RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15524
(930 letters)
>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 = 361 bits (929), Expect = e-114
Identities = 141/572 (24%), Positives = 250/572 (43%), Gaps = 58/572 (10%)
Query: 352 KKTEVKSGPISSLFQNNPDIPNVPTRRLKPVSEALFAPTSYEEFPGIHPFMKKNLNEGMN 411
+ + + + + S+ + + EE + + K + M
Sbjct: 34 RPRTRSREDDDEVHFDKTTFSKLIHVPKEDNSKEVTLDSLLEEG-VLDKEIHKAITR-ME 91
Query: 412 ITQVTTVQQLSIQPILDG--GDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYA 469
+T VQQ +I+PIL DV+ R++TG+GKT A+ IPI Q L + K + + A
Sbjct: 92 FPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL--INTKFDSQYMVKA 149
Query: 470 VIILPTRELALQTLEIFTKLCKSFTWIVPSWLT---GGEKMKSEKARIRK-GISILVATP 525
VI+ PTR+LALQ K+ + GG ++ ++ K +I++ATP
Sbjct: 150 VIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATP 209
Query: 526 GRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQF----QSIL 581
GRL+D + F V++ VLDEADR+L+ G+ D+ IL ++ + +++L
Sbjct: 210 GRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLL 269
Query: 582 LSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKL-RLVA 640
SATL VQ+LA + + + + Q +++ + A
Sbjct: 270 FSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEA-----HERIDQSVVISEKFANSIFA 324
Query: 641 LASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERT 700
I Q D K ++F T + +L +++ + HG ++Q++RT
Sbjct: 325 AVEHIK--KQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRT 382
Query: 701 EVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSS 760
+ K F+ +SG+L+CTDV ARG+D P V ++Q PS +Y+HR+GRTAR G EGSS
Sbjct: 383 SLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSS 442
Query: 761 LLFLIPSEVKLVEELQN-RRIRIEEIKLKDCLQNLLSVKMEGDLSRLADGNVETAATALQ 819
+LF+ E+ V EL++ + I I + + + + + + ++ E +
Sbjct: 443 VLFICKDELPFVRELEDAKNIVIAKQEKYEPSEEI-----KSEVLEAVTEEPEDIS---- 493
Query: 820 MSFESAVLQQKILHTSACKGYTSWVRFYASYSKDLRHIFNFKQIHLGHFAKSFA-LRDAP 878
S + Y S K+ F+ ++I L A ++ L + P
Sbjct: 494 ------------------DIVISLISSYRSCIKEY--RFSERRI-LPEIASTYGVLLNDP 532
Query: 879 SVISGIG-KPKNKEELKNKKMAINKEKSFKQR 909
+ + + +K L + + F+ R
Sbjct: 533 QLKIPVSRRFLDKLGLSRSPIG---KAMFEIR 561
Score = 197 bits (502), Expect = 3e-54
Identities = 81/342 (23%), Positives = 130/342 (38%), Gaps = 73/342 (21%)
Query: 1 MNITQVTTVQQLSIQPILDG--GDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGI 58
M +T VQQ +I+PIL DV+ R++TG+GKT A+ IPI Q L + K + +
Sbjct: 90 MEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL--INTKFDSQYMV 147
Query: 59 YAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLT---GGEKMKSEKARIRK-GISILVA 114
AVI+ PTR+LALQ K+ + GG ++ ++ K +I++A
Sbjct: 148 KAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIA 207
Query: 115 TPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLS 174
TPGRL+D + F V++ VLDEADR+L+ G+ D+ IL ++ +
Sbjct: 208 TPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSAD---- 263
Query: 175 ATLTPATCWCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLL 234
+ +TL FS
Sbjct: 264 -----------NIKTLLFS----------------------------------------- 271
Query: 235 SATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKL-RLVAL 293
ATL VQ+LA + + + + Q +++ + A
Sbjct: 272 -ATLDDKVQKLANNIMNKKECLFLDTVDKNEPEA-----HERIDQSVVISEKFANSIFAA 325
Query: 294 ASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTKKKI 335
I Q D K ++F T + +L + K
Sbjct: 326 VEHIK--KQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKK 365
>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 = 360 bits (926), Expect = e-114
Identities = 139/545 (25%), Positives = 242/545 (44%), Gaps = 54/545 (9%)
Query: 383 SEALFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDG--GDVLVRSQTGS 440
S+ + + EE + + K + M +T VQQ +I+PIL DV+ R++TG+
Sbjct: 14 SKEVTLDSLLEEG-VLDKEIHKAITR-MEFPGLTPVQQKTIKPILSSEDHDVIARAKTGT 71
Query: 441 GKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSW 500
GKT A+ IPI Q L + K + + AVI+ PTR+LALQ K+ +
Sbjct: 72 GKTFAFLIPIFQHL--INTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYA 129
Query: 501 LT---GGEKMKSEKARIRK-GISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILD 556
GG ++ ++ K +I++ATPGRL+D + F V++ VLDEADR+L+
Sbjct: 130 CVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLE 189
Query: 557 QGYERDIAEFLEILKKQK----PQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADSTDI 612
G+ D+ IL ++ +++L SATL VQ+LA + +
Sbjct: 190 IGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKN 249
Query: 613 HNTTDSLVIPDSLKQHFIVTPPKL-RLVALASFILGKCQNVNEDEESKMLVFMATQDMAD 671
+ + Q +++ + A I Q D K ++F T
Sbjct: 250 EPEA-----HERIDQSVVISEKFANSIFAAVEHIK--KQIKERDSNYKAIIFAPTVKFTS 302
Query: 672 YHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDW 731
+ +L +++ + HG ++Q++RT + K F+ +SG+L+CTDV ARG+D P V
Sbjct: 303 FLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHE 362
Query: 732 IVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVEELQN-RRIRIEEIKLKDC 790
++Q PS +Y+HR+GRTAR G EGSS+LF+ E+ V EL++ + I I + + +
Sbjct: 363 VLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEP 422
Query: 791 LQNLLSVKMEGDLSRLADGNVETAATALQMSFESAVLQQKILHTSACKGYTSWVRFYASY 850
+ + + ++ E + S + Y S
Sbjct: 423 SEEI-----KSEVLEAVTEEPEDIS----------------------DIVISLISSYRSC 455
Query: 851 SKDLRHIFNFKQIHLGHFAKSFALRDAPSVISGIGKPKNKEELKNKKMAINKEKSFKQRG 910
K+ F+ ++I L A ++ + + I + + + + F+ R
Sbjct: 456 IKEY--RFSERRI-LPEIASTYGVLLNDPQLK-IPVSRRFLDKLGLSRSPIGKAMFEIRD 511
Query: 911 NFSKK 915
S+
Sbjct: 512 YSSRD 516
Score = 196 bits (501), Expect = 6e-54
Identities = 81/342 (23%), Positives = 130/342 (38%), Gaps = 73/342 (21%)
Query: 1 MNITQVTTVQQLSIQPILDG--GDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGI 58
M +T VQQ +I+PIL DV+ R++TG+GKT A+ IPI Q L + K + +
Sbjct: 39 MEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL--INTKFDSQYMV 96
Query: 59 YAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLT---GGEKMKSEKARIRK-GISILVA 114
AVI+ PTR+LALQ K+ + GG ++ ++ K +I++A
Sbjct: 97 KAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIA 156
Query: 115 TPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLS 174
TPGRL+D + F V++ VLDEADR+L+ G+ D+ IL ++ +
Sbjct: 157 TPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSAD---- 212
Query: 175 ATLTPATCWCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLL 234
+ +TL FS
Sbjct: 213 -----------NIKTLLFS----------------------------------------- 220
Query: 235 SATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKL-RLVAL 293
ATL VQ+LA + + + + Q +++ + A
Sbjct: 221 -ATLDDKVQKLANNIMNKKECLFLDTVDKNEPEA-----HERIDQSVVISEKFANSIFAA 274
Query: 294 ASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTKKKI 335
I Q D K ++F T + +L + K
Sbjct: 275 VEHIK--KQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKK 314
>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 = 268 bits (688), Expect = 1e-81
Identities = 96/371 (25%), Positives = 181/371 (48%), Gaps = 32/371 (8%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ +Q+ +I + G D+L R++ G+GKT A+ IP ++K++ KI A+I++PT
Sbjct: 45 SPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKVKPKLNKIQ------ALIMVPT 98
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 535
RELALQT ++ L K I TGG ++ + R+ + + ILV TPGR+LD
Sbjct: 99 RELALQTSQVVRTLGK-HCGISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLASR- 156
Query: 536 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAG 595
+ S ++DEAD++L + ++ I + IL P QS+L SAT V+
Sbjct: 157 KVADLSDCSLFIMDEADKMLSRDFKTIIEQ---ILSFLPPTHQSLLFSATFPLTVKEFMV 213
Query: 596 MTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVNED 655
L P +I+ + + + Q++ + +L L ++
Sbjct: 214 KHLHKPYEINLMEELTLKG----------ITQYYAFVEERQKLHCL-------NTLFSKL 256
Query: 656 EESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLI 715
+ ++ ++F + + + + ++ + + H M Q ER +VF FR K L+
Sbjct: 257 QINQAIIFCNSTNRVELLAKKIT---DLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLV 313
Query: 716 CTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVEEL 775
C+D+ RG+D+ V+ ++ + P ++ Y+HR+GR+ R GH G ++ + ++ + ++
Sbjct: 314 CSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKI 373
Query: 776 QNR-RIRIEEI 785
+ I I
Sbjct: 374 EQELGTEIAAI 384
Score = 157 bits (399), Expect = 7e-42
Identities = 59/174 (33%), Positives = 95/174 (54%), Gaps = 11/174 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +Q+ +I + G D+L R++ G+GKT A+ IP ++K++ KI A+I++PT
Sbjct: 45 SPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKVKPKLNKIQ------ALIMVPT 98
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELALQT ++ L K I TGG ++ + R+ + + ILV TPGR+LD
Sbjct: 99 RELALQTSQVVRTLGK-HCGISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLASR- 156
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
+ S ++DEAD++L + ++ I +IL P QS+L SAT
Sbjct: 157 KVADLSDCSLFIMDEADKMLSRDFKTIIE---QILSFLPPTHQSLLFSATFPLT 207
>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 = 265 bits (679), Expect = 6e-80
Identities = 123/449 (27%), Positives = 200/449 (44%), Gaps = 54/449 (12%)
Query: 339 KEYNIDPDNYEIPKKTEVKSGPISSLFQNNPDIP------NVPTRRLKPVSEALFAPTSY 392
E+ I P+ + F +IP +VP +P+ +
Sbjct: 10 GEFYIPPEPSNDAIEIFSSGIASGIHFSKYNNIPVKVTGSDVP----QPI-------QHF 58
Query: 393 EEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQ 452
+ + N+N+ T +Q+ SI I G D++ +QTGSGKT A+ +PI+
Sbjct: 59 TS-ADLRDIIIDNVNK-SGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILS 116
Query: 453 KLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKA 512
KL E P VI+ PTRELA+Q K +++ + GG + +
Sbjct: 117 KLLE-DPHELELGRPQVVIVSPTRELAIQIFNEARKFAFE-SYLKIGIVYGGTSFRHQNE 174
Query: 513 RIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKK 572
I +G +++ATPGRLLD + F +VLDEADR+LD G+ D+ + +
Sbjct: 175 CITRGCHVVIATPGRLLDFVD-RTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVT- 232
Query: 573 QKPQFQSILLSATLTPAVQRLAGMTLQNPIQI-----DAADSTDIHNTTDSLVIPDSLKQ 627
+P+ Q+++ SAT +QR+AG L+N + + A +D+ KQ
Sbjct: 233 MRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGA-CSDV-------------KQ 278
Query: 628 HFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAF 687
+ L + ++ +VF+ T+ AD+ LS +
Sbjct: 279 TIYEVNKYAKRSKLIEIL--------SEQADGTIVFVETKRGADFLASFLSE---KEFPT 327
Query: 688 FKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHR 747
+HG QS+R + + F++ VLI T VA+RGLD+ + ++ Y PS DYVHR
Sbjct: 328 TSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHR 387
Query: 748 VGRTARVGHEGSSLLFLIP-SEVKLVEEL 775
+GRT RVG+ G + F P + + +L
Sbjct: 388 IGRTGRVGNNGRATSFFDPEKDRAIAADL 416
Score = 156 bits (398), Expect = 2e-41
Identities = 80/331 (24%), Positives = 126/331 (38%), Gaps = 92/331 (27%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
T +Q+ SI I G D++ +QTGSGKT A+ +PI+ KL E P VI+ PT
Sbjct: 80 TPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLE-DPHELELGRPQVVIVSPT 138
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELA+Q K +++ + GG + + I +G +++ATPGRLLD
Sbjct: 139 RELAIQIFNEARKFAFE-SYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVD-R 196
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPATCWCKH 186
+ F +VLDEADR+LD G+ + I+ T+ P
Sbjct: 197 TFITFEDTRFVVLDEADRMLDMGFS--------------EDMRRIMTHVTMRP------- 235
Query: 187 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLA 246
+ Q+++ SAT +QR+A
Sbjct: 236 -----------------EH------------------------QTLMFSATFPEEIQRMA 254
Query: 247 GMTLQNPIQI-----DAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKC 301
G L+N + + A +D+ KQ + L +
Sbjct: 255 GEFLKNYVFVAIGIVGGA-CSDV-------------KQTIYEVNKYAKRSKLIEIL---- 296
Query: 302 QNVNEDEESKMLVFMATQDMADYHTELLSTK 332
++ +VF+ T+ AD+ LS K
Sbjct: 297 ----SEQADGTIVFVETKRGADFLASFLSEK 323
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 262 bits (671), Expect = 5e-79
Identities = 120/423 (28%), Positives = 191/423 (45%), Gaps = 60/423 (14%)
Query: 373 NVPTRRLKPVSEALFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDV 432
N P + S+ + + + N+ T+ T VQ+ +I I + D+
Sbjct: 9 NCP----PHI-------ESFSD-VEMGEIIMGNIEL-TRYTRPTPVQKHAIPIIKEKRDL 55
Query: 433 LVRSQTGSGKTLAYAIPIIQKL------------QEMRPKISRKDGIYAVIILPTRELAL 480
+ +QTGSGKT A+ +PI+ ++ +E RK ++++ PTRELA+
Sbjct: 56 MACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAV 115
Query: 481 QTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKF 540
Q E K + + P + GG + + + +G +LVATPGRL+D + +
Sbjct: 116 QIYEEARKFSYR-SRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMME-RGKIGL 173
Query: 541 SKVEHLVLDEADRILDQGYE---RDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMT 597
++LVLDEADR+LD G+E R I E + K +++ SAT +Q LA
Sbjct: 174 DFCKYLVLDEADRMLDMGFEPQIRRIVEQDTM--PPKGVRHTMMFSATFPKEIQMLARDF 231
Query: 598 LQNPIQI-----DAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNV 652
L I + + S +I Q + + L +
Sbjct: 232 LDEYIFLAVGRVGST-SENI-------------TQKVVWVEESDKRSFLLDLLN------ 271
Query: 653 NEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSG 712
++S LVF+ T+ AD + L E A +HG SQ +R E FRS KS
Sbjct: 272 ATGKDSLTLVFVETKKGADSLEDFLYH---EGYACTSIHGDRSQRDREEALHQFRSGKSP 328
Query: 713 VLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLV 772
+L+ T VAARGLD+ V ++ + PS +YVHR+GRT RVG+ G + F + +
Sbjct: 329 ILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINIT 388
Query: 773 EEL 775
++L
Sbjct: 389 KDL 391
Score = 149 bits (380), Expect = 4e-39
Identities = 79/344 (22%), Positives = 130/344 (37%), Gaps = 99/344 (28%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKL------------QEMRPKISR 54
T VQ+ +I I + D++ +QTGSGKT A+ +PI+ ++ +E R
Sbjct: 39 TPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRR 98
Query: 55 KDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVA 114
K ++++ PTRELA+Q E K + + P + GG + + + +G +LVA
Sbjct: 99 KQYPISLVLAPTRELAVQIYEEARKFSYR-SRVRPCVVYGGADIGQQIRDLERGCHLLVA 157
Query: 115 TPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLS 174
TPGRL+D + + ++LVLDEADR+LD G+E PQ + I+
Sbjct: 158 TPGRLVDMME-RGKIGLDFCKYLVLDEADRMLDMGFE--------------PQIRRIVEQ 202
Query: 175 ATLTPATCWCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLL 234
T+ P K +++
Sbjct: 203 DTMPP----------------------------------------------KGVRHTMMF 216
Query: 235 SATLTPAVQRLAGMTLQNPIQI-----DAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLR 289
SAT +Q LA L I + + S +I Q + +
Sbjct: 217 SATFPKEIQMLARDFLDEYIFLAVGRVGST-SENI-------------TQKVVWVEESDK 262
Query: 290 LVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTKK 333
L + ++S LVF+ T+ AD + L +
Sbjct: 263 RSFLLDLLN------ATGKDSLTLVFVETKKGADSLEDFLYHEG 300
>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 = 253 bits (649), Expect = 1e-76
Identities = 103/394 (26%), Positives = 192/394 (48%), Gaps = 42/394 (10%)
Query: 397 GIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGG-DVLVRSQTGSGKTLAYAIPIIQKLQ 455
+ + + + T +Q I L+ +++ +++TGSGKT ++AIP+I+
Sbjct: 12 NLSDNILNAIRN-KGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIEL-- 68
Query: 456 EMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCK-SFTWIVPSWLTGGEKMKSEKARI 514
++ +GI A+I+ PTRELA+Q + L I + GG+ + + +
Sbjct: 69 -----VNENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAK--IYGGKAIYPQIKAL 121
Query: 515 RKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQK 574
+ +I+V TPGR+LDH TL V++ +LDEAD +L+ G+ +D+ + IL
Sbjct: 122 KNA-NIVVGTPGRILDHINR-GTLNLKNVKYFILDEADEMLNMGFIKDVEK---ILNACN 176
Query: 575 PQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPP 634
+ +L SAT+ + LA + + I A + +I +Q ++
Sbjct: 177 KDKRILLFSATMPREILNLAKKYMGDYSFIKAKINANI-------------EQSYVEVNE 223
Query: 635 KLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSM 694
R AL + +++E LVF T+ +L +G +HG +
Sbjct: 224 NERFEALCRLL--------KNKEFYGLVFCKTKRDTKELASMLRD-IGFKAG--AIHGDL 272
Query: 695 SQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARV 754
SQS+R +V + F+ K +LI TDV +RG+D+ ++ ++ Y P + Y+HR+GRT R
Sbjct: 273 SQSQREKVIRLFKQKKIRILIATDVMSRGIDVNDLNCVINYHLPQNPESYMHRIGRTGRA 332
Query: 755 GHEGSSLLFLIPSEVKLVEELQNR-RIRIEEIKL 787
G +G ++ + E K + ++ +++I+++K
Sbjct: 333 GKKGKAISIINRREYKKLRYIERAMKLKIKKLKF 366
Score = 138 bits (351), Expect = 8e-36
Identities = 55/182 (30%), Positives = 96/182 (52%), Gaps = 16/182 (8%)
Query: 1 MNITQVTTVQQLSIQPILDGG-DVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIY 59
+ T +Q I L+ +++ +++TGSGKT ++AIP+I+ ++ +GI
Sbjct: 24 KGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE-------LVNENNGIE 76
Query: 60 AVIILPTRELALQTLEIFTKLCK-SFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGR 118
A+I+ PTRELA+Q + L I + GG+ + + ++ +I+V TPGR
Sbjct: 77 AIILTPTRELAIQVADEIESLKGNKNLKIAK--IYGGKAIYPQIKALKNA-NIVVGTPGR 133
Query: 119 LLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLT 178
+LDH TL V++ +LDEAD +L+ G+ +D+ +IL + +L SAT+
Sbjct: 134 ILDHINR-GTLNLKNVKYFILDEADEMLNMGFIKDVE---KILNACNKDKRILLFSATMP 189
Query: 179 PA 180
Sbjct: 190 RE 191
Score = 71.4 bits (176), Expect = 3e-13
Identities = 32/144 (22%), Positives = 58/144 (40%), Gaps = 24/144 (16%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGM 248
TL V++ +LDEAD +L+ G+ +D+ +IL + +L SAT+ + LA
Sbjct: 142 TLNLKNVKYFILDEADEMLNMGFIKDVE---KILNACNKDKRILLFSATMPREILNLAKK 198
Query: 249 TLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDE 308
+ + I A + +I +Q ++ R AL + +++
Sbjct: 199 YMGDYSFIKAKINANI-------------EQSYVEVNENERFEALCRLL--------KNK 237
Query: 309 ESKMLVFMATQDMADYHTELLSTK 332
E LVF T+ +L
Sbjct: 238 EFYGLVFCKTKRDTKELASMLRDI 261
>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 = 252 bits (647), Expect = 6e-76
Identities = 94/401 (23%), Positives = 196/401 (48%), Gaps = 36/401 (8%)
Query: 390 TSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIP 449
+ + +F + P + + + + + VQ I + G DVL ++++G GKT + +
Sbjct: 8 SGFRDF-LLKPELLRAIVD-CGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLA 65
Query: 450 IIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKS 509
+Q+L+ + ++S +++ TRELA Q + + + K + + GG +K
Sbjct: 66 TLQQLEPVTGQVS------VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKK 119
Query: 510 EKARIRKGIS-ILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQ-GYERDIAEFL 567
++ ++K I+V TPGR+L + ++L ++H +LDE D++L+Q RD+ E
Sbjct: 120 DEEVLKKNCPHIVVGTPGRILALAR-NKSLNLKHIKHFILDECDKMLEQLDMRRDVQE-- 176
Query: 568 EILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQ 627
I + + Q ++ SATL+ ++ + +Q+P++I D T + T L +Q
Sbjct: 177 -IFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKL--TLHGL------QQ 227
Query: 628 HFIVTPPKLRLVALASFILGKCQNVNEDEE-SKMLVFMATQDMADYHTELLSTVLGENIA 686
+++ + L + + E +++++F+ + +LL +N
Sbjct: 228 YYVKLKDNEKNRKLFDLL--------DVLEFNQVVIFVKSVQRCIALAQLLV---EQNFP 276
Query: 687 FFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVH 746
+H M Q ER ++ F+ + +L+ T++ RG+D+ V+ Y P S Y+H
Sbjct: 277 AIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLH 336
Query: 747 RVGRTARVGHEGSSLLFL-IPSEVKLVEELQNR-RIRIEEI 785
RV R R G +G ++ F+ ++ K++ ++Q+R + I E+
Sbjct: 337 RVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISEL 377
Score = 147 bits (373), Expect = 2e-38
Identities = 49/176 (27%), Positives = 93/176 (52%), Gaps = 12/176 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ VQ I + G DVL ++++G GKT + + +Q+L+ + ++S +++ T
Sbjct: 32 SEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVS------VLVMCHT 85
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGIS-ILVATPGRLLDHCKH 125
RELA Q + + + K + + GG +K ++ ++K I+V TPGR+L +
Sbjct: 86 RELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALAR- 144
Query: 126 TETLKFSKVEHLVLDEADRILDQ-GYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
++L ++H +LDE D++L+Q RD+ EI + + Q ++ SATL+
Sbjct: 145 NKSLNLKHIKHFILDECDKMLEQLDMRRDVQ---EIFRMTPHEKQVMMFSATLSKE 197
>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 = 248 bits (635), Expect = 5e-75
Identities = 101/356 (28%), Positives = 171/356 (48%), Gaps = 46/356 (12%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
T VQ +I +L G +V+VR++TGSGKT AYAIPI++ G+ ++++ PT
Sbjct: 18 TEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL------------GMKSLVVTPT 65
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 535
REL Q + + + + + GG K++ R+R I+VATPGRLLD
Sbjct: 66 RELTRQVASHIRDIGR-YMDTKVAEVYGGMPYKAQINRVR-NADIVVATPGRLLDLWSK- 122
Query: 536 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAG 595
+ S E +++DEAD + + G+ DI L +K + L SAT+ ++++
Sbjct: 123 GVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRK---ITGLFSATIPEEIRKVVK 179
Query: 596 MTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVNED 655
+ N +I+A + V + F+ R + + E+
Sbjct: 180 DFITNYEEIEAC-------IGLANV-----EHKFVHVKDDWR--SKVQAL-------REN 218
Query: 656 EESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLI 715
++ ++VF+ T++ L + L G + QS R FR + +LI
Sbjct: 219 KDKGVIVFVRTRNRVAKLVRLFDNAIE-------LRGDLPQSVRNRNIDAFREGEYDMLI 271
Query: 716 CTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKL 771
TDVA+RGLD+PLV+ ++ + AP Y+HR+GRT R+G +G ++ F++
Sbjct: 272 TTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILNEYWLE 327
Score = 146 bits (371), Expect = 9e-39
Identities = 58/174 (33%), Positives = 90/174 (51%), Gaps = 18/174 (10%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
T VQ +I +L G +V+VR++TGSGKT AYAIPI++ G+ ++++ PT
Sbjct: 18 TEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL------------GMKSLVVTPT 65
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
REL Q + + + + + GG K++ R+R I+VATPGRLLD
Sbjct: 66 RELTRQVASHIRDIGR-YMDTKVAEVYGGMPYKAQINRVR-NADIVVATPGRLLDLWSK- 122
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
+ S E +++DEAD + + G+ DI L +K + L SAT+
Sbjct: 123 GVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRK---ITGLFSATIPEE 173
>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 = 249 bits (639), Expect = 1e-74
Identities = 109/379 (28%), Positives = 192/379 (50%), Gaps = 42/379 (11%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ +QQ +I+ I+ G DV+ +SQ+G+GKT ++I ++Q L + A+I+ PT
Sbjct: 61 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQ------ALILAPT 114
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 535
RELA+Q + L + + GG + + ++ G ++ TPGR+ D +
Sbjct: 115 RELAVQIQKGLLALGD-YMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRR- 172
Query: 536 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAG 595
+L+ ++ LVLDEAD +L++G++ I + + + P Q +L+SATL + +
Sbjct: 173 RSLRTRAIKMLVLDEADEMLNKGFKEQIYD---VYRYLPPATQVVLISATLPHEILEMTN 229
Query: 596 MTLQNPIQIDAADSTDIHNTTDSLVIPDSL-----KQHFI-VTPPKLRLVALASFILGKC 649
+ +PI+I LV D L KQ F+ V + + L C
Sbjct: 230 KFMTDPIRI--------------LVKRDELTLEGIKQFFVAVEREEWKFDTL-------C 268
Query: 650 QNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSV 709
+ ++ ++F T+ D+ TE + N +HG M Q ER + K FRS
Sbjct: 269 DLYDTLTITQAVIFCNTKRKVDWLTEKMR---EANFTVSSMHGDMPQKERESIMKEFRSG 325
Query: 710 KSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEV 769
S VLI TDV ARGLD+P V I+ Y P++ Y+HR+GR+ R G +G ++ F+ ++
Sbjct: 326 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 385
Query: 770 KLVEELQNR-RIRIEEIKL 787
+++ +++ +I+E+ +
Sbjct: 386 RILRDIEQYYSTQIDEMPM 404
Score = 149 bits (378), Expect = 5e-39
Identities = 52/174 (29%), Positives = 94/174 (54%), Gaps = 11/174 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +QQ +I+ I+ G DV+ +SQ+G+GKT ++I ++Q L + A+I+ PT
Sbjct: 61 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQ------ALILAPT 114
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELA+Q + L + + GG + + ++ G ++ TPGR+ D +
Sbjct: 115 RELAVQIQKGLLALGD-YMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRR- 172
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
+L+ ++ LVLDEAD +L++G++ I ++ + P Q +L+SATL
Sbjct: 173 RSLRTRAIKMLVLDEADEMLNKGFKEQIY---DVYRYLPPATQVVLISATLPHE 223
>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 = 247 bits (632), Expect = 8e-74
Identities = 104/377 (27%), Positives = 180/377 (47%), Gaps = 43/377 (11%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ +QQ +I PI++G DVL ++Q+G+GKT ++I +Q++ A+++ PT
Sbjct: 45 SAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQ------ALMLAPT 98
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 535
RELALQ ++ L I GG + +R I+V TPGR+ D+ +
Sbjct: 99 RELALQIQKVVMALAF-HMDIKVHACIGGTSFVEDAEGLRDA-QIVVGTPGRVFDNIQ-R 155
Query: 536 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAG 595
+ K++ +LDEAD +L G++ I + I P Q +LLSAT+ V +
Sbjct: 156 RRFRTDKIKMFILDEADEMLSSGFKEQIYQ---IFTLLPPTTQVVLLSATMPNDVLEVTT 212
Query: 596 MTLQNPIQIDAADSTDIHNTTDSLVIPDSL-----KQHFI-VTPPKLRLVALASFILGKC 649
++NP++I LV D L KQ ++ V + + L
Sbjct: 213 KFMRNPVRI--------------LVKKDELTLEGIKQFYVNVEEEEYKYECL-------T 251
Query: 650 QNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSV 709
+ ++ ++F T+ + T L + ++ + Q ER + K FRS
Sbjct: 252 DLYDSISVTQAVIFCNTRRKVEELTTKLR---NDKFTVSAIYSDLPQQERDTIMKEFRSG 308
Query: 710 KSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEV 769
S +LI TD+ ARG+D+ V ++ Y P++ +Y+HR+GR R G +G ++ F+ +V
Sbjct: 309 SSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDV 368
Query: 770 KLVEELQNR-RIRIEEI 785
+ EL+ +IEE+
Sbjct: 369 GAMRELEKFYSTQIEEL 385
Score = 145 bits (368), Expect = 8e-38
Identities = 54/174 (31%), Positives = 89/174 (51%), Gaps = 12/174 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +QQ +I PI++G DVL ++Q+G+GKT ++I +Q++ A+++ PT
Sbjct: 45 SAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQ------ALMLAPT 98
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELALQ ++ L I GG + +R I+V TPGR+ D+ +
Sbjct: 99 RELALQIQKVVMALAF-HMDIKVHACIGGTSFVEDAEGLRDA-QIVVGTPGRVFDNIQ-R 155
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
+ K++ +LDEAD +L G++ I +I P Q +LLSAT+
Sbjct: 156 RRFRTDKIKMFILDEADEMLSSGFKEQIY---QIFTLLPPTTQVVLLSATMPND 206
>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 = 247 bits (633), Expect = 1e-73
Identities = 105/380 (27%), Positives = 187/380 (49%), Gaps = 43/380 (11%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ +QQ +I P + G DV+ ++Q+G+GKT +AI I+Q+++ A+++ PT
Sbjct: 64 SAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQ------ALVLAPT 117
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIR-KGISILVATPGRLLDHCKH 534
RELA Q ++ L + GG +++E +++ + I+V TPGR+ D
Sbjct: 118 RELAQQIQKVVMALGD-YMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLN- 175
Query: 535 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLA 594
L ++ VLDEAD +L +G++ I + I +K Q +LLSAT+ V +
Sbjct: 176 RRYLSPKYIKMFVLDEADEMLSRGFKDQIYD---IFQKLNSNTQVVLLSATMPSDVLEVT 232
Query: 595 GMTLQNPIQIDAADSTDIHNTTDSLVIPDSL-----KQHFI-VTPPKLRLVALASFILGK 648
+++PI+I LV + L +Q +I V + +L L
Sbjct: 233 KKFMRDPIRI--------------LVKKEELTLEGIRQFYINVEREEWKLDTL------- 271
Query: 649 CQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRS 708
C ++ ++F+ T+ D+ TE + + +HG M Q ER + + FRS
Sbjct: 272 CDLYETLTITQAVIFINTRRKVDWLTEKMH---ARDFTVSAMHGDMDQKERDVIMREFRS 328
Query: 709 VKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSE 768
S VLI TD+ ARG+D+ V ++ Y P++ +Y+HR+GR R G +G ++ + +
Sbjct: 329 GSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEED 388
Query: 769 VKLVEELQNR-RIRIEEIKL 787
+ + +++ IEE+ L
Sbjct: 389 KRTLRDIETFYNTSIEEMPL 408
Score = 146 bits (370), Expect = 7e-38
Identities = 53/175 (30%), Positives = 92/175 (52%), Gaps = 12/175 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +QQ +I P + G DV+ ++Q+G+GKT +AI I+Q+++ A+++ PT
Sbjct: 64 SAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQ------ALVLAPT 117
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIR-KGISILVATPGRLLDHCKH 125
RELA Q ++ L + GG +++E +++ + I+V TPGR+ D
Sbjct: 118 RELAQQIQKVVMALGD-YMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLN- 175
Query: 126 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
L ++ VLDEAD +L +G++ I +I +K Q +LLSAT+
Sbjct: 176 RRYLSPKYIKMFVLDEADEMLSRGFKDQIY---DIFQKLNSNTQVVLLSATMPSD 227
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 249 bits (638), Expect = 3e-73
Identities = 92/390 (23%), Positives = 172/390 (44%), Gaps = 58/390 (14%)
Query: 418 VQQLSIQPILDGG--DVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+Q+ ++ +L +++ +SQ+G+GKT A+A+ ++ ++ PK A+ + P+
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKPQ------AICLAPS 198
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 535
RELA Q +++ T++ K +T + ++ K K I++ TPG ++D K
Sbjct: 199 RELARQIMDVVTEMGK-YTEVKTAFGIKDSVPKGAK----IDAQIVIGTPGTVMDLMKR- 252
Query: 536 ETLKFSKVEHLVLDEADRILD-QGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLA 594
L ++ VLDEAD +LD QG + I Q +L SAT + V++ A
Sbjct: 253 RQLDARDIKVFVLDEADNMLDQQGLGDQS---MRIKHLLPRNTQIVLFSATFSERVEKYA 309
Query: 595 GMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFI-VTPPKLRLVALASFILGKCQNVN 653
N +I + S+ + +KQ ++ + + L
Sbjct: 310 ERFAPNANEIR------LKTEELSV---EGIKQLYMDCQSEEHKYNVLVELY-------- 352
Query: 654 EDEES--KMLVFMATQDMADYHTELLS----TVLGENIAFFKLHGSMSQSERTEVFKTFR 707
+ + ++F +D A+ ++ TV L G++ ++R + +FR
Sbjct: 353 -GLLTIGQSIIFCKKKDTAEEIARRMTADGHTVAC-------LTGNLEGAQRDAIMDSFR 404
Query: 708 SVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTD------YVHRVGRTARVGHEGSSL 761
S VL+ T+V ARG+D+ V+ +V Y P Y+HR+GRT R G G S+
Sbjct: 405 VGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSI 464
Query: 762 LFLIPSE-VKLVEELQNR-RIRIEEIKLKD 789
F+ + + + +Q + I + D
Sbjct: 465 NFVHDKKSWEEMNAIQEYFQRPITRVPTDD 494
Score = 148 bits (376), Expect = 6e-38
Identities = 47/175 (26%), Positives = 86/175 (49%), Gaps = 18/175 (10%)
Query: 9 VQQLSIQPILDGG--DVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+Q+ ++ +L +++ +SQ+G+GKT A+A+ ++ ++ PK A+ + P+
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKPQ------AICLAPS 198
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELA Q +++ T++ K +T + ++ K K I++ TPG ++D K
Sbjct: 199 RELARQIMDVVTEMGK-YTEVKTAFGIKDSVPKGAK----IDAQIVIGTPGTVMDLMKR- 252
Query: 127 ETLKFSKVEHLVLDEADRILD-QGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
L ++ VLDEAD +LD QG + I Q +L SAT +
Sbjct: 253 RQLDARDIKVFVLDEADNMLDQQGLGDQS---MRIKHLLPRNTQIVLFSATFSER 304
>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 = 227 bits (580), Expect = 3e-66
Identities = 95/419 (22%), Positives = 192/419 (45%), Gaps = 45/419 (10%)
Query: 383 SEALFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGG--DVLVRSQTGS 440
+ L++ S+EE + P + + + M + + +Q+ ++ +L +++ +SQ+G+
Sbjct: 18 NSPLYSVKSFEEL-RLKPQLLQGVYA-MGFNRPSKIQENALPLMLAEPPQNLIAQSQSGT 75
Query: 441 GKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSW 500
GKT A+ + ++ +++ + + PT ELALQT ++ ++ K + + ++
Sbjct: 76 GKTAAFVLAMLSQVEPANKYPQ------CLCLSPTYELALQTGKVIEQMGKFYPELKLAY 129
Query: 501 LTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILD-QGY 559
G K++ + I++ TPG +LD C + + K++ VLDEAD ++ QG+
Sbjct: 130 AVRGNKLER---GQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGH 186
Query: 560 ERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSL 619
+ + I + Q +L SAT +V + A + +P I + ++L
Sbjct: 187 QDQS---IRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIK------LKREEETL 237
Query: 620 VIPDSLKQHFI-VTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLS 678
D++KQ+++ + + AL + + + ++F T+ A + LS
Sbjct: 238 ---DTIKQYYVLCSSRDEKFQALCNLY--GAITIA-----QAMIFCHTRKTASWLAAELS 287
Query: 679 TVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQY--- 735
E L G M +R V + FR K VL+ T+V ARG+D+ V ++ +
Sbjct: 288 ---KEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 344
Query: 736 TAPSSSTD---YVHRVGRTARVGHEGSSLLFLIPSE-VKLVEELQNR-RIRIEEIKLKD 789
+ D Y+HR+GRT R G G ++ + + ++ +Q +IE + D
Sbjct: 345 VDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTDD 403
Score = 136 bits (345), Expect = 1e-34
Identities = 42/177 (23%), Positives = 89/177 (50%), Gaps = 15/177 (8%)
Query: 7 TTVQQLSIQPILDGG--DVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIIL 64
+ +Q+ ++ +L +++ +SQ+G+GKT A+ + ++ +++ + +
Sbjct: 49 SKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ------CLCLS 102
Query: 65 PTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCK 124
PT ELALQT ++ ++ K + + ++ G K++ + I++ TPG +LD C
Sbjct: 103 PTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLER---GQKISEQIVIGTPGTVLDWCS 159
Query: 125 HTETLKFSKVEHLVLDEADRILD-QGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
+ + K++ VLDEAD ++ QG++ + I + Q +L SAT +
Sbjct: 160 KLKFIDPKKIKVFVLDEADVMIATQGHQDQS---IRIQRMLPRNCQMLLFSATFEDS 213
>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 = 227 bits (581), Expect = 1e-65
Identities = 103/500 (20%), Positives = 213/500 (42%), Gaps = 49/500 (9%)
Query: 302 QNVNEDEESKMLVFMATQDMADYHTELLSTKKKIKKLKEYNIDPDNYEIPKKTEVKSGPI 361
V+E E + + + K E + + + ++ +
Sbjct: 8 LAVDEQEAAAESLSNLHLKEEKIKPDTNGAVVKTNANAEKTDEEEKEDRAAQSLLNKLIR 67
Query: 362 SSLFQNNPDIPNVPTRRLKPVSEALFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQL 421
S+L N + + + + L++ S+EE + P + + + M + + +Q+
Sbjct: 68 SNLVDNTNQVEVLQ----RDPNSPLYSVKSFEEL-RLKPQLLQGVYA-MGFNRPSKIQEN 121
Query: 422 SIQPILDGG--DVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELA 479
++ +L +++ +SQ+G+GKT A+ + ++ +++ + + PT ELA
Sbjct: 122 ALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ------CLCLSPTYELA 175
Query: 480 LQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLK 539
LQT ++ ++ K + + ++ G K++ + I++ TPG +LD C + +
Sbjct: 176 LQTGKVIEQMGKFYPELKLAYAVRGNKLER---GQKISEQIVIGTPGTVLDWCSKLKFID 232
Query: 540 FSKVEHLVLDEADRILD-QGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTL 598
K++ VLDEAD ++ QG++ + I + Q +L SAT +V + A +
Sbjct: 233 PKKIKVFVLDEADVMIATQGHQDQS---IRIQRMLPRNCQMLLFSATFEDSVWKFAQKVV 289
Query: 599 QNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLR-LVALASFILGKCQNVNEDEE 657
+P I + ++L D++KQ++++ + AL + +
Sbjct: 290 PDPNVIK------LKREEETL---DTIKQYYVLCSSRDEKFQALCNLY--GAITIA---- 334
Query: 658 SKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICT 717
+ ++F T+ A + LS E L G M +R V + FR K VL+ T
Sbjct: 335 -QAMIFCHTRKTASWLAAELS---KEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTT 390
Query: 718 DVAARGLDLPLVDWIVQYTAPSSSTD------YVHRVGRTARVGHEGSSLLFLIPSE-VK 770
+V ARG+D+ V ++ + P Y+HR+GRT R G G ++ + +
Sbjct: 391 NVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMN 450
Query: 771 LVEELQNR-RIRIEEIKLKD 789
++ +Q +IE + D
Sbjct: 451 ILNRIQEHFNKKIERLDTDD 470
Score = 135 bits (343), Expect = 6e-34
Identities = 42/177 (23%), Positives = 89/177 (50%), Gaps = 15/177 (8%)
Query: 7 TTVQQLSIQPILDGG--DVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIIL 64
+ +Q+ ++ +L +++ +SQ+G+GKT A+ + ++ +++ + +
Sbjct: 116 SKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ------CLCLS 169
Query: 65 PTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCK 124
PT ELALQT ++ ++ K + + ++ G K++ + I++ TPG +LD C
Sbjct: 170 PTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLER---GQKISEQIVIGTPGTVLDWCS 226
Query: 125 HTETLKFSKVEHLVLDEADRILD-QGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
+ + K++ VLDEAD ++ QG++ + I + Q +L SAT +
Sbjct: 227 KLKFIDPKKIKVFVLDEADVMIATQGHQDQS---IRIQRMLPRNCQMLLFSATFEDS 280
>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 = 217 bits (556), Expect = 7e-65
Identities = 81/255 (31%), Positives = 142/255 (55%), Gaps = 9/255 (3%)
Query: 352 KKTEVKSGPISSLFQNNPDIPNVPTRRLKPVSEALFAPTSYEEFPG-IHPFMKKNLNEGM 410
+ ++++ + + D L F TS+ ++ K + E M
Sbjct: 14 GTENLYFQSMNNVEKPDNDEDESEVPSLPLGLTGAFEDTSFASLCNLVNENTLKAIKE-M 72
Query: 411 NITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAV 470
T +T +Q SI+P+L+G D+L ++TGSGKTLA+ IP ++ + ++R ++G +
Sbjct: 73 GFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFM--PRNGTGVL 130
Query: 471 IILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLD 530
I+ PTRELA+QT + +L + GG +E ++ GI+I+VATPGRLLD
Sbjct: 131 ILSPTRELAMQTFGVLKELMT-HHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRLLD 189
Query: 531 HCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAV 590
H ++T + ++ LV+DEADRILD G+E ++ + +++L ++ Q++L SAT T V
Sbjct: 190 HMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRR---QTMLFSATQTRKV 246
Query: 591 QRLAGMTLQN-PIQI 604
+ LA ++L+ P+ +
Sbjct: 247 EDLARISLKKEPLYV 261
Score = 199 bits (508), Expect = 4e-58
Identities = 69/179 (38%), Positives = 113/179 (63%), Gaps = 6/179 (3%)
Query: 1 MNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYA 60
M T +T +Q SI+P+L+G D+L ++TGSGKTLA+ IP ++ + ++R ++G
Sbjct: 72 MGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFM--PRNGTGV 129
Query: 61 VIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLL 120
+I+ PTRELA+QT + +L + GG +E ++ GI+I+VATPGRLL
Sbjct: 130 LILSPTRELAMQTFGVLKELMT-HHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRLL 188
Query: 121 DHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTP 179
DH ++T + ++ LV+DEADRILD G+E ++ + +++L ++ Q++L SAT T
Sbjct: 189 DHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRR---QTMLFSATQTR 244
Score = 71.6 bits (176), Expect = 9e-14
Identities = 25/73 (34%), Positives = 48/73 (65%), Gaps = 4/73 (5%)
Query: 185 KHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQR 244
++T + ++ LV+DEADRILD G+E ++ + +++L ++ Q++L SAT T V+
Sbjct: 192 QNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRR---QTMLFSATQTRKVED 248
Query: 245 LAGMTLQN-PIQI 256
LA ++L+ P+ +
Sbjct: 249 LARISLKKEPLYV 261
>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 = 217 bits (554), Expect = 6e-63
Identities = 101/413 (24%), Positives = 189/413 (45%), Gaps = 49/413 (11%)
Query: 390 TSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGG--DVLVRSQTGSGKTLAYA 447
S++E G+ P + K + M + + +Q+ ++ +L +++ +SQ+G+GKT A++
Sbjct: 5 KSFDEL-GLAPELLKGIYA-MKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFS 62
Query: 448 IPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKM 507
+ ++ ++ A+ + P+RELA QTLE+ ++ K FT I +
Sbjct: 63 LTMLTRVNPEDASPQ------AICLAPSRELARQTLEVVQEMGK-FTKITSQLIVPDSFE 115
Query: 508 KSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILD-QGYERDIAEF 566
K+++ ++V TPG +LD + + ++ K++ VLDEAD +LD QG
Sbjct: 116 KNKQ----INAQVIVGTPGTVLDLMRR-KLMQLQKIKIFVLDEADNMLDQQGLGDQC--- 167
Query: 567 LEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLK 626
+ + + Q +L SAT AV++ A + N ++ + ++ D++K
Sbjct: 168 IRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLE------LQTNEVNV---DAIK 218
Query: 627 QHFI-VTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENI 685
Q ++ + L + ++F+AT+ A+ L E
Sbjct: 219 QLYMDCKNEADKFDVL-------TELYGLMTIGSSIIFVATKKTANVLYGKLK---SEGH 268
Query: 686 AFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTD-- 743
LHG + ER + FR +S VLI T+V ARG+D+P V +V Y P+ +
Sbjct: 269 EVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQA 328
Query: 744 ----YVHRVGRTARVGHEGSSLLFLIPSE-VKLVEELQN--RRIRIEEIKLKD 789
Y+HR+GRT R G +G ++ F+ ++ +Q I + + D
Sbjct: 329 DPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVPTDD 381
Score = 128 bits (323), Expect = 6e-32
Identities = 48/183 (26%), Positives = 92/183 (50%), Gaps = 18/183 (9%)
Query: 1 MNITQVTTVQQLSIQPILDGG--DVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGI 58
M + + +Q+ ++ +L +++ +SQ+G+GKT A+++ ++ ++
Sbjct: 23 MKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTRVNPEDASPQ----- 77
Query: 59 YAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGR 118
A+ + P+RELA QTLE+ ++ K FT I + K+++ ++V TPG
Sbjct: 78 -AICLAPSRELARQTLEVVQEMGK-FTKITSQLIVPDSFEKNKQ----INAQVIVGTPGT 131
Query: 119 LLDHCKHTETLKFSKVEHLVLDEADRILD-QGYERDIAEFLEILKKQKPQFQSILLSATL 177
+LD + + ++ K++ VLDEAD +LD QG + + + Q +L SAT
Sbjct: 132 VLDLMRR-KLMQLQKIKIFVLDEADNMLDQQGLGDQC---IRVKRFLPKDTQLVLFSATF 187
Query: 178 TPA 180
A
Sbjct: 188 ADA 190
Score = 60.3 bits (147), Expect = 1e-09
Identities = 21/69 (30%), Positives = 33/69 (47%), Gaps = 4/69 (5%)
Query: 189 TLKFSKVEHLVLDEADRILD-QGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAG 247
++ K++ VLDEAD +LD QG + + + Q VL SAT AV++ A
Sbjct: 140 LMQLQKIKIFVLDEADNMLDQQGLGDQC---IRVKRFLPKDTQLVLFSATFADAVRQYAK 196
Query: 248 MTLQNPIQI 256
+ N +
Sbjct: 197 KIVPNANTL 205
>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 = 209 bits (535), Expect = 3e-62
Identities = 86/217 (39%), Positives = 126/217 (58%), Gaps = 9/217 (4%)
Query: 388 APTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYA 447
T + +FP + K L E VT +Q+ +I L G DVL ++TGSGKTLA+
Sbjct: 23 EITRFSDFP-LSKKTLKGLQE-AQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFL 80
Query: 448 IPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKM 507
+P+++ L R + + DG+ +II PTRELA QT E+ K+ K + GG+ +
Sbjct: 81 VPVLEAL--YRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGK-NHDFSAGLIIGGKDL 137
Query: 508 KSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFL 567
K E RI I+ILV TPGRLL H T + + ++ LVLDEADRILD G+ + +
Sbjct: 138 KHEAERI-NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVI 196
Query: 568 EILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQI 604
E L K++ Q++L SAT T +V+ LA ++L+NP +
Sbjct: 197 ENLPKKR---QTLLFSATQTKSVKDLARLSLKNPEYV 230
Score = 190 bits (485), Expect = 2e-55
Identities = 74/179 (41%), Positives = 105/179 (58%), Gaps = 7/179 (3%)
Query: 1 MNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYA 60
VT +Q+ +I L G DVL ++TGSGKTLA+ +P+++ L R + + DG+
Sbjct: 43 AQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEAL--YRLQWTSTDGLGV 100
Query: 61 VIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLL 120
+II PTRELA QT E+ K+ K + GG+ +K E RI I+ILV TPGRLL
Sbjct: 101 LIISPTRELAYQTFEVLRKVGK-NHDFSAGLIIGGKDLKHEAERI-NNINILVCTPGRLL 158
Query: 121 DHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTP 179
H T + + ++ LVLDEADRILD G+ + +E L K++ Q++L SAT T
Sbjct: 159 QHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKR---QTLLFSATQTK 214
Score = 75.7 bits (187), Expect = 2e-15
Identities = 28/72 (38%), Positives = 45/72 (62%), Gaps = 3/72 (4%)
Query: 185 KHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQR 244
T + + ++ LVLDEADRILD G+ + +E L K++ Q++L SAT T +V+
Sbjct: 162 DETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKR---QTLLFSATQTKSVKD 218
Query: 245 LAGMTLQNPIQI 256
LA ++L+NP +
Sbjct: 219 LARLSLKNPEYV 230
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 213 bits (544), Expect = 2e-61
Identities = 76/414 (18%), Positives = 142/414 (34%), Gaps = 58/414 (14%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
T Q+L + I+ G + + TG GKT + + + G + ++ PT
Sbjct: 23 TGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLA---------RKGKKSALVFPT 73
Query: 476 RELALQTLEIFTKLCKSFTWIVP--SWLTGGEKMKSEKARIRKGISILVATPGRLLDHCK 533
L QTLE KL I S + EK K EK+ ILV + +
Sbjct: 74 VTLVKQTLERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFSTQFVSK--- 130
Query: 534 HTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRL 593
+ E L + + + +D+ D +L D L ++ + S +
Sbjct: 131 NREKLSQKRFDFVFVDDVDAVLKASRNIDT---LLMMVGIPEEIIRKAFSTIKQGKIYER 187
Query: 594 AGMTLQNPIQIDAADSTDIHNTTDSLVIPDSL------------KQHFIVTPPKLRLVAL 641
+ + +A + + I + K +LV L
Sbjct: 188 PKNLKPGILVVSSATAKPRGIRPLLFRDLLNFTVGRLVSVARNITHVRISSRSKEKLVEL 247
Query: 642 ASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTE 701
+L+F T++ E L + + SE +
Sbjct: 248 LEIF-----------RDGILIFAQTEEEGKELYEYLK---RFKF-----NVGETWSEFEK 288
Query: 702 VFKTFRSVKSGVLICTDV----AARGLDLP-LVDWIVQYTAPSS--STDYVHRVGRTARV 754
F+ F+ K +LI RG+DLP + +++ + PS Y+ GR++R+
Sbjct: 289 NFEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQASGRSSRI 348
Query: 755 GHEG--SSLLFLIPSEVKLVEELQNR-RIRIEEIKLKDCLQNLLSVKMEGDLSR 805
+ + + + ++ E L+ R + EE +++ N + E + SR
Sbjct: 349 LNGVLVKGVSVIFEEDEEIFESLKTRLLLIAEEEIIEEAEANWKELVHEVEESR 402
Score = 145 bits (367), Expect = 1e-37
Identities = 52/328 (15%), Positives = 98/328 (29%), Gaps = 77/328 (23%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
T Q+L + I+ G + + TG GKT + + + G + ++ PT
Sbjct: 23 TGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLA---------RKGKKSALVFPT 73
Query: 67 RELALQTLEIFTKLCKSFTWIVP--SWLTGGEKMKSEKARIRKGISILVATPGRLLDHCK 124
L QTLE KL I S + EK K EK+ ILV + +
Sbjct: 74 VTLVKQTLERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFSTQFVSK--- 130
Query: 125 HTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPATCWC 184
+ E L + + + +D+ D +L D L ++ + S
Sbjct: 131 NREKLSQKRFDFVFVDDVDAVLKASRNIDT---LLMMVGIPEEIIRKAFSTIKQG----- 182
Query: 185 KHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQR 244
+I ++ K +L+ ++ T +
Sbjct: 183 -----------------------------------KIYERPKNLKPGILVVSSATAKPRG 207
Query: 245 LAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNV 304
+ + ++ + + + I + K +LV L
Sbjct: 208 IRPLLFRDLLNFTVGRL----VSVARNI-----THVRISSRSKEKLVELLEIF------- 251
Query: 305 NEDEESKMLVFMATQDMADYHTELLSTK 332
+L+F T++ E L
Sbjct: 252 ----RDGILIFAQTEEEGKELYEYLKRF 275
>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 = 193 bits (493), Expect = 2e-56
Identities = 67/220 (30%), Positives = 125/220 (56%), Gaps = 12/220 (5%)
Query: 388 APTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYA 447
++++ G+ + + ++ + T+ T +Q +I L G D++ ++TGSGKT A+A
Sbjct: 41 ETKTFKDL-GVTDVLCEACDQ-LGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFA 98
Query: 448 IPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKM 507
+PI+ L E ++A+++ PTRELA Q E F L + + + GG
Sbjct: 99 LPILNALLE------TPQRLFALVLTPTRELAFQISEQFEALGS-SIGVQSAVIVGGIDS 151
Query: 508 KSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFL 567
S+ + K I++ATPGRL+DH ++T+ +++LV+DEADRIL+ +E ++ + L
Sbjct: 152 MSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKIL 211
Query: 568 EILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAA 607
+++ + + ++ L SAT+T VQ+L L+NP++ +
Sbjct: 212 KVIPRDR---KTFLFSATMTKKVQKLQRAALKNPVKCAVS 248
Score = 174 bits (442), Expect = 2e-49
Identities = 60/179 (33%), Positives = 104/179 (58%), Gaps = 10/179 (5%)
Query: 1 MNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYA 60
+ T+ T +Q +I L G D++ ++TGSGKT A+A+PI+ L E ++A
Sbjct: 61 LGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLE------TPQRLFA 114
Query: 61 VIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLL 120
+++ PTRELA Q E F L + + + GG S+ + K I++ATPGRL+
Sbjct: 115 LVLTPTRELAFQISEQFEALGS-SIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLI 173
Query: 121 DHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTP 179
DH ++T+ +++LV+DEADRIL+ +E ++ + L+++ + + ++ L SAT+T
Sbjct: 174 DHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDR---KTFLFSATMTK 229
>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 = 176 bits (448), Expect = 4e-50
Identities = 70/219 (31%), Positives = 116/219 (52%), Gaps = 8/219 (3%)
Query: 390 TSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIP 449
+++E + P ++ N+ + + T +Q+ +I IL+ D++ +QTGSGKT A+ IP
Sbjct: 23 ENFDE-LKLDPTIRNNILL-ASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIP 80
Query: 450 IIQKL---QEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEK 506
II L + + S+ +I+ PTRELA+Q L K + T + + GG
Sbjct: 81 IINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLN-TPLRSCVVYGGAD 139
Query: 507 MKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEF 566
S+ ++ G +LVATPGRL+D + + +++VLDEADR+LD G+E I +
Sbjct: 140 THSQIREVQMGCHLLVATPGRLVDFIEKNKI-SLEFCKYIVLDEADRMLDMGFEPQIRKI 198
Query: 567 LE-ILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQI 604
+E Q+++ SAT +Q+LA L N I +
Sbjct: 199 IEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFM 237
Score = 156 bits (398), Expect = 3e-43
Identities = 69/253 (27%), Positives = 109/253 (43%), Gaps = 65/253 (25%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKL---QEMRPKISRKDGIYAVII 63
T +Q+ +I IL+ D++ +QTGSGKT A+ IPII L + + S+ +I+
Sbjct: 47 TPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLIL 106
Query: 64 LPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHC 123
PTRELA+Q L K + T + + GG S+ ++ G +LVATPGRL+D
Sbjct: 107 APTRELAIQILSESQKFSLN-TPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFI 165
Query: 124 KHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPATCW 183
+ + +++VLDEADR+LD G+E PQ + I+ + +
Sbjct: 166 EKNKI-SLEFCKYIVLDEADRMLDMGFE--------------PQIRKIIEESNMPSG--- 207
Query: 184 CKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQ 243
+R Q+++ SAT +Q
Sbjct: 208 -------------------INR------------------------QTLMFSATFPKEIQ 224
Query: 244 RLAGMTLQNPIQI 256
+LA L N I +
Sbjct: 225 KLAADFLYNYIFM 237
>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 = 175 bits (446), Expect = 7e-50
Identities = 58/213 (27%), Positives = 98/213 (46%), Gaps = 14/213 (6%)
Query: 397 GIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQE 456
I+ + +N+ + T +Q +I +L G ++L + TGSGKTLA++IPI+ +L++
Sbjct: 35 KINSRLLQNILD-AGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQ 93
Query: 457 MRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGG-EKMKSEKARIR 515
G A+II PTRELA Q K+ + T + K +
Sbjct: 94 -----PANKGFRALIISPTRELASQIHRELIKISEG-TGFRIHMIHKAAVAAKKFGPKSS 147
Query: 516 KGISILVATPGRLLDH-CKHTETLKFSKVEHLVLDEADRILDQ---GYERDIAEFLEILK 571
K ILV TP RL+ + + + VE LV+DE+D++ + G+ +A
Sbjct: 148 KKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACT 207
Query: 572 KQKPQFQSILLSATLTPAVQRLAGMTLQNPIQI 604
+ + + SAT V++ + L N I +
Sbjct: 208 --SHKVRRAMFSATFAYDVEQWCKLNLDNVISV 238
Score = 155 bits (395), Expect = 5e-43
Identities = 52/178 (29%), Positives = 83/178 (46%), Gaps = 13/178 (7%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
T +Q +I +L G ++L + TGSGKTLA++IPI+ +L++ G A+II PT
Sbjct: 53 TPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQ-----PANKGFRALIISPT 107
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGG-EKMKSEKARIRKGISILVATPGRLLDH-CK 124
RELA Q K+ + T + K + K ILV TP RL+ +
Sbjct: 108 RELASQIHRELIKISEG-TGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQ 166
Query: 125 HTETLKFSKVEHLVLDEADRILDQ---GYERDIAEFLEILKKQKPQFQSILLSATLTP 179
+ + VE LV+DE+D++ + G+ +A + + + SAT
Sbjct: 167 DPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACT--SHKVRRAMFSATFAY 222
>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 = 171 bits (435), Expect = 8e-49
Identities = 69/211 (32%), Positives = 113/211 (53%), Gaps = 11/211 (5%)
Query: 397 GIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQE 456
+ P + + L+ +T T +Q ++ L+G D++ +++TG+GKTLA+A+PI ++L
Sbjct: 7 PLKPEILEALHG-RGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLA- 64
Query: 457 MRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRK 516
P R A+++ PTRELALQ T + + + GG +K + +
Sbjct: 65 --PSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVA---VYGGTGYGKQKEALLR 119
Query: 517 GISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQ 576
G +VATPGR LD+ + L S+VE VLDEAD +L G+E ++ L +
Sbjct: 120 GADAVVATPGRALDYLRQ-GVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSR-- 176
Query: 577 FQSILLSATLTPAVQRLAGMTLQNPIQIDAA 607
Q++L SATL +RLA ++NP+ I+
Sbjct: 177 -QTLLFSATLPSWAKRLAERYMKNPVLINVI 206
Score = 155 bits (394), Expect = 3e-43
Identities = 60/174 (34%), Positives = 94/174 (54%), Gaps = 10/174 (5%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
T +Q ++ L+G D++ +++TG+GKTLA+A+PI ++L P R A+++ PT
Sbjct: 25 TPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLA---PSQERGRKPRALVLTPT 81
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELALQ T + + + GG +K + +G +VATPGR LD+ +
Sbjct: 82 RELALQVASELTAVAPHLKVVA---VYGGTGYGKQKEALLRGADAVVATPGRALDYLRQ- 137
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
L S+VE VLDEAD +L G+E ++ L + Q++L SATL
Sbjct: 138 GVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSR---QTLLFSATLPSW 188
Score = 68.7 bits (169), Expect = 3e-13
Identities = 26/71 (36%), Positives = 39/71 (54%), Gaps = 3/71 (4%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGM 248
L S+VE VLDEAD +L G+E ++ L + Q++L SATL +RLA
Sbjct: 139 VLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSR---QTLLFSATLPSWAKRLAER 195
Query: 249 TLQNPIQIDAA 259
++NP+ I+
Sbjct: 196 YMKNPVLINVI 206
>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 = 169 bits (430), Expect = 7e-48
Identities = 67/232 (28%), Positives = 117/232 (50%), Gaps = 18/232 (7%)
Query: 373 NVPTRRLKPVSEALFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDV 432
+P KP +++ +P + K++ + I + T +Q + IL G D+
Sbjct: 13 LIP----KPT-------CRFKDAFQQYPDLLKSIIR-VGILKPTPIQSQAWPIILQGIDL 60
Query: 433 LVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKS 492
+V +QTG+GKTL+Y +P L +++G +++ PTRELAL +K
Sbjct: 61 IVVAQTGTGKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSYK 120
Query: 493 FTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEAD 552
+ + GG + I KG+ I++ATPGRL D ++ + +LV+DEAD
Sbjct: 121 G--LKSICIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQM-NNSVNLRSITYLVIDEAD 177
Query: 553 RILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQI 604
++LD +E I +IL +P Q+++ SAT V++LA L++P+ +
Sbjct: 178 KMLDMEFEPQI---RKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIV 226
Score = 147 bits (373), Expect = 3e-40
Identities = 56/170 (32%), Positives = 90/170 (52%), Gaps = 6/170 (3%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
T +Q + IL G D++V +QTG+GKTL+Y +P L +++G +++ PT
Sbjct: 44 TPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPT 103
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELAL +K + + GG + I KG+ I++ATPGRL D
Sbjct: 104 RELALHVEAECSKYSYKG--LKSICIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQM-N 160
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSAT 176
++ + +LV+DEAD++LD +E I +IL +P Q+++ SAT
Sbjct: 161 NSVNLRSITYLVIDEADKMLDMEFEPQI---RKILLDVRPDRQTVMTSAT 207
Score = 66.8 bits (164), Expect = 2e-12
Identities = 23/68 (33%), Positives = 41/68 (60%), Gaps = 3/68 (4%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGM 248
++ + +LV+DEAD++LD +E I +IL +P Q+V+ SAT V++LA
Sbjct: 162 SVNLRSITYLVIDEADKMLDMEFEPQI---RKILLDVRPDRQTVMTSATWPDTVRQLALS 218
Query: 249 TLQNPIQI 256
L++P+ +
Sbjct: 219 YLKDPMIV 226
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 168 bits (427), Expect = 1e-47
Identities = 62/222 (27%), Positives = 104/222 (46%), Gaps = 19/222 (8%)
Query: 388 APTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYA 447
A T + F PF+ + + + + T +Q+ I L G ++ +SQTG+GKT AY
Sbjct: 2 AETQFTRF-PFQPFIIEAIKT-LRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYL 59
Query: 448 IPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTW-----IVPSWLT 502
+PI++K++ R ++ AVI PTRELA Q K+ K L
Sbjct: 60 LPIMEKIKPERAEVQ------AVITAPTRELATQIYHETLKITKFCPKDRMIVARC--LI 111
Query: 503 GGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERD 562
GG + ++ I++ TPGR+ D + + L LV+DEAD +LD G+ D
Sbjct: 112 GGTDKQKALEKLNVQPHIVIGTPGRINDFIRE-QALDVHTAHILVVDEADLMLDMGFITD 170
Query: 563 IAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQI 604
+ +I + Q ++ SAT+ ++ ++NP +
Sbjct: 171 VD---QIAARMPKDLQMLVFSATIPEKLKPFLKKYMENPTFV 209
Score = 149 bits (378), Expect = 5e-41
Identities = 55/185 (29%), Positives = 88/185 (47%), Gaps = 17/185 (9%)
Query: 1 MNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYA 60
+ + T +Q+ I L G ++ +SQTG+GKT AY +PI++K++ R ++ A
Sbjct: 22 LRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLLPIMEKIKPERAEVQ------A 75
Query: 61 VIILPTRELALQTLEIFTKLCKSFTW-----IVPSWLTGGEKMKSEKARIRKGISILVAT 115
VI PTRELA Q K+ K L GG + ++ I++ T
Sbjct: 76 VITAPTRELATQIYHETLKITKFCPKDRMIVARC--LIGGTDKQKALEKLNVQPHIVIGT 133
Query: 116 PGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSA 175
PGR+ D + + L LV+DEAD +LD G+ D+ +I + Q ++ SA
Sbjct: 134 PGRINDFIRE-QALDVHTAHILVVDEADLMLDMGFITDVD---QIAARMPKDLQMLVFSA 189
Query: 176 TLTPA 180
T+
Sbjct: 190 TIPEK 194
Score = 61.4 bits (150), Expect = 1e-10
Identities = 18/68 (26%), Positives = 32/68 (47%), Gaps = 3/68 (4%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGM 248
L LV+DEAD +LD G+ D+ +I + Q ++ SAT+ ++
Sbjct: 145 ALDVHTAHILVVDEADLMLDMGFITDVD---QIAARMPKDLQMLVFSATIPEKLKPFLKK 201
Query: 249 TLQNPIQI 256
++NP +
Sbjct: 202 YMENPTFV 209
>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 = 165 bits (419), Expect = 1e-46
Identities = 66/216 (30%), Positives = 117/216 (54%), Gaps = 12/216 (5%)
Query: 390 TSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIP 449
+E++ + + + E M + + +Q+ SI L G D+L R++ G+GK+ AY IP
Sbjct: 3 NEFEDY-CLKRELLMGIFE-MGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIP 60
Query: 450 IIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKS 509
++++L + I A++I+PTRELALQ +I ++ K TGG ++
Sbjct: 61 LLERLDLKKDNIQ------AMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRD 114
Query: 510 EKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEI 569
+ R+ + +++ATPGR+LD K K V+ +VLDEAD++L Q + + + + +
Sbjct: 115 DIMRLDDTVHVVIATPGRILDLIKK-GVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILT 173
Query: 570 LKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQID 605
L K + Q +L SAT +VQ+ L+ P +I+
Sbjct: 174 LPKNR---QILLYSATFPLSVQKFMNSHLEKPYEIN 206
Score = 151 bits (383), Expect = 8e-42
Identities = 58/174 (33%), Positives = 98/174 (56%), Gaps = 10/174 (5%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +Q+ SI L G D+L R++ G+GK+ AY IP++++L + I A++I+PT
Sbjct: 27 SPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLDLKKDNIQ------AMVIVPT 80
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELALQ +I ++ K TGG ++ + R+ + +++ATPGR+LD K
Sbjct: 81 RELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATPGRILDLIKK- 139
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
K V+ +VLDEAD++L Q + + + + + L K + Q +L SAT +
Sbjct: 140 GVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNR---QILLYSATFPLS 190
Score = 63.7 bits (156), Expect = 1e-11
Identities = 22/69 (31%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGM 248
K V+ +VLDEAD++L Q + + + + + L K + Q +L SAT +VQ+
Sbjct: 141 VAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNR---QILLYSATFPLSVQKFMNS 197
Query: 249 TLQNPIQID 257
L+ P +I+
Sbjct: 198 HLEKPYEIN 206
>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 = 160 bits (407), Expect = 1e-44
Identities = 73/232 (31%), Positives = 121/232 (52%), Gaps = 19/232 (8%)
Query: 373 NVPTRRLKPVSEALFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDV 432
N P KPV ++ E + + N T+ T +Q L G D+
Sbjct: 23 NCP----KPV-------LNFYEA-NFPANVMDVIAR-QNFTEPTAIQAQGWPVALSGLDM 69
Query: 433 LVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKS 492
+ +QTGSGKTL+Y +P I + +P + R DG +++ PTRELA Q ++ + C++
Sbjct: 70 VGVAQTGSGKTLSYLLPAIVHINH-QPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRA 128
Query: 493 FTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEAD 552
+ + + GG + + +G+ I +ATPGRL+D + +T + +LVLDEAD
Sbjct: 129 -CRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKT-NLRRTTYLVLDEAD 186
Query: 553 RILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQI 604
R+LD G+E I +I+ + +P Q+++ SAT V++LA L++ I I
Sbjct: 187 RMLDMGFEPQI---RKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHI 235
Score = 141 bits (359), Expect = 4e-38
Identities = 61/176 (34%), Positives = 101/176 (57%), Gaps = 6/176 (3%)
Query: 1 MNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYA 60
N T+ T +Q L G D++ +QTGSGKTL+Y +P I + +P + R DG
Sbjct: 47 QNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINH-QPFLERGDGPIC 105
Query: 61 VIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLL 120
+++ PTRELA Q ++ + C++ + + + GG + + +G+ I +ATPGRL+
Sbjct: 106 LVLAPTRELAQQVQQVAAEYCRA-CRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLI 164
Query: 121 DHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSAT 176
D + +T + +LVLDEADR+LD G+E I +I+ + +P Q+++ SAT
Sbjct: 165 DFLECGKT-NLRRTTYLVLDEADRMLDMGFEPQI---RKIVDQIRPDRQTLMWSAT 216
Score = 62.9 bits (154), Expect = 5e-11
Identities = 25/64 (39%), Positives = 40/64 (62%), Gaps = 3/64 (4%)
Query: 193 SKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGMTLQN 252
+ +LVLDEADR+LD G+E I +I+ + +P Q+++ SAT V++LA L++
Sbjct: 175 RRTTYLVLDEADRMLDMGFEPQI---RKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKD 231
Query: 253 PIQI 256
I I
Sbjct: 232 YIHI 235
>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 = 156 bits (396), Expect = 2e-43
Identities = 54/217 (24%), Positives = 113/217 (52%), Gaps = 14/217 (6%)
Query: 390 TSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIP 449
+ + +F + P + + + + + VQ I + G DVL ++++G GKT + +
Sbjct: 14 SGFRDF-LLKPELLRAIVD-CGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLA 71
Query: 450 IIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKS 509
+Q+L+ + ++S +++ TRELA Q + + + K + + GG +K
Sbjct: 72 TLQQLEPVTGQVS------VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKK 125
Query: 510 EKARIRKGIS-ILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQ-GYERDIAEFL 567
++ ++K I+V TPGR+L + ++L ++H +LDE D++L+Q RD+
Sbjct: 126 DEEVLKKNCPHIVVGTPGRILALAR-NKSLNLKHIKHFILDECDKMLEQLDMRRDVQ--- 181
Query: 568 EILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQI 604
EI + + Q ++ SATL+ ++ + +Q+P++I
Sbjct: 182 EIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEI 218
Score = 141 bits (357), Expect = 3e-38
Identities = 49/182 (26%), Positives = 93/182 (51%), Gaps = 12/182 (6%)
Query: 1 MNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYA 60
+ VQ I + G DVL ++++G GKT + + +Q+L+ + ++S
Sbjct: 32 CGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVS------V 85
Query: 61 VIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGIS-ILVATPGRL 119
+++ TRELA Q + + + K + + GG +K ++ ++K I+V TPGR+
Sbjct: 86 LVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRI 145
Query: 120 LDHCKHTETLKFSKVEHLVLDEADRILDQ-GYERDIAEFLEILKKQKPQFQSILLSATLT 178
L + ++L ++H +LDE D++L+Q RD+ EI + + Q ++ SATL+
Sbjct: 146 LALAR-NKSLNLKHIKHFILDECDKMLEQLDMRRDVQ---EIFRMTPHEKQVMMFSATLS 201
Query: 179 PA 180
Sbjct: 202 KE 203
Score = 62.6 bits (153), Expect = 5e-11
Identities = 20/69 (28%), Positives = 40/69 (57%), Gaps = 4/69 (5%)
Query: 189 TLKFSKVEHLVLDEADRILDQ-GYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAG 247
+L ++H +LDE D++L+Q RD+ EI + + Q ++ SATL+ ++ +
Sbjct: 153 SLNLKHIKHFILDECDKMLEQLDMRRDVQ---EIFRMTPHEKQVMMFSATLSKEIRPVCR 209
Query: 248 MTLQNPIQI 256
+Q+P++I
Sbjct: 210 KFMQDPMEI 218
>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 = 153 bits (390), Expect = 2e-42
Identities = 48/232 (20%), Positives = 98/232 (42%), Gaps = 12/232 (5%)
Query: 373 NVPTRRLKPVSEALFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDV 432
++ + R + L P +E + + + L + + VQ +I G D+
Sbjct: 7 DLSSPRTRTGDVLLAEPADFESL-LLSRPVLEGLRA-AGFERPSPVQLKAIPLGRCGLDL 64
Query: 433 LVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKS 492
+V++++G+GKT ++ + L +I+ PTRE+A+Q + T +
Sbjct: 65 IVQAKSGTGKTCVFSTIALDSLVLENLSTQ------ILILAPTREIAVQIHSVITAIGIK 118
Query: 493 FTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEAD 552
+ GG + +K R+ K I V +PGR+ + + L + +LDEAD
Sbjct: 119 MEGLECHVFIGGTPLSQDKTRL-KKCHIAVGSPGRIKQLIEL-DYLNPGSIRLFILDEAD 176
Query: 553 RILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQI 604
++L++G ++ I Q + +SAT + +++P +
Sbjct: 177 KLLEEGSFQEQIN--WIYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFV 226
Score = 141 bits (358), Expect = 3e-38
Identities = 42/174 (24%), Positives = 78/174 (44%), Gaps = 10/174 (5%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ VQ +I G D++V++++G+GKT ++ + L +I+ PT
Sbjct: 48 SPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVLENLSTQ------ILILAPT 101
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RE+A+Q + T + + GG + +K R+ K I V +PGR+ +
Sbjct: 102 REIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRL-KKCHIAVGSPGRIKQLIEL- 159
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
+ L + +LDEAD++L++G ++ I Q + +SAT
Sbjct: 160 DYLNPGSIRLFILDEADKLLEEGSFQEQIN--WIYSSLPASKQMLAVSATYPEF 211
Score = 61.9 bits (151), Expect = 1e-10
Identities = 14/68 (20%), Positives = 29/68 (42%), Gaps = 2/68 (2%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGM 248
L + +LDEAD++L++G ++ I Q + +SAT +
Sbjct: 161 YLNPGSIRLFILDEADKLLEEGSFQEQIN--WIYSSLPASKQMLAVSATYPEFLANALTK 218
Query: 249 TLQNPIQI 256
+++P +
Sbjct: 219 YMRDPTFV 226
>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 = 148 bits (376), Expect = 1e-40
Identities = 59/190 (31%), Positives = 102/190 (53%), Gaps = 12/190 (6%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ +QQ +I P + G DV+ ++Q+G+GKT +AI I+Q+L+ + A+++ PT
Sbjct: 54 SAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEIEFKETQ------ALVLAPT 107
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIR-KGISILVATPGRLLDHCKH 534
RELA Q ++ L + GG +++E +++ + I+V TPGR+ D
Sbjct: 108 RELAQQIQKVILALGD-YMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNR 166
Query: 535 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLA 594
L ++ VLDEAD +L +G++ I EI +K Q +LLSAT+ V +
Sbjct: 167 -RYLSPKWIKMFVLDEADEMLSRGFKDQIY---EIFQKLNTSIQVVLLSATMPTDVLEVT 222
Query: 595 GMTLQNPIQI 604
+++PI+I
Sbjct: 223 KKFMRDPIRI 232
Score = 137 bits (348), Expect = 8e-37
Identities = 55/175 (31%), Positives = 93/175 (53%), Gaps = 12/175 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +QQ +I P + G DV+ ++Q+G+GKT +AI I+Q+L+ + A+++ PT
Sbjct: 54 SAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEIEFKETQ------ALVLAPT 107
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIR-KGISILVATPGRLLDHCKH 125
RELA Q ++ L + GG +++E +++ + I+V TPGR+ D
Sbjct: 108 RELAQQIQKVILALGD-YMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNR 166
Query: 126 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
L ++ VLDEAD +L +G++ I EI +K Q +LLSAT+
Sbjct: 167 -RYLSPKWIKMFVLDEADEMLSRGFKDQIY---EIFQKLNTSIQVVLLSATMPTD 217
Score = 61.9 bits (151), Expect = 1e-10
Identities = 24/68 (35%), Positives = 37/68 (54%), Gaps = 3/68 (4%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGM 248
L ++ VLDEAD +L +G++ I EI +K Q VLLSAT+ V +
Sbjct: 168 YLSPKWIKMFVLDEADEMLSRGFKDQIY---EIFQKLNTSIQVVLLSATMPTDVLEVTKK 224
Query: 249 TLQNPIQI 256
+++PI+I
Sbjct: 225 FMRDPIRI 232
>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 = 148 bits (375), Expect = 1e-40
Identities = 58/189 (30%), Positives = 98/189 (51%), Gaps = 12/189 (6%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ +QQ +I PI++G DVL ++Q+G+GKT ++I +Q++ A+++ PT
Sbjct: 38 SAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQ------ALMLAPT 91
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 535
RELALQ ++ L I GG + +R I+V TPGR+ D+ +
Sbjct: 92 RELALQIQKVVMALAF-HMDIKVHACIGGTSFVEDAEGLRDA-QIVVGTPGRVFDNIQR- 148
Query: 536 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAG 595
+ K++ +LDEAD +L G++ I +I P Q +LLSAT+ V +
Sbjct: 149 RRFRTDKIKMFILDEADEMLSSGFKEQIY---QIFTLLPPTTQVVLLSATMPNDVLEVTT 205
Query: 596 MTLQNPIQI 604
++NP++I
Sbjct: 206 KFMRNPVRI 214
Score = 137 bits (347), Expect = 8e-37
Identities = 54/174 (31%), Positives = 89/174 (51%), Gaps = 12/174 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +QQ +I PI++G DVL ++Q+G+GKT ++I +Q++ A+++ PT
Sbjct: 38 SAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQ------ALMLAPT 91
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELALQ ++ L I GG + +R I+V TPGR+ D+ +
Sbjct: 92 RELALQIQKVVMALAF-HMDIKVHACIGGTSFVEDAEGLRDA-QIVVGTPGRVFDNIQR- 148
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
+ K++ +LDEAD +L G++ I +I P Q +LLSAT+
Sbjct: 149 RRFRTDKIKMFILDEADEMLSSGFKEQIY---QIFTLLPPTTQVVLLSATMPND 199
Score = 61.8 bits (151), Expect = 1e-10
Identities = 22/68 (32%), Positives = 36/68 (52%), Gaps = 3/68 (4%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGM 248
+ K++ +LDEAD +L G++ I +I P Q VLLSAT+ V +
Sbjct: 150 RFRTDKIKMFILDEADEMLSSGFKEQIY---QIFTLLPPTTQVVLLSATMPNDVLEVTTK 206
Query: 249 TLQNPIQI 256
++NP++I
Sbjct: 207 FMRNPVRI 214
>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 = 148 bits (375), Expect = 1e-39
Identities = 64/298 (21%), Positives = 132/298 (44%), Gaps = 24/298 (8%)
Query: 317 ATQDMADYHTELLSTKKKIKKLKEYNIDPDNYEIPKKTE-------VKSGPISSLFQNNP 369
+ A+ + L ++KIK + N K E +S + N
Sbjct: 12 EQEAAAESLSNLHLKEEKIKPDTNGAVVKTNANAEKTDEEEKEDRAAQSLLNKLIRSNLV 71
Query: 370 DIPNVPTRRLKPVSEALFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDG 429
D N + + L++ S+EE + P + + + M + + +Q+ ++ +L
Sbjct: 72 DNTNQVEVLQRDPNSPLYSVKSFEEL-RLKPQLLQGVYA-MGFNRPSKIQENALPLMLAE 129
Query: 430 G--DVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFT 487
+++ +SQ+G+GKT A+ + ++ +++ + + PT ELALQT ++
Sbjct: 130 PPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ------CLCLSPTYELALQTGKVIE 183
Query: 488 KLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLV 547
++ K + + ++ G K++ + I++ TPG +LD C + + K++ V
Sbjct: 184 QMGKFYPELKLAYAVRGNKLER---GQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFV 240
Query: 548 LDEADRILD-QGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQI 604
LDEAD ++ QG++ + I + Q +L SAT +V + A + +P I
Sbjct: 241 LDEADVMIATQGHQDQS---IRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVI 295
Score = 132 bits (333), Expect = 4e-34
Identities = 42/175 (24%), Positives = 88/175 (50%), Gaps = 15/175 (8%)
Query: 9 VQQLSIQPILDGG--DVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+Q+ ++ +L +++ +SQ+G+GKT A+ + ++ +++ + + PT
Sbjct: 118 IQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ------CLCLSPT 171
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
ELALQT ++ ++ K + + ++ G K++ + I++ TPG +LD C
Sbjct: 172 YELALQTGKVIEQMGKFYPELKLAYAVRGNKLER---GQKISEQIVIGTPGTVLDWCSKL 228
Query: 127 ETLKFSKVEHLVLDEADRILD-QGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
+ + K++ VLDEAD ++ QG++ + I + Q +L SAT +
Sbjct: 229 KFIDPKKIKVFVLDEADVMIATQGHQDQS---IRIQRMLPRNCQMLLFSATFEDS 280
>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 = 118 bits (298), Expect = 1e-30
Identities = 48/150 (32%), Positives = 72/150 (48%), Gaps = 9/150 (6%)
Query: 626 KQHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENI 685
Q + + L + ++S LVF+ T+ AD + L E
Sbjct: 21 TQKVVWVEESDKRSFLLDLLN------ATGKDSLTLVFVETKKGADSLEDFLYH---EGY 71
Query: 686 AFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYV 745
A +HG SQ +R E FRS KS +L+ T VAARGLD+ V ++ + PS +YV
Sbjct: 72 ACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYV 131
Query: 746 HRVGRTARVGHEGSSLLFLIPSEVKLVEEL 775
HR+GRT RVG+ G + F + + ++L
Sbjct: 132 HRIGRTGRVGNLGLATSFFNERNINITKDL 161
>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 = 119 bits (300), Expect = 1e-30
Identities = 64/218 (29%), Positives = 92/218 (42%), Gaps = 29/218 (13%)
Query: 622 PDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVL 681
P + ++ + P + RL L+ + V + + +VF T+ + E+ +L
Sbjct: 3 PVTYEEEAVPAPVRGRLEVLSDLL-----YVASPD--RAMVFTRTKAETE---EIAQGLL 52
Query: 682 GENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSS 741
LHG +SQ ER V FR + VL+ TDVAARGLD+P VD +V Y P +
Sbjct: 53 RLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRA 112
Query: 742 TDYVHRVGRTARVGHEGSSLLFLIPSEVKLVEELQNR-RIRIEEIKL----------KDC 790
Y HR GRT R G G +L P E + VE L+ R + +
Sbjct: 113 EAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPEEVLEAKWRH 172
Query: 791 LQNLLSVKMEGDLSR--------LADGNVETAATALQM 820
L L+ E D A+G VE A L +
Sbjct: 173 LLARLARVPEKDYRLYQDFAGRLFAEGRVEVVAALLAL 210
>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 = 119 bits (300), Expect = 9e-30
Identities = 68/222 (30%), Positives = 95/222 (42%), Gaps = 31/222 (13%)
Query: 624 SLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGE 683
+ ++ + P + RL L+ + V + + +VF T+ + E+ +L
Sbjct: 2 TYEEEAVPAPVRGRLEVLSDLL-----YVASPD--RAMVFTRTKAETE---EIAQGLLRL 51
Query: 684 NIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTD 743
LHG MSQ ER V FR + VL+ TDVAARGLD+P VD +V Y P +
Sbjct: 52 GHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEA 111
Query: 744 YVHRVGRTARVGHEGSSLLFLIPSE---VKLVEELQNRRIR---------IEEIKLKDCL 791
Y HR GRT R G G +L P E V+ +E RR + + E K + L
Sbjct: 112 YQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLL 171
Query: 792 QNLLSVKMEGDLSR--------LADGNVETAATALQMSFESA 825
L V E D A+G VE A L + A
Sbjct: 172 ARLARV-PEKDYRLYQDFAGRLFAEGRVEVVAALLALLLGGA 212
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 111 bits (281), Expect = 2e-28
Identities = 40/167 (23%), Positives = 69/167 (41%), Gaps = 13/167 (7%)
Query: 598 LQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEE 657
+ +D + + + Q + ++V L + +
Sbjct: 5 HHHSSGVDLGTENLYFQSMGAAS--LDVIQEVEYVKEEAKMVYLLECL--------QKTP 54
Query: 658 SKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICT 717
+L+F + D E L + + +HG Q ERT+ + FR K VL+ T
Sbjct: 55 PPVLIFAEKKADVDAIHEYLLL---KGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVAT 111
Query: 718 DVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFL 764
DVA++GLD P + ++ Y P +YVHR+GRT G+ G + F+
Sbjct: 112 DVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFI 158
>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 = 110 bits (278), Expect = 3e-28
Identities = 40/138 (28%), Positives = 64/138 (46%), Gaps = 6/138 (4%)
Query: 652 VNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKS 711
+ + E ++ +VF+ ++ L I L G M Q +R E K +
Sbjct: 25 LKQPEATRSIVFVRKRERVHELANWLRE---AGINNCYLEGEMVQGKRNEAIKRLTEGRV 81
Query: 712 GVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKL 771
VL+ TDVAARG+D+P V + + P S Y+HR+GRTAR G +G+++ + + L
Sbjct: 82 NVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVEAHDHLL 141
Query: 772 ---VEELQNRRIRIEEIK 786
V I+ I
Sbjct: 142 LGKVGRYIEEPIKARVID 159
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 110 bits (277), Expect = 4e-28
Identities = 39/165 (23%), Positives = 76/165 (46%), Gaps = 11/165 (6%)
Query: 623 DSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLG 682
+++ I + + L + + ++F T++ + T+ L
Sbjct: 8 RNIEHAVIQVREENKFSLL-------KDVLMTENPDSCIIFCRTKEHVNQLTDELD---D 57
Query: 683 ENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSST 742
K+HG M Q +R +V F+ + L+ TDVAARG+D+ + ++ Y P
Sbjct: 58 LGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKE 117
Query: 743 DYVHRVGRTARVGHEGSSLLFLIPSEVKLVEELQNR-RIRIEEIK 786
YVHR GRT R G++G ++ F+ E + + +++ I++I+
Sbjct: 118 SYVHRTGRTGRAGNKGKAISFVTAFEKRFLADIEEYIGFEIQKIE 162
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 104 bits (261), Expect = 6e-26
Identities = 38/126 (30%), Positives = 67/126 (53%), Gaps = 4/126 (3%)
Query: 661 LVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVA 720
++F T+ + T L + ++ + Q ER + K FRS S +LI TD+
Sbjct: 34 VIFCNTRRKVEELTTKLR---NDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLL 90
Query: 721 ARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVEELQNR-R 779
ARG+D+ V ++ Y P++ +Y+HR+GR R G +G ++ F+ +V + EL+
Sbjct: 91 ARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYS 150
Query: 780 IRIEEI 785
+IEE+
Sbjct: 151 TQIEEL 156
>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 = 101 bits (254), Expect = 6e-25
Identities = 38/165 (23%), Positives = 78/165 (47%), Gaps = 12/165 (7%)
Query: 623 DSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLG 682
L+Q+++ + L +L N ++++F+ + +LL
Sbjct: 4 HGLQQYYVKLKDNEKNRKLFD-LLDV-LEFN-----QVVIFVKSVQRCIALAQLLV---E 53
Query: 683 ENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSST 742
+N +H M Q ER ++ F+ + +L+ T++ RG+D+ V+ Y P S
Sbjct: 54 QNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSD 113
Query: 743 DYVHRVGRTARVGHEGSSLLFLIP-SEVKLVEELQNR-RIRIEEI 785
Y+HRV R R G +G ++ F+ ++ K++ ++Q+R + I E+
Sbjct: 114 TYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISEL 158
>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 = 97.7 bits (244), Expect = 1e-23
Identities = 35/139 (25%), Positives = 67/139 (48%), Gaps = 10/139 (7%)
Query: 658 SKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICT 717
+ ++F T+ A + T + + L G ++ +R + + FR K VLI T
Sbjct: 35 GQAIIFCQTRRNAKWLTVEMI---QDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITT 91
Query: 718 DVAARGLDLPLVDWIVQYTAPSSSTD------YVHRVGRTARVGHEGSSLLFLIPSEVKL 771
+V ARG+D+ V +V + P + Y+HR+GRT R G +G + + E+
Sbjct: 92 NVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDELPS 151
Query: 772 VEELQNR-RIRIEEIKLKD 789
+ ++Q+ I+++ +D
Sbjct: 152 LMKIQDHFNSSIKQLNAED 170
>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 = 92.6 bits (229), Expect = 3e-19
Identities = 94/660 (14%), Positives = 193/660 (29%), Gaps = 208/660 (31%)
Query: 263 DIHNTTDSL--VIPDSLKQHFIVTP-PKLRLVALASFILGKCQNVNEDEESKMLVFMATQ 319
D + D ++ H I++ + L +L K + + + F+
Sbjct: 34 DCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK-------FVEEV 86
Query: 320 DMADYHTELLSTKKKIKKLKEYNIDPDNYEIPKKTEVKSGPISSLFQNNPDIP--NVPTR 377
+Y + L + +K P T + L+ +N NV
Sbjct: 87 LRINY--KFLMSP-----IKTEQRQPS-----MMTRMYIEQRDRLYNDNQVFAKYNVS-- 132
Query: 378 RLKPVSEALFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQ 437
RL+P + +++ L L ++P +VL+
Sbjct: 133 RLQPYLK-----------------LRQAL--------------LELRP---AKNVLIDGV 158
Query: 438 TGSGKT-LAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWI 496
GSGKT +A + + + I+ + L LE+ KL I
Sbjct: 159 LGSGKTWVA-----LDVCLSYKVQCKMDFKIFW-LNLKNCNSPETVLEMLQKLL---YQI 209
Query: 497 VPSWLTGGEKMKSEKARI---RKGISILVATPGR-----LLDH-------------CK-- 533
P+W + + + K RI + + L+ + +L + CK
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKIL 269
Query: 534 -------HTETLKFSKVEHLVLDEADRILDQGYERDI-AEFLEILKKQKP-QFQSI---- 580
T+ L + H+ LD L + + ++L+ + P + +
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR 329
Query: 581 --LLSATLTPAVQR------LAGMTLQNPIQ--IDAADSTDIHNTTDSLVI-PDSLKQHF 629
+++ ++ + + L I+ ++ + + D L + P S
Sbjct: 330 LSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAH--- 386
Query: 630 IVTPPKLRLVAL--------ASFILGKCQN---VNEDEESKMLVFMATQ--------DMA 670
I P L L + ++ K V + + + + +
Sbjct: 387 I--PTIL-LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEY 443
Query: 671 DYHTELL--------------STVLGENIAFFKL--HGSMSQSERTEVFKTFRSVKSGVL 714
H ++ + + + H + E E FR V
Sbjct: 444 ALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH--LKNIEHPERMTLFRMVF---- 497
Query: 715 ICTDVAARGLDLPLVDWIVQ--------YTAPSSSTDYVHRVGRTARVGHEGSSLLFLIP 766
LD ++ Q + A S + + ++ ++
Sbjct: 498 ---------LDF---RFLEQKIRHDSTAWNASGSILNTLQQLKFYKP---------YICD 536
Query: 767 SEVKLVEELQNRRIRIEEIK--LKDCLQNLLSVKMEGDLSRLA-----DGNVETAATALQ 819
++ K E L + I L +NL+ K DL R+A + E A +Q
Sbjct: 537 NDPKY-ERL------VNAILDFLPKIEENLICSK-YTDLLRIALMAEDEAIFEEAHKQVQ 588
Score = 82.2 bits (202), Expect = 4e-16
Identities = 85/604 (14%), Positives = 182/604 (30%), Gaps = 190/604 (31%)
Query: 1 MNITQVTTVQQL--SIQPILDGGDVLVRSQTGSGKT-LAYAIPIIQKLQEMRPKISRKDG 57
N++++ +L ++ + +VL+ GSGKT +A + + +
Sbjct: 129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVA-----LDVCLSYKVQCKMDFK 183
Query: 58 IYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPG 117
I+ + L LE+ KL I P+W + + + K RI + L
Sbjct: 184 IFW-LNLKNCNSPETVLEMLQKLL---YQIDPNWTSRSDHSSNIKLRIHSIQAELR---- 235
Query: 118 RLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
RLL + L LVL ++ + + ILL T
Sbjct: 236 RLLKSKPYENCL-------LVLL------------NVQN-AKAWNAFNLSCK-ILL--T- 271
Query: 178 TPATCWCKHTETLKFSKVEHLVLDEADRILDQGYERDI-AEFLEI----LKKQK----PQ 228
T + + T+ L + H+ LD L + + ++L+ L ++ P+
Sbjct: 272 ---TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR 328
Query: 229 FQSVLLSATLTPAVQR------LAGMTLQNPIQ--IDAADSTDIHNTTDSLVI-PDSLKQ 279
S +++ ++ + + L I+ ++ + + D L + P S
Sbjct: 329 RLS-IIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAH- 386
Query: 280 HFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMAD---------YHTELLS 330
I P L L + +V + + ++ + + + + L
Sbjct: 387 --I--PTIL-LSLI-------WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE 434
Query: 331 TKKKIKKLKEYN---IDPDNYEIPKKTEVKSGPISSLFQNNPDIPNVPTRR--------- 378
K K++ + + D+Y IPK F ++ D+ +
Sbjct: 435 LKVKLENEYALHRSIV--DHYNIPKT-----------FDSD-DLIPPYLDQYFYSHIGHH 480
Query: 379 LKPVSEALFAPTSYEEFPGIH---PFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVR 435
LK + F + F+++ + R
Sbjct: 481 LKNIEHPE----RMTLFRMVFLDFRFLEQKI----------------------------R 508
Query: 436 SQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTW 495
+ + + +Q+L+ +P I D P E + + F
Sbjct: 509 HDSTAWNASGSILNTLQQLKFYKPYICDND--------PKYERLVNAILDF--------- 551
Query: 496 IVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLK--FSKVEHLVLDEADR 553
+ L K+T+ L+ + + +EA +
Sbjct: 552 --------------------------LPKIEENLICSKYTDLLRIALMAEDEAIFEEAHK 585
Query: 554 ILDQ 557
+ +
Sbjct: 586 QVQR 589
Score = 57.2 bits (137), Expect = 3e-08
Identities = 71/457 (15%), Positives = 132/457 (28%), Gaps = 132/457 (28%)
Query: 531 HCKHTET------LKFSKVEHLVLDEADRILDQGYERDIAEFL-EILKKQKPQFQSILLS 583
H H + ++ + + D D +D+ + IL K+ + I++S
Sbjct: 3 HHHHMDFETGEHQYQYKDILSVFEDAFVDNFDC---KDVQDMPKSILSKE--EIDHIIMS 57
Query: 584 ATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALAS 643
RL L V + L+ ++
Sbjct: 58 KDAVSGTLRLFWTLLSKQ-----------EEMVQKFV-EEVLRINY-------------K 92
Query: 644 FILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVF 703
F++ + +++ +D + +N F K + S R + +
Sbjct: 93 FLMSPIKTEQRQPSMMTRMYIEQRD----------RLYNDNQVFAKYNVS-----RLQPY 137
Query: 704 KTFRSV------KSGVLIC-------TDVAARGL-DLPLVD-------WIV--QYTAPSS 740
R VLI T VA + W+ +P +
Sbjct: 138 LKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPET 197
Query: 741 STDYVHRVGRTARVGHEGSSLLFLI-PSEVKLVEELQNRRIRIEEIKLKDCLQNLLSVKM 799
+ + LL+ I P+ + N ++RI I+ + L+ LL K
Sbjct: 198 VLEML-------------QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE--LRRLLKSKP 242
Query: 800 -EGDLSRLADGNVETAATALQMSFESAVLQQKILHTSACKGYTSWVRFYASYSKDLRHI- 857
E L L + V+ A + KIL T+ K T ++ + L H
Sbjct: 243 YENCLLVLLN--VQNAKAWNAFNLSC-----KILLTTRFKQVTDFLSAATTTHISLDHHS 295
Query: 858 --FNFKQIHLGHFAKSF----------ALRDAPSVISGIG-------------KPKNKEE 892
++ K L P +S I K N ++
Sbjct: 296 MTLTPDEV-KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK 354
Query: 893 LKNK-KMAINKEKSFKQRGNFSKKQMLSEF--DSGLP 926
L + ++N + + R F LS F + +P
Sbjct: 355 LTTIIESSLNVLEPAEYRKMF---DRLSVFPPSAHIP 388
>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 = 76.8 bits (188), Expect = 1e-14
Identities = 37/166 (22%), Positives = 67/166 (40%), Gaps = 14/166 (8%)
Query: 627 QHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIA 686
+ + PK+ + I+ + + + SK++VF ++ A L G
Sbjct: 336 KEIGLDHPKMDKL---KEII--REQLQRKQNSKIIVFTNYRETAKKIVNELVK-DGIKAK 389
Query: 687 FFKLHGS------MSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSS 740
F S +SQ E+ + F + VL+ T V GLD+P VD +V Y S
Sbjct: 390 RFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPS 449
Query: 741 STDYVHRVGRTARVGHEGSSLLFLIPSEVKLVEELQNRRIRIEEIK 786
+ + R GRT R H ++ L+ + + R + + ++
Sbjct: 450 AIRSIQRRGRTGR--HMPGRVIILMAKGTRDEAYYWSSRQKEKIMQ 493
Score = 74.4 bits (182), Expect = 5e-14
Identities = 63/366 (17%), Positives = 116/366 (31%), Gaps = 24/366 (6%)
Query: 11 QLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELA 70
Q I + L+ TG GKTL + +L + K+ +++ PT+ L
Sbjct: 14 QEVIYAKCKETNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKV--------LMLAPTKPLV 65
Query: 71 LQTLEIFTKLCKSFTWIVPSWLTG--GEKMKSEKARIRKGISILVATPGRLLDHCKHTET 128
LQ E + + P + GEK E+++ ++VATP + +
Sbjct: 66 LQHAE----SFRRLFNLPPEKIVALTGEKSPEERSKAWARAKVIVATPQTIENDLLA-GR 120
Query: 129 LKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPATCW-CKHT 187
+ V +V DEA R + IA K+Q I L+A+ +
Sbjct: 121 ISLEDVSLIVFDEAHRAVGNYAYVFIARE---YKRQAKNPLVIGLTASPGSTPEKIMEVI 177
Query: 188 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAG 247
L +E+ + D + + E++ + + + LL L A++ LA
Sbjct: 178 NNLGIEHIEYRSENSPD--VRPYVKGIRFEWVRVDLPEIYKEVRKLLREMLRDALKPLAE 235
Query: 248 MTLQNPIQIDAADS---TDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNV 304
L D + + + + ++ + A +L
Sbjct: 236 TGLLESSSPDIPKKEVLRAGQIINEEMAKGNHDLRGLLLYHAMALKLHHAIELLETQGLS 295
Query: 305 NEDEESKMLVFMATQDMADYHTELLSTKKKIKKLKEYNIDPDNYEIPKKTEVKSGPISSL 364
K L A E+ S K+ K + + K + I
Sbjct: 296 ALRAYIKKLYEEAKAGSTKASKEIFSDKRMKKAISLLVQAKEIGLDHPKMDKLKEIIREQ 355
Query: 365 FQNNPD 370
Q +
Sbjct: 356 LQRKQN 361
Score = 72.1 bits (176), Expect = 3e-13
Identities = 39/168 (23%), Positives = 65/168 (38%), Gaps = 18/168 (10%)
Query: 420 QLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELA 479
Q I + L+ TG GKTL + +L + K+ +++ PT+ L
Sbjct: 14 QEVIYAKCKETNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKV--------LMLAPTKPLV 65
Query: 480 LQTLEIFTKLCKSFTWIVPSWLTG--GEKMKSEKARIRKGISILVATPGRLLDHCKHTET 537
LQ E + + P + GEK E+++ ++VATP + +
Sbjct: 66 LQHAE----SFRRLFNLPPEKIVALTGEKSPEERSKAWARAKVIVATPQTIENDLLA-GR 120
Query: 538 LKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSAT 585
+ V +V DEA R + IA K+Q I L+A+
Sbjct: 121 ISLEDVSLIVFDEAHRAVGNYAYVFIARE---YKRQAKNPLVIGLTAS 165
>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 = 75.9 bits (186), Expect = 6e-14
Identities = 97/577 (16%), Positives = 164/577 (28%), Gaps = 226/577 (39%)
Query: 110 SILVATPGRLLDHCKHTETLK--FSKV-----EHLVLDEAD--------RILDQGY---- 150
+LV T L+ F+K+ E D+ + L GY
Sbjct: 19 VLLVPTA----SFF-IASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFL--GYVSSL 71
Query: 151 --ERDIAEFLEILKKQKPQFQSILLS--------ATLTPATCWCKHTETLKFSKVEHLVL 200
+ +F ++L +F++ L A L K + L+
Sbjct: 72 VEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQ-------ENDTTLVKTKELIK 124
Query: 201 D--EADRILDQGYERDI-AEFLEILKKQK----PQF--QSV-------L--LSATLTPAV 242
+ A + + +++ + + + F Q L L T V
Sbjct: 125 NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLV 184
Query: 243 QRL---AGMTLQNPIQIDAADST------DIHN---------TTDSLV-IPDS-----LK 278
L + TL I+ +I D L+ IP S +
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVI 244
Query: 279 Q--HFIVT-------PPKLR-------------LVALA--------------------SF 296
Q H++VT P +LR + A+A F
Sbjct: 245 QLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLF 304
Query: 297 ILG-KCQ-----------------NVNEDEESKMLV-----FMATQDMADYHTELLSTKK 333
+G +C NE S ML QD + L K
Sbjct: 305 FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGK 364
Query: 334 KIK-KLKEYNIDPDNYEIPKKTEVKSGPISSLF-----------QNNPDIPNVPTRRLKP 381
+++ L N N V SGP SL+ + D +P K
Sbjct: 365 QVEISL--VN-GAKNL-------VVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKL 414
Query: 382 VSEALFAPTSYEEFPGIH-PFMK---KNLNEGMNITQVT-TVQQLSIQPIL---DGGDVL 433
F P + F H + +N+ + V+ + + I P+ DG D
Sbjct: 415 KFSNRFLPVA-SPF---HSHLLVPASDLINKDLVKNNVSFNAKDIQI-PVYDTFDGSD-- 467
Query: 434 VRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTR-ELALQTLEIFTKLCKS 492
+R +GS I +++ + +I LP + E Q
Sbjct: 468 LRVLSGS---------ISERIVDC------------IIRLPVKWETTTQF---------K 497
Query: 493 FTWIV---PSWLTGGEKMKSEKARIR--KGISILVAT 524
T I+ P +G + R + G+ ++VA
Sbjct: 498 ATHILDFGPGGASGLGVLTH---RNKDGTGVRVIVAG 531
Score = 71.6 bits (175), Expect = 1e-12
Identities = 99/561 (17%), Positives = 159/561 (28%), Gaps = 197/561 (35%)
Query: 177 LTPATCWCKHTETLK--FSKVEHLVLDEADRILDQGYERD-----IAEFL-----EILKK 224
L P + L+ F+K+ L E E + +FL +
Sbjct: 21 LVPTASFF-IASQLQEQFNKI----LPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPS 75
Query: 225 QKPQFQSVLLSATLTPAVQR-LAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIV 283
+ QF VL LT L G DIH +L L Q
Sbjct: 76 KVGQFDQVLNLC-LTEFENCYLEG--------------NDIH----ALAA--KLLQENDT 114
Query: 284 TPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQD-----MA---------DYHTELL 329
T K + + D++S +F A + +A DY EL
Sbjct: 115 TLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEEL- 173
Query: 330 STKKKIKKLKEYNIDPDNYEIPKKT--EVKSGPISSLFQNNPDIPNVPTRRL-------- 379
+ L Y Y + + + +S L + D V T+ L
Sbjct: 174 ------RDL--YQT----YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLEN 221
Query: 380 ---KPVSEAL-FAPTSYEEFPGIHPFMKKNLNEGMNITQ----VTTVQQLSIQPILDGGD 431
P + L P S P I + Q V T + L P G+
Sbjct: 222 PSNTPDKDYLLSIPIS---CPLI------------GVIQLAHYVVTAKLLGFTP----GE 262
Query: 432 VLVRSQ--TGSGKTLAYAIPI----------------IQKL-------QEMRPKIS---- 462
+ + TG + L A+ I I L E P S
Sbjct: 263 LRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPS 322
Query: 463 -RKDGIYAVIILPT-----RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRK 516
+D + +P+ L + ++ +P+ K
Sbjct: 323 ILEDSLENNEGVPSPMLSISNLTQEQVQ---DYVNKTNSHLPA---------------GK 364
Query: 517 GISI-LVATPGRLLDH---CKHTETLKFSKVEHLVLD----EADRILDQGYERDIAEFLE 568
+ I LV + ++L L L +A LDQ R F
Sbjct: 365 QVEISLVNGA----KNLVVSGPPQSL-----YGLNLTLRKAKAPSGLDQS--R--IPF-- 409
Query: 569 ILKKQKPQFQSILL-------SATLTPAVQRLAGMTLQNPIQIDAAD-STDIHNTTD--- 617
++K +F + L S L PA + ++N + +A D +++T D
Sbjct: 410 --SERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSD 467
Query: 618 ----SLVIPDSLKQHFIVTPP 634
S I + + I+ P
Sbjct: 468 LRVLSGSISERIVD-CIIRLP 487
Score = 62.0 bits (150), Expect = 9e-10
Identities = 78/495 (15%), Positives = 139/495 (28%), Gaps = 182/495 (36%)
Query: 519 SILVATPGRLLDHCKHTETLK--FSKVEHLVLDEADRILDQGYERD-----IAEFL---- 567
+LV T L+ F+K+ L E E + +FL
Sbjct: 19 VLLVPTA----SFF-IASQLQEQFNKI----LPEPTEGFAADDEPTTPAELVGKFLGYVS 69
Query: 568 -EILKKQKPQFQSILLSATLTPAVQR-LAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSL 625
+ + QF +L LT L G DIH +L L
Sbjct: 70 SLVEPSKVGQFDQVLNLC-LTEFENCYLEG--------------NDIH----ALAA--KL 108
Query: 626 KQHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQD-----MA---------D 671
Q T K + + D++S +F A + +A D
Sbjct: 109 LQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDD 168
Query: 672 YHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDW 731
Y EL ++ + + +T + L V +GL++ ++W
Sbjct: 169 YFEELRD--------LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNI--LEW 218
Query: 732 IVQYTAPSS--STDYVHRVGRTARVGHEGSS--LLFLIPSEVKLVEELQN-----RRIRI 782
+ PS+ DY+ + + S L+ +I +L + + +
Sbjct: 219 L---ENPSNTPDKDYL----LSIPI-----SCPLIGVI--------QLAHYVVTAKLLGF 258
Query: 783 EEIKLKDCLQNLLSVKMEGDLSRLADGNVETAATALQMSFESAVLQQKILHTSACKGYTS 842
+L+ L+ + G V A A+ + S
Sbjct: 259 TPGELRSYLKGATGH---------SQGLV--TAVAIAET-------------------DS 288
Query: 843 WVRFYASYSKDLRHIFNFKQIHLG-HFAKSF--------ALRDA-------PS---VISG 883
W F+ S K + +F +G +++ L D+ PS IS
Sbjct: 289 WESFFVSVRKAITVLF-----FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISN 343
Query: 884 IGKPK--------NKEELKNKKMAI---NKEKSF-----------------KQRGNFSKK 915
+ + + N K++ I N K+ K +
Sbjct: 344 LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD 403
Query: 916 QMLSEFDSGLPQRKP 930
Q F +RK
Sbjct: 404 QSRIPFS----ERKL 414
Score = 59.3 bits (143), Expect = 6e-09
Identities = 100/627 (15%), Positives = 181/627 (28%), Gaps = 218/627 (34%)
Query: 375 PTRRL----KPVSEA-LFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSI----QP 425
PT +P + A L +F G ++ + + Q V L +
Sbjct: 44 PTEGFAADDEPTTPAELVG-----KFLG---YVSSLVEPS-KVGQFDQVLNLCLTEFENC 94
Query: 426 ILDGGDV--LVRS-QTGSGKTLAYAIPIIQ-----KLQEMRPKISR---------KDG-- 466
L+G D+ L + TL +I+ ++ RP + +G
Sbjct: 95 YLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNA 154
Query: 467 -IYAV------IILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGIS 519
+ A+ EL +++ +++ +V + + +S
Sbjct: 155 QLVAIFGGQGNTDDYFEELR----DLY----QTYHVLVGDLIK----------FSAETLS 196
Query: 520 ILVATPGRLLDHCKHTETLKFSKVEHLV--LDEADRILDQGYERDIA---EFLEILKKQK 574
L+ T LD K F++ +++ L+ D+ Y I + ++ Q
Sbjct: 197 ELIRTT---LDAEKV-----FTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVI--QL 246
Query: 575 PQFQSILLSATLTPA--VQRLAGMT-----LQNPIQIDAADSTD--IHNTTDSLVIPDSL 625
+ TP L G T L + I DS + + ++ + L
Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV---L 303
Query: 626 KQHFIV-------TPPKLRLVALASFILGKCQNVNEDEESKML-VFMATQDMADYHTELL 677
F + P +L IL NE S ML + TQ+ +
Sbjct: 304 ---FFIGVRCYEAYPN----TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKT 356
Query: 678 STVLGENIAFFKLHGSMSQSERTEV----------FKT-FRSVKSGVLICTDVAARGLDL 726
++ L ++ S+ + V R K A GLD
Sbjct: 357 NSHLPAG---KQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAK---------APSGLD- 403
Query: 727 PLVDWIVQYTAPSSSTDYVHRVGRTARVG----------HEGSSLLFLIPSEVKLVEELQ 776
Q P S R + H S L L+P+ + ++L
Sbjct: 404 -------QSRIPFSE--------RKLKFSNRFLPVASPFH--SHL--LVPASDLINKDLV 444
Query: 777 NRRIRIEEIKLKDCLQNLLSVK--MEG-DLSRLADGNVETAATALQMSFESAVLQQKILH 833
+ ++ + V +G DL R+ G++ + + V +
Sbjct: 445 KNNVSFNAKDIQ------IPVYDTFDGSDL-RVLSGSI--SERIVDCIIRLPVKWETTTQ 495
Query: 834 TSACKGYTSWVRFYASYSKDLRHIFNFKQIHLGHFAKSFALRDAPSVISGIGK--PKNKE 891
A T HI +F G P SG+G +NK+
Sbjct: 496 FKA----T--------------HILDF-----G-----------PGGASGLGVLTHRNKD 521
Query: 892 ----------ELKNKKMAINKEKSFKQ 908
L + + FKQ
Sbjct: 522 GTGVRVIVAGTLDINP---DDDYGFKQ 545
Score = 52.0 bits (124), Expect = 1e-06
Identities = 60/325 (18%), Positives = 96/325 (29%), Gaps = 116/325 (35%)
Query: 541 SKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAV-QRLAGMTLQ 599
SK V + AD Y I L+I+ P +I + + + M +
Sbjct: 1639 SKAAQDVWNRADNHFKDTYGFSI---LDIVINN-PVNLTIHFGGEKGKRIRENYSAMIFE 1694
Query: 600 NPIQIDAADST-----DIHNTTDSLVI--PDS-LKQ-HFIVTPPKLRLVALASF-ILGKC 649
+D T +I+ + S L F T P L L+ A+F L
Sbjct: 1695 TI--VDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF--TQPALTLMEKAAFEDLKSK 1750
Query: 650 QNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLH---GSMSQSERTEVFKTF 706
+ D A H S LGE A L M
Sbjct: 1751 GLIPAD------ATFAG------H----S--LGEYAA---LASLADVM------------ 1777
Query: 707 RSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIP 766
S++S V + V RG+ +Q P +G ++ + P
Sbjct: 1778 -SIESLVEV---VFYRGM-------TMQVAVPRDE------------LGRSNYGMIAINP 1814
Query: 767 SEV----------KLVEELQNRRIRIEEI--------------KLK--DCLQNLLS-VKM 799
V +VE + R + EI L+ D + N+L+ +K+
Sbjct: 1815 GRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKL 1874
Query: 800 EG-DLSRLADGNVETAATALQMSFE 823
+ D+ L +S E
Sbjct: 1875 QKIDIIELQK----------SLSLE 1889
Score = 47.4 bits (112), Expect = 2e-05
Identities = 52/347 (14%), Positives = 107/347 (30%), Gaps = 111/347 (31%)
Query: 30 GSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVP 89
G G T Y +E+R + + Y V++ + + +TL + +
Sbjct: 162 GQGNTDDY-------FEELR-DLYQ---TYHVLVGDLIKFSAETLSELIRTTLDAEKVFT 210
Query: 90 ------SWLTGGEKMKSEKARIRKGISI----LVA-------------TPGRLLDHCK-- 124
WL + + IS ++ TPG L + K
Sbjct: 211 QGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGA 270
Query: 125 --HTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEIL-----KKQKPQFQSILLSATL 177
H++ L V + + E D + + + + + +L + + + + L ++
Sbjct: 271 TGHSQGL----VTAVAIAETDS--WESFFVSVRKAITVLFFIGVRCYE-AYPNTSLPPSI 323
Query: 178 TPATCWCKHTET----------LKFSKVEHLV------LDEADRI---L----DQ----G 210
+ ++ E L +V+ V L ++ L G
Sbjct: 324 LEDSL--ENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG 381
Query: 211 YERDIAEFLEILKK--------Q--------KPQFQSVLL-------SATLTPAVQRLAG 247
+ + L+K Q K +F + L S L PA +
Sbjct: 382 PPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINK 441
Query: 248 MTLQNPIQIDAAD-STDIHNTTD-------SLVIPDSLKQHFIVTPP 286
++N + +A D +++T D S I + + I+ P
Sbjct: 442 DLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVD-CIIRLP 487
Score = 42.3 bits (99), Expect = 0.001
Identities = 51/310 (16%), Positives = 86/310 (27%), Gaps = 106/310 (34%)
Query: 132 SKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPATCWCKHTETLK 191
SK V + AD Y I L+I+ P T+
Sbjct: 1639 SKAAQDVWNRADNHFKDTYGFSI---LDIVINN-PV-------------------NLTIH 1675
Query: 192 FSKVEHLVLDEADRILDQGYERDIAE-FLEILKKQKPQFQSVLLSATLTPAVQRLAGMTL 250
F E + + + Y I E ++ K + F+ + +T T
Sbjct: 1676 FG-------GEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHST---------SYTF 1719
Query: 251 QNPIQIDAADSTDIHNT-----TDSLVIPDSLKQHFIVTPPKLR----------LVALA- 294
++ +T T + LK ++ L +LA
Sbjct: 1720 RSE--KGLLSAT--QFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLAD 1775
Query: 295 --SF-----IL---GK-CQN-VNEDEESKMLVFMA-----------TQDMADYHTELLST 331
S ++ G Q V DE + M +Q+ Y E +
Sbjct: 1776 VMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVG- 1834
Query: 332 KKKIKKLKE---YNIDPDNYEIPKKTEVKSGPISSL-----FQNNPDIPNVPTRRLK--- 380
K+ L E YN++ Y V +G + +L N + + L+
Sbjct: 1835 -KRTGWLVEIVNYNVENQQY-------VAAGDLRALDTVTNVLNFIKLQKIDIIELQKSL 1886
Query: 381 ---PVSEALF 387
V LF
Sbjct: 1887 SLEEVEGHLF 1896
Score = 35.8 bits (82), Expect = 0.090
Identities = 45/317 (14%), Positives = 87/317 (27%), Gaps = 136/317 (42%)
Query: 692 GS----MSQSERTEVFKTFRSVKSGVLICTDVAARG-------LDLPLVDWIVQYTAPSS 740
GS M +++KT ++ + DV R ++D IV P +
Sbjct: 1625 GSQEQGMGM----DLYKTSKAAQ-------DVWNRADNHFKDTYGFSILD-IVI-NNPVN 1671
Query: 741 STDYVHRVGRTARVGHEG-SSLLFLIPSEVKLVEELQNRRIRIEEIKLKDCLQNLLSVKM 799
T +H G + E S+++F E + + +++ E+I K+ ++ S
Sbjct: 1672 LT--IHFGGEKGKRIRENYSAMIF---------ETIVDGKLKTEKI-FKEINEHSTSYTF 1719
Query: 800 EGDLSRL----------------------ADGNVETAA----------TALQ-----MSF 822
+ L + G + A AL MS
Sbjct: 1720 RSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSI 1779
Query: 823 ESAVLQQKILHT-------------SACKGY-------------------TSWVRFYASY 850
ES V +++ Y V
Sbjct: 1780 ESLV---EVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKR 1836
Query: 851 SKDLRHIFNF----KQIHLGHFAKSFALRDAPSVISGIGKPKNKEELKN--KKMAINKEK 904
+ L I N+ +Q V + G + + + N + + K
Sbjct: 1837 TGWLVEIVNYNVENQQY----------------VAA--GDLRALDTVTNVLNFIKLQKID 1878
Query: 905 SFKQRGNFSK---KQML 918
+ + + S + L
Sbjct: 1879 IIELQKSLSLEEVEGHL 1895
>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 = 67.7 bits (164), Expect = 8e-12
Identities = 32/191 (16%), Positives = 66/191 (34%), Gaps = 7/191 (3%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 69
Q QP ++G + L+ + TGSGKT +I I + + P + ++ +
Sbjct: 12 QIELAQPAINGKNALICAPTGSGKTFV-SILICEHHFQNMPAGRKAKVVFLA---TKVPV 67
Query: 70 ALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETL 129
Q +F + + V ++G ++ + I+V TP L++ +
Sbjct: 68 YEQQKNVFKHHFERQGYSVQG-ISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLT 126
Query: 130 KFSKVEHLVLDEADRIL-DQGYERDIAEFLE-ILKKQKPQFQSILLSATLTPATCWCKHT 187
S ++ DE + Y + +LE Q + L+A++
Sbjct: 127 SLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEE 186
Query: 188 ETLKFSKVEHL 198
+
Sbjct: 187 TIEHICSLCSY 197
Score = 66.9 bits (162), Expect = 2e-11
Identities = 35/205 (17%), Positives = 76/205 (37%), Gaps = 8/205 (3%)
Query: 419 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 478
Q QP ++G + L+ + TGSGKT +I I + + P + ++ +
Sbjct: 12 QIELAQPAINGKNALICAPTGSGKTFV-SILICEHHFQNMPAGRKAKVVFLA---TKVPV 67
Query: 479 ALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETL 538
Q +F + + V ++G ++ + I+V TP L++ +
Sbjct: 68 YEQQKNVFKHHFERQGYSVQG-ISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLT 126
Query: 539 KFSKVEHLVLDEADRIL-DQGYERDIAEFLE-ILKKQKPQFQSILLSATLTPAVQRLAGM 596
S ++ DE + Y + +LE Q + L+A++ +
Sbjct: 127 SLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEE 186
Query: 597 TLQNPIQI-DAADSTDIHNTTDSLV 620
T+++ + D I +++
Sbjct: 187 TIEHICSLCSYLDIQAISTVRENIQ 211
Score = 64.6 bits (156), Expect = 8e-11
Identities = 27/152 (17%), Positives = 56/152 (36%), Gaps = 16/152 (10%)
Query: 653 NEDEESKMLVFMATQDMADYHTELLS---TVLGENIAFFKLHGS------MSQSERTEVF 703
+ +++ L+F T+ + + + + G M+ + V
Sbjct: 386 RYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVL 445
Query: 704 KTFRSVKS-GVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLL 762
F++ K +LI T VA G+D+ + +V Y + T + GR R GS +
Sbjct: 446 DAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GR--AAGSKCI 502
Query: 763 FLIPSEVKLVEELQNRRIRIEEIKLKDCLQNL 794
+ + E NR +E + ++ +
Sbjct: 503 LVTSKTEVVENEKCNRY---KEEMMNKAVEKI 531
>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 = 66.8 bits (163), Expect = 2e-11
Identities = 62/406 (15%), Positives = 125/406 (30%), Gaps = 79/406 (19%)
Query: 419 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 478
Q+ +++ L + TGSGKT A+ I +L +I++PT L
Sbjct: 98 QEKALERWLVDKRGCIVLPTGSGKTHV-AMAAINELSTP-----------TLIVVPTLAL 145
Query: 479 ALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRL---------- 528
A Q E F +G K + V+T
Sbjct: 146 AEQWKERL----GIFGEEYVGEFSGRIKELK---------PLTVSTYDSAYVNAEKLGNR 192
Query: 529 -----LDHCKHTETLKFSKVEHLVLDEADRIL--------DQGYERDIAEFL-------- 567
D H + ++ + A L + G + E +
Sbjct: 193 FMLLIFDEVHHLPAESYVQI--AQMSIAPFRLGLTATFEREDGRHEILKEVVGGKVFELF 250
Query: 568 --EILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTD-SLVIPDS 624
+ K ++ + L + + Q A + D + ++ S
Sbjct: 251 PDSLAGKHLAKYTIKRIFVPLAEDERVEYEKREKVYKQFLRARGITLRRAEDFNKIVMAS 310
Query: 625 LKQHFIVTPPKL-----RLVALASFILGKCQN-VNEDEESKMLVFMATQDMADYHTELLS 678
+ R+ + + K + + + K+++F ++ +++
Sbjct: 311 GYDERAYEALRAWEEARRIAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVF- 369
Query: 679 TVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAP 738
I S+ ER E+ + FR+ + ++ + V G+D+P + V +
Sbjct: 370 -----LIPAI--THRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVI-MSG 421
Query: 739 SSS-TDYVHRVGRTARVGHEGSSLLF--LIPSEVKLVEELQNRRIR 781
S S +Y+ R+GR R + LI V + R+
Sbjct: 422 SGSAREYIQRLGRILRPSKGKKEAVLYELISRGTGEVNTARRRKNA 467
Score = 44.4 bits (105), Expect = 2e-04
Identities = 32/168 (19%), Positives = 56/168 (33%), Gaps = 37/168 (22%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 69
Q+ +++ L + TGSGKT A+ I +L +I++PT L
Sbjct: 98 QEKALERWLVDKRGCIVLPTGSGKTHV-AMAAINELSTP-----------TLIVVPTLAL 145
Query: 70 ALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETL 129
A Q E F +G K + V+T +
Sbjct: 146 AEQWKERL----GIFGEEYVGEFSGRIKELK---------PLTVSTYDSAYVN----AEK 188
Query: 130 KFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
++ L+ DE + + Y + I + F+ + L+AT
Sbjct: 189 LGNRFMLLIFDEVHHLPAESYVQ-------IAQMSIAPFR-LGLTATF 228
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 65.7 bits (159), Expect = 4e-11
Identities = 34/225 (15%), Positives = 79/225 (35%), Gaps = 9/225 (4%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 69
Q P G + ++ + TG GKT + L++ K V +
Sbjct: 9 QLELALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGK----VVFFANQIPV 64
Query: 70 ALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETL 129
Q +F++ + + + S ++G I + I++ TP L+++ +
Sbjct: 65 YEQQATVFSRYFERLGYNIAS-ISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIP 123
Query: 130 KFSKVEHLVLDEADRILDQG-YERDIAEFLE--ILKKQKPQFQSILLSATLTPATCWCKH 186
S ++ DE Y + + +L+ + + + P Q + L+A++
Sbjct: 124 SLSVFTLMIFDECHNTSKNHPYNQIMFRYLDHKLGESRDPLPQVVGLTASVGVGDAKTAE 183
Query: 187 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQS 231
K+ LD + + ++ + + +K + S
Sbjct: 184 EAMQHICKLCAA-LDASVIATVRDNVAELEQVVYKPQKISRKVAS 227
Score = 64.1 bits (155), Expect = 1e-10
Identities = 31/185 (16%), Positives = 70/185 (37%), Gaps = 8/185 (4%)
Query: 419 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 478
Q P G + ++ + TG GKT + L++ K V +
Sbjct: 9 QLELALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGK----VVFFANQIPV 64
Query: 479 ALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETL 538
Q +F++ + + + S ++G I + I++ TP L+++ +
Sbjct: 65 YEQQATVFSRYFERLGYNIAS-ISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIP 123
Query: 539 KFSKVEHLVLDEADRILDQG-YERDIAEFLE--ILKKQKPQFQSILLSATLTPAVQRLAG 595
S ++ DE Y + + +L+ + + + P Q + L+A++ + A
Sbjct: 124 SLSVFTLMIFDECHNTSKNHPYNQIMFRYLDHKLGESRDPLPQVVGLTASVGVGDAKTAE 183
Query: 596 MTLQN 600
+Q+
Sbjct: 184 EAMQH 188
Score = 60.3 bits (145), Expect = 2e-09
Identities = 29/157 (18%), Positives = 60/157 (38%), Gaps = 20/157 (12%)
Query: 650 QNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFK-----------LHGSMSQSE 698
+ + E+K ++F+ T+ + D + + ++F K M+
Sbjct: 382 EEYHLKPETKTILFVKTRALVDALKKWIEEN--PALSFLKPGILTGRGRTNRATGMTLPA 439
Query: 699 RTEVFKTFRSV-KSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHE 757
+ V + FR+ + +LI T VA G+D+ + ++ Y + + GR R
Sbjct: 440 QKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKMIQTRGR-GR--AR 496
Query: 758 GSSLLFLIPSEVKLVEELQNRRIRIEEIKLKDCLQNL 794
S L S + +E N +E + + + L
Sbjct: 497 DSKCFLLTSSADVIEKEKANMI---KEKIMNESILRL 530
>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 = 65.7 bits (159), Expect = 4e-11
Identities = 38/224 (16%), Positives = 78/224 (34%), Gaps = 20/224 (8%)
Query: 653 NEDEESKMLVFMATQDMADYHTELLSTVLG-ENIAFFKLHGS--------MSQSERTEVF 703
+ +++ L+F T+ + + + I L G M+ + V
Sbjct: 627 RYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVL 686
Query: 704 KTFRS-VKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLL 762
F++ + +LI T VA G+D+ + +V Y + T + GR R GS +
Sbjct: 687 DAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GR--AAGSKCI 743
Query: 763 FLIPSEVKLVEELQNRRIRIEEIKLKDCLQNLLSVKMEGDLSRLADGNVETAATALQMSF 822
+ + E NR +E + ++ + E ++ + ++
Sbjct: 744 LVTSKTEVVENEKCNRY---KEEMMNKAVEKIQKWDEETFAKKIHNLQMKERVLRDSRRK 800
Query: 823 ESAVLQQKILHTSACKGYTSWVRFYASYSKDLRHIFNFKQIHLG 866
E + C ++ A + D+R I + I LG
Sbjct: 801 EIKPKVVEGQKNLLCGKCKAY----ACSTDDIRIIKDSHHIVLG 840
Score = 60.0 bits (144), Expect = 3e-09
Identities = 32/191 (16%), Positives = 66/191 (34%), Gaps = 7/191 (3%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 69
Q QP ++G + L+ + TGSGKT +I I + + P + ++ +
Sbjct: 253 QIELAQPAINGKNALICAPTGSGKTFV-SILICEHHFQNMPAGRKAKVVFLA---TKVPV 308
Query: 70 ALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETL 129
Q +F + + V ++G ++ + I+V TP L++ +
Sbjct: 309 YEQQKNVFKHHFERQGYSVQG-ISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLT 367
Query: 130 KFSKVEHLVLDEADRIL-DQGYERDIAEFLE-ILKKQKPQFQSILLSATLTPATCWCKHT 187
S ++ DE + Y + +LE Q + L+A++
Sbjct: 368 SLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEE 427
Query: 188 ETLKFSKVEHL 198
+
Sbjct: 428 TIEHICSLCSY 438
Score = 58.4 bits (140), Expect = 9e-09
Identities = 59/402 (14%), Positives = 124/402 (30%), Gaps = 39/402 (9%)
Query: 201 DEADRILDQGYERDIA---EFLEILKKQKPQ-----FQSVLLSATLTPAVQRLAGMTLQN 252
+ +RI + FL+ + + + + +L+A T + +
Sbjct: 39 ELRERIRKEEERGVSGAAALFLDAVLQLEARGWFRGMLDAMLAAGYTGLAEAIENWDFSK 98
Query: 253 PIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKM 312
+ ++H + L+ V P L + C E EE +
Sbjct: 99 L------EKLELHRQLLKRIEATMLE----VDPVALIPY------ISTCLIDRECEE--I 140
Query: 313 LVFMATQDMADYHTELLSTKKKIKK------LKEYNIDPDNYEIPKKTEVKSGPISSLFQ 366
+ A T+L+ + K L+ Y + +++ +
Sbjct: 141 QQISENRSKAAGITKLIECLCRSDKEHWPKSLQLALDTTGYYRASELWDIREDNAKDVDS 200
Query: 367 NNPDIPNVPTRRLKPVSEALFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPI 426
D SE + E G + + Q QP
Sbjct: 201 EMTDASEDCLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKARSYQIELAQPA 260
Query: 427 LDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIF 486
++G + L+ + TGSGKT +I I + + P + ++ + Q +F
Sbjct: 261 INGKNALICAPTGSGKTFV-SILICEHHFQNMPAGRKAKVVFLA---TKVPVYEQQKNVF 316
Query: 487 TKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHL 546
+ + V ++G ++ + I+V TP L++ + S +
Sbjct: 317 KHHFERQGYSVQG-ISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLM 375
Query: 547 VLDEADRIL-DQGYERDIAEFLE-ILKKQKPQFQSILLSATL 586
+ DE + Y + +LE Q + L+A++
Sbjct: 376 IFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASV 417
>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 = 63.7 bits (155), Expect = 2e-10
Identities = 73/397 (18%), Positives = 141/397 (35%), Gaps = 53/397 (13%)
Query: 412 ITQVTTVQQLSIQPIL-DGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAV 470
I Q +++ + +G + L+ T SGKTL I ++ ++ K +Y
Sbjct: 21 IESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQGGKA-----VY-- 73
Query: 471 IILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLD 530
I+P + LA + + F + V TG S+ + K I++AT + D
Sbjct: 74 -IVPLKALAEEKFQEFQDW-EKIGLRVAM-ATGD--YDSKDEWLGKY-DIIIATAEK-FD 126
Query: 531 HCKHTETLKFSKVEHLVLDEADRILDQGYER-DIAEFLEILKKQKPQFQSILLSATLTPA 589
+ V+ LV DE I + +R E IL + Q I LSAT+
Sbjct: 127 SLLRHGSSWIKDVKILVADEIHLIGSR--DRGATLE--VILAHMLGKAQIIGLSATI-GN 181
Query: 590 VQRLAG------------------MTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHF-- 629
+ LA S D ++ + LV D++++
Sbjct: 182 PEELAEWLNAELIVSDWRPVKLRRGVFYQGFVTWEDGSIDRFSSWEELVY-DAIRKKKGA 240
Query: 630 -IVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFF 688
I + + +A + K +++ E + L +A + E L+ + +AF
Sbjct: 241 LIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIRGGVAFH 300
Query: 689 KLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLP--------LVDWIVQYTAPSS 740
H + + ER V + FR ++ T + G++ P + +
Sbjct: 301 --HAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIP 358
Query: 741 STDYVHRVGRTARVGHEGSSLLFLIPSEVKLVEELQN 777
+ +GR R ++ ++ + E + +
Sbjct: 359 IIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPREVMNH 395
Score = 50.6 bits (121), Expect = 2e-06
Identities = 43/177 (24%), Positives = 71/177 (40%), Gaps = 20/177 (11%)
Query: 3 ITQVTTVQQLSIQPIL-DGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAV 61
I Q +++ + +G + L+ T SGKTL I ++ ++ K +Y
Sbjct: 21 IESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQGGKA-----VY-- 73
Query: 62 IILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLD 121
I+P + LA + + F + V TG S+ + K I++AT + D
Sbjct: 74 -IVPLKALAEEKFQEFQDW-EKIGLRVAM-ATGD--YDSKDEWLGKY-DIIIATAEK-FD 126
Query: 122 HCKHTETLKFSKVEHLVLDEADRILDQGYER-DIAEFLEILKKQKPQFQSILLSATL 177
+ V+ LV DE I + +R E IL + Q I LSAT+
Sbjct: 127 SLLRHGSSWIKDVKILVADEIHLIGSR--DRGATLE--VILAHMLGKAQIIGLSATI 179
>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 = 63.8 bits (154), Expect = 2e-10
Identities = 27/158 (17%), Positives = 57/158 (36%), Gaps = 16/158 (10%)
Query: 653 NEDEESKMLVFMATQDMADYHTELL---STVLGENIAFFKLHGS------MSQSERTEVF 703
+ +++ L+F T+ + + + + G M+ + V
Sbjct: 627 RYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVL 686
Query: 704 KTFRS-VKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLL 762
F++ + +LI T VA G+D+ + +V Y + T + GR R GS +
Sbjct: 687 DAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GR--AAGSKCI 743
Query: 763 FLIPSEVKLVEELQNRRIRIEEIKLKDCLQNLLSVKME 800
+ + E NR +E + ++ + E
Sbjct: 744 LVTSKTEVVENEKCNRY---KEEMMNKAVEKIQKWDEE 778
Score = 63.5 bits (153), Expect = 3e-10
Identities = 30/191 (15%), Positives = 59/191 (30%), Gaps = 7/191 (3%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 69
Q QP ++G + L+ + TGSGKT + Q M K V + +
Sbjct: 253 QIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAK----VVFLATKVPV 308
Query: 70 ALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETL 129
Q +F + + V ++G ++ + I+V TP L++ +
Sbjct: 309 YEQQKNVFKHHFERQGYSVQG-ISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLT 367
Query: 130 KFSKVEHLVLDEADRILDQGYERDIAEFL--EILKKQKPQFQSILLSATLTPATCWCKHT 187
S ++ DE + + Q + L+A++
Sbjct: 368 SLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEE 427
Query: 188 ETLKFSKVEHL 198
+
Sbjct: 428 TIEHICSLCSY 438
Score = 62.7 bits (151), Expect = 4e-10
Identities = 59/436 (13%), Positives = 127/436 (29%), Gaps = 40/436 (9%)
Query: 201 DEADRILDQGYERDIA---EFLEILKKQKPQ-----FQSVLLSATLTPAVQRLAGMTLQN 252
+ +RI + FL+ + + + + +L+A T + +
Sbjct: 39 ELRERIRKEEERGVSGAAALFLDAVLQLEARGWFRGMLDAMLAAGYTGLAEAIENWDFSK 98
Query: 253 PIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKM 312
+ ++H + V P L + C E EE +
Sbjct: 99 L------EKLELHRQLLKRIEAT----MLEVDPVALIPY------ISTCLIDRECEEIQQ 142
Query: 313 LVFMATQDMADYHTELLSTKKKIKK------LKEYNIDPDNYEIPKKTEVKSGPISSLFQ 366
+ + A T+L+ + K L+ Y + +++ +
Sbjct: 143 I--SENRSKAAGITKLIECLCRSDKEHWPKSLQLALDTTGYYRASELWDIREDNAKDVDS 200
Query: 367 NNPDIPNVPTRRLKPVSEALFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPI 426
D SE + E G + + Q QP
Sbjct: 201 EMTDASEDCLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKARSYQIELAQPA 260
Query: 427 LDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIF 486
++G + L+ + TGSGKT + Q M K V + + Q +F
Sbjct: 261 INGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAK----VVFLATKVPVYEQQKNVF 316
Query: 487 TKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHL 546
+ + V ++G ++ + I+V TP L++ + S +
Sbjct: 317 KHHFERQGYSVQG-ISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLM 375
Query: 547 VLDEADRILDQGYERDIAEFL--EILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQI 604
+ DE + + Q + L+A++ + T+++ +
Sbjct: 376 IFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSL 435
Query: 605 -DAADSTDIHNTTDSL 619
D I +++
Sbjct: 436 CSYLDIQAISTVRENI 451
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 63.5 bits (153), Expect = 2e-10
Identities = 30/180 (16%), Positives = 65/180 (36%), Gaps = 6/180 (3%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 69
Q P + G + ++ + TG GKT ++ I + + P+ + ++ +
Sbjct: 18 QLELALPAMKGKNTIICAPTGCGKTFV-SLLICEHHLKKFPQGQKGKVVFFA---NQIPV 73
Query: 70 ALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETL 129
Q +F+K + + V ++G +I + I++ TP L+++ K
Sbjct: 74 YEQNKSVFSKYFERHGYRVTG-ISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIP 132
Query: 130 KFSKVEHLVLDEADRILDQGYERDIA-EFLEILKKQKPQFQSILLSATLTPATCWCKHTE 188
S ++ DE Q I +L+ ++ T + K T+
Sbjct: 133 SLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTASVGVGDAKTTD 192
Score = 61.9 bits (149), Expect = 6e-10
Identities = 38/219 (17%), Positives = 82/219 (37%), Gaps = 25/219 (11%)
Query: 653 NEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFK-----------LHGSMSQSERTE 701
+ + E+ ++F+ T+ + D + ++F K + M+ +
Sbjct: 394 HLNPETITILFVKTRALVDALKNWIEGN--PKLSFLKPGILTGRGKTNQNTGMTLPAQKC 451
Query: 702 VFKTFR-SVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSS 760
+ F+ S +LI T VA G+D+ + ++ Y + + GR R GS
Sbjct: 452 ILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GR--ARGSK 508
Query: 761 LLFLIPSEVKLVEELQNRRIRIEEIKLKDCLQNLLSVKMEGDLSRLADGNVETAATALQM 820
L + + +E N +E + D + L + + + R +++T ++
Sbjct: 509 CFLLTSNAGVIEKEQINMY---KEKMMNDSILRLQT--WDEAVFREKILHIQTHEKFIRD 563
Query: 821 SFESAVLQQKILHTSACKGYTSWVRFYASYSKDLRHIFN 859
S E + + K + A Y+ D+R I +
Sbjct: 564 SQEK---PKPVPDKENKKLLCRKCKALACYTADVRVIED 599
Score = 61.5 bits (148), Expect = 1e-09
Identities = 28/171 (16%), Positives = 62/171 (36%), Gaps = 6/171 (3%)
Query: 419 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 478
Q P + G + ++ + TG GKT ++ I + + P+ + ++ +
Sbjct: 18 QLELALPAMKGKNTIICAPTGCGKTFV-SLLICEHHLKKFPQGQKGKVVFFA---NQIPV 73
Query: 479 ALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETL 538
Q +F+K + + V ++G +I + I++ TP L+++ K
Sbjct: 74 YEQNKSVFSKYFERHGYRVTG-ISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIP 132
Query: 539 KFSKVEHLVLDEADRILDQGYERDIA-EFLEILKKQKPQFQSILLSATLTP 588
S ++ DE Q I +L+ ++ T +
Sbjct: 133 SLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTASV 183
>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 = 59.8 bits (145), Expect = 4e-10
Identities = 35/185 (18%), Positives = 75/185 (40%), Gaps = 14/185 (7%)
Query: 419 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 478
Q QP L+G ++++ TGSGKT A+ I + + + K + + G ++++ L
Sbjct: 38 QMEVAQPALEGKNIIICLPTGSGKTRV-AVYIAKDHLDKKKK-ASEPGK-VIVLVNKVLL 94
Query: 479 ALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTET- 537
Q + + V L+G ++K + K I+++T L + + E
Sbjct: 95 VEQLFRKEFQPFLKKWYRVIG-LSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLENG 153
Query: 538 ----LKFSKVEHLVLDEADRILDQG-YERDIAEFLEILKKQKPQFQSILLSATLTPAVQR 592
++ S +++DE + Y + +L QK + + + +
Sbjct: 154 EDAGVQLSDFSLIIIDECHHTNKEAVYNNIMRHYLM----QKLKNNRLKKENKPVIPLPQ 209
Query: 593 LAGMT 597
+ G+T
Sbjct: 210 ILGLT 214
Score = 56.0 bits (135), Expect = 9e-09
Identities = 36/183 (19%), Positives = 73/183 (39%), Gaps = 20/183 (10%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 69
Q QP L+G ++++ TGSGKT A+ I + + + K + + G ++++ L
Sbjct: 38 QMEVAQPALEGKNIIICLPTGSGKTRV-AVYIAKDHLDKKKK-ASEPGK-VIVLVNKVLL 94
Query: 70 ALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTET- 128
Q + + V L+G ++K + K I+++T L + + E
Sbjct: 95 VEQLFRKEFQPFLKKWYRVIG-LSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLENG 153
Query: 129 ----LKFSKVEHLVLDEADRILDQG-YERDIAEFLEILKKQKPQFQS---------IL-L 173
++ S +++DE + Y + +L K + IL L
Sbjct: 154 EDAGVQLSDFSLIIIDECHHTNKEAVYNNIMRHYLMQKLKNNRLKKENKPVIPLPQILGL 213
Query: 174 SAT 176
+A+
Sbjct: 214 TAS 216
>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 = 57.9 bits (140), Expect = 1e-08
Identities = 68/408 (16%), Positives = 129/408 (31%), Gaps = 74/408 (18%)
Query: 411 NITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAV 470
I ++ Q +++ + G ++L+ T +GKTL + ++++ + K ++
Sbjct: 22 GIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIK-----GGK----SL 72
Query: 471 IILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLD 530
++P R LA + E F K + + TG +S + I+V T + D
Sbjct: 73 YVVPLRALAGEKYESFKKW-EKIGLRI-GISTGD--YESRDEHLGDC-DIIVTTSEK-AD 126
Query: 531 HCKHTETLKFSKVEHLVLDE------ADRILDQGY--ERDIAEFLEILKKQKPQFQSILL 582
V LV+DE R G E + + + + + I L
Sbjct: 127 SLIRNRASWIKAVSCLVVDEIHLLDSEKR----GATLEILVTKMRRM--NKALRV--IGL 178
Query: 583 SATLTPAVQRLA------------------------GMTLQNPIQIDAADSTDIHNTTDS 618
SAT P V +A G + +
Sbjct: 179 SATA-PNVTEIAEWLDADYYVSDWRPVPLVEGVLCEGTLELFDGAFSTSRRVKFEELVEE 237
Query: 619 LVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLS 678
V + + + A + E+E + + + L+
Sbjct: 238 CVAEN--GGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMS---RKLA 292
Query: 679 TVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLP--LVDWIVQYT 736
+ + AF H + +R V FR V++ T A G++LP V IV+
Sbjct: 293 ECVRKGAAF--HHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRV--IVRSL 348
Query: 737 -------APSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVEELQN 777
++Y GR R G + +I + ++
Sbjct: 349 YRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRDREIAVKR 396
Score = 42.1 bits (99), Expect = 8e-04
Identities = 37/184 (20%), Positives = 70/184 (38%), Gaps = 31/184 (16%)
Query: 2 NITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAV 61
I ++ Q +++ + G ++L+ T +GKTL + ++++ + K ++
Sbjct: 22 GIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIK-----GGK----SL 72
Query: 62 IILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLD 121
++P R LA + E F K + + TG +S + I+V T + D
Sbjct: 73 YVVPLRALAGEKYESFKKW-EKIGLRI-GISTGD--YESRDEHLGDC-DIIVTTSEK-AD 126
Query: 122 HCKHTETLKFSKVEHLVLDE------ADRILDQGY--ERDIAEFLEILKKQKPQFQSILL 173
V LV+DE R G E + + + + + I L
Sbjct: 127 SLIRNRASWIKAVSCLVVDEIHLLDSEKR----GATLEILVTKMRRM--NKALRV--IGL 178
Query: 174 SATL 177
SAT
Sbjct: 179 SATA 182
>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 = 3e-06
Identities = 26/106 (24%), Positives = 42/106 (39%), Gaps = 4/106 (3%)
Query: 652 VNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKS 711
+ K+LV A A ++L G A F H MS ER F +
Sbjct: 498 LTSHRSQKVLVICAKAATALQLEQVLREREGIRAAVF--HEGMSIIERDRAAAWFAEEDT 555
Query: 712 GV--LICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVG 755
G L+C+++ + G + +V + P + R+GR R+G
Sbjct: 556 GAQVLLCSEIGSEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDRIG 601
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 49.7 bits (119), Expect = 3e-06
Identities = 78/432 (18%), Positives = 158/432 (36%), Gaps = 75/432 (17%)
Query: 411 NITQVTTVQQLSIQPILDGGD-VLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYA 469
I ++ Q +++ L G+ +L+ S TGSGKTL + II L + K IY
Sbjct: 27 GIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLKNGGKA-----IY- 80
Query: 470 VIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLL 529
+ P R L + F + +G ++ A ++ I++ T + L
Sbjct: 81 --VTPLRALTNEKYLTFKDWELIGFKVAM--TSGD--YDTDDAWLKNY-DIIITTYEK-L 132
Query: 530 DHCKHTETLKFSKVEHLVLDE------ADRILDQGYERDIAEFLEILKKQKPQFQSILLS 583
D ++V + VLDE +R G + E + ++ ++ + LS
Sbjct: 133 DSLWRHRPEWLNEVNYFVLDELHYLNDPER----GP---VVESV-TIRAKRRNL--LALS 182
Query: 584 ATL---------------------TPAVQRLAGMTLQNPI-QIDAADSTDIHNTTDSLVI 621
AT+ P ++ + + + D+T D +I
Sbjct: 183 ATISNYKQIAKWLGAEPVATNWRPVPLIEGVIYPERKKKEYNVIFKDNTTKKVHGDDAII 242
Query: 622 PDSLKQHF-----IV-TPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTE 675
+L +V + + A I V+ DE + + D+ + ++
Sbjct: 243 AYTLDSLSKNGQVLVFRNSRKMAESTALKIANYMNFVSLDENALSEILKQLDDIEEGGSD 302
Query: 676 L---LSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLP--LV- 729
L +++ + +A+ H +S++ R + + FR K V++ T A G++LP V
Sbjct: 303 EKELLKSLISKGVAY--HHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVI 360
Query: 730 --------DWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVEELQNRRIR 781
I Y +Y GR R G + ++ + + V+ + + +
Sbjct: 361 IGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQIGESIVVVRDKEDVDRVFKKYVL 420
Query: 782 IEEIKLKDCLQN 793
+ ++ L +
Sbjct: 421 SDVEPIESKLGS 432
Score = 41.6 bits (98), Expect = 0.001
Identities = 41/183 (22%), Positives = 74/183 (40%), Gaps = 31/183 (16%)
Query: 2 NITQVTTVQQLSIQPILDGGD-VLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYA 60
I ++ Q +++ L G+ +L+ S TGSGKTL + II L + K IY
Sbjct: 27 GIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLKNGGKA-----IY- 80
Query: 61 VIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLL 120
+ P R L + F + +G ++ A ++ I++ T + L
Sbjct: 81 --VTPLRALTNEKYLTFKDWELIGFKVAM--TSGD--YDTDDAWLKNY-DIIITTYEK-L 132
Query: 121 DHCKHTETLKFSKVEHLVLDE------ADRILDQGYERDIAEFLEILKKQKPQFQSILLS 174
D ++V + VLDE +R G + E + ++ ++ + LS
Sbjct: 133 DSLWRHRPEWLNEVNYFVLDELHYLNDPER----GP---VVESV-TIRAKRRNL--LALS 182
Query: 175 ATL 177
AT+
Sbjct: 183 ATI 185
>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 = 49.2 bits (117), Expect = 6e-06
Identities = 57/373 (15%), Positives = 96/373 (25%), Gaps = 102/373 (27%)
Query: 408 EGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGI 467
E + V T + + TGSGK+ + K+
Sbjct: 211 ETTMRSPVFTDNSSPPAVPQSFQVAHLHAPTGSGKSTK----VPAAYAAQGYKV------ 260
Query: 468 YAVIIL-PTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPG 526
++L P+ L + K+ I P+ TG I G + +T G
Sbjct: 261 ---LVLNPSVAATLG---FGAYMSKAHG-IDPNIRTGVR-------TITTGAPVTYSTYG 306
Query: 527 RLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERD---IAEFLEILKKQKPQFQSILLS 583
+ L + ++ DE D I +L + + +++
Sbjct: 307 KFLAD----GGCSGGAYDIIICDECH-------STDSTTILGIGTVLDQAETAGARLVVL 355
Query: 584 ATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALAS 643
AT TP H + L
Sbjct: 356 ATATPPGSVTV--------------------------------PHPNIEEVALSNTGEIP 383
Query: 644 FILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVF 703
F GK + + L+F ++ D EL + + G I + + S
Sbjct: 384 F-YGKAIPIEAIRGGRHLIFCHSKKKCD---ELAAKLSGLGINAVAYYRGLDVSV----- 434
Query: 704 KTFRSVKSGVLICTDVAARGL--------------------DLPLVDWIVQYTAPSSSTD 743
++ V++ TD G L I T P +
Sbjct: 435 --IPTIGDVVVVATDALMTGYTGDFDSVIDCNTCVTQTVDFSLDPTFTIETTTVPQDAVS 492
Query: 744 YVHRVGRTARVGH 756
R GRT R
Sbjct: 493 RSQRRGRTGRGRR 505
Score = 36.9 bits (85), Expect = 0.032
Identities = 35/211 (16%), Positives = 63/211 (29%), Gaps = 44/211 (20%)
Query: 4 TQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVII 63
+ V T + + TGSGK+ + K+ ++
Sbjct: 216 SPVFTDNSSPPAVPQSFQVAHLHAPTGSGKSTK----VPAAYAAQGYKV---------LV 262
Query: 64 L-PTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDH 122
L P+ L + K+ I P+ TG I G + +T G+ L
Sbjct: 263 LNPSVAATLG---FGAYMSKAHG-IDPNIRTGVR-------TITTGAPVTYSTYGKFLAD 311
Query: 123 CKHTETLKFSKVEHLVLDEADRILDQGYERD---IAEFLEILKKQKPQFQSILLSATLTP 179
+ ++ DE D I +L + + +++ AT TP
Sbjct: 312 ----GGCSGGAYDIIICDECH-------STDSTTILGIGTVLDQAETAGARLVVLATATP 360
Query: 180 ATCWCKHTETLKFSKVEHLVLDEADRILDQG 210
+ T+ +E + L I G
Sbjct: 361 PG-----SVTVPHPNIEEVALSNTGEIPFYG 386
>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 = 46.6 bits (111), Expect = 4e-05
Identities = 71/420 (16%), Positives = 141/420 (33%), Gaps = 102/420 (24%)
Query: 438 TGSGKT---LAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFT 494
TG GKT LA ++ + K G +I PT L +Q E K +
Sbjct: 80 TGVGKTSFGLAMSLFLALK------------GKRCYVIFPTSLLVIQAAETIRKYAEKAG 127
Query: 495 WIVPSWLTG--GEKMKSEKARIRKGI---SILVATPGRLLDHCKHTETLKFSKVEHLVLD 549
+ + G K EK + + I++ T L KH L + + +D
Sbjct: 128 VGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTTQFLS---KHYRELG--HFDFIFVD 182
Query: 550 EADRILDQGYERDIAEFLEIL----------KKQKPQFQSILLSATLTPAV-----QRLA 594
+ D IL +++ + L +L + + ++ +AT ++L
Sbjct: 183 DVDAILKAS--KNVDKLLHLLGFHYDLKTKSWVGEARGCLMVSTATAKKGKKAELFRQLL 240
Query: 595 GMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVNE 654
+ + + N D V +S+ L ++ LG
Sbjct: 241 NFDIGSS-------RITVRNVEDVAVNDESIST----------LSSILE-KLGT------ 276
Query: 655 DEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVL 714
+++ T + A+ E L K + + + ++ F + L
Sbjct: 277 ----GGIIYARTGEEAEEIYESLK---------NKFRIGIVTATKKGDYEKFVEGEIDHL 323
Query: 715 ICT----DVAARGLDLPLVDWIVQYT----APSSSTDYVHRVGRTARVGHEGSSLLFLIP 766
I T RGLDLP +++ PS RV + ++ L+
Sbjct: 324 IGTAHYYGTLVRGLDLP---ERIRFAVFVGCPS------FRV-TIEDIDSLSPQMVKLLA 373
Query: 767 SEVKLVEELQNRRIRIEEI--KLKDCLQNLLS-VKMEGDLSRLADGNVET--AATALQMS 821
+ V+E++ +E ++++ L+ ++ + + + +G V T +Q S
Sbjct: 374 YLYRNVDEIERLLPAVERHIDEVREILKKVMGKERPQAKDVVVREGEVIFPDLRTYIQGS 433
Score = 38.5 bits (90), Expect = 0.011
Identities = 34/168 (20%), Positives = 60/168 (35%), Gaps = 37/168 (22%)
Query: 29 TGSGKT---LAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFT 85
TG GKT LA ++ + K G +I PT L +Q E K +
Sbjct: 80 TGVGKTSFGLAMSLFLALK------------GKRCYVIFPTSLLVIQAAETIRKYAEKAG 127
Query: 86 WIVPSWLTG--GEKMKSEKARIRKGI---SILVATPGRLLDHCKHTETLKFSKVEHLVLD 140
+ + G K EK + + I++ T L KH L + + +D
Sbjct: 128 VGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTTQFLS---KHYRELG--HFDFIFVD 182
Query: 141 EADRILDQGYERDIAEFLEIL----------KKQKPQFQSILLSATLT 178
+ D IL +++ + L +L + + ++ +AT
Sbjct: 183 DVDAILKAS--KNVDKLLHLLGFHYDLKTKSWVGEARGCLMVSTATAK 228
>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 = 44.5 bits (105), Expect = 1e-04
Identities = 39/303 (12%), Positives = 82/303 (27%), Gaps = 78/303 (25%)
Query: 428 DGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIIL-PTRELALQTLEIF 486
++ G+GKT I+ + + +IL PTR +A E+
Sbjct: 18 KKRLTIMDLHPGAGKTKR----ILPSIVREALLRRLR-----TLILAPTRVVA---AEME 65
Query: 487 TKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHL 546
L L + + K+ + + + + +
Sbjct: 66 EALRG---------LPIRYQTPAVKSDHTGREIVDLMCHATFTTRLLSSTRV--PNYNLI 114
Query: 547 VLDEA-----DRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNP 601
V+DEA + +GY E E I ++AT G T P
Sbjct: 115 VMDEAHFTDPCSVAARGYISTRVEMGEAAA--------IFMTAT-------PPGSTDPFP 159
Query: 602 IQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKML 661
+ + + + + + D + K +
Sbjct: 160 Q------------------------SNSPIEDIEREIPERS---WNTGFDWITDYQGKTV 192
Query: 662 VFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAA 721
F+ + + ++ + + +L +E + T V+ TD++
Sbjct: 193 WFVPSIKAGN---DIANCLRKSGKRVIQLSRKTFDTEYPKTKLTDWDF---VV-TTDISE 245
Query: 722 RGL 724
G
Sbjct: 246 MGA 248
Score = 41.4 bits (97), Expect = 0.001
Identities = 30/199 (15%), Positives = 58/199 (29%), Gaps = 45/199 (22%)
Query: 19 DGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIIL-PTRELALQTLEIF 77
++ G+GKT I+ + + +IL PTR +A E+
Sbjct: 18 KKRLTIMDLHPGAGKTKR----ILPSIVREALLRRLR-----TLILAPTRVVA---AEME 65
Query: 78 TKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHL 137
L L + + K+ + + + + +
Sbjct: 66 EALRG---------LPIRYQTPAVKSDHTGREIVDLMCHATFTTRLLSSTRV--PNYNLI 114
Query: 138 VLDEA-----DRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPATCWCKHTETLKF 192
V+DEA + +GY E E I ++AT +T F
Sbjct: 115 VMDEAHFTDPCSVAARGYISTRVEMGEAAA--------IFMTATPPGSTD--------PF 158
Query: 193 SKVEHLVLDEADRILDQGY 211
+ + D I ++ +
Sbjct: 159 PQSNSPIEDIEREIPERSW 177
>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 = 43.3 bits (102), Expect = 3e-04
Identities = 37/297 (12%), Positives = 79/297 (26%), Gaps = 66/297 (22%)
Query: 428 DGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFT 487
G ++ G+GKT + I+ + R + +++ PTR + +
Sbjct: 7 KGMTTVLDFHPGAGKTRRFLPQILAECARRRLRT--------LVLAPTRVVLSE------ 52
Query: 488 KLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLV 547
+ ++F + + T + I L + E ++
Sbjct: 53 -MKEAFHGLDVKFHTQAFSAHGSGREV-----IDAMCHATLTYRMLEPTRV--VNWEVII 104
Query: 548 LDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAA 607
+DEA LD A + + + +IL++AT N D
Sbjct: 105 MDEAH-FLD--PASIAARGWAAHRARANESATILMTATPP---GTSDEFPHSNGEIEDVQ 158
Query: 608 DSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQ 667
+I ++ F+ +
Sbjct: 159 TDIPSEPWNT--------GHDWI-----------------------LADKRPTAWFLPSI 187
Query: 668 DMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGL 724
A+ L + L+ + E + + ++ TD+A G
Sbjct: 188 RAANVMAASLR---KAGKSVVVLNRKTFEREYPTIKQKKPD----FILATDIAEMGA 237
Score = 41.0 bits (96), Expect = 0.002
Identities = 32/204 (15%), Positives = 65/204 (31%), Gaps = 29/204 (14%)
Query: 19 DGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFT 78
G ++ G+GKT + I+ + R + +++ PTR + +
Sbjct: 7 KGMTTVLDFHPGAGKTRRFLPQILAECARRRLRT--------LVLAPTRVVLSE------ 52
Query: 79 KLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLV 138
+ ++F + + T + I L + E ++
Sbjct: 53 -MKEAFHGLDVKFHTQAFSAHGSGREV-----IDAMCHATLTYRMLEPTRV--VNWEVII 104
Query: 139 LDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPATCWCKHTETLKFSKVEHL 198
+DEA LD A + + + +IL++AT + H+ V+
Sbjct: 105 MDEAH-FLD--PASIAARGWAAHRARANESATILMTATPPGTSDEFPHSNGEIED-VQTD 160
Query: 199 VLDEA---DRILDQGYERDIAEFL 219
+ E +R A FL
Sbjct: 161 IPSEPWNTGHDWILADKRPTAWFL 184
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 41.8 bits (97), Expect = 9e-04
Identities = 45/375 (12%), Positives = 106/375 (28%), Gaps = 30/375 (8%)
Query: 392 YEEFPGIHPFMKKNLNEGMNIT-QVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPI 450
++ K N + Q+ ++ L ++ T +G++L A+
Sbjct: 90 ELSRKDFDEWLSKLEIYSGNKRIEPHWYQKDAVFEGLVNRRRILNLPTSAGRSLIQALLA 149
Query: 451 IQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSE 510
L+ KI +II+PT L Q + F ++ G K
Sbjct: 150 RYYLENYEGKI--------LIIVPTTALTTQMADDFVDYRLFSHAMIKKIGGGASKDDKY 201
Query: 511 KARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQG----YERDIAEF 566
K + + + + + I+ ++ ++
Sbjct: 202 KNDAPVVVGTWQTVVKQPKEWFSQFGMMMNDECHLATGKSISSIISGLNNCMFKFGLSGS 261
Query: 567 LEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQI---DAADSTDIHNTTDSLVIPD 623
L K Q+ + +L ++I + +
Sbjct: 262 LRDGKANIMQYVGMFGEIFKPVTTSKLMEDGQVTELKINSIFLRYPDEFTTKLKGKTYQE 321
Query: 624 SLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVL-G 682
+K ++ + LA + K +N V H + + ++
Sbjct: 322 EIKIITGLSKRNKWIAKLAIKLAQKDENA--------FVMFKHVS----HGKAIFDLIKN 369
Query: 683 ENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICT-DVAARGLDLPLVDWIVQYTAPSSS 741
E + + G + R + + K +++ + V + G+ + + +V S
Sbjct: 370 EYDKVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVFSTGISVKNLHHVVLAHGVKSK 429
Query: 742 TDYVHRVGRTARVGH 756
+ +GR R
Sbjct: 430 IIVLQTIGRVLRKHG 444
>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 = 38.1 bits (89), Expect = 0.006
Identities = 26/133 (19%), Positives = 44/133 (33%), Gaps = 29/133 (21%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 69
Q+ +++ L + TGSGKT A+ I +L +I++PT L
Sbjct: 98 QEKALERWLVDKRGCIVLPTGSGKTHV-AMAAINELS-------TP----TLIVVPTLAL 145
Query: 70 ALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETL 129
A Q E F +G K + V+T + +
Sbjct: 146 AEQWKERLGI----FGEEYVGEFSGRIKELKP---------LTVSTYDSAYVNAEKL--- 189
Query: 130 KFSKVEHLVLDEA 142
++ L+ DE
Sbjct: 190 -GNRFMLLIFDEV 201
Score = 38.1 bits (89), Expect = 0.006
Identities = 26/133 (19%), Positives = 44/133 (33%), Gaps = 29/133 (21%)
Query: 419 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 478
Q+ +++ L + TGSGKT A+ I +L +I++PT L
Sbjct: 98 QEKALERWLVDKRGCIVLPTGSGKTHV-AMAAINELS-------TP----TLIVVPTLAL 145
Query: 479 ALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETL 538
A Q E F +G K + V+T + +
Sbjct: 146 AEQWKERLGI----FGEEYVGEFSGRIKELKP---------LTVSTYDSAYVNAEKL--- 189
Query: 539 KFSKVEHLVLDEA 551
++ L+ DE
Sbjct: 190 -GNRFMLLIFDEV 201
>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 = 38.2 bits (88), Expect = 0.013
Identities = 39/189 (20%), Positives = 69/189 (36%), Gaps = 29/189 (15%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLA--YAIPIIQKLQEMRPKISRKDGIYAVIILPTR 67
Q +I I G VLV + T +GKT+ YAI S K+ + P +
Sbjct: 91 QDTAISCIDRGESVLVSAHTSAGKTVVAEYAI-----------AQSLKNKQRVIYTSPIK 139
Query: 68 ELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTE 127
L+ Q + +L F + +TG + + LV T L
Sbjct: 140 ALSNQ---KYRELLAEFGDV--GLMTGDITINPDA-------GCLVMTTEILRSMLYRGS 187
Query: 128 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPATCWCKHT 187
+ +V ++ DE + D+ ER + + E + + + + LSAT+ A + +
Sbjct: 188 EV-MREVAWVIFDEVHYMRDK--ERGVV-WEETIILLPDKVRYVFLSATIPNAMEFAEWI 243
Query: 188 ETLKFSKVE 196
+
Sbjct: 244 CKIHSQPCH 252
Score = 38.2 bits (88), Expect = 0.015
Identities = 50/243 (20%), Positives = 88/243 (36%), Gaps = 31/243 (12%)
Query: 346 DNYEIPKKTEVKSGPISSLFQNNPDIPNVPTRRLKPVSEALFAPTSYEEFPGIHPFMKKN 405
D++E EV + + + + R V + P +Y+ P I + N
Sbjct: 20 DSFEQEASREVDASKGLTNSETLQVEQDGKVRLSHQVRHQVALPPNYDYTP-IAEHKRVN 78
Query: 406 LNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLA--YAIPIIQKLQEMRPKISR 463
T + Q +I I G VLV + T +GKT+ YAI S
Sbjct: 79 EARTYPFT-LDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAI-----------AQSL 126
Query: 464 KDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVA 523
K+ + P + L+ Q + +L F + +TG + + LV
Sbjct: 127 KNKQRVIYTSPIKALSNQ---KYRELLAEFGDV--GLMTGDITINPDA-------GCLVM 174
Query: 524 TPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLS 583
T L + +V ++ DE + D+ ER + + E + + + + LS
Sbjct: 175 TTEILRSMLYRGSEV-MREVAWVIFDEVHYMRDK--ERGVV-WEETIILLPDKVRYVFLS 230
Query: 584 ATL 586
AT+
Sbjct: 231 ATI 233
>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 = 37.5 bits (86), Expect = 0.023
Identities = 39/189 (20%), Positives = 69/189 (36%), Gaps = 29/189 (15%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLA--YAIPIIQKLQEMRPKISRKDGIYAVIILPTR 67
Q +I I G VLV + T +GKT+ YAI S K+ + P +
Sbjct: 189 QDTAISCIDRGESVLVSAHTSAGKTVVAEYAI-----------AQSLKNKQRVIYTSPIK 237
Query: 68 ELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTE 127
L+ Q + +L F + +TG + + LV T L
Sbjct: 238 ALSNQ---KYRELLAEFGDV--GLMTGDITINPDA-------GCLVMTTEILRSMLYRGS 285
Query: 128 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPATCWCKHT 187
+ +V ++ DE + D+ ER + + E + + + + LSAT+ A + +
Sbjct: 286 EV-MREVAWVIFDEVHYMRDK--ERGVV-WEETIILLPDKVRYVFLSATIPNAMEFAEWI 341
Query: 188 ETLKFSKVE 196
+
Sbjct: 342 CKIHSQPCH 350
Score = 37.1 bits (85), Expect = 0.033
Identities = 53/289 (18%), Positives = 101/289 (34%), Gaps = 33/289 (11%)
Query: 302 QNVNEDEESKMLVFMATQDMADYHTELLSTKKKIKKLKEYN--IDPDNYEIPKKTEVKSG 359
++ + ++ ++ + K K K+ + D++E EV +
Sbjct: 72 HTQDKKHGLEEEKEEHEENNSENKKIKSNKSKTEDKNKKVVVPVLADSFEQEASREVDAS 131
Query: 360 PISSLFQNNPDIPNVPTRRLKPVSEALFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQ 419
+ + + R V + P +Y+ P I + N T + Q
Sbjct: 132 KGLTNSETLQVEQDGKVRLSHQVRHQVALPPNYDYTP-IAEHKRVNEARTYPFT-LDPFQ 189
Query: 420 QLSIQPILDGGDVLVRSQTGSGKTLA--YAIPIIQKLQEMRPKISRKDGIYAVIILPTRE 477
+I I G VLV + T +GKT+ YAI S K+ + P +
Sbjct: 190 DTAISCIDRGESVLVSAHTSAGKTVVAEYAI-----------AQSLKNKQRVIYTSPIKA 238
Query: 478 LALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTET 537
L+ Q + +L F + +TG + + LV T L
Sbjct: 239 LSNQ---KYRELLAEFGDV--GLMTGDITINPDA-------GCLVMTTEILRSMLYRGSE 286
Query: 538 LKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 586
+ +V ++ DE + D+ ER + + E + + + + LSAT+
Sbjct: 287 V-MREVAWVIFDEVHYMRDK--ERGVV-WEETIILLPDKVRYVFLSATI 331
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase,
nucleotide excision repair,; 2.20A {Thermoplasma
acidophilum} PDB: 2vsf_A*
Length = 620
Score = 37.4 bits (87), Expect = 0.023
Identities = 14/68 (20%), Positives = 26/68 (38%), Gaps = 8/68 (11%)
Query: 17 ILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEI 76
+ V + S TGSGKT+ +Q E + K+ + ++ T Q ++
Sbjct: 19 LQKSYGVALESPTGSGKTIMALKSALQYSSERKLKV--------LYLVRTNSQEEQVIKE 70
Query: 77 FTKLCKSF 84
L +
Sbjct: 71 LRSLSSTM 78
Score = 37.4 bits (87), Expect = 0.023
Identities = 14/68 (20%), Positives = 26/68 (38%), Gaps = 8/68 (11%)
Query: 426 ILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEI 485
+ V + S TGSGKT+ +Q E + K+ + ++ T Q ++
Sbjct: 19 LQKSYGVALESPTGSGKTIMALKSALQYSSERKLKV--------LYLVRTNSQEEQVIKE 70
Query: 486 FTKLCKSF 493
L +
Sbjct: 71 LRSLSSTM 78
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 36.3 bits (84), Expect = 0.044
Identities = 57/339 (16%), Positives = 110/339 (32%), Gaps = 56/339 (16%)
Query: 433 LVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTR-ELALQTLEIFTKLCK 491
L+ TG+GKT+ A I KL R + ++ L R L +
Sbjct: 202 LITMATGTGKTVV-AFQISWKLWSARWNRTGDYRKPRILFLADRNVLVDDPKDKTFTPFG 260
Query: 492 SFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEH---LVL 548
+ GG+ +KS + I A + + K + +++
Sbjct: 261 D----ARHKIEGGKVVKSRE--------IYFAIYQSIASDERRPGLYKEFPQDFFDLIII 308
Query: 549 DEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQR---------LAGMTLQ 599
DE R G RD + + EIL+ +P FQ I ++AT R + +L+
Sbjct: 309 DECHR----GSARDNSNWREILEYFEPAFQ-IGMTATPLREDNRDTYRYFGNPIYTYSLR 363
Query: 600 -----------NPIQI-DAADSTDIHNTTDSLVIPDSLKQHFIVTPPKL-RLVALASFIL 646
++ D+ + + R++AL +
Sbjct: 364 QGIDDGFLAPYRVHRVISEVDAAGWRPSKGDVDRFGREIPDGEYQTKDFERVIALKARTD 423
Query: 647 GKCQNVNE-----DEESKMLVFMATQD----MADYHTELLSTVLGENIAFFKLHGSMSQS 697
+++ + D +K +VF Q+ M L S + ++ + S
Sbjct: 424 AFAKHLTDFMKRTDRFAKTIVFCVDQEHADEMRRALNNLNSDLSRKHPDYVARVTSEEGK 483
Query: 698 ERTEVFKTFRSVKSGVL--ICT-DVAARGLDLPLVDWIV 733
F+ +++ + T + G+D P +V
Sbjct: 484 IGKGHLSRFQELETSTPVILTTSQLLTTGVDAPTCKNVV 522
Score = 32.8 bits (75), Expect = 0.58
Identities = 36/157 (22%), Positives = 59/157 (37%), Gaps = 22/157 (14%)
Query: 24 LVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTR-ELALQTLEIFTKLCK 82
L+ TG+GKT+ A I KL R + ++ L R L +
Sbjct: 202 LITMATGTGKTVV-AFQISWKLWSARWNRTGDYRKPRILFLADRNVLVDDPKDKTFTPFG 260
Query: 83 SFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEH---LVL 139
+ GG+ +KS + I A + + K + +++
Sbjct: 261 D----ARHKIEGGKVVKSRE--------IYFAIYQSIASDERRPGLYKEFPQDFFDLIII 308
Query: 140 DEADRILDQGYERDIAEFLEILKKQKPQFQSILLSAT 176
DE R G RD + + EIL+ +P FQ I ++AT
Sbjct: 309 DECHR----GSARDNSNWREILEYFEPAFQ-IGMTAT 340
>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 = 33.4 bits (75), Expect = 0.15
Identities = 9/33 (27%), Positives = 11/33 (33%), Gaps = 17/33 (51%)
Query: 332 KKKIKK----LKEYNIDPDNYEIPKKTEVKSGP 360
K+ +KK LK Y D S P
Sbjct: 19 KQALKKLQASLKLY--ADD-----------SAP 38
Score = 32.6 bits (73), Expect = 0.25
Identities = 9/42 (21%), Positives = 18/42 (42%), Gaps = 15/42 (35%)
Query: 783 EEIKLKDCLQNLLSVKMEGDLSRLADGNVETA-ATALQMSFE 823
+ +K K++ L AD ++A A A++ + E
Sbjct: 20 QALK-----------KLQASLKLYAD---DSAPALAIKATME 47
>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 = 34.4 bits (80), Expect = 0.18
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIP 40
Q+ I +L G D LV TG GK+L Y IP
Sbjct: 30 QEEIIDTVLSGRDCLVVMPTGGGKSLCYQIP 60
Score = 34.4 bits (80), Expect = 0.18
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 419 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIP 449
Q+ I +L G D LV TG GK+L Y IP
Sbjct: 30 QEEIIDTVLSGRDCLVVMPTGGGKSLCYQIP 60
>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 = 33.4 bits (77), Expect = 0.37
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIP 40
Q +I + G +V + TG GK+L Y +P
Sbjct: 49 QLETINVTMAGKEVFLVMPTGGGKSLCYQLP 79
Score = 33.4 bits (77), Expect = 0.37
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 419 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIP 449
Q +I + G +V + TG GK+L Y +P
Sbjct: 49 QLETINVTMAGKEVFLVMPTGGGKSLCYQLP 79
>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 = 33.0 bits (76), Expect = 0.48
Identities = 26/100 (26%), Positives = 40/100 (40%), Gaps = 22/100 (22%)
Query: 21 GDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKL 80
GDV GSGKT+ + I+ + G ++PT LA+Q +
Sbjct: 396 GDV------GSGKTVVAQLAILDNY---------EAGFQTAFMVPTSILAIQHYRRTVES 440
Query: 81 CKSFTWIVPSWLTGGEKMKSEK----ARIRKG-ISILVAT 115
F I + L G SEK + +R G I +++ T
Sbjct: 441 FSKFN-IHVALLIGATT-PSEKEKIKSGLRNGQIDVVIGT 478
Score = 33.0 bits (76), Expect = 0.48
Identities = 26/100 (26%), Positives = 40/100 (40%), Gaps = 22/100 (22%)
Query: 430 GDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKL 489
GDV GSGKT+ + I+ + G ++PT LA+Q +
Sbjct: 396 GDV------GSGKTVVAQLAILDNY---------EAGFQTAFMVPTSILAIQHYRRTVES 440
Query: 490 CKSFTWIVPSWLTGGEKMKSEK----ARIRKG-ISILVAT 524
F I + L G SEK + +R G I +++ T
Sbjct: 441 FSKFN-IHVALLIGATT-PSEKEKIKSGLRNGQIDVVIGT 478
Score = 31.8 bits (73), Expect = 1.3
Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 6/65 (9%)
Query: 656 EESKMLVFMATQDMADYHTELLSTVLGE-NIAFFKLHGSMSQSERTEVFKTFRSVKSGVL 714
EES L + +M + L V E + +HG +SQ E+ V F + +L
Sbjct: 589 EESDKLNVKSAVEMYE---YLSKEVFPEFKLGL--MHGRLSQEEKDRVMLEFAEGRYDIL 643
Query: 715 ICTDV 719
+ T V
Sbjct: 644 VSTTV 648
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 32.9 bits (75), Expect = 0.58
Identities = 39/297 (13%), Positives = 77/297 (25%), Gaps = 86/297 (28%)
Query: 438 TGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIIL-PTRELALQTLEIFTKLCKSFTWI 496
G+GKT ++ +L K + +IL PTR +A E++ L
Sbjct: 11 PGAGKTRR----VLPQLVREAVKKRLR-----TVILAPTRVVA---SEMYEAL------- 51
Query: 497 VPSWLTGGEKMKSEKARIRKGIS----ILVATPGRLLDHCKHTETLKFSKVEHLVLDEA- 551
GE ++ ++ + + + ++DEA
Sbjct: 52 ------RGEPIRYMTPAVQSERTGNEIVDFMCHSTFTMKLLQGVRVP--NYNLYIMDEAH 103
Query: 552 ----DRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAA 607
+ +GY +I ++AT G T P
Sbjct: 104 FLDPASVAARGYIETRVS--------MGDAGAIFMTAT-------PPGTTEAFPPSNSPI 148
Query: 608 DSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQ 667
+ IPD + + + + + + F+ +
Sbjct: 149 IDEETR-------IPD-------------KAWNSGYEWI-------TEFDGRTVWFVHSI 181
Query: 668 DMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGL 724
L L+ +SE + V+ TD++ G
Sbjct: 182 KQGAEIGTCLQ---KAGKKVLYLNRKTFESEYPKCKSEKWDF---VI-TTDISEMGA 231
Score = 30.6 bits (69), Expect = 2.5
Identities = 32/211 (15%), Positives = 61/211 (28%), Gaps = 63/211 (29%)
Query: 29 TGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIIL-PTRELALQTLEIFTKLCKSFTWI 87
G+GKT ++ +L K + +IL PTR +A E++ L
Sbjct: 11 PGAGKTRR----VLPQLVREAVKKRLR-----TVILAPTRVVA---SEMYEAL------- 51
Query: 88 VPSWLTGGEKMKSEKARIRKGIS----ILVATPGRLLDHCKHTETLKFSKVEHLVLDEA- 142
GE ++ ++ + + + ++DEA
Sbjct: 52 ------RGEPIRYMTPAVQSERTGNEIVDFMCHSTFTMKLLQGVRVP--NYNLYIMDEAH 103
Query: 143 ----DRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPATCWCKHTETLKFSKVEHL 198
+ +GY +I ++AT T F
Sbjct: 104 FLDPASVAARGYIETRVS--------MGDAGAIFMTATP--------PGTTEAFPPSNSP 147
Query: 199 VLDEADRILDQG----------YERDIAEFL 219
++DE RI D+ ++ F+
Sbjct: 148 IIDEETRIPDKAWNSGYEWITEFDGRTVWFV 178
>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural
genomics, structural genomics consortium, SGC,
activator, ATP-binding, DNA-binding; HET: ADP; 2.80A
{Homo sapiens}
Length = 235
Score = 31.9 bits (73), Expect = 0.70
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 16/73 (21%)
Query: 110 SILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIA-EFLEILKK----Q 164
SI+ T G LL + + H+++DE +ERDI +FL ++ +
Sbjct: 157 SIMFCTVGVLLRKLEAG----IRGISHVIVDEI-------HERDINTDFLLVVLRDVVQA 205
Query: 165 KPQFQSILLSATL 177
P+ + +L+SAT+
Sbjct: 206 YPEVRIVLMSATI 218
Score = 31.9 bits (73), Expect = 0.70
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 16/73 (21%)
Query: 519 SILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIA-EFLEILKK----Q 573
SI+ T G LL + + H+++DE +ERDI +FL ++ +
Sbjct: 157 SIMFCTVGVLLRKLEAG----IRGISHVIVDEI-------HERDINTDFLLVVLRDVVQA 205
Query: 574 KPQFQSILLSATL 586
P+ + +L+SAT+
Sbjct: 206 YPEVRIVLMSATI 218
Score = 29.6 bits (67), Expect = 4.6
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 12/52 (23%)
Query: 192 FSKVEHLVLDEADRILDQGYERDIA-EFLEILKK----QKPQFQSVLLSATL 238
+ H+++DE +ERDI +FL ++ + P+ + VL+SAT+
Sbjct: 174 IRGISHVIVDEI-------HERDINTDFLLVVLRDVVQAYPEVRIVLMSATI 218
>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex,
hydrolase/DNA complex complex; 3.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A
Length = 500
Score = 32.1 bits (74), Expect = 0.91
Identities = 15/56 (26%), Positives = 26/56 (46%), Gaps = 6/56 (10%)
Query: 655 DEESKMLVFMATQ--DMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRS 708
DE K+ +F TQ DM ++ L L+G +S+ ER ++ F++
Sbjct: 339 DEGDKIAIF--TQFVDMGKIIRNIIEKELN--TEVPFLYGELSKKERDDIISKFQN 390
>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination,
hydrolase-recombination complex; 2.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19
Length = 271
Score = 31.4 bits (72), Expect = 1.2
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 655 DEESKMLVFMATQ--DMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRS 708
DE K+ +F TQ DM ++ L + F L+G +S+ ER ++ F++
Sbjct: 110 DEGDKIAIF--TQFVDMGKIIRNIIEKELNTEVPF--LYGELSKKERDDIISKFQN 161
>1su3_A Interstitial collagenase; prodomain, hemopexin domain, exocite,
structural proteomics in europe, spine, structural
genomics, hydrolase; HET: EPE; 2.20A {Homo sapiens}
SCOP: a.20.1.2 b.66.1.1 d.92.1.11 PDB: 2clt_A 1fbl_A*
Length = 450
Score = 31.4 bits (70), Expect = 1.7
Identities = 22/128 (17%), Positives = 37/128 (28%), Gaps = 12/128 (9%)
Query: 91 WLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGY 150
T + E I L + E F ++ + + + GY
Sbjct: 284 MRTNPFYPEVELNFISVFWPQLPNGLEAAYEFADRDEVRFFKGNKYWAVQGQN--VLHGY 341
Query: 151 ERDIAEFLEILKKQKPQFQSILLSATLTPATCWCKHTETLKFSKVEHLVLDEADRILDQG 210
+DI + K + A +T F ++ DE R +D G
Sbjct: 342 PKDIYSSFGFPRTVKH----------IDAALSEENTGKTYFFVANKYWRYDEYKRSMDPG 391
Query: 211 YERDIAEF 218
Y + IA
Sbjct: 392 YPKMIAHD 399
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 31.0 bits (69), Expect = 2.4
Identities = 37/183 (20%), Positives = 71/183 (38%), Gaps = 30/183 (16%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLA--YAIPIIQKLQEMRPKISRKDGIYAVIILPTR 67
Q+ ++ + G V V + T +GKT+ YAI ++ ++ + P +
Sbjct: 44 QKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAI-----------AMAHRNMTKTIYTSPIK 92
Query: 68 ELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTE 127
L+ Q F ++F + +TG ++ + + L+ T L +
Sbjct: 93 ALSNQ---KFRDFKETFDDVNIGLITGDVQINPDA-------NCLIMTTEILRSML-YRG 141
Query: 128 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL---TPATCWC 184
VE ++ DE + DQ +R + + E++ + ILLSAT+ W
Sbjct: 142 ADLIRDVEFVIFDEVHYVNDQ--DRGVV-WEEVIIMLPQHVKFILLSATVPNTYEFANWI 198
Query: 185 KHT 187
T
Sbjct: 199 GRT 201
Score = 29.8 bits (66), Expect = 4.8
Identities = 35/170 (20%), Positives = 69/170 (40%), Gaps = 27/170 (15%)
Query: 419 QQLSIQPILDGGDVLVRSQTGSGKTLA--YAIPIIQKLQEMRPKISRKDGIYAVIILPTR 476
Q+ ++ + G V V + T +GKT+ YAI ++ ++ + P +
Sbjct: 44 QKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAI-----------AMAHRNMTKTIYTSPIK 92
Query: 477 ELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTE 536
L+ Q F ++F + +TG ++ + + L+ T L +
Sbjct: 93 ALSNQ---KFRDFKETFDDVNIGLITGDVQINPDA-------NCLIMTTEILRSML-YRG 141
Query: 537 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 586
VE ++ DE + DQ +R + + E++ + ILLSAT+
Sbjct: 142 ADLIRDVEFVIFDEVHYVNDQ--DRGVV-WEEVIIMLPQHVKFILLSATV 188
>3d36_A Sporulation kinase B; GHKL ATPase, four helix bundle, class I
two-component histidine kinase, phosphoprotein; HET:
ADP; 2.03A {Geobacillus stearothermophilus}
Length = 244
Score = 29.1 bits (66), Expect = 5.8
Identities = 9/61 (14%), Positives = 22/61 (36%), Gaps = 5/61 (8%)
Query: 197 HLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGMTLQNPIQI 256
+ ++E DR E I ++L K + + + + + L + + + I
Sbjct: 54 RIAIEELDRA-----EAIITDYLTFAKPAPETPEKLNVKLEIERVIDILRPLANMSCVDI 108
Query: 257 D 257
Sbjct: 109 Q 109
Score = 28.7 bits (65), Expect = 7.4
Identities = 9/61 (14%), Positives = 22/61 (36%), Gaps = 5/61 (8%)
Query: 545 HLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQI 604
+ ++E DR E I ++L K + + + + + L + + + I
Sbjct: 54 RIAIEELDRA-----EAIITDYLTFAKPAPETPEKLNVKLEIERVIDILRPLANMSCVDI 108
Query: 605 D 605
Sbjct: 109 Q 109
>1qsd_A Protein (beta-tubulin binding post-chaperonin cofactor);
four-helix-bundle, chaperone; 2.20A {Saccharomyces
cerevisiae} SCOP: a.7.5.1
Length = 106
Score = 27.8 bits (62), Expect = 6.2
Identities = 12/33 (36%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 324 YHTELLSTKKKIKKLKEYNIDPDNYEIPKKTEV 356
Y EL + + KLKE D Y++ K+ EV
Sbjct: 23 YQQELKDQEAHVAKLKEDK-SVDPYDLKKQEEV 54
>3ctd_A Putative ATPase, AAA family; structural genomics, unknown function,
PSI-2, protein structure initiative; 2.50A
{Prochlorococcus marinus subsp} SCOP: a.80.1.2
Length = 213
Score = 28.8 bits (65), Expect = 6.6
Identities = 6/24 (25%), Positives = 11/24 (45%)
Query: 147 DQGYERDIAEFLEILKKQKPQFQS 170
D G+E++ E L +K +
Sbjct: 188 DSGWEKNKYEDLPKKQKSEGHHHH 211
Score = 28.8 bits (65), Expect = 6.6
Identities = 6/24 (25%), Positives = 11/24 (45%)
Query: 208 DQGYERDIAEFLEILKKQKPQFQS 231
D G+E++ E L +K +
Sbjct: 188 DSGWEKNKYEDLPKKQKSEGHHHH 211
Score = 28.8 bits (65), Expect = 6.6
Identities = 6/24 (25%), Positives = 11/24 (45%)
Query: 556 DQGYERDIAEFLEILKKQKPQFQS 579
D G+E++ E L +K +
Sbjct: 188 DSGWEKNKYEDLPKKQKSEGHHHH 211
>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase,
hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP:
b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19
d.315.1.1
Length = 1151
Score = 29.2 bits (66), Expect = 7.6
Identities = 25/97 (25%), Positives = 39/97 (40%), Gaps = 18/97 (18%)
Query: 691 HGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDY-----V 745
HG M + E V F + VL+CT + G+D+P + I+ A D+ +
Sbjct: 845 HGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERA-----DHFGLAQL 899
Query: 746 H----RVGRTARVGHEGSSLLFLIPSEVKLVEELQNR 778
H RVGR+ + L P + + Q R
Sbjct: 900 HQLRGRVGRSHHQAYA----WLLTPHPKAMTTDAQKR 932
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
0.318 0.134 0.379
Gapped
Lambda K H
0.267 0.0757 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 13,733,392
Number of extensions: 842394
Number of successful extensions: 2563
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2202
Number of HSP's successfully gapped: 208
Length of query: 930
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 828
Effective length of database: 3,853,851
Effective search space: 3190988628
Effective search space used: 3190988628
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 62 (27.6 bits)