKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEKRFL 631
P Q++LFSAT + L +P I + EE T+ G+ Q Y ++
Sbjct: 192 PPTHQSLLFSATFPLTVKEFMVKHLH-KPYEINL---MEELTLKGITQYYAFVEERQKLH 247
Query: 632 LLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNA 691
L T K + + ++F +S V+ + + + H + KQ +R F +F
Sbjct: 248 CLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQG 307
Query: 692 ETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEE 751
+ L+C+D+ RG+DI AV+ ++ +D P + Y+HR+GR+ R G G A+ ++ +
Sbjct: 308 KVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRF-GHLGLAINLINWND 366
Query: 752 LGFLRYLKQA 761
L ++Q
Sbjct: 367 RFNLYKIEQE 376
Score = 45.6 bits (109), Expect = 5e-05
Identities = 19/70 (27%), Positives = 28/70 (40%), Gaps = 4/70 (5%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEKRFLL 234
Q++LFSAT + L +P I + EE T+ G+ Q Y ++
Sbjct: 193 PTHQSLLFSATFPLTVKEFMVKHL-HKPYEINL---MEELTLKGITQYYAFVEERQKLHC 248
Query: 235 LFTFLKKNHI 244
L T K I
Sbjct: 249 LNTLFSKLQI 258
>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 = 296 bits (759), Expect = 2e-92
Identities = 108/382 (28%), Positives = 204/382 (53%), Gaps = 26/382 (6%)
Query: 396 FEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAV 455
F+ + + E+ L+ I GF K + IQ R I +++GRD++ +++G+GKT F + +
Sbjct: 39 FDTMG--LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVL 96
Query: 456 ELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKL 515
+ + +++ T +I++PTREL++Q L L Y + +GG + + +KL
Sbjct: 97 QCL-DIQ---VRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 152
Query: 516 AKGINIIVATPGRLLDHLQ----NTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLL 571
G +++ TPGR+ D ++ T + ++ L++DEAD +L+ GF+E + + L
Sbjct: 153 DYGQHVVAGTPGRVFDMIRRRSLRT-----RAIKMLVLDEADEMLNKGFKEQIYDVYRYL 207
Query: 572 PKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEK-RF 630
P Q +L SAT + +T + +P+ I V ++E T+ G++Q +V E+ +F
Sbjct: 208 PPATQVVLISATLPHEILEMTNKFMT-DPIRILV--KRDELTLEGIKQFFVAVEREEWKF 264
Query: 631 LLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCN 690
L + ++F ++ V + E + + V +HG Q +R + +F +
Sbjct: 265 DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRS 324
Query: 691 AETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPE 750
+ +L+ TDV ARGLD+P V I+ YD P++ + YIHR+GR+ R G G A+ ++ +
Sbjct: 325 GASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRY-GRKGVAINFVKND 383
Query: 751 ELGFLRYLKQA------KIPLN 766
++ LR ++Q ++P+N
Sbjct: 384 DIRILRDIEQYYSTQIDEMPMN 405
Score = 43.3 bits (103), Expect = 2e-04
Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEK 230
Q +L SAT + +T + +P+ I V ++E T+ G++Q +V E+
Sbjct: 209 PATQVVLISATLPHEILEMTNKFM-TDPIRILV--KRDELTLEGIKQFFVAVEREE 261
>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 = 294 bits (754), Expect = 1e-91
Identities = 114/385 (29%), Positives = 195/385 (50%), Gaps = 27/385 (7%)
Query: 394 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVP 453
F+ + E+ L+ I GF K + IQ R I P ++G D++ A++G+GKT F +
Sbjct: 40 DSFDDMNLS--ESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAIS 97
Query: 454 AVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQ 513
++ I L T ++++PTREL+ Q V+ L Y + +GG + +AE Q
Sbjct: 98 ILQQI-ELD---LKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQ 153
Query: 514 KL-AKGINIIVATPGRLLDHLQ----NTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIV 568
KL + +IIV TPGR+ D L + K ++ ++DEAD +L GF++ + I
Sbjct: 154 KLQMEAPHIIVGTPGRVFDMLNRRYLSP-----KYIKMFVLDEADEMLSRGFKDQIYDIF 208
Query: 569 NLLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEK 628
L Q +L SAT + +TK ++ +P+ I V KEE T+ G+ Q Y+ E+
Sbjct: 209 QKLNSNTQVVLLSATMPSDVLEVTKKFMR-DPIRILV--KKEELTLEGIRQFYINVEREE 265
Query: 629 -RFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQ 687
+ L + + ++F ++ V + E ++ D V +HG Q +R +
Sbjct: 266 WKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMRE 325
Query: 688 FCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLIL 747
F + + +L+ TD+ ARG+D+ V ++ YD P + + YIHR+GR R G G A+ ++
Sbjct: 326 FRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRF-GRKGVAINMV 384
Query: 748 RPEELGFLRYLKQA------KIPLN 766
E+ LR ++ ++PLN
Sbjct: 385 TEEDKRTLRDIETFYNTSIEEMPLN 409
Score = 44.1 bits (105), Expect = 1e-04
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEK 230
Q +L SAT + +TK + ++P+ I V KEE T+ G+ Q Y+ E+
Sbjct: 213 SNTQVVLLSATMPSDVLEVTKKFM-RDPIRILV--KKEELTLEGIRQFYINVEREE 265
>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 = 292 bits (749), Expect = 3e-91
Identities = 113/384 (29%), Positives = 195/384 (50%), Gaps = 27/384 (7%)
Query: 394 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVP 453
+F+ ++ EN L+ + GF + + IQ R I P++EG D++ A++G+GKT F +
Sbjct: 21 YKFDDMELD--ENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIA 78
Query: 454 AVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQ 513
A++ I + ++++PTREL++Q V+ L + +GG S +A+
Sbjct: 79 ALQRI-DTS---VKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAE 134
Query: 514 KLAKGINIIVATPGRLLDHLQ----NTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVN 569
L + I+V TPGR+ D++Q T ++ I+DEAD +L GF+E + QI
Sbjct: 135 GL-RDAQIVVGTPGRVFDNIQRRRFRT-----DKIKMFILDEADEMLSSGFKEQIYQIFT 188
Query: 570 LLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEK- 628
LLP Q +L SAT +T ++ PV I V K+E T+ G++Q YV E+
Sbjct: 189 LLPPTTQVVLLSATMPNDVLEVTTKFMR-NPVRILV--KKDELTLEGIKQFYVNVEEEEY 245
Query: 629 RFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQF 688
++ L + ++F ++ V+ L V I+ Q +R T +F
Sbjct: 246 KYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEF 305
Query: 689 CNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILR 748
+ + IL+ TD+ ARG+D+ V ++ YD P + + YIHR+GR R G G A+ +
Sbjct: 306 RSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRF-GRKGVAINFVT 364
Query: 749 PEELGFLRYLKQA------KIPLN 766
E++G +R L++ ++P +
Sbjct: 365 NEDVGAMRELEKFYSTQIEELPSD 388
Score = 42.9 bits (102), Expect = 3e-04
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 3/55 (5%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSE 229
Q +L SAT +T + + PV I V K+E T+ G++Q YV E
Sbjct: 192 PTTQVVLLSATMPNDVLEVTTKFM-RNPVRILV--KKDELTLEGIKQFYVNVEEE 243
>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 = 283 bits (726), Expect = 7e-88
Identities = 106/373 (28%), Positives = 184/373 (49%), Gaps = 14/373 (3%)
Query: 393 STQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLV 452
S+ F K L+AI D GF +E+Q IP + G D++ AK+G GKT F++
Sbjct: 7 SSGFRDFLLK--PELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVL 64
Query: 453 PAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGL-IMGGASRQAE 511
++ + ++++ TREL+ Q + KY + GG S + +
Sbjct: 65 ATLQQL-EPV---TGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKD 120
Query: 512 AQKLAKGI-NIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILD-IGFEEDMKQIVN 569
+ L K +I+V TPGR+L +N L K+++ I+DE D++L+ + D+++I
Sbjct: 121 EEVLKKNCPHIVVGTPGRILALARNKSLNL-KHIKHFILDECDKMLEQLDMRRDVQEIFR 179
Query: 570 LLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEKR 629
+ P +Q M+FSAT + + + + ++ +P+ I VDD + + T+ GL+Q YV ++
Sbjct: 180 MTPHEKQVMMFSATLSKEIRPVCRKFMQ-DPMEIFVDD-ETKLTLHGLQQYYVKLKDNEK 237
Query: 630 FLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFC 689
LF L +V++F S +LL + P + IH Q +R + + QF
Sbjct: 238 NRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFK 297
Query: 690 NAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHA-LLILR 748
+ + IL+ T++ RG+DI V+ YD P+D Y+HRV R R G+ G A +
Sbjct: 298 DFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRF-GTKGLAITFVSD 356
Query: 749 PEELGFLRYLKQA 761
+ L ++
Sbjct: 357 ENDAKILNDVQDR 369
Score = 45.3 bits (108), Expect = 5e-05
Identities = 20/65 (30%), Positives = 36/65 (55%), Gaps = 2/65 (3%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEKRFLL 234
+Q M+FSAT + + + + + ++P+ I VDD + + T+ GL+Q YV ++
Sbjct: 183 HEKQVMMFSATLSKEIRPVCRKFM-QDPMEIFVDD-ETKLTLHGLQQYYVKLKDNEKNRK 240
Query: 235 LFTFL 239
LF L
Sbjct: 241 LFDLL 245
>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 = 280 bits (719), Expect = 1e-87
Identities = 112/357 (31%), Positives = 184/357 (51%), Gaps = 31/357 (8%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
E +AI +MGF TE+Q++TIP +L+G+++V AKTGSGKT A+ +P +E
Sbjct: 3 EKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILE-------- 54
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVA 524
G ++++PTREL+ Q ++++ +Y + GG +A+ ++ + +I+VA
Sbjct: 55 --LGMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRV-RNADIVVA 111
Query: 525 TPGRLLDHL-QNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSAT 583
TPGRLLD + + + + +IIDEAD + ++GF +D+K I+ R+ T LFSAT
Sbjct: 112 TPGRLLDLWSKGVIDL--SSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSAT 169
Query: 584 TTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEKRFLLLFTFLKKNRKK 643
+ + K + I +A +E +V + R + L++N+ K
Sbjct: 170 IPEEIRKVVKDFI-TNYEEIEA-----CIGLANVEHKFVHVKDDWRSKVQ--ALRENKDK 221
Query: 644 KVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAA 703
V+VF + +L+ D + + G Q R F E +L+ TDVA+
Sbjct: 222 GVIVF---VRTRNRVAKLVRLFD-NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVAS 277
Query: 704 RGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQ 760
RGLDIP V+ ++ +D P D + YIHR+GRT R G G A+ + E K+
Sbjct: 278 RGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRM-GRKGEAITFILNEY----WLEKE 329
Score = 38.6 bits (91), Expect = 0.006
Identities = 13/60 (21%), Positives = 22/60 (36%), Gaps = 6/60 (10%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEKRFLL 234
R+ T LFSAT + + K + I +A +E +V + R +
Sbjct: 159 NRKITGLFSATIPEEIRKVVKDFI-TNYEEIEA-----CIGLANVEHKFVHVKDDWRSKV 212
>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 = 280 bits (718), Expect = 4e-87
Identities = 125/381 (32%), Positives = 197/381 (51%), Gaps = 22/381 (5%)
Query: 392 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGR-DLVGSAKTGSGKTLAF 450
F L + +N L AI + GF K T+IQ + IP L ++V A+TGSGKT +F
Sbjct: 4 EYMNFNELN--LSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASF 61
Query: 451 LVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQA 510
+P +EL+ NG II++PTREL++Q ++ L + I GG +
Sbjct: 62 AIPLIELV-----NENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYP 116
Query: 511 EAQKLAKGINIIVATPGRLLDHLQ-NTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVN 569
+ + L K NI+V TPGR+LDH+ T KN++ I+DEAD +L++GF +D+++I+N
Sbjct: 117 QIKAL-KNANIVVGTPGRILDHINRGTLNL--KNVKYFILDEADEMLNMGFIKDVEKILN 173
Query: 570 LLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEKR 629
K ++ +LFSAT + L K + + +I A +EQ YV +R
Sbjct: 174 ACNKDKRILLFSATMPREILNLAKKYMG-DYSFIKA------KINANIEQSYVEVNENER 226
Query: 630 FLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFC 689
F L LK N++ +VF + K +L I IHG Q +R F
Sbjct: 227 FEALCRLLK-NKEFYGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFK 285
Query: 690 NAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRP 749
+ IL+ TDV +RG+D+ ++ ++ Y P +P+ Y+HR+GRT R G G A+ I+
Sbjct: 286 QKKIRILIATDVMSRGIDVNDLNCVINYHLPQNPESYMHRIGRTGRA-GKKGKAISIINR 344
Query: 750 EELGFLRYL-KQAKIPLNEFE 769
E LRY+ + K+ + + +
Sbjct: 345 REYKKLRYIERAMKLKIKKLK 365
Score = 38.3 bits (90), Expect = 0.009
Identities = 19/74 (25%), Positives = 30/74 (40%), Gaps = 7/74 (9%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEKRFLL 234
+ ++ +LFSAT + L K + + +I A +EQ YV +RF
Sbjct: 177 KDKRILLFSATMPREILNLAKKYM-GDYSFIKA------KINANIEQSYVEVNENERFEA 229
Query: 235 LFTFLKKNHIGEIV 248
L LK +V
Sbjct: 230 LCRLLKNKEFYGLV 243
>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 = 274 bits (702), Expect = 7e-84
Identities = 107/349 (30%), Positives = 180/349 (51%), Gaps = 21/349 (6%)
Query: 404 CENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIY-NLK 462
+ + + G+ T IQ +IP + GRDL+ A+TGSGKT AFL+P + + +
Sbjct: 64 RDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPH 123
Query: 463 FMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTY---GLIMGGASRQAEAQKLAKGI 519
+ ++I+SPTREL++Q F E K+ +Y G++ GG S + + + + +G
Sbjct: 124 ELELGRPQVVIVSPTRELAIQIF---NEARKFAFESYLKIGIVYGGTSFRHQNECITRGC 180
Query: 520 NIIVATPGRLLDHLQNTPEFLYKNLQC---LIIDEADRILDIGFEEDMKQIVNLLPKR-- 574
++++ATPGRLLD + T + + +++DEADR+LD+GF EDM++I+ + R
Sbjct: 181 HVVIATPGRLLDFVDRT----FITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPE 236
Query: 575 RQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEKRFLLLF 634
QT++FSAT + + + LK V++ + + ++Q + L
Sbjct: 237 HQTLMFSATFPEEIQRMAGEFLKN-YVFVAIGIV--GGACSDVKQTIYEVNKYAKRSKLI 293
Query: 635 TFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETG 694
L + +VF + F L+ + P IHG + Q +R F N
Sbjct: 294 EILSEQ-ADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMK 352
Query: 695 ILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHA 743
+L+ T VA+RGLDI + ++ YD P +Y+HR+GRT R G++G A
Sbjct: 353 VLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRV-GNNGRA 400
Score = 33.3 bits (77), Expect = 0.30
Identities = 15/72 (20%), Positives = 28/72 (38%), Gaps = 3/72 (4%)
Query: 177 RQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEKRFLLLF 236
QT++FSAT + + + LK V++ + + ++Q + L
Sbjct: 237 HQTLMFSATFPEEIQRMAGEFLKN-YVFVAIGIV--GGACSDVKQTIYEVNKYAKRSKLI 293
Query: 237 TFLKKNHIGEIV 248
L + G IV
Sbjct: 294 EILSEQADGTIV 305
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 267 bits (684), Expect = 2e-81
Identities = 111/362 (30%), Positives = 178/362 (49%), Gaps = 30/362 (8%)
Query: 404 CENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF 463
E + I +T+ T +Q IP + E RDL+ A+TGSGKT AFL+P + IY+
Sbjct: 23 GEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGP 82
Query: 464 MPRNGTGI--------------IIISPTRELSMQTFGVLKELMKYHHHTY---GLIMGGA 506
++++PTREL++Q + +E K+ + + ++ GGA
Sbjct: 83 GEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIY---EEARKFSYRSRVRPCVVYGGA 139
Query: 507 SRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQ 566
+ + L +G +++VATPGRL+D ++ L + L++DEADR+LD+GFE +++
Sbjct: 140 DIGQQIRDLERGCHLLVATPGRLVDMMERGKIGL-DFCKYLVLDEADRMLDMGFEPQIRR 198
Query: 567 IVNLLPKR----RQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYV 622
IV R TM+FSAT + + L + L + +++ V +T + Q V
Sbjct: 199 IVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDE-YIFLAVGRV--GSTSENITQKVV 255
Query: 623 VCPSEKRFLLLFTFLKKNRKK-KVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKR 681
+ L L K +VF + + L + IHG + Q R
Sbjct: 256 WVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDR 315
Query: 682 TTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSG 741
QF + ++ IL+ T VAARGLDI V ++ +D P D +EY+HR+GRT R G+ G
Sbjct: 316 EEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRV-GNLG 374
Query: 742 HA 743
A
Sbjct: 375 LA 376
Score = 32.1 bits (74), Expect = 0.82
Identities = 15/67 (22%), Positives = 26/67 (38%), Gaps = 3/67 (4%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEKRFLL 234
R TM+FSAT + + L + L + +++ V +T + Q V +
Sbjct: 209 GVRHTMMFSATFPKEIQMLARDFLDE-YIFLAVGRV--GSTSENITQKVVWVEESDKRSF 265
Query: 235 LFTFLKK 241
L L
Sbjct: 266 LLDLLNA 272
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 267 bits (684), Expect = 2e-80
Identities = 91/388 (23%), Positives = 176/388 (45%), Gaps = 46/388 (11%)
Query: 421 EIQARTIPPLLEG--RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTR 478
+IQ + +P LL R+++G +++G+GKT AF + + + + I ++P+R
Sbjct: 144 KIQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRV-DAS---VPKPQAICLAPSR 199
Query: 479 ELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQ---- 534
EL+ Q V+ E+ KY G + K I++ TPG ++D ++
Sbjct: 200 ELARQIMDVVTEMGKYTEVK--TAFGIKDSVPKGAK--IDAQIVIGTPGTVMDLMKRRQL 255
Query: 535 NTPEFLYKNLQCLIIDEADRILD-IGFEEDMKQIVNLLPKRRQTMLFSATTTAKTETLTK 593
+ ++++ ++DEAD +LD G + +I +LLP+ Q +LFSAT + + E +
Sbjct: 256 DA-----RDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAE 310
Query: 594 LALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEK-------RFLLLFTFLKKNRKKKVM 646
I + EE +V G++Q Y+ C SE+ L T + +
Sbjct: 311 RFAP-NANEIRL--KTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTI------GQSI 361
Query: 647 VFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGL 706
+F + + + V C+ G + +R F + +L+ T+V ARG+
Sbjct: 362 IFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGI 421
Query: 707 DIPAVDWIVQYDPPD------DPKEYIHRVGRTARGEGSSGHALLILRPEE-LGFLRYLK 759
D+ V+ +V YD P DP+ Y+HR+GRT R G G ++ + ++ + ++
Sbjct: 422 DVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRF-GRVGVSINFVHDKKSWEEMNAIQ 480
Query: 760 QA-KIPLNEFEF-SWSKISDIQLQLEKL 785
+ + P+ + ++ + K+
Sbjct: 481 EYFQRPITRVPTDDYEELEKVVKNALKM 508
Score = 50.2 bits (121), Expect = 2e-06
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEK 230
Q +LFSAT + + E + I + EE +V G++Q Y+ C SE+
Sbjct: 290 RNTQIVLFSATFSERVEKYAERFAP-NANEIRL--KTEELSVEGIKQLYMDCQSEE 342
>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 = 260 bits (667), Expect = 3e-79
Identities = 93/379 (24%), Positives = 175/379 (46%), Gaps = 24/379 (6%)
Query: 392 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLA 449
S FE L+ K L+ + MGF + ++IQ +P +L ++L+ +++G+GKT A
Sbjct: 23 SVKSFEELRLK--PQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAA 80
Query: 450 FLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQ 509
F++ + + + +SPT EL++QT V++++ K++ ++
Sbjct: 81 FVLAMLSQV-EPA---NKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKL 136
Query: 510 AEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDI-GFEEDMKQIV 568
QK I++ TPG +LD K ++ ++DEAD ++ G ++ +I
Sbjct: 137 ERGQK--ISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 194
Query: 569 NLLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEK 628
+LP+ Q +LFSAT + + +P I + +EE T+ ++Q YV+C S
Sbjct: 195 RMLPRNCQMLLFSATFEDSVWKFAQKVVP-DPNVIKL--KREEETLDTIKQYYVLCSSRD 251
Query: 629 R-FLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQ 687
F L + M+F + + + L+ V + G+ +R +
Sbjct: 252 EKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIER 311
Query: 688 FCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKE------YIHRVGRTARGEGSSG 741
F + +L+ T+V ARG+D+ V ++ +D P D Y+HR+GRT R G G
Sbjct: 312 FREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRF-GKRG 370
Query: 742 HALLILRPEELGFLRYLKQ 760
A+ ++ + + L +
Sbjct: 371 LAVNMVDSKH--SMNILNR 387
Score = 43.3 bits (103), Expect = 2e-04
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEKR 231
Q +LFSAT + + +P I + +EE T+ ++Q YV+C S
Sbjct: 199 RNCQMLLFSATFEDSVWKFAQKVV-PDPNVIKL--KREEETLDTIKQYYVLCSSRDE 252
>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 = 259 bits (665), Expect = 4e-78
Identities = 92/395 (23%), Positives = 180/395 (45%), Gaps = 29/395 (7%)
Query: 392 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLA 449
S FE L+ + L+ + MGF + ++IQ +P +L ++L+ +++G+GKT A
Sbjct: 90 SVKSFEELR--LKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAA 147
Query: 450 FLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQ 509
F++ + + + +SPT EL++QT V++++ K++ ++
Sbjct: 148 FVLAMLSQV-EPA---NKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKL 203
Query: 510 AEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDI-GFEEDMKQIV 568
QK I++ TPG +LD K ++ ++DEAD ++ G ++ +I
Sbjct: 204 ERGQK--ISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 261
Query: 569 NLLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEK 628
+LP+ Q +LFSAT + + +P I + +EE T+ ++Q YV+C S
Sbjct: 262 RMLPRNCQMLLFSATFEDSVWKFAQKVVP-DPNVIKL--KREEETLDTIKQYYVLCSSRD 318
Query: 629 R-FLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQ 687
F L + M+F + + + L+ V + G+ +R +
Sbjct: 319 EKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIER 378
Query: 688 FCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKE------YIHRVGRTARGEGSSG 741
F + +L+ T+V ARG+D+ V ++ +D P D Y+HR+GRT R G G
Sbjct: 379 FREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRF-GKRG 437
Query: 742 HA-LLILRPEELGFLRYLKQA------KIPLNEFE 769
A ++ + L +++ ++ ++ +
Sbjct: 438 LAVNMVDSKHSMNILNRIQEHFNKKIERLDTDDLD 472
Score = 43.5 bits (103), Expect = 3e-04
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 3/55 (5%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSE 229
Q +LFSAT + + +P I + +EE T+ ++Q YV+C S
Sbjct: 266 RNCQMLLFSATFEDSVWKFAQKVV-PDPNVIKL--KREEETLDTIKQYYVLCSSR 317
>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 = 255 bits (654), Expect = 2e-77
Identities = 106/403 (26%), Positives = 184/403 (45%), Gaps = 47/403 (11%)
Query: 392 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLA 449
+ F+ L + LK I M F K ++IQ R +P LL R+++ +++G+GKT A
Sbjct: 3 MAKSFDELG--LAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAA 60
Query: 450 FLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGAS-- 507
F + + + N + I ++P+REL+ QT V++E+ K+ T LI+ +
Sbjct: 61 FSLTMLTRV-NPE---DASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEK 116
Query: 508 -RQAEAQKLAKGINIIVATPGRLLDHLQ----NTPEFLYKNLQCLIIDEADRILD-IGFE 561
+Q AQ +IV TPG +LD ++ + ++ ++DEAD +LD G
Sbjct: 117 NKQINAQ-------VIVGTPGTVLDLMRRKLMQL-----QKIKIFVLDEADNMLDQQGLG 164
Query: 562 EDMKQIVNLLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGY 621
+ ++ LPK Q +LFSAT K + + + E V ++Q Y
Sbjct: 165 DQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVP-NANTLEL--QTNEVNVDAIKQLY 221
Query: 622 VVCPSEK-RFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMK 680
+ C +E +F +L ++F ++ + + L V +HG + +
Sbjct: 222 MDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQE 281
Query: 681 RTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPP------DDPKEYIHRVGRTA 734
R F + +L+ T+V ARG+DIP V +V YD P DP YIHR+GRT
Sbjct: 282 RDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTG 341
Query: 735 RGEGSSGHALLILRP-EELGFLRYLKQA-------KIPLNEFE 769
R G G A+ + L +++ ++P ++++
Sbjct: 342 RF-GRKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVPTDDWD 383
Score = 44.9 bits (107), Expect = 7e-05
Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 3/56 (5%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEK 230
+ Q +LFSAT K + + + E V ++Q Y+ C +E
Sbjct: 176 KDTQLVLFSATFADAVRQYAKKIVP-NANTLEL--QTNEVNVDAIKQLYMDCKNEA 228
>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural
genomics, structural GEN consortium, SGC, ATP-binding,
hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}
Length = 249
Score = 237 bits (606), Expect = 1e-72
Identities = 83/215 (38%), Positives = 128/215 (59%), Gaps = 7/215 (3%)
Query: 392 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFL 451
+ F+ L V + +A +G+TK T+IQ IP L+GRD++G A+TGSGKT AF
Sbjct: 41 ETKTFKDLG--VTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFA 98
Query: 452 VPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAE 511
+P + + ++++PTREL+ Q + L +I+GG ++
Sbjct: 99 LPILNALLETPQRLF----ALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQ 154
Query: 512 AQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLL 571
+ LAK +II+ATPGRL+DHL+NT F + L+ L++DEADRIL++ FE ++ +I+ ++
Sbjct: 155 SLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVI 214
Query: 572 PKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVD 606
P+ R+T LFSAT T K + L + ALK PV V
Sbjct: 215 PRDRKTFLFSATMTKKVQKLQRAALKN-PVKCAVS 248
Score = 40.0 bits (94), Expect = 0.002
Identities = 16/34 (47%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVD 208
R+T LFSAT T K + L + ALK PV V
Sbjct: 216 RDRKTFLFSATMTKKVQKLQRAALKN-PVKCAVS 248
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 236 bits (604), Expect = 3e-70
Identities = 64/413 (15%), Positives = 131/413 (31%), Gaps = 54/413 (13%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
E+ +T Q +++G+ A TG GKT ++ A+ L
Sbjct: 8 EDFRSFFKKKFGKDLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLA------ 61
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHT------YGLIMGGASRQAEAQKLAKG 518
R G ++ PT L QT + L K Y + + E
Sbjct: 62 -RKGKKSALVFPTVTLVKQTL---ERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFEEDD 117
Query: 519 INIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTM 578
+I+V + + + + K + +D+ D +L D ++ +P+
Sbjct: 118 YHILVFSTQFVSKNR---EKLSQKRFDFVFVDDVDAVLKASRNIDTLLMMVGIPEEIIRK 174
Query: 579 LFSATTTAKTETLTKLALKKEPV------------------YIGVDDTKEEATVAGLEQG 620
FS K K V + + + +
Sbjct: 175 AFSTIKQGKIYERPKNLKPGILVVSSATAKPRGIRPLLFRDLLNFTVGRLVSVARNITHV 234
Query: 621 YVVCPSEKRFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMK 680
+ S+++ + L + +++F + K +E L V +
Sbjct: 235 RISSRSKEKLVELLEIF----RDGILIFAQTEEEGKELYEYLKRFKFNVGETWS-----E 285
Query: 681 RTTTFFQFCNAETGILLCTDV----AARGLDIP-AVDWIVQYDPP--DDPKEYIHRVGRT 733
F F + IL+ RG+D+P + +++ + P D YI GR+
Sbjct: 286 FEKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQASGRS 345
Query: 734 AR-GEGSSGHALLILRPEELGFLRYLKQAKIPLNEFEFSWSKISDIQLQLEKL 785
+R G + ++ E+ LK + + E E ++ + + ++
Sbjct: 346 SRILNGVLVKGVSVIFEEDEEIFESLKTRLLLIAEEEIIEEAEANWKELVHEV 398
Score = 30.5 bits (69), Expect = 2.3
Identities = 8/88 (9%), Positives = 19/88 (21%), Gaps = 18/88 (20%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPV------------------YIGVDDTKEEATV 216
E FS K K V + + +
Sbjct: 169 EEIIRKAFSTIKQGKIYERPKNLKPGILVVSSATAKPRGIRPLLFRDLLNFTVGRLVSVA 228
Query: 217 AGLEQGYVVCPSEKRFLLLFTFLKKNHI 244
+ + S+++ + L + +
Sbjct: 229 RNITHVRISSRSKEKLVELLEIFRDGIL 256
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 209 bits (534), Expect = 1e-62
Identities = 71/218 (32%), Positives = 116/218 (53%), Gaps = 12/218 (5%)
Query: 392 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFL 451
+ TQF ++AI + F K TEIQ R IP L G +VG ++TG+GKT A+L
Sbjct: 2 AETQFTRFP--FQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYL 59
Query: 452 VPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGL----IMGGAS 507
+P +E I + R +I +PTREL+ Q + ++ K+ + ++GG
Sbjct: 60 LPIMEKI-KPE---RAEVQAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTD 115
Query: 508 RQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQI 567
+Q +KL +I++ TPGR+ D ++ ++ L++DEAD +LD+GF D+ QI
Sbjct: 116 KQKALEKLNVQPHIVIGTPGRINDFIREQALDVH-TAHILVVDEADLMLDMGFITDVDQI 174
Query: 568 VNLLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGV 605
+PK Q ++FSAT K + K + + P ++ V
Sbjct: 175 AARMPKDLQMLVFSATIPEKLKPFLKKYM-ENPTFVHV 211
Score = 32.1 bits (74), Expect = 0.48
Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGV 207
+ Q ++FSAT K + K + + P ++ V
Sbjct: 180 KDLQMLVFSATIPEKLKPFLKKYM-ENPTFVHV 211
>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic
resolution, AMP complex, ribosome biogenesis,
thermophilic, hydrolase; HET: AMP; 1.20A {Thermus
thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A*
3mwl_A* 3nbf_A* 3nej_A
Length = 207
Score = 199 bits (508), Expect = 4e-59
Identities = 75/212 (35%), Positives = 118/212 (55%), Gaps = 11/212 (5%)
Query: 396 FEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAV 455
F+ + L+A+ G T T IQA +P LEG+DL+G A+TG+GKTLAF +P
Sbjct: 3 FKDFP--LKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIA 60
Query: 456 ELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGL-IMGGASRQAEAQK 514
E + ++++PTREL++Q V EL H + + GG + +
Sbjct: 61 ERL-APSQERGRKPRALVLTPTRELALQ---VASELTAVAPHLKVVAVYGGTGYGKQKEA 116
Query: 515 LAKGINIIVATPGRLLDHL-QNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPK 573
L +G + +VATPGR LD+L Q + ++ ++DEAD +L +GFEE+++ +++ P
Sbjct: 117 LLRGADAVVATPGRALDYLRQGVLDL--SRVEVAVLDEADEMLSMGFEEEVEALLSATPP 174
Query: 574 RRQTMLFSATTTAKTETLTKLALKKEPVYIGV 605
RQT+LFSAT + + L + + K PV I V
Sbjct: 175 SRQTLLFSATLPSWAKRLAERYM-KNPVLINV 205
Score = 31.4 bits (72), Expect = 0.90
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGV 207
RQT+LFSAT + + L + + K PV I V
Sbjct: 174 PSRQTLLFSATLPSWAKRLAERYM-KNPVLINV 205
>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural
genomics, structural GEN consortium, SGC, rRNA,
ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}
Length = 245
Score = 197 bits (504), Expect = 4e-58
Identities = 70/220 (31%), Positives = 108/220 (49%), Gaps = 12/220 (5%)
Query: 394 TQFEALKG--KVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFL 451
F+ L K+ L+ I D GF T IQ + IP +L GR+L+ SA TGSGKTLAF
Sbjct: 25 ATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFS 84
Query: 452 VPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQA- 510
+P ++ LK G +IISPTREL+ Q L ++ + +I A
Sbjct: 85 IP---ILMQLKQPANKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKK 141
Query: 511 EAQKLAKGINIIVATPGRLLDHL-QNTPEFLYKNLQCLIIDEADRILDI---GFEEDMKQ 566
K +K +I+V TP RL+ L Q+ P +++ L++DE+D++ + GF + +
Sbjct: 142 FGPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLAS 201
Query: 567 IVN-LLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGV 605
I + + +FSAT E KL L + + +
Sbjct: 202 IFLACTSHKVRRAMFSATFAYDVEQWCKLNLDN-VISVSI 240
Score = 32.9 bits (76), Expect = 0.30
Identities = 8/32 (25%), Positives = 14/32 (43%), Gaps = 1/32 (3%)
Query: 176 RRQTMLFSATTTAKTETLTKLALKKEPVYIGV 207
+ + +FSAT E KL L + + +
Sbjct: 210 KVRRAMFSATFAYDVEQWCKLNLDN-VISVSI 240
>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding
protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19
Length = 206
Score = 194 bits (496), Expect = 2e-57
Identities = 62/192 (32%), Positives = 113/192 (58%), Gaps = 10/192 (5%)
Query: 394 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVP 453
+FE + L I +MG+ K + IQ +IP L GRD++ AK G+GK+ A+L+P
Sbjct: 3 NEFEDYC--LKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIP 60
Query: 454 AVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGL-IMGGASRQAEA 512
+E + +LK ++ ++I PTREL++Q + ++ K+ + GG + + +
Sbjct: 61 LLERL-DLK---KDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDI 116
Query: 513 QKLAKGINIIVATPGRLLDHLQ-NTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLL 571
+L +++++ATPGR+LD ++ + ++Q +++DEAD++L F + M+ I+ L
Sbjct: 117 MRLDDTVHVVIATPGRILDLIKKGVAKV--DHVQMIVLDEADKLLSQDFVQIMEDIILTL 174
Query: 572 PKRRQTMLFSAT 583
PK RQ +L+SAT
Sbjct: 175 PKNRQILLYSAT 186
Score = 28.3 bits (64), Expect = 8.2
Identities = 6/11 (54%), Positives = 9/11 (81%)
Query: 175 ERRQTMLFSAT 185
+ RQ +L+SAT
Sbjct: 176 KNRQILLYSAT 186
>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX,
structural genomics, structural genomi consortium, SGC,
ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}
Length = 228
Score = 195 bits (498), Expect = 2e-57
Identities = 73/204 (35%), Positives = 117/204 (57%), Gaps = 13/204 (6%)
Query: 408 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRN 467
LK+I +G K T IQ++ P +L+G DL+ A+TG+GKTL++L+P + +
Sbjct: 32 LKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQ 91
Query: 468 GTGII--IISPTRELSMQTFGVLKELMKYHHHTYGL----IMGGASRQAEAQKLAKGINI 521
G +++PTREL++ V E KY + GL I GG +R + + ++KG++I
Sbjct: 92 RNGPGMLVLTPTRELALH---VEAECSKYSY--KGLKSICIYGGRNRNGQIEDISKGVDI 146
Query: 522 IVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
I+ATPGRL D N L +++ L+IDEAD++LD+ FE +++I+ + RQT++ S
Sbjct: 147 IIATPGRLNDLQMNNSVNL-RSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTS 205
Query: 582 ATTTAKTETLTKLALKKEPVYIGV 605
AT L LK P+ + V
Sbjct: 206 ATWPDTVRQLALSYLKD-PMIVYV 228
Score = 30.2 bits (69), Expect = 2.2
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 177 RQTMLFSATTTAKTETLTKLALKKEPVYIGV 207
RQT++ SAT L LK P+ + V
Sbjct: 199 RQTVMTSATWPDTVRQLALSYLKD-PMIVYV 228
>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family,
gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP:
c.37.1.19 PDB: 1qva_A
Length = 224
Score = 190 bits (486), Expect = 7e-56
Identities = 71/225 (31%), Positives = 118/225 (52%), Gaps = 19/225 (8%)
Query: 394 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVP 453
+F+ ++ EN L+ + GF + + IQ R I P++EG D++ A++G+GKT F +
Sbjct: 14 YKFDDMELD--ENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIA 71
Query: 454 AVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQ 513
A++ I + ++++PTREL++Q V+ L + +GG S +A+
Sbjct: 72 ALQRI-DTS---VKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAE 127
Query: 514 KLAKGINIIVATPGRLLDHLQ----NTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVN 569
L + I+V TPGR+ D++Q T ++ I+DEAD +L GF+E + QI
Sbjct: 128 GL-RDAQIVVGTPGRVFDNIQRRRFRT-----DKIKMFILDEADEMLSSGFKEQIYQIFT 181
Query: 570 LLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATV 614
LLP Q +L SAT +T + + PV I V K+E T+
Sbjct: 182 LLPPTTQVVLLSATMPNDVLEVTTKFM-RNPVRILV--KKDELTL 223
Score = 31.4 bits (72), Expect = 0.95
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATV 216
Q +L SAT +T + + PV I V K+E T+
Sbjct: 185 PTTQVVLLSATMPNDVLEVTTKFM-RNPVRILV--KKDELTL 223
>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX,
structural genomics, helic binding, HOST-virus
interaction, hydrolase; 1.85A {Homo sapiens} PDB:
2g9n_A*
Length = 237
Score = 188 bits (481), Expect = 5e-55
Identities = 67/217 (30%), Positives = 114/217 (52%), Gaps = 17/217 (7%)
Query: 394 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVP 453
F+ + K E+ L+ I GF K + IQ R I P ++G D++ A++G+GKT F +
Sbjct: 30 DNFDDMNLK--ESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAIS 87
Query: 454 AVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQ 513
++ + ++ T ++++PTREL+ Q V+ L Y T +GG + + E Q
Sbjct: 88 ILQQL-EIE---FKETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQ 143
Query: 514 KL-AKGINIIVATPGRLLDHLQ----NTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIV 568
KL A+ +I+V TPGR+ D L + K ++ ++DEAD +L GF++ + +I
Sbjct: 144 KLQAEAPHIVVGTPGRVFDMLNRRYLSP-----KWIKMFVLDEADEMLSRGFKDQIYEIF 198
Query: 569 NLLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGV 605
L Q +L SAT +TK + ++P+ I V
Sbjct: 199 QKLNTSIQVVLLSATMPTDVLEVTKKFM-RDPIRILV 234
>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding,
hydrolase, nucleotide- RNA-binding, methylation, mRNA
processing, mRNA S nucleus; HET: ADP; 2.60A {Homo
sapiens}
Length = 242
Score = 188 bits (480), Expect = 8e-55
Identities = 77/202 (38%), Positives = 121/202 (59%), Gaps = 3/202 (1%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
N + IA FT+ T IQA+ P L G D+VG A+TGSGKTL++L+PA+ I + F+
Sbjct: 38 ANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFL 97
Query: 465 PR-NGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIV 523
R +G ++++PTREL+ Q V E + I GGA + + + L +G+ I +
Sbjct: 98 ERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICI 157
Query: 524 ATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSAT 583
ATPGRL+D L+ L + L++DEADR+LD+GFE +++IV+ + RQT+++SAT
Sbjct: 158 ATPGRLIDFLECGKTNL-RRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSAT 216
Query: 584 TTAKTETLTKLALKKEPVYIGV 605
+ L + LK ++I +
Sbjct: 217 WPKEVRQLAEDFLKD-YIHINI 237
Score = 29.8 bits (68), Expect = 3.0
Identities = 10/31 (32%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 177 RQTMLFSATTTAKTETLTKLALKKEPVYIGV 207
RQT+++SAT + L + LK ++I +
Sbjct: 208 RQTLMWSATWPKEVRQLAEDFLKD-YIHINI 237
>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA,
N project on protein structural and functional analyses;
2.40A {Dugesia japonica} SCOP: c.37.1.19
Length = 253
Score = 185 bits (473), Expect = 1e-53
Identities = 65/210 (30%), Positives = 114/210 (54%), Gaps = 17/210 (8%)
Query: 408 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIY-----NLK 462
I + + T IQ IP +LE RD++ A+TGSGKT AFL+P + + +
Sbjct: 35 RNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQR 94
Query: 463 FMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTY---GLIMGGASRQAEAQKLAKGI 519
+ +I++PTREL++Q E K+ +T ++ GGA ++ +++ G
Sbjct: 95 YSKTAYPKCLILAPTRELAIQIL---SESQKFSLNTPLRSCVVYGGADTHSQIREVQMGC 151
Query: 520 NIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLL----PKRR 575
+++VATPGRL+D ++ L + + +++DEADR+LD+GFE +++I+ R
Sbjct: 152 HLLVATPGRLVDFIEKNKISL-EFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINR 210
Query: 576 QTMLFSATTTAKTETLTKLALKKEPVYIGV 605
QT++FSAT + + L L +++ V
Sbjct: 211 QTLMFSATFPKEIQKLAADFL-YNYIFMTV 239
Score = 29.1 bits (66), Expect = 5.3
Identities = 12/38 (31%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 170 NLTSAERRQTMLFSATTTAKTETLTKLALKKEPVYIGV 207
N+ S RQT++FSAT + + L L +++ V
Sbjct: 203 NMPSGINRQTLMFSATFPKEIQKLAADFL-YNYIFMTV 239
>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural
genomics, structural genomics consortium, SGC,
hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*
Length = 230
Score = 182 bits (464), Expect = 8e-53
Identities = 56/217 (25%), Positives = 105/217 (48%), Gaps = 11/217 (5%)
Query: 392 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFL 451
FE+L L+ + GF + + +Q + IP G DL+ AK+G+GKT F
Sbjct: 22 EPADFESLLLS--RPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFS 79
Query: 452 VPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGL-IMGGASRQA 510
A++ + L+ T I+I++PTRE+++Q V+ + +GG
Sbjct: 80 TIALDSL-VLE---NLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQ 135
Query: 511 EAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIG-FEEDMKQIVN 569
+ +L K +I V +PGR+ ++ +++ I+DEAD++L+ G F+E + I +
Sbjct: 136 DKTRL-KKCHIAVGSPGRIKQLIELDYLNP-GSIRLFILDEADKLLEEGSFQEQINWIYS 193
Query: 570 LLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVD 606
LP +Q + SAT + ++P ++ ++
Sbjct: 194 SLPASKQMLAVSATYPEFLANALTKYM-RDPTFVRLN 229
>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA
processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP:
c.37.1.19
Length = 220
Score = 179 bits (456), Expect = 8e-52
Identities = 60/217 (27%), Positives = 110/217 (50%), Gaps = 11/217 (5%)
Query: 392 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFL 451
S+ F + L+AI D GF +E+Q IP + G D++ AK+G GKT F+
Sbjct: 12 HSSGFRDFL--LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFV 69
Query: 452 VPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGL-IMGGASRQA 510
+ ++ + ++++ TREL+ Q + KY + GG S +
Sbjct: 70 LATLQQL-EPV---TGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKK 125
Query: 511 EAQKLAKGI-NIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILD-IGFEEDMKQIV 568
+ + L K +I+V TPGR+L +N L K+++ I+DE D++L+ + D+++I
Sbjct: 126 DEEVLKKNCPHIVVGTPGRILALARNKSLNL-KHIKHFILDECDKMLEQLDMRRDVQEIF 184
Query: 569 NLLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGV 605
+ P +Q M+FSAT + + + + + ++P+ I V
Sbjct: 185 RMTPHEKQVMMFSATLSKEIRPVCRKFM-QDPMEIFV 220
Score = 28.7 bits (65), Expect = 5.8
Identities = 9/33 (27%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 175 ERRQTMLFSATTTAKTETLTKLALKKEPVYIGV 207
+Q M+FSAT + + + + + ++P+ I V
Sbjct: 189 HEKQVMMFSATLSKEIRPVCRKFM-QDPMEIFV 220
>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore
complex, nucleocytoplasmic trans mRNA export, protein
interaction, beta-propeller; HET: ADP; 2.51A {Homo
sapiens}
Length = 300
Score = 176 bits (449), Expect = 7e-50
Identities = 57/252 (22%), Positives = 112/252 (44%), Gaps = 13/252 (5%)
Query: 336 ENAPAKHHVMPDFSTTPLETKDQLNEWLVFKDLTPPLISVGTVISADVSLSIPSILSSTQ 395
N T E +D+ + L+ K + L+ + + S
Sbjct: 34 TNGAVVKTNANAEKTDEEEKEDRAAQSLLNKLIRSNLVDNTNQVEVLQRDPNSPLYSVKS 93
Query: 396 FEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLAFLVP 453
FE L+ + L+ + MGF + ++IQ +P +L ++L+ +++G+GKT AF++
Sbjct: 94 FEELR--LKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLA 151
Query: 454 AVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGL-IMGGASRQAEA 512
+ + + +SPT EL++QT V++++ K++ + G
Sbjct: 152 MLSQV-EPA---NKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG---NKLE 204
Query: 513 QKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDI-GFEEDMKQIVNLL 571
+ I++ TPG +LD K ++ ++DEAD ++ G ++ +I +L
Sbjct: 205 RGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRML 264
Query: 572 PKRRQTMLFSAT 583
P+ Q +LFSAT
Sbjct: 265 PRNCQMLLFSAT 276
>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 = 110 bits (278), Expect = 3e-28
Identities = 42/150 (28%), Positives = 71/150 (47%), Gaps = 2/150 (1%)
Query: 612 ATVAGLEQGYVVCPSEKRFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMC 671
++ GL+Q YV ++ LF L +V++F S +LL + P +
Sbjct: 1 GSLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIA 60
Query: 672 IHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVG 731
IH Q +R + + QF + + IL+ T++ RG+DI V+ YD P+D Y+HRV
Sbjct: 61 IHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVA 120
Query: 732 RTARGEGSSGHAL-LILRPEELGFLRYLKQ 760
R R G+ G A+ + + L ++
Sbjct: 121 RAGRF-GTKGLAITFVSDENDAKILNDVQD 149
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 107 bits (270), Expect = 3e-27
Identities = 45/158 (28%), Positives = 70/158 (44%), Gaps = 4/158 (2%)
Query: 610 EEATVAGLEQGYVVCPSEKRFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPV 669
T +E + E +F LL L ++F + V + L+ + P
Sbjct: 3 AGLTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPC 62
Query: 670 MCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHR 729
IHG Q R +F E L+ TDVAARG+DI + ++ YD P + + Y+HR
Sbjct: 63 DKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHR 122
Query: 730 VGRTARGEGSSGHALLILRPEELGFLRYLKQA---KIP 764
GRT R G+ G A+ + E FL +++ +I
Sbjct: 123 TGRTGRA-GNKGKAISFVTAFEKRFLADIEEYIGFEIQ 159
>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 = 106 bits (268), Expect = 7e-27
Identities = 43/157 (27%), Positives = 66/157 (42%), Gaps = 7/157 (4%)
Query: 618 EQGYVVCPSEKR-FLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQ 676
Q Y + LL LK+ + +VF V L + + G+
Sbjct: 5 HQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEM 64
Query: 677 KQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARG 736
Q KR + +L+ TDVAARG+DIP V + +D P Y+HR+GRTAR
Sbjct: 65 VQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARA 124
Query: 737 EGSSGHALLILRPEELGFL----RYLKQAKIPLNEFE 769
G G A+ ++ + L RY+++ I +
Sbjct: 125 -GRKGTAISLVEAHDHLLLGKVGRYIEE-PIKARVID 159
>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 = 107 bits (269), Expect = 1e-26
Identities = 57/189 (30%), Positives = 80/189 (42%), Gaps = 13/189 (6%)
Query: 610 EEATVAGLEQGYVVCPSEKRFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPV 669
E T E+ V P R +L L + MVF + + + L + P
Sbjct: 2 EPVTY---EEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPA 58
Query: 670 MCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHR 729
+HG Q +R F E +L+ TDVAARGLDIP VD +V Y PD + Y HR
Sbjct: 59 QALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHR 118
Query: 730 VGRTARGEGSSGHALLILRPEELGFLRY--------LKQAKIPLNEFEFSWSKISDIQLQ 781
GRT R G G +L+ P E + K+ P E E +K + +
Sbjct: 119 SGRTGRA-GRGGRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPE-EVLEAKWRHLLAR 176
Query: 782 LEKLISKNY 790
L ++ K+Y
Sbjct: 177 LARVPEKDY 185
>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 = 104 bits (262), Expect = 6e-26
Identities = 42/123 (34%), Positives = 60/123 (48%), Gaps = 1/123 (0%)
Query: 621 YVVCPSEKRFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMK 680
V S+KR LL + +VF + + L + IHG + Q
Sbjct: 25 VWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRD 84
Query: 681 RTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSS 740
R QF + ++ IL+ T VAARGLDI V ++ +D P D +EY+HR+GRT R G+
Sbjct: 85 REEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRV-GNL 143
Query: 741 GHA 743
G A
Sbjct: 144 GLA 146
>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 = 107 bits (269), Expect = 8e-26
Identities = 55/181 (30%), Positives = 78/181 (43%), Gaps = 10/181 (5%)
Query: 618 EQGYVVCPSEKRFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQK 677
E+ V P R +L L + MVF + + + L + P +HG
Sbjct: 4 EEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMS 63
Query: 678 QMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGE 737
Q +R F E +L+ TDVAARGLDIP VD +V Y PD + Y HR GRT R
Sbjct: 64 QGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRA- 122
Query: 738 GSSGHALLILRPEELGFLRY--------LKQAKIPLNEFEFSWSKISDIQLQLEKLISKN 789
G G +L+ P E + K+ P E E +K + +L ++ K+
Sbjct: 123 GRGGRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPE-EVLEAKWRHLLARLARVPEKD 181
Query: 790 Y 790
Y
Sbjct: 182 Y 182
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 104 bits (261), Expect = 1e-25
Identities = 43/146 (29%), Positives = 71/146 (48%), Gaps = 5/146 (3%)
Query: 601 VYIGVDD---TKEEATVAGLEQGYVVCPSEKRFLLLFTFLKKNRKKKVMVFFSSCMSVKF 657
V +G ++ A + Q E + + L L+K V++F V
Sbjct: 11 VDLGTENLYFQSMGAASLDVIQEVEYVKEEAKMVYLLECLQKT-PPPVLIFAEKKADVDA 69
Query: 658 HHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQY 717
HE L + + IHG + Q +RT F + +L+ TDVA++GLD PA+ ++ Y
Sbjct: 70 IHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINY 129
Query: 718 DPPDDPKEYIHRVGRTARGEGSSGHA 743
D P++ + Y+HR+GRT G++G A
Sbjct: 130 DMPEEIENYVHRIGRTGCS-GNTGIA 154
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 97.6 bits (244), Expect = 1e-23
Identities = 40/142 (28%), Positives = 70/142 (49%), Gaps = 2/142 (1%)
Query: 616 GLEQGYVVCPSEK-RFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHG 674
G++Q YV E+ ++ L + ++F ++ V+ L V I+
Sbjct: 3 GIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYS 62
Query: 675 KQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTA 734
Q +R T +F + + IL+ TD+ ARG+D+ V ++ YD P + + YIHR+GR
Sbjct: 63 DLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGG 122
Query: 735 RGEGSSGHALLILRPEELGFLR 756
R G G A+ + E++G +R
Sbjct: 123 RF-GRKGVAINFVTNEDVGAMR 143
>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 = 96.1 bits (240), Expect = 5e-23
Identities = 38/172 (22%), Positives = 76/172 (44%), Gaps = 14/172 (8%)
Query: 611 EATVAGLEQGYVVCPSEK-RFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPV 669
T+ + Q YV+C K ++ L + ++F + + K+ + V
Sbjct: 2 MLTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQV 61
Query: 670 MCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPP------DDP 723
+ G+ +R + +F + + +L+ T+V ARG+D+ V +V +D P D
Sbjct: 62 SLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDY 121
Query: 724 KEYIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQ------AKIPLNEFE 769
+ Y+HR+GRT R G G A ++ +EL L ++ ++ + +
Sbjct: 122 ETYLHRIGRTGRF-GKKGLAFNMIEVDELPSLMKIQDHFNSSIKQLNAEDMD 172
>1xcr_A Hypothetical protein PTD012; structural genomics, zinc-containing
fold, splice variant, A buffer, metal binding protein;
1.70A {Homo sapiens} SCOP: d.290.1.2
Length = 316
Score = 87.0 bits (215), Expect = 1e-18
Identities = 53/259 (20%), Positives = 96/259 (37%), Gaps = 28/259 (10%)
Query: 142 VLNQGLGKYFKEVSVSFTECPNLTSHPFNLTSAERRQTMLFSATTTAKTETLTKL--ALK 199
V+ +GL F +V VS +CP+LT PF + T A+ + L +
Sbjct: 20 VMQKGLKDNFADVQVSVVDCPDLTKEPFTFPVKG-----ICGKTRIAEVGGVPYLLPLVN 74
Query: 200 KEPVYIGVDDTKEEATVAGLEQGYVVCPSEKRFLLLFTFLKKNHIGEIVAWHVLLLQVIK 259
++ VY D + A L +++ F E + +
Sbjct: 75 QKKVY----DLNKIAKEIKLPGAFILGAGAG------PFQTLGFNSEFMPVIQTESEHKP 124
Query: 260 IKVQTR---IGKEDFVTSVRNVLAAHYKDQPVGLGGVILIENAP-------AKHHVMPDF 309
+ + D + + Q L + E P AK P
Sbjct: 125 PVNGSYFAHVNPADGGCLLEKYSEKCHDFQCALLANLFASEGQPGKVIEVKAKRRTGPLN 184
Query: 310 STTPLETKDQLNVRSNYIGLGGVILIENAPAKHHVMP-DFSTTPLETKDQLNEWLVFKDL 368
T + + + + IG+GG +I+ K H+MP +FS+ PL + +++N+WL F ++
Sbjct: 185 FVTCMRETLEKHYGNKPIGMGGTFIIQKGKVKSHIMPAEFSSCPLNSDEEVNKWLHFYEM 244
Query: 369 TPPLISVGTVISADVSLSI 387
PL+ + +S D +
Sbjct: 245 KAPLVCLPVFVSRDPGFDL 263
>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 = 81.0 bits (199), Expect = 5e-16
Identities = 43/233 (18%), Positives = 83/233 (35%), Gaps = 26/233 (11%)
Query: 545 QCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSATTTAKTETLTKLALK--KEPVY 602
L + A +L+ ++ + L + + A+ ++ K A+ +
Sbjct: 278 MALKLHHAIELLETQGLSALRAYIKKLYEEAKAGSTKASKEIFSDKRMKKAISLLVQAKE 337
Query: 603 IGVDDTKEEATVAGLEQGYVVCPSEKRFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELL 662
IG+D K +K ++ L++ + K++VF + + K L
Sbjct: 338 IGLDHPK----------------MDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNEL 381
Query: 663 NYIDLPVMCIHGK--------QKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWI 714
+ G+ Q ++ +F E +L+ T V GLD+P VD +
Sbjct: 382 VKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLV 441
Query: 715 VQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQAKIPLNE 767
V Y+P I R GRT R L+ + + +Q + + E
Sbjct: 442 VFYEPVPSAIRSIQRRGRTGRHMPGRVIILMAKGTRDEAYYWSSRQKEKIMQE 494
Score = 71.0 bits (173), Expect = 6e-13
Identities = 33/183 (18%), Positives = 70/183 (38%), Gaps = 9/183 (4%)
Query: 423 QARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSM 482
Q E L+ TG GKTL A+ + + + G +++++PT+ L +
Sbjct: 14 QEVIYAKCKETNCLIV-LPTGLGKTLI----AMMIAEY--RLTKYGGKVLMLAPTKPLVL 66
Query: 483 QTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYK 542
Q + L + G S + ++ A+ +IVATP + + L +
Sbjct: 67 QHAESFRRLFNLPPEKIVALTGEKSPEERSKAWARA-KVIVATPQTIENDLLAG-RISLE 124
Query: 543 NLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSATTTAKTETLTKLALKKEPVY 602
++ ++ DEA R + + + K + +A+ + E + ++ +
Sbjct: 125 DVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEKIMEVINNLGIEH 184
Query: 603 IGV 605
I
Sbjct: 185 IEY 187
>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 = 81.2 bits (200), Expect = 9e-16
Identities = 113/691 (16%), Positives = 207/691 (29%), Gaps = 223/691 (32%)
Query: 140 PFVLNQGLGKYFKEVSVSFTECPNLTSHPFNLTSAERRQTMLFSATTTAKTETLTKLALK 199
P L+ G + P T+ F + + ++ F+ TE A
Sbjct: 8 PLTLSHG------SLEHVL-LVP--TASFFIAS--QLQEQ--FNKILPEPTEGF---AAD 51
Query: 200 KEPV--------YIG-VDDTKEEATVAGLEQGYVVCPSEKRFLLLF--TFLKKNHIGEIV 248
EP ++G V E + V +Q V+ L F +L+ N I
Sbjct: 52 DEPTTPAELVGKFLGYVSSLVEPSKVGQFDQ--VL----NLCLTEFENCYLEGNDI---- 101
Query: 249 AWHVLLLQVIKIKVQTRIGKEDFVTSVRNVLAA-HYKDQPVGLGGV-ILIENAPAKH-HV 305
H L ++++ T + K + ++N + A +P L + +
Sbjct: 102 --HALAAKLLQEN-DTTLVKTKEL--IKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL 156
Query: 306 MPDF-----STTPLETKDQLNVRSNYIGLGGVI--LIENAPAKHHVMPDFSTTPLETKD- 357
+ F + ++L R Y ++ LI+ + A+ + + T L+ +
Sbjct: 157 VAIFGGQGNTDDYF---EEL--RDLYQTYHVLVGDLIKFS-AET--LSELIRTTLDAEKV 208
Query: 358 -----QLNEWLVFKDLTPPLISVGTVISADVSLSIPSI--LSSTQFEALKGKVCENTLKA 410
+ EWL TP ++S +S P I + + +
Sbjct: 209 FTQGLNILEWLENPSNTPD---KDYLLSIPISC--PLIGVIQLAHYVV----TAKL---- 255
Query: 411 IADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLA-FLVPAVELIYNLKFMPRNGT 469
+GFT E+++ + LV + + F V + I L F+
Sbjct: 256 ---LGFT-PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFI----- 306
Query: 470 GIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATP--- 526
G+ R + Y S ++ + +G V +P
Sbjct: 307 GV------RC----------------YEAYPNTSLPPSILEDSLENNEG----VPSPMLS 340
Query: 527 --GRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQI----VNLLPKRRQTMLF 580
+ +Q+ +++ + L G KQ+ VN + ++
Sbjct: 341 ISNLTQEQVQD------------YVNKTNSHLPAG-----KQVEISLVN---GAKNLVV- 379
Query: 581 SATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEKRFLLLFT-FLKK 639
+ ++L L L K +A +GL+Q + P +R L FL
Sbjct: 380 ----SGPPQSLYGLNLTLR---------KAKAP-SGLDQSRI--PFSERKLKFSNRFLP- 422
Query: 640 NRKKKVMVFFSSCMSVKFHHELLN------YIDLPVMCIHGKQKQMK----RTTTFFQFC 689
++ FH LL DL + K ++ T
Sbjct: 423 -------------VASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLR 469
Query: 690 NAETGIL--LCTDVAARGLDIPAVDW----------IVQYDPPDDPKEYIHRVG----RT 733
I + D R V W I+ + P +G R
Sbjct: 470 VLSGSISERIV-DCIIRL----PVKWETTTQFKATHILDFGPGG-----ASGLGVLTHRN 519
Query: 734 ARGEG----SSGHALLILRPEELGFLRYLKQ 760
G G +G L I ++ GF KQ
Sbjct: 520 KDGTGVRVIVAG-TLDINPDDDYGF----KQ 545
Score = 58.9 bits (142), Expect = 7e-09
Identities = 96/536 (17%), Positives = 174/536 (32%), Gaps = 188/536 (35%)
Query: 40 ASFAEATEKTCLVKG---KTYQIGDKIQAEPGPKLPVPTLNVPSIWESLLD---RIVA-- 91
A + + T + K Y I A K P + +++ ++ + ++VA
Sbjct: 106 AKLLQENDTTLVKTKELIKNY-----ITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF 160
Query: 92 -----------EL----TVYPP--ESF------TLSNPSKLTHNDGQSHLEE----HK-L 123
EL Y TLS + T D + + + L
Sbjct: 161 GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIR-TTLDAEKVFTQGLNILEWL 219
Query: 124 THNDATP---LLVSVSIFCPFV-LNQGLGKYFKEVSVSFTECPNLTSHPFNLTSAERRQT 179
+ TP L+S+ I CP + + Q L Y L P L S + T
Sbjct: 220 ENPSNTPDKDYLLSIPISCPLIGVIQ-LAHYV-------VTAKLLGFTPGELRSYLKGAT 271
Query: 180 M----LFSATTTAKTET------LTKLALKKEPV--YIG----------------VDDTK 211
L +A A+T++ + A+ V +IG ++D+
Sbjct: 272 GHSQGLVTAVAIAETDSWESFFVSVRKAIT---VLFFIGVRCYEAYPNTSLPPSILEDSL 328
Query: 212 EEATVAGLEQGYVVCPSEKRFLLLFTFLKKNHIGEIVAWHVLLLQVIKIKVQTRIGKEDF 271
E +G PS +L + L + + + V K + +
Sbjct: 329 EN------NEGV---PS---PMLSISNLTQEQVQDYVN-----------KTNSHLPAGKQ 365
Query: 272 VT-SVRN-----VLAAHYKDQPVGLGGVIL-IENAPAKHHVMPDFSTTPLETKDQLNVRS 324
V S+ N V++ P L G+ L + A A + D S P ++ +L +
Sbjct: 366 VEISLVNGAKNLVVSGP----PQSLYGLNLTLRKAKAPSGL--DQSRIPF-SERKLKFSN 418
Query: 325 NYIGLGGVILIENAPAKHHVMPDFSTTPL--ETKDQLNEWLVFKDLTPPLISVGTVISAD 382
+ L +P H + L D +N+ LV +++ +A
Sbjct: 419 RF-------LPVASP--FH-------SHLLVPASDLINKDLVKNNVS---------FNAK 453
Query: 383 VSLSIPSILSSTQFEALKGK----VCENTLKAIADMGFT------KMTEIQARTIPPLLE 432
+ IP ++ G + + + I D T+ +A I L
Sbjct: 454 -DIQIP------VYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHI--LDF 504
Query: 433 GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGI-IIISPTRELSMQT-FG 486
G G A +G G L + K +GTG+ +I++ T +++ +G
Sbjct: 505 GP---GGA-SGLGV----------LTHRNK----DGTGVRVIVAGTLDINPDDDYG 542
Score = 54.3 bits (130), Expect = 2e-07
Identities = 64/362 (17%), Positives = 106/362 (29%), Gaps = 145/362 (40%)
Query: 267 GKEDFVTS--VRNVL--A-AHYKDQPVGLGGVIL--IENAPAKHHVMPDFSTTPLETKDQ 319
G + + TS ++V A H+KD G IL + N P + F K +
Sbjct: 1632 GMDLYKTSKAAQDVWNRADNHFKDT---YGFSILDIVINNPVNLTIH--FGGE----KGK 1682
Query: 320 LNVRSNYIGLGGVILIENAPAKHHVMPDFSTTPLETKDQLNEWLVFKDLTPPLISVGTVI 379
+R NY + + D + +FK++ S T
Sbjct: 1683 -RIRENYSAM-----------IFETIVDGKLKTEK---------IFKEINEHSTSY-TFR 1720
Query: 380 SADVSLSI-----PSIL--SSTQFEALK----------------GKVCENT-LKAIAD-M 414
S LS P++ FE LK G E L ++AD M
Sbjct: 1721 SEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLG---EYAALASLADVM 1777
Query: 415 GFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIII 474
E ++ R G T+ VP EL R+ G+I I
Sbjct: 1778 SI----ESLVE----VVFYR----------GMTMQVAVPRDEL-------GRSNYGMIAI 1812
Query: 475 SPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQ 534
+P R + + Q Q + + + G L ++
Sbjct: 1813 NPGR------------------------VAASFSQEALQYVVERVG---KRTGWL---VE 1842
Query: 535 ----NTPEFLYKNLQCLI------IDEADRILDIGFEEDMKQI------VNLLPKRRQTM 578
N N Q + +D +L+ +++I +L + +
Sbjct: 1843 IVNYNVE-----NQQYVAAGDLRALDTVTNVLN---FIKLQKIDIIELQKSLSLEEVEGH 1894
Query: 579 LF 580
LF
Sbjct: 1895 LF 1896
Score = 46.2 bits (109), Expect = 5e-05
Identities = 91/549 (16%), Positives = 163/549 (29%), Gaps = 201/549 (36%)
Query: 371 PL-ISVGTVISADVSLSIPSILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPP 429
PL +S G S + L +P+ ++ F A + L+ F K +P
Sbjct: 8 PLTLSHG---SLEHVLLVPT---ASFFIA-------SQLQE----QFNK-------ILPE 43
Query: 430 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFG--- 486
EG + + EL+ KF+ G + + + G
Sbjct: 44 PTEG--FAADDEPTT---------PAELV--GKFL-----GYV----SSLVEPSKVGQFD 81
Query: 487 -VLKELMKYHHHTYGLIMGG------ASR--QAEAQKLAKGINII------VATPGRLLD 531
VL + + Y + G A++ Q L K +I R D
Sbjct: 82 QVLNLCLTEFENCY---LEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFD 138
Query: 532 HLQNTPEFLYKNLQCLIIDEADRILDI--G-------FEEDMKQIVNLLPKRRQTMLFSA 582
N+ L++ + + +++ I G FEE ++ + ++ +
Sbjct: 139 KKSNSA--LFRAVG----EGNAQLVAIFGGQGNTDDYFEE-LRDLYQTYHVLVGDLIKFS 191
Query: 583 TTTAKTETLTKLALKKEPVYI-GVD-----DTKEE---------ATVA----GLEQG--- 620
T L + L E V+ G++ + ++ G+ Q
Sbjct: 192 AET--LSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHY 249
Query: 621 YVVC------PSEKRFLLLFTFLK--KNRKKKVM--VFFSSCMSVK-FHHELLNYIDLPV 669
V P E L ++LK + ++ V + S + F + I +
Sbjct: 250 VVTAKLLGFTPGE-----LRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV-- 302
Query: 670 MCIHGKQKQMKRTTTFFQFCNAETGILL-CTD---------VAARGLDIPAVDWIVQYDP 719
+ G R + + IL + ++ L V V
Sbjct: 303 LFFIGV-----RCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTN 357
Query: 720 ---PDDPKEYI-------HRVGRTARGEGSSGHALLILRPEEL-GF---LRYLK------ 759
P + I + V SG P+ L G LR K
Sbjct: 358 SHLPAGKQVEISLVNGAKNLV--------VSGP------PQSLYGLNLTLRKAKAPSGLD 403
Query: 760 QAKIPLNEFEFSWSKISDIQLQLEKLISKNYFLNMSGKEAFKAYVRA-YDSHHLKQIFDI 818
Q++IP +E KL N FL ++ + + SH L D+
Sbjct: 404 QSRIPFSE---------------RKLKFSNRFLPVA----------SPFHSHLLVPASDL 438
Query: 819 DTMDLGKDS 827
DL K++
Sbjct: 439 INKDLVKNN 447
Score = 41.6 bits (97), Expect = 0.001
Identities = 55/342 (16%), Positives = 94/342 (27%), Gaps = 140/342 (40%)
Query: 27 TPLLVSVSNFCPFASFAEATEK--TCLVKGKTYQIGDKIQ----------------AEPG 68
T + ++ ++ + SF + K T L + IG + E
Sbjct: 279 TAVAIAETD--SWESFFVSVRKAITVL-----FFIGVRCYEAYPNTSLPPSILEDSLENN 331
Query: 69 PKLPVPTLNVPSIWESLLDRIVAELTVYPPE----SFTLSN----------PSKLTHNDG 114
+P P L++ ++ + + V + + P +L N P L +
Sbjct: 332 EGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLN- 390
Query: 115 QSHLEEHKLTHNDATPLLVSVSIFCPFVLNQGLGKYFKE---VSVSFTECPNL-TSHPFN 170
L + K P L+Q + + S F L + PF+
Sbjct: 391 -LTLRKAK----------------APSGLDQSRIPFSERKLKFSNRF-----LPVASPFH 428
Query: 171 ---LTSA-ERRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVC 226
L A + L + + + + PVY DT G +
Sbjct: 429 SHLLVPASDLINKDLVKNNVSFNAKDI------QIPVY----DT---------FDGSDLR 469
Query: 227 PSEKRFLLLFTFLKKNHIGEI----VAW---------HVLLLQVIKIKVQTRIGKEDF-- 271
+ + + I V W H+L DF
Sbjct: 470 VLSGS-------ISERIVDCIIRLPVKWETTTQFKATHIL----------------DFGP 506
Query: 272 -VTSVRNVLAAHYKDQPVGLG-GVIL---IENAPA-----KH 303
S VL KD G G VI+ ++ P K
Sbjct: 507 GGASGLGVLTHRNKD---GTGVRVIVAGTLDINPDDDYGFKQ 545
Score = 36.6 bits (84), Expect = 0.041
Identities = 47/310 (15%), Positives = 94/310 (30%), Gaps = 96/310 (30%)
Query: 526 PGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSATTT 585
G +D + + ++ + + AD + + IV P T+ F
Sbjct: 1629 QGMGMDLYKTSKAA--QD----VWNRADNHFKDTYGFSILDIVINNPVNL-TIHFGGEKG 1681
Query: 586 AKT---------ETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEK----RF-- 630
+ ET+ LK E ++ +++ T +F
Sbjct: 1682 KRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRS--------EKGLLSATQFTQ 1733
Query: 631 --LLL-----FTFLKKNRKKKVMVFF---S-------SCMSVKFHHELLNYIDLPVMCIH 673
L L F LK F S + ++ ++++ L V +
Sbjct: 1734 PALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLA-----DVMSIESL-VEVVF 1787
Query: 674 --GK--QKQMKRTTTFFQFCNAETGILLCTDVA-ARGLDIPAVDWIVQYDPPDDPKEYIH 728
G Q + R + + G++ A A+ ++V+
Sbjct: 1788 YRGMTMQVAVPR----DELGRSNYGMIAINPGRVAASFSQEALQYVVE------------ 1831
Query: 729 RVGRTARG---------EGS----SGH--ALLILRPEELG-FLRYLKQAKIPLNEFEFSW 772
RVG+ E +G AL + + L ++K KI + E + S
Sbjct: 1832 RVGKRTGWLVEIVNYNVENQQYVAAGDLRAL-----DTVTNVLNFIKLQKIDIIELQKSL 1886
Query: 773 SKISDIQLQL 782
S + +++ L
Sbjct: 1887 S-LEEVEGHL 1895
Score = 36.2 bits (83), Expect = 0.063
Identities = 39/266 (14%), Positives = 77/266 (28%), Gaps = 82/266 (30%)
Query: 42 FAEATEKTCLVKGKTYQIGDKIQAEP--------GPKLPVPTLNVPS-IWESLLDRIVAE 92
+ A G + I D + P G K N + I+E+++D +
Sbjct: 1646 WNRADNHFKDTYG--FSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKT 1703
Query: 93 LTVYPPESFTLSNPSKLTHNDGQSHLEEHKLTHNDAT-P--LLVSVSIFCPFVL-NQG-- 146
++ + + T + L T T P L+ + F L ++G
Sbjct: 1704 EKIFKEINEHST---SYTFRSEKGLL---SATQF--TQPALTLMEKAAFE--DLKSKGLI 1753
Query: 147 ----------LGKYFKEVS--VSFTECPNLTSHPFNLTSA-----ERRQTMLFSATTTAK 189
LG+Y + S + ++ S R TM +
Sbjct: 1754 PADATFAGHSLGEY----AALASLADV-------MSIESLVEVVFYRGMTMQVAVPRDEL 1802
Query: 190 TETLTKL-ALKKEPVYIGVDDTKEEATVAGL--EQGYVVCPSEKRFLLLFTFLKKNH--- 243
+ + A+ V + V + G++V N+
Sbjct: 1803 GRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIV-------------NYNVE 1849
Query: 244 -----I-GEIVAWHVL--LLQVIKIK 261
G++ A + +L IK++
Sbjct: 1850 NQQYVAAGDLRALDTVTNVLNFIKLQ 1875
>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 = 67.5 bits (165), Expect = 7e-13
Identities = 31/138 (22%), Positives = 53/138 (38%), Gaps = 12/138 (8%)
Query: 423 QARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYN-LKFMPRNGTG--IIIISPTRE 479
Q P LEG++++ TGSGKT AV + + L + +I++
Sbjct: 38 QMEVAQPALEGKNIIICLPTGSGKTRV----AVYIAKDHLDKKKKASEPGKVIVLVNKVL 93
Query: 480 LSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEF 539
L Q F + + + G + ++ K +II++T L + L N
Sbjct: 94 LVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLENG 153
Query: 540 LYKNLQ-----CLIIDEA 552
+Q +IIDE
Sbjct: 154 EDAGVQLSDFSLIIIDEC 171
>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 = 67.6 bits (164), Expect = 1e-11
Identities = 85/590 (14%), Positives = 156/590 (26%), Gaps = 209/590 (35%)
Query: 342 HHVMPDFSTTPLETKDQLNEWLVFKDLTPPLIS--VGTVISADVSLSIPSILSSTQFEA- 398
HH M DF T + + +KD+ V DV SILS + +
Sbjct: 4 HHHM-DFETGEHQYQ--------YKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHI 54
Query: 399 LKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRD---LVGSAKT----GSGKTLAFL 451
+ K + + +K E+ + + +L + L+ KT S T +
Sbjct: 55 IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLR-INYKFLMSPIKTEQRQPSMMTRMY- 112
Query: 452 VPAVELIYN--LKFMPRNGTGIIIISPTRELSMQTFGVLKE-LMKYHHHTYGLI--MGGA 506
+ + +YN F N +R Q + L++ L++ LI + G+
Sbjct: 113 IEQRDRLYNDNQVFAKYN--------VSRL---QPYLKLRQALLELRPAKNVLIDGVLGS 161
Query: 507 SRQ---AEA-------QKLAKGI---NII-VATPGRLLDHLQNTPEFLYKNLQCLIIDEA 552
+ + K+ I N+ +P +L+ LQ L + +
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK----LLYQIDPNWTSRS 217
Query: 553 DRILDIGFE-EDMKQIVNLLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEE 611
D +I ++ + L K + L L L + +
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKP----------YENCL--LVL---------LNVQNA 256
Query: 612 ATVAGLEQGYVVCPSEKRFLL------LFTFLKKNRKKKVMV--------------FFSS 651
C + LL + FL + +
Sbjct: 257 KAWNAFNLS---C----KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK 309
Query: 652 CMSVKFHHELLNYIDLP---------VMCIHGKQ-KQMKRTTTFFQFCNAE---TGILLC 698
+ + DLP + I + + T ++ N + T I
Sbjct: 310 YLDCRPQ-------DLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS 362
Query: 699 TDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEELGFLRYL 758
+V L+ P + ++ L + P
Sbjct: 363 LNV----LE------------PAEYRKMFD--------------RLSVF-PPS------- 384
Query: 759 KQAKIPLNEFEFSWSK-----------------------------ISDIQLQLE------ 783
A IP W I I L+L+
Sbjct: 385 --AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENE 442
Query: 784 -----KLIS-----KNYFLNMSGKEAFKAYVRAYDSHHLKQIFDIDTMDL 823
++ K + + Y ++ HHLK I + M L
Sbjct: 443 YALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTL 492
Score = 47.5 bits (112), Expect = 2e-05
Identities = 84/595 (14%), Positives = 167/595 (28%), Gaps = 178/595 (29%)
Query: 55 KTYQ-IGDKIQAEP-GPKLPVPTLNVPSIWESLLDRIVAELTVYPPESFTLSNPSKLTHN 112
Y+ + I+ E P + ++ DR+ + V+ + +S +
Sbjct: 89 INYKFLMSPIKTEQRQPSMMT------RMYIEQRDRLYNDNQVFAK--YNVSRLQP--YL 138
Query: 113 DGQSHLEEHK-----LTHNDA----TPLLVSV----SIFCPFV-----LNQGLGKYFKEV 154
+ L E + L T + + V + C LN L
Sbjct: 139 KLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN--LKNCNSPE 196
Query: 155 SV-------SFTECPNLTSHPFNLTSAERRQTMLFSATTTAKTETLTKLALKKEP-VYIG 206
+V + PN TS + ++ + R + + E L K +
Sbjct: 197 TVLEMLQKLLYQIDPNWTSRSDHSSNIKLR-------IHSIQAELRRLLKSKPYENCLLV 249
Query: 207 VDDTKEEATVAGLEQGYVVCPSEKRFLL------LFTFLKKNHIGEIVAWHV-------- 252
+ + + C + LL + FL I H
Sbjct: 250 LLNVQNAKAWNAFNLS---C----KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE 302
Query: 253 ---LLLQVIKIKVQTRIGKEDFVTS--VRNVLAAHYKDQPVGLGGVILIEN-----APAK 302
LLL+ + + Q + +E T+ +++A +D +N
Sbjct: 303 VKSLLLKYLDCRPQD-LPREVLTTNPRRLSIIAESIRDGL------ATWDNWKHVNCDKL 355
Query: 303 HHVMPDFSTTPLETKDQLNVRSNYIGLGGVILIENAPAKHHVMPDF--STTPLETKDQLN 360
++ + S LE + R + L + +A ++ + +N
Sbjct: 356 TTII-ESSLNVLEPAEY---RKMFDRL--SVFPPSAHIPTILLSLIWFDVIKSDVMVVVN 409
Query: 361 EW----LVFKDLTPPLISVGTVISADVSLSIPSILSSTQFEALKGKVCENTLKAIADMGF 416
+ LV K + ++SIPSI + + ++
Sbjct: 410 KLHKYSLVEKQ------------PKESTISIPSIYLELKVKLENEYALHRSI-------- 449
Query: 417 TKMTEIQARTIPPLLEGRDLVGSAKTG---------------SGKTLAFLVPAVELIY-N 460
+ IP + DL+ + F +++ +
Sbjct: 450 -----VDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLF-----RMVFLD 499
Query: 461 LKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGIN 520
+F+ + I S S L++L Y + I
Sbjct: 500 FRFLEQK---IRHDSTAWNASGSILNTLQQLKFYKPY---------------------IC 535
Query: 521 IIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIG--------FEEDMKQI 567
RL++ + + FL K + LI + +L I FEE KQ+
Sbjct: 536 DNDPKYERLVNAILD---FLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQV 587
>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 = 64.6 bits (157), Expect = 8e-11
Identities = 48/344 (13%), Positives = 90/344 (26%), Gaps = 82/344 (23%)
Query: 432 EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKEL 491
+ A TGSGK+ VPA G +++++P+ ++ +
Sbjct: 231 SFQVAHLHAPTGSGKSTK--VPA-AYA-------AQGYKVLVLNPSVAATLG---FGAYM 277
Query: 492 MKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDE 551
K H + G + G + +T G+ L +I DE
Sbjct: 278 SKAHGIDPNIRTGVRTIT-------TGAPVTYSTYGKFL--ADGGCSG--GAYDIIICDE 326
Query: 552 ADRILDIGFEEDMKQIVNLLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGVDDTKEE 611
D + +++ ++ AT T +E +
Sbjct: 327 CH-STDSTTILGIGTVLDQAETAGARLVVLATATPPGSVTVPHPNIEEVALSNTGEIPFY 385
Query: 612 ATVAGLEQGYVVCPSEKRFLLLFTFLKKNRKKKVMVFFSS---CMSVKFHHELLNYIDLP 668
+E R + ++F S C + L+ + +
Sbjct: 386 GKAIPIEA--------------------IRGGRHLIFCHSKKKCDEL---AAKLSGLGIN 422
Query: 669 VMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIV--------QYDPP 720
+ + + T +++ TD G D ++ D
Sbjct: 423 AVAYYRGL-DVSVIPT------IGDVVVVATDALMTGYTGD-FDSVIDCNTCVTQTVDFS 474
Query: 721 DDPK-------------EYIHRVGRTARGEGSSGHALLILRPEE 751
DP R GRT RG G + E
Sbjct: 475 LDPTFTIETTTVPQDAVSRSQRRGRTGRGR--RGIYRFVTPGER 516
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 62.6 bits (151), Expect = 3e-10
Identities = 31/161 (19%), Positives = 59/161 (36%), Gaps = 7/161 (4%)
Query: 423 QARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYN-LKFMPRNGTGIII-ISPTREL 480
Q P +G++ + A TG GKT ++ + + LK P G ++ + +
Sbjct: 9 QLELALPAKKGKNTIICAPTGCGKTFV----SLLICEHHLKKFPCGQKGKVVFFANQIPV 64
Query: 481 SMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFL 540
Q V + + I G S Q + + +II+ TP L+++L N
Sbjct: 65 YEQQATVFSRYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIPS 124
Query: 541 YKNLQCLIIDEADRILDIG-FEEDMKQIVNLLPKRRQTMLF 580
+I DE + + M + ++ + L
Sbjct: 125 LSVFTLMIFDECHNTSKNHPYNQIMFRYLDHKLGESRDPLP 165
Score = 59.5 bits (143), Expect = 3e-09
Identities = 24/133 (18%), Positives = 44/133 (33%), Gaps = 16/133 (12%)
Query: 627 EKRFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYI----DLPVMCIHGK------- 675
+L+L + K ++F + V + + L + G+
Sbjct: 374 RDLYLVLQEEYHLKPETKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRAT 433
Query: 676 ---QKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGR 732
K F + + IL+ T VA G+DI + ++ Y+ + + I GR
Sbjct: 434 GMTLPAQKCVLEAF-RASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKMIQTRGR 492
Query: 733 TARGEGSSGHALL 745
R S L
Sbjct: 493 -GRARDSKCFLLT 504
>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 = 62.3 bits (150), Expect = 5e-10
Identities = 32/196 (16%), Positives = 67/196 (34%), Gaps = 19/196 (9%)
Query: 633 LFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYI----DLPVMCIHG----------KQKQ 678
L + N + + ++F + V + + + + G
Sbjct: 622 LDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPS 681
Query: 679 MKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEG 738
K F+ + + +L+ T VA G+DI + +V Y+ + + I GR R G
Sbjct: 682 QKGVLDAFK-TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAAG 739
Query: 739 SSGHALLILRPEELGFLRYLKQAKIPLNEF--EFSWSKISDIQLQLEKLISKNYFLNMSG 796
S L+ + E + + + + +N+ + ++ L K L S
Sbjct: 740 SK-CILVTSKTEVVENEKCNRYKEEMMNKAVEKIQKWDEETFAKKIHNLQMKERVLRDSR 798
Query: 797 KEAFKAYVRAYDSHHL 812
++ K V + L
Sbjct: 799 RKEIKPKVVEGQKNLL 814
Score = 57.7 bits (138), Expect = 1e-08
Identities = 26/136 (19%), Positives = 51/136 (37%), Gaps = 6/136 (4%)
Query: 421 EIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTG--IIIISPTR 478
Q P + G++ + A TGSGKT ++ + + G ++ ++
Sbjct: 251 SYQIELAQPAINGKNALICAPTGSGKTFV----SILICEHHFQNMPAGRKAKVVFLATKV 306
Query: 479 ELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPE 538
+ Q V K + ++ I G +K+ + +IIV TP L++ ++
Sbjct: 307 PVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTL 366
Query: 539 FLYKNLQCLIIDEADR 554
+I DE
Sbjct: 367 TSLSIFTLMIFDECHN 382
>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 = 61.9 bits (149), Expect = 6e-10
Identities = 26/136 (19%), Positives = 51/136 (37%), Gaps = 6/136 (4%)
Query: 421 EIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTG--IIIISPTR 478
Q P + G++ + A TGSGKT ++ + + G ++ ++
Sbjct: 10 SYQIELAQPAINGKNALICAPTGSGKTFV----SILICEHHFQNMPAGRKAKVVFLATKV 65
Query: 479 ELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPE 538
+ Q V K + ++ I G +K+ + +IIV TP L++ ++
Sbjct: 66 PVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTL 125
Query: 539 FLYKNLQCLIIDEADR 554
+I DE
Sbjct: 126 TSLSIFTLMIFDECHN 141
Score = 59.6 bits (143), Expect = 3e-09
Identities = 34/252 (13%), Positives = 75/252 (29%), Gaps = 27/252 (10%)
Query: 513 QKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLP 572
+ ++ + + + +C ++ D+ + + L
Sbjct: 250 MRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRICRALFICTEHLR 309
Query: 573 KRRQTMLFSAT----------TTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGYV 622
K ++ S T T + E KE +A +
Sbjct: 310 KYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPELIALSKDETN 369
Query: 623 VCPSEKRFL-LLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYI----DLPVMCIHG--- 674
P + + +L + N + + ++F + V + + + + G
Sbjct: 370 ENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGR 429
Query: 675 -------KQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYI 727
K F+ + + +L+ T VA G+DI + +V Y+ + + I
Sbjct: 430 RDQTTGMTLPSQKGVLDAFK-TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMI 488
Query: 728 HRVGRTARGEGS 739
GR R GS
Sbjct: 489 QVRGR-GRAAGS 499
>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 = 61.3 bits (148), Expect = 1e-09
Identities = 47/226 (20%), Positives = 84/226 (37%), Gaps = 29/226 (12%)
Query: 423 QARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSM 482
Q I + G ++ SA T +GKT V A I +N +I SP + LS
Sbjct: 91 QDTAISCIDRGESVLVSAHTSAGKT----VVAEYAIAQSL---KNKQRVIYTSPIKALSN 143
Query: 483 QTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYK 542
Q + L GL+ G + +A +V T L L E + +
Sbjct: 144 QKYRELLAE----FGDVGLMTGDITINPDA-------GCLVMTTEILRSMLYRGSEVM-R 191
Query: 543 NLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSATTTAKTETLTK--LALKKEP 600
+ +I DE + D ++ + LLP + + + SA T + + +P
Sbjct: 192 EVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSA-TIPNAMEFAEWICKIHSQP 250
Query: 601 VYIGVDDTKEEATVAGLEQGYVVCPSEKRFLLL---FTFLKKNRKK 643
+I + + L+ + +L++ TF ++N +K
Sbjct: 251 CHIVYTNFRPTP----LQHYLFPAHGDGIYLVVDEKSTFREENFQK 292
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 61.1 bits (147), Expect = 1e-09
Identities = 24/137 (17%), Positives = 52/137 (37%), Gaps = 6/137 (4%)
Query: 421 EIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTG--IIIISPTR 478
Q P ++G++ + A TG GKT ++ + + G ++ +
Sbjct: 16 NYQLELALPAMKGKNTIICAPTGCGKTFV----SLLICEHHLKKFPQGQKGKVVFFANQI 71
Query: 479 ELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPE 538
+ Q V + + H + I G + +++ + +II+ TP L+++L+
Sbjct: 72 PVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTI 131
Query: 539 FLYKNLQCLIIDEADRI 555
+I DE
Sbjct: 132 PSLSIFTLMIFDECHNT 148
Score = 58.5 bits (140), Expect = 7e-09
Identities = 24/128 (18%), Positives = 43/128 (33%), Gaps = 16/128 (12%)
Query: 632 LLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYI----DLPVMCIHGK----------QK 677
+L N + ++F + V + L + G+
Sbjct: 388 ILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLP 447
Query: 678 QMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGE 737
K F+ + + IL+ T VA G+DI + ++ Y+ + + I GR R
Sbjct: 448 AQKCILDAFKA-SGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GRAR 505
Query: 738 GSSGHALL 745
GS L
Sbjct: 506 GSKCFLLT 513
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 60.9 bits (148), Expect = 1e-09
Identities = 39/149 (26%), Positives = 65/149 (43%), Gaps = 14/149 (9%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPP-LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF 463
N ++ I G K+ Q + LLEG L+ ++ TGSGKTL + I + F
Sbjct: 17 SNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEM----GI--ISF 70
Query: 464 MPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIV 523
+ +NG I ++P R L+ + + K+ + G + L +II+
Sbjct: 71 LLKNGGKAIYVTPLRALTNEKYLTFKDWELIGFKV-AMTSGD--YDTDDAWLKNY-DIII 126
Query: 524 ATPGRLLDHLQNT-PEFLYKNLQCLIIDE 551
T + LD L PE+L + ++DE
Sbjct: 127 TTYEK-LDSLWRHRPEWL-NEVNYFVLDE 153
>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 = 60.8 bits (146), Expect = 1e-09
Identities = 26/136 (19%), Positives = 51/136 (37%), Gaps = 6/136 (4%)
Query: 421 EIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTG--IIIISPTR 478
Q P + G++ + A TGSGKT ++ + + G ++ ++
Sbjct: 251 SYQIELAQPAINGKNALICAPTGSGKTFV----SILICEHHFQNMPAGRKAKVVFLATKV 306
Query: 479 ELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPE 538
+ Q V K + ++ I G +K+ + +IIV TP L++ ++
Sbjct: 307 PVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTL 366
Query: 539 FLYKNLQCLIIDEADR 554
+I DE
Sbjct: 367 TSLSIFTLMIFDECHN 382
Score = 58.8 bits (141), Expect = 5e-09
Identities = 25/150 (16%), Positives = 54/150 (36%), Gaps = 17/150 (11%)
Query: 633 LFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYI----DLPVMCIHG----------KQKQ 678
L + N + + ++F + V + + + + G
Sbjct: 622 LDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPS 681
Query: 679 MKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEG 738
K F+ + + +L+ T VA G+DI + +V Y+ + + I GR R G
Sbjct: 682 QKGVLDAFK-TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAAG 739
Query: 739 SSGHALLILRPEELGFLRYLKQAKIPLNEF 768
S L+ + E + + + + +N+
Sbjct: 740 SK-CILVTSKTEVVENEKCNRYKEEMMNKA 768
>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 = 60.6 bits (146), Expect = 2e-09
Identities = 47/226 (20%), Positives = 84/226 (37%), Gaps = 29/226 (12%)
Query: 423 QARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSM 482
Q I + G ++ SA T +GKT V A I +N +I SP + LS
Sbjct: 189 QDTAISCIDRGESVLVSAHTSAGKT----VVAEYAIAQSL---KNKQRVIYTSPIKALSN 241
Query: 483 QTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYK 542
Q + L GL+ G + +A +V T L L E + +
Sbjct: 242 QKYRELLAE----FGDVGLMTGDITINPDA-------GCLVMTTEILRSMLYRGSEVM-R 289
Query: 543 NLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSATTTAKTETLTK--LALKKEP 600
+ +I DE + D ++ + LLP + + + SA T + + +P
Sbjct: 290 EVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSA-TIPNAMEFAEWICKIHSQP 348
Query: 601 VYIGVDDTKEEATVAGLEQGYVVCPSEKRFLLL---FTFLKKNRKK 643
+I + + L+ + +L++ TF ++N +K
Sbjct: 349 CHIVYTNFRPTP----LQHYLFPAHGDGIYLVVDEKSTFREENFQK 390
>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 = 56.8 bits (137), Expect = 2e-08
Identities = 65/354 (18%), Positives = 109/354 (30%), Gaps = 78/354 (22%)
Query: 442 TGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGL 501
TGSGKT A+ I L T +I+ PT L+ Q + L + G
Sbjct: 117 TGSGKTHV----AMAAINELS------TPTLIVVPTLALAEQWK---ERLGIFGEEYVGE 163
Query: 502 IMGG--------------ASRQAE------------------AQKLAKGINIIV------ 523
G A AE A+ + + +
Sbjct: 164 FSGRIKELKPLTVSTYDSAYVNAEKLGNRFMLLIFDEVHHLPAESYVQIAQMSIAPFRLG 223
Query: 524 --ATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
AT R + E + + L D + + V L R
Sbjct: 224 LTATFEREDGRHEILKEVVGGKVFELFPDSLAGKHLAKYTI-KRIFVPLAEDERVEYEKR 282
Query: 582 ATTTAKTETLTKLALK------KEPVYIGVDDTKEEATVAGLEQGYVVCPSEKRFLLLFT 635
+ + L+ K + G D+ EA A E + S+ + L
Sbjct: 283 EKVYKQFLRARGITLRRAEDFNKIVMASGYDERAYEALRAWEEARRIAFNSKNKIRKLRE 342
Query: 636 FLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGI 695
L+++RK K+++F + + + +P I + + +R F
Sbjct: 343 ILERHRKDKIIIF---TRHNELVYRISKVFLIPA--ITHRTSREEREEILEGFRTGRFRA 397
Query: 696 LLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRP 749
++ + V G+D+P + V +EYI R+GR ILRP
Sbjct: 398 IVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR-------------ILRP 438
>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 = 56.4 bits (136), Expect = 3e-08
Identities = 39/180 (21%), Positives = 68/180 (37%), Gaps = 12/180 (6%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPP-LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF 463
E + + G QA + +LEG++ + S T SGKTL + V I
Sbjct: 10 ERIKSTLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQGG 69
Query: 464 MPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIV 523
+ I P + L+ + F ++ K + G + E +II+
Sbjct: 70 K------AVYIVPLKALAEEKFQEFQDWEKIGLRV-AMATGDYDSKDEWLGKY---DIII 119
Query: 524 ATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSAT 583
AT + D L K+++ L+ DE I ++ I+ + + Q + SAT
Sbjct: 120 ATAEK-FDSLLRHGSSWIKDVKILVADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSAT 178
>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 = 55.2 bits (133), Expect = 7e-08
Identities = 31/144 (21%), Positives = 57/144 (39%), Gaps = 12/144 (8%)
Query: 408 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRN 467
+ + + G ++ QA + + G++L+ + T +GKTL + V
Sbjct: 15 VGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREA-------IK 67
Query: 468 GTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPG 527
G + + P R L+ + + K+ K G+ G + E +IIV T
Sbjct: 68 GGKSLYVVPLRALAGEKYESFKKWEKIGLRI-GISTGDYESRDEHLGDC---DIIVTTSE 123
Query: 528 RLLDHLQNTPEFLYKNLQCLIIDE 551
+ D L K + CL++DE
Sbjct: 124 K-ADSLIRNRASWIKAVSCLVVDE 146
>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 = 50.5 bits (120), Expect = 2e-06
Identities = 25/110 (22%), Positives = 45/110 (40%), Gaps = 3/110 (2%)
Query: 629 RFLLLFTFLKKNRKKKVMVFFSSCMSVKF-HHELLNYIDLPVMCIHGKQKQMKRTTTFFQ 687
R L +L +R +KV+V + + L + H ++R
Sbjct: 490 RVEWLMGYLTSHRSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAW 549
Query: 688 FCNAETG--ILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTAR 735
F +TG +LLC+++ + G + +V +D P +P R+GR R
Sbjct: 550 FAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDR 599
>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 = 49.8 bits (119), Expect = 2e-06
Identities = 43/347 (12%), Positives = 93/347 (26%), Gaps = 77/347 (22%)
Query: 430 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVL- 488
+ R + G+GKT L + + R +I++PTR ++ + L
Sbjct: 16 FRKKRLTIMDLHPGAGKTKRIL-----PSIVREALLRRLR-TLILAPTRVVAAEMEEALR 69
Query: 489 KELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLI 548
++Y G + + L ++ N ++
Sbjct: 70 GLPIRYQTPAVKSDHTGREI------------VDLMCHATFTTRLLSSTRV--PNYNLIV 115
Query: 549 IDEA-----DRILDIGFEEDMKQIVNLLPKRRQTMLFSATTTAKTETLTKLALKKEPVYI 603
+DEA + G+ ++ + +AT T+ P+
Sbjct: 116 MDEAHFTDPCSVAARGYISTRVEMGEAAA-----IFMTATPPGSTDPFP---QSNSPIED 167
Query: 604 GVDDTKEEATVAGLEQGYVVCPSEKRFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLN 663
+ E + G + + + K + F S + L
Sbjct: 168 IEREIPERSWNTGFD------------------WITDYQGKTVWFVPSIKAGNDIANCLR 209
Query: 664 YIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIP---------AVDWI 714
V+ + K + T + ++ TD++ G + + +
Sbjct: 210 KSGKRVIQLSRKTFDTEYPKTK----LTDWDFVVTTDISEMGANFRAGRVIDPRRCLKPV 265
Query: 715 VQYDPPD----------DPKEYIHRVGRTARGEGSSGHALLILRPEE 751
+ D P+ P R GR R + +
Sbjct: 266 ILTDGPERVILAGPIPVTPASAAQRRGRIGRNPA--QEDDQYVFSGD 310
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 49.9 bits (118), Expect = 3e-06
Identities = 38/302 (12%), Positives = 86/302 (28%), Gaps = 17/302 (5%)
Query: 462 KFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINI 521
++ I+II PT L+ Q + + H I GGAS+ + + A +
Sbjct: 151 YYLENYEGKILIIVPTTALTTQMADDFVDYRLFSHAMIKKIGGGASKDDKYKNDAPVVVG 210
Query: 522 IVATPGRLLDHLQNTPEFLY-KNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLF 580
T + + + I+ K ++ + + +
Sbjct: 211 TWQTVVKQPKEWFSQFGMMMNDECHLATGKSISSIISGLNNCMFKFGLSGSLRDGKANIM 270
Query: 581 S--------ATTTAKTETLTKLALKKEPVYIGVDDTKEEATVAGLEQGY-------VVCP 625
++ + + + + +E T + Y
Sbjct: 271 QYVGMFGEIFKPVTTSKLMEDGQVTELKINSIFLRYPDEFTTKLKGKTYQEEIKIITGLS 330
Query: 626 SEKRFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTF 685
+++ + + V F K +L+ V + G+ R
Sbjct: 331 KRNKWIAKLAIKLAQKDENAFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMK 390
Query: 686 FQFCNAETGILLCT-DVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHAL 744
N + I++ + V + G+ + + +V + +GR R GS A
Sbjct: 391 TLAENGKGIIIVASYGVFSTGISVKNLHHVVLAHGVKSKIIVLQTIGRVLRKHGSKTIAT 450
Query: 745 LI 746
+
Sbjct: 451 VW 452
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 49.8 bits (118), Expect = 4e-06
Identities = 42/162 (25%), Positives = 68/162 (41%), Gaps = 17/162 (10%)
Query: 423 QARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSM 482
Q + L +G + +A T +GKT V A I RN T I SP + LS
Sbjct: 44 QKEAVYHLEQGDSVFVAAHTSAGKT----VVAEYAIAMAH---RNMTKTIYTSPIKALSN 96
Query: 483 QTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYK 542
Q F KE + GLI G +A N ++ T L L + + +
Sbjct: 97 QKFRDFKE--TFDDVNIGLITGDVQINPDA-------NCLIMTTEILRSMLYRGADLI-R 146
Query: 543 NLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSATT 584
+++ +I DE + D ++++ +LP+ + +L SAT
Sbjct: 147 DVEFVIFDEVHYVNDQDRGVVWEEVIIMLPQHVKFILLSATV 188
>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 = 48.7 bits (116), Expect = 5e-06
Identities = 53/335 (15%), Positives = 93/335 (27%), Gaps = 75/335 (22%)
Query: 430 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLK 489
L +G V G+GKT FL P + L R ++++PTR + + + +
Sbjct: 5 LKKGMTTVLDFHPGAGKTRRFL-PQI-----LAECARRRLRTLVLAPTRVVLSE---MKE 55
Query: 490 ELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLII 549
H S + I L + N + +I+
Sbjct: 56 AF---HGLDVKFHTQAFSAHGSGR-----EVIDAMCHATLTYRMLEPTRV--VNWEVIIM 105
Query: 550 DE-----ADRILDIGFEEDMKQIVNLLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIG 604
DE I G+ T+L +AT ++ + E V
Sbjct: 106 DEAHFLDPASIAARGWAAHR-----ARANESATILMTATPPGTSDEFPHSNGEIEDVQ-- 158
Query: 605 VDDTKEEATVAGLEQGYVVCPSEKRFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNY 664
D E G + K+ F S + L
Sbjct: 159 -TDIPSEPWNTGHD------------------WILADKRPTAWFLPSIRAANVMAASLRK 199
Query: 665 IDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPA---VDWIVQYDPP- 720
V+ ++ K + + T + +L TD+A G ++ +D + P
Sbjct: 200 AGKSVVVLNRKTFEREYPTIK----QKKPDFILATDIAEMGANLCVERVLDCRTAFKPVL 255
Query: 721 DDPKEYIH-----------------RVGRTARGEG 738
D + R+GR +G
Sbjct: 256 VDEGRKVAIKGPLRISASSAAQRRGRIGRNPNRDG 290
>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea,
helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16
c.37.1.16 e.10.1.1 PDB: 1gl9_B*
Length = 1054
Score = 48.1 bits (115), Expect = 1e-05
Identities = 35/171 (20%), Positives = 64/171 (37%), Gaps = 29/171 (16%)
Query: 430 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLK 489
+L +A TG GKT L ++ F+ G +I PT L +Q ++
Sbjct: 68 ILRKESFAATAPTGVGKTSFGLAMSL-------FLALKGKRCYVIFPTSLLVIQAAETIR 120
Query: 490 ELMKYHHHTYGLIMG---GASRQAEAQKLAKGI---NIIVATPGRLLDHLQNTPEFLYKN 543
+ + ++G G + E + + + I++ T L H + F +
Sbjct: 121 KYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTTQFLSKHYRELGHFDF-- 178
Query: 544 LQCLIIDEADRILD-----------IGFEEDMKQIVNLLPKRRQTMLFSAT 583
+ +D+ D IL +GF D+K + R M+ +AT
Sbjct: 179 ---IFVDDVDAILKASKNVDKLLHLLGFHYDLKTKSWVGEARGCLMVSTAT 226
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase,
nucleotide excision repair,; 2.20A {Thermoplasma
acidophilum} PDB: 2vsf_A*
Length = 620
Score = 42.4 bits (100), Expect = 7e-04
Identities = 15/75 (20%), Positives = 26/75 (34%), Gaps = 6/75 (8%)
Query: 430 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLK 489
L + + + TGSGKT+ L A L++ ++ + T Q L+
Sbjct: 19 LQKSYGVALESPTGSGKTIMALKSA------LQYSSERKLKVLYLVRTNSQEEQVIKELR 72
Query: 490 ELMKYHHHTYGLIMG 504
L + G
Sbjct: 73 SLSSTMKIRAIPMQG 87
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 40.2 bits (94), Expect = 0.002
Identities = 44/331 (13%), Positives = 80/331 (24%), Gaps = 78/331 (23%)
Query: 433 GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTREL--SMQTFGVLKE 490
V G+GKT V + +K +I++PTR + M + E
Sbjct: 2 RELTVLDLHPGAGKTRR--VLPQLVREAVK----KRLRTVILAPTRVVASEMYEA-LRGE 54
Query: 491 LMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIID 550
++Y G + L N I+D
Sbjct: 55 PIRYMTPAVQSERTGNEI------------VDFMCHSTFTMKLLQGVRV--PNYNLYIMD 100
Query: 551 EA-----DRILDIGFEEDMKQIVNLLPKRRQTMLFSATTTAKTETLTKLALKKEPVYIGV 605
EA + G+ E + +AT TE +
Sbjct: 101 EAHFLDPASVAARGYIETRVS-----MGDAGAIFMTATPPGTTEAFPPSNSPIIDEETRI 155
Query: 606 DDTKEEATVAGLEQGYVVCPSEKRFLLLFTFLKKNRKKKVMVFFSSCMSVKFHHELLNYI 665
D + + + + + F S L
Sbjct: 156 PDKAWNSGYEWITEF---------------------DGRTVWFVHSIKQGAEIGTCLQKA 194
Query: 666 DLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPA---VD---WIVQYDP 719
V+ ++ K + + + + ++ TD++ G + A +D I
Sbjct: 195 GKKVLYLNRKTFESEYPKCK----SEKWDFVITTDISEMGANFKADRVIDPRKTIKPILL 250
Query: 720 PDDPK------------EYIHRVGRTARGEG 738
D + R GR R
Sbjct: 251 --DGRVSMQGPIAITPASAAQRRGRIGRNPE 279
>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 = 0.006
Identities = 45/345 (13%), Positives = 91/345 (26%), Gaps = 76/345 (22%)
Query: 420 TEIQARTIPPLL-EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTR 478
+ R P +L + + V GSGKT L ++ + +++PTR
Sbjct: 7 GQQMGRGSPNMLRKRQMTVLDLHPGSGKTRKILPQIIKDAIQQRLR------TAVLAPTR 60
Query: 479 ELSMQTFGVLKELMKY-HHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTP 537
++ + + + L + + + V L L +
Sbjct: 61 VVAAE---MAEALRGLPVRYQTSAVQREHQGNE---------IVDVMCHATLTHRLMSPN 108
Query: 538 EFLYKNLQCLIIDE-----ADRILDIGFEEDMKQIVNLLPKRRQTMLFSATTTAKTETLT 592
N ++DE I G+ ++ + +AT T
Sbjct: 109 RV--PNYNLFVMDEAHFTDPASIAARGYIATKVELGEAA-----AIFMTATPPGTT---D 158
Query: 593 KLALKKEPVYIGVDDTKEEATVAGLEQGYVVCPSEKRFLLLFTFLKKNRKKKVMVFFSSC 652
P++ D+ + A +G E K + F +S
Sbjct: 159 PFPDSNAPIHDLQDEIPDRAWSSGYE------------------WITEYAGKTVWFVASV 200
Query: 653 MSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIP--- 709
L V+ ++ K + N + ++ TD++ G +
Sbjct: 201 KMGNEIAMCLQRAGKKVIQLNRKSYDTEYPKCK----NGDWDFVITTDISEMGANFGASR 256
Query: 710 ------AVDWIVQYDPPDDPKEY----------IHRVGRTARGEG 738
+V + + R GR R
Sbjct: 257 VIDCRKSVKPTILEEGEGRVILGNPSPITSASAAQRRGRVGRNPN 301
>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 = 35.2 bits (82), Expect = 0.11
Identities = 45/213 (21%), Positives = 67/213 (31%), Gaps = 67/213 (31%)
Query: 423 QARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSM 482
Q I +L GRD + TG GK+L + +PA L+ NG +++SP
Sbjct: 30 QEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPA--LL-------LNGLT-VVVSP------ 73
Query: 483 QTFGVLKELMK--------------YHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGR 528
L LMK + T + I ++ P R
Sbjct: 74 -----LISLMKDQVDQLQANGVAAACLNST---QTREQQLEVMTGCRTGQIRLLYIAPER 125
Query: 529 LLDHLQNTPEFLY----KNLQCLIIDEA--------DRILDIGFEED---MKQIVNLLPK 573
L+ FL N L +DEA D F + + Q+ P
Sbjct: 126 LM-----LDNFLEHLAHWNPVLLAVDEAHCISQWGHD------FRPEYAALGQLRQRFPT 174
Query: 574 RRQTMLFSATTTAKT--ETLTKLALKKEPVYIG 604
M +AT T + + L L + I
Sbjct: 175 -LPFMALTATADDTTRQDIVRLLGLNDPLIQIS 206
>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer
aging, hydrolase; HET: FLC; 2.00A {Sulfolobus
acidocaldarius} PDB: 3crw_1*
Length = 551
Score = 34.6 bits (79), Expect = 0.13
Identities = 16/75 (21%), Positives = 33/75 (44%), Gaps = 10/75 (13%)
Query: 430 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLK 489
L + +A TGSGKTL L+ ++E P+ ++ + T + L
Sbjct: 19 LRNNFLVALNAPTGSGKTLFSLLVSLE------VKPK----VLFVVRTHNEFYPIYRDLT 68
Query: 490 ELMKYHHHTYGLIMG 504
++ + + T+ ++G
Sbjct: 69 KIREKRNITFSFLVG 83
>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA
binding protein; HET: DNA; 2.00A {Enterobacteria phage
T4} SCOP: c.37.1.23
Length = 282
Score = 33.9 bits (76), Expect = 0.17
Identities = 21/122 (17%), Positives = 42/122 (34%), Gaps = 11/122 (9%)
Query: 462 KFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINI 521
++ I+II PT L+ Q + + H I GGAS+ + + +
Sbjct: 151 YYLENYEGKILIIVPTTALTTQMADDFVDYRLFSHAMIKKIGGGASKDDKYK---NDAPV 207
Query: 522 IVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
+V T + P+ + ++ DE + + I++ L S
Sbjct: 208 VVGTW----QTVVKQPKEWFSQFGMMMNDECHLATG----KSISSIISGLNNCMFKFGLS 259
Query: 582 AT 583
+
Sbjct: 260 GS 261
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 33.1 bits (76), Expect = 0.24
Identities = 25/114 (21%), Positives = 35/114 (30%), Gaps = 26/114 (22%)
Query: 439 SAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHT 498
TGSGKT + + T +I+ PT L+ Q L + +
Sbjct: 114 VLPTGSGKTH--------VAMAA--INELSTPTLIVVPTLALAEQWKERLGIFGEEYVGE 163
Query: 499 YGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEA 552
+ G K K + V+T D E L LI DE
Sbjct: 164 FS---GR-------IKELKP--LTVST----YDSAYVNAEKLGNRFMLLIFDEV 201
>2w00_A HSDR, R.ECOR124I; ATP-binding, DNA-binding, restriction system,
helicase, HYDR R.ECOR124I, nucleotide-binding; HET: ATP;
2.6A {Escherichia coli} PDB: 2y3t_A* 2w74_B*
Length = 1038
Score = 32.6 bits (74), Expect = 0.71
Identities = 29/115 (25%), Positives = 45/115 (39%), Gaps = 13/115 (11%)
Query: 442 TGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGL 501
TGSGKTL A L L F+ + + + ++L QT +
Sbjct: 309 TGSGKTLT-SFKAARLATELDFIDK----VFFVVDRKDLDYQTMKEYQRFSPDS------ 357
Query: 502 IMGGASRQAEAQKLAKGIN-IIVATPGRLLDHLQNTPEFLYKNLQCLII-DEADR 554
+ G + + L K N IIV T +L + ++ + N Q + I DE R
Sbjct: 358 VNGSENTAGLKRNLDKDDNKIIVTTIQKLNNLMKAESDLPVYNQQVVFIFDECHR 412
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A
{Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19
c.37.1.19
Length = 780
Score = 32.2 bits (74), Expect = 0.77
Identities = 30/118 (25%), Positives = 48/118 (40%), Gaps = 27/118 (22%)
Query: 443 GSGKTL-AFL--VPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTY 499
GSGKT+ A L + E G + PT L++Q + E +
Sbjct: 399 GSGKTVVAQLAILDNYE----------AGFQTAFMVPTSILAIQHYRRTVESFSKFNIHV 448
Query: 500 GLIMG---GASRQAEAQKLAKG-INIIVATPGRLLDH--LQNTPEFLYKNLQCLIIDE 551
L++G + ++ L G I++++ T H +Q F KNL +IIDE
Sbjct: 449 ALLIGATTPSEKEKIKSGLRNGQIDVVIGT------HALIQEDVHF--KNLGLVIIDE 498
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 31.4 bits (71), Expect = 1.2
Identities = 20/155 (12%), Positives = 46/155 (29%), Gaps = 19/155 (12%)
Query: 440 AKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKEL----MKYH 495
TG+GK++ EL Y + R ++I+ P ++ + FG K++
Sbjct: 60 GATGTGKSVLL----RELAYTG--LLRGDR-MVIVDPNGDM-LSKFGRDKDIILNPYDQR 111
Query: 496 HHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADR- 554
+ + Q+ A +++ + + L + +
Sbjct: 112 TKGWSF-FNEIRNDYDWQRYAL--SVVPRGKTDEAEEWASYGRLLLRETAKKLALIGTPS 168
Query: 555 ---ILDIGFEEDMKQIVNLLPKRRQTMLFSATTTA 586
+ + L LF+ + A
Sbjct: 169 MRELFHWTTIATFDDLRGFLEGTLAESLFAGSNEA 203
>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 = 30.3 bits (69), Expect = 2.7
Identities = 39/214 (18%), Positives = 73/214 (34%), Gaps = 62/214 (28%)
Query: 423 QARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSM 482
Q TI + G+++ TG GK+L + +PA L +G ++I P
Sbjct: 49 QLETINVTMAGKEVFLVMPTGGGKSLCYQLPA--LC-------SDGFT-LVICP------ 92
Query: 483 QTFGVLKELMK---YHHHTYGL---IMGGASRQAEAQKLAKGIN-------IIVATPGRL 529
L LM+ G+ ++ +S + + + + +I TP ++
Sbjct: 93 -----LISLMEDQLMVLKQLGISATMLNASSSKEHVKWVHAEMVNKNSELKLIYVTPEKI 147
Query: 530 L--DHLQNTPEFLYK--NLQCLIIDEA--------DRILDIGFEEDMKQIVNLLPKRRQ- 576
+ E Y+ + +DE D F D K + L +RQ
Sbjct: 148 AKSKMFMSRLEKAYEARRFTRIAVDEVHCCSQWGHD------FRPDYKALGIL---KRQF 198
Query: 577 ----TMLFSATTTAKT--ETLTKLALKKEPVYIG 604
+ +AT T + L ++K +
Sbjct: 199 PNASLIGLTATATNHVLTDAQKILCIEKCFTFTA 232
>2nly_A BH1492 protein, divergent polysaccharide deacetylase hypothetical;
PFAM04748, structural PSI, protein structure initiative;
2.50A {Bacillus halodurans} SCOP: c.6.2.7
Length = 245
Score = 30.0 bits (67), Expect = 3.0
Identities = 13/62 (20%), Positives = 31/62 (50%), Gaps = 3/62 (4%)
Query: 487 VLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQC 546
+L+ + + + +I G S + +LA+ + + AT LD+ ++ + + KN++
Sbjct: 120 ILEVVKEKNAF---IIDSGTSPHSLIPQLAEELEVPYATRSIFLDNTHSSRKEVIKNMRK 176
Query: 547 LI 548
L
Sbjct: 177 LA 178
>2pid_A Tyrosyl-tRNA synthetase; aminoacyl-tRNA synthetase,
protein-substrate complex, ATP-BI ligase, mitochondrion,
nucleotide-binding, protein biosynth; HET: YSA; 2.20A
{Homo sapiens} PDB: 3zxi_A*
Length = 356
Score = 29.5 bits (67), Expect = 4.5
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 231 RFLLLFTFLKKNHIGEIVAWH 251
R+L LFTFL I I+ H
Sbjct: 289 RYLKLFTFLPLPEIDHIMQLH 309
>2jan_A Tyrosyl-tRNA synthetase; protein biosynthesis, aminoacyl-tRNA
synthetase, tyrrs, ligase, tyrosine, RNA-binding,
ATP-binding; 2.9A {Mycobacterium tuberculosis}
Length = 432
Score = 29.1 bits (66), Expect = 6.6
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 231 RFLLLFTFLKKNHIGEIVAWH 251
R+L FTFL + + E+
Sbjct: 267 RYLRWFTFLSADELAELEQAT 287
>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 = 28.0 bits (61), Expect = 8.9
Identities = 6/22 (27%), Positives = 11/22 (50%), Gaps = 4/22 (18%)
Query: 86 LDRIVAELTVYPPESFTLSNPS 107
L ++ A L +Y + S P+
Sbjct: 22 LKKLQASLKLYADD----SAPA 39
Score = 28.0 bits (61), Expect = 9.5
Identities = 9/31 (29%), Positives = 15/31 (48%), Gaps = 9/31 (29%)
Query: 108 KLTHNDGQSHLEEHKLTHNDATP-LLVSVSI 137
KL Q+ L KL +D+ P L + ++
Sbjct: 24 KL-----QASL---KLYADDSAPALAIKATM 46
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
0.320 0.136 0.400
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: 12,842,998
Number of extensions: 798864
Number of successful extensions: 1926
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1714
Number of HSP's successfully gapped: 132
Length of query: 838
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 736
Effective length of database: 3,853,851
Effective search space: 2836434336
Effective search space used: 2836434336
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 (21.8 bits)
S2: 61 (27.9 bits)