RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7557
(936 letters)
>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 = 531 bits (1371), Expect = 0.0
Identities = 162/438 (36%), Positives = 236/438 (53%), Gaps = 25/438 (5%)
Query: 19 EPKIIKNVYKEDPEVANMTPEQVEAFRK-----KNNDISVSVVTSDGQIDENPDFQIPNP 73
P+ Y + K N+I V V SD +P P
Sbjct: 5 SPEFPGEFYIPPEPSNDAIEIFSSGIASGIHFSKYNNIPVKVTGSD----------VPQP 54
Query: 74 VTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLP 133
+ F A I+ + + P+PIQ + P++ SG D++ AQTG+GKT AFLLP
Sbjct: 55 IQHFTSADLR-DIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLP 113
Query: 134 ALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYK-GLKAVCVYGGKEIEPQ 192
L L+ E P V++++PTRELA QI E K ++ LK VYGG Q
Sbjct: 114 ILSKL-LEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQ 172
Query: 193 LEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINK--TSIY 250
E I GCH++IATPGRL DFV R I + FVVLDEADRMLD+GF + + T +
Sbjct: 173 NECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVT 232
Query: 251 INPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDW 310
+ P QT+M SAT+ +++QR+A +++ N V V +G + A V Q I +++ K+
Sbjct: 233 MRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVG-GACSDVKQTIYEVNKYAKRSK 291
Query: 311 LMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITS 370
L+E + E+ D +VF+ K ++S L+ + + S++GD Q RE AL D +
Sbjct: 292 LIEI---LSEQADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKN 348
Query: 371 GYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMT-RK 429
G ++ +AT VASRGLD+ ++ HVINYD PS I++YVHR+GRTGR G +G + + K
Sbjct: 349 GSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEK 408
Query: 430 DWSHAHEIIPILEEGGHE 447
D + A +++ ILE G
Sbjct: 409 DRAIAADLVKILEGSGQT 426
Score = 498 bits (1284), Expect = e-169
Identities = 152/404 (37%), Positives = 219/404 (54%), Gaps = 24/404 (5%)
Query: 539 EPKIIKNVYKEDPEVANMTPEQVEAFRK-----KNNDISVSVVTSDGQIDENPDFQIPNP 593
P+ Y + K N+I V V SD +P P
Sbjct: 5 SPEFPGEFYIPPEPSNDAIEIFSSGIASGIHFSKYNNIPVKVTGSD----------VPQP 54
Query: 594 VTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLP 653
+ F A I+ + + P+PIQ + P++ SG D++ AQTG+GKT AFLLP
Sbjct: 55 IQHFTSADLR-DIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLP 113
Query: 654 ALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYK-GLKAVCVYGGKELEPQ 712
L L+ E P V++++PTRELA QI E K ++ LK VYGG Q
Sbjct: 114 ILSKL-LEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQ 172
Query: 713 LEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINK--TSIY 770
E I GCH++IATPGRL DFV R I + FVVLDEADRMLD+GF + + T +
Sbjct: 173 NECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVT 232
Query: 771 INPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDW 830
+ P QT+M SAT+ +++QR+A +++ N V V +G + A V Q I +++ K+
Sbjct: 233 MRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVG-GACSDVKQTIYEVNKYAKRSK 291
Query: 831 LMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITS 890
L+E + E+ D +VF+ K ++S L+ + + S++GD Q RE AL D +
Sbjct: 292 LIEI---LSEQADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKN 348
Query: 891 GYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
G ++ +AT VASRGLD+ ++ HVINYD PS I++YVHR+GRTG
Sbjct: 349 GSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTG 392
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 519 bits (1339), Expect = e-177
Identities = 145/395 (36%), Positives = 220/395 (55%), Gaps = 20/395 (5%)
Query: 70 IPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFA 129
P + SF I+ +E +T P+P+Q A PI+ D++ AQTG+GKT A
Sbjct: 10 CPPHIESFSDVEMG-EIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAA 68
Query: 130 FLLPALIH------------THLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYK- 176
FLLP L + P LV+APTRELA QI E K Y+
Sbjct: 69 FLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRS 128
Query: 177 GLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRML 236
++ VYGG +I Q+ + GCH+L+ATPGRL D + R I L ++VLDEADRML
Sbjct: 129 RVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRML 188
Query: 237 DLGFEPQINK--TSIYINP--NRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAAT 292
D+GFEPQI + + P R T+M SAT+ K++Q +A+ ++ + + VG + + +
Sbjct: 189 DMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVG-STS 247
Query: 293 HTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSL 352
+TQK++ ++E +K+ +L++ + ++ +VF+ K ++ L + S+
Sbjct: 248 ENITQKVVWVEESDKRSFLLDLLNATGKD-SLTLVFVETKKGADSLEDFLYHEGYACTSI 306
Query: 353 YGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGR 412
+GD SQ DRE AL SG + I VAT VA+RGLD+ ++ HVIN+D PS IEEYVHR+GR
Sbjct: 307 HGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGR 366
Query: 413 TGRAGKSGESITLMTRKDWSHAHEIIPILEEGGHE 447
TGR G G + + ++ + +++ +L E E
Sbjct: 367 TGRVGNLGLATSFFNERNINITKDLLDLLVEAKQE 401
Score = 482 bits (1243), Expect = e-163
Identities = 138/362 (38%), Positives = 205/362 (56%), Gaps = 20/362 (5%)
Query: 590 IPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFA 649
P + SF I+ +E +T P+P+Q A PI+ D++ AQTG+GKT A
Sbjct: 10 CPPHIESFSDVEMG-EIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAA 68
Query: 650 FLLPALIH------------THLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYK- 696
FLLP L + P LV+APTRELA QI E K Y+
Sbjct: 69 FLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRS 128
Query: 697 GLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRML 756
++ VYGG ++ Q+ + GCH+L+ATPGRL D + R I L ++VLDEADRML
Sbjct: 129 RVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRML 188
Query: 757 DLGFEPQINK--TSIYINP--NRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAAT 812
D+GFEPQI + + P R T+M SAT+ K++Q +A+ ++ + + VG + + +
Sbjct: 189 DMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVG-STS 247
Query: 813 HTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSL 872
+TQK++ ++E +K+ +L++ + ++ +VF+ K ++ L + S+
Sbjct: 248 ENITQKVVWVEESDKRSFLLDLLNATGKD-SLTLVFVETKKGADSLEDFLYHEGYACTSI 306
Query: 873 YGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGR 932
+GD SQ DRE AL SG + I VAT VA+RGLD+ ++ HVIN+D PS IEEYVHR+GR
Sbjct: 307 HGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGR 366
Query: 933 TG 934
TG
Sbjct: 367 TG 368
>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 = 364 bits (937), Expect = e-118
Identities = 104/355 (29%), Positives = 179/355 (50%), Gaps = 13/355 (3%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 144
E+L + F PSPIQ +A P+ ++G D++ A+ GTGKT AF++P L +
Sbjct: 30 RELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTL-----EKVK 84
Query: 145 ISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLKAVCVYGGKEIEPQLEKIREGCHIL 203
L+M PTRELA Q + V + + G+ + GG + + ++ E HIL
Sbjct: 85 PKLNK-IQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETVHIL 143
Query: 204 IATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 263
+ TPGR+ D SR DL S ++DEAD+ML F+ I + ++ P Q+++ SAT
Sbjct: 144 VGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSAT 203
Query: 264 WNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERD 323
+ V+ K++ P ++N+ ++ +TQ ++E +K L F + +
Sbjct: 204 FPLTVKEFMVKHLHKPYEINL--MEELTLKGITQYYAFVEERQKLHCLNTLFSK--LQIN 259
Query: 324 KVMVFMGRKASVSAMSSDL-ACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVA 382
+ ++F V ++ + Y + + Q++R + G R V +D+
Sbjct: 260 QAIIFCNSTNRVELLAKKITDLGYSCYY-SHARMKQQERNKVFHEFRQGKVRTLVCSDLL 318
Query: 383 SRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEI 437
+RG+D+ + VIN+DFP E Y+HR+GR+GR G G +I L+ D + ++I
Sbjct: 319 TRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKI 373
Score = 339 bits (873), Expect = e-108
Identities = 99/334 (29%), Positives = 168/334 (50%), Gaps = 13/334 (3%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 664
E+L + F PSPIQ +A P+ ++G D++ A+ GTGKT AF++P L +
Sbjct: 30 RELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTL-----EKVK 84
Query: 665 ISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLKAVCVYGGKELEPQLEKIREGCHIL 723
L+M PTRELA Q + V + + G+ + GG L + ++ E HIL
Sbjct: 85 PKLNK-IQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETVHIL 143
Query: 724 IATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 783
+ TPGR+ D SR DL S ++DEAD+ML F+ I + ++ P Q+++ SAT
Sbjct: 144 VGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSAT 203
Query: 784 WNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERD 843
+ V+ K++ P ++N+ ++ +TQ ++E +K L F + +
Sbjct: 204 FPLTVKEFMVKHLHKPYEINL--MEELTLKGITQYYAFVEERQKLHCLNTLFSK--LQIN 259
Query: 844 KVMVFMGRKASVSAMSSDL-ACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVA 902
+ ++F V ++ + Y + + Q++R + G R V +D+
Sbjct: 260 QAIIFCNSTNRVELLAKKITDLGYSCYY-SHARMKQQERNKVFHEFRQGKVRTLVCSDLL 318
Query: 903 SRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGEF 936
+RG+D+ + VIN+DFP E Y+HR+GR+G F
Sbjct: 319 TRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRF 352
>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 = 358 bits (920), Expect = e-117
Identities = 105/257 (40%), Positives = 160/257 (62%), Gaps = 16/257 (6%)
Query: 34 ANMTPEQVEAFRKKNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLEN 93
+ T ++VE +R+ I+V G P PV +F +A ++ +
Sbjct: 1 SMRTAQEVETYRRSKE-ITVR-----GH-------NCPKPVLNFYEA-NFPANVMDVIAR 46
Query: 94 LSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSV 153
+FT P+ IQAQ WP+ +SG DM+G+AQTG+GKT ++LLPA++H + Q + GP
Sbjct: 47 QNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQP-FLERGDGPIC 105
Query: 154 LVMAPTRELATQIEREVNKIDYK-GLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLND 212
LV+APTRELA Q+++ + LK+ C+YGG PQ+ + G I IATPGRL D
Sbjct: 106 LVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLID 165
Query: 213 FVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVA 272
F+ +L+ +++VLDEADRMLD+GFEPQI K I P+RQT+M SATW K+V+++A
Sbjct: 166 FLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLA 225
Query: 273 KKYMVNPVKVNVGSLDL 289
+ ++ + + +N+G+L+L
Sbjct: 226 EDFLKDYIHINIGALEL 242
Score = 356 bits (915), Expect = e-117
Identities = 105/257 (40%), Positives = 160/257 (62%), Gaps = 16/257 (6%)
Query: 554 ANMTPEQVEAFRKKNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLEN 613
+ T ++VE +R+ I+V G P PV +F +A ++ +
Sbjct: 1 SMRTAQEVETYRRSKE-ITVR-----GH-------NCPKPVLNFYEA-NFPANVMDVIAR 46
Query: 614 LSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSV 673
+FT P+ IQAQ WP+ +SG DM+G+AQTG+GKT ++LLPA++H + Q + GP
Sbjct: 47 QNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQP-FLERGDGPIC 105
Query: 674 LVMAPTRELATQIEREVNKIDYK-GLKAVCVYGGKELEPQLEKIREGCHILIATPGRLND 732
LV+APTRELA Q+++ + LK+ C+YGG PQ+ + G I IATPGRL D
Sbjct: 106 LVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLID 165
Query: 733 FVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVA 792
F+ +L+ +++VLDEADRMLD+GFEPQI K I P+RQT+M SATW K+V+++A
Sbjct: 166 FLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLA 225
Query: 793 KKYMVNPVKVNVGSLDL 809
+ ++ + + +N+G+L+L
Sbjct: 226 EDFLKDYIHINIGALEL 242
>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 = 362 bits (931), Expect = e-117
Identities = 117/355 (32%), Positives = 199/355 (56%), Gaps = 18/355 (5%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSG-HDMIGIAQTGTGKTFAFLLPALIHTHLQTT 143
IL + N F P+ IQ + P+ ++ ++++ A+TG+GKT +F +P +
Sbjct: 15 DNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIEL------ 68
Query: 144 PISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLKAVCVYGGKEIEPQLEKIREGCHI 202
++E G +++ PTRELA Q+ E+ + K LK +YGGK I PQ++ ++ +I
Sbjct: 69 -VNENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALKNA-NI 126
Query: 203 LIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSA 262
++ TPGR+ D ++R +++LK V + +LDEAD ML++GF + K N +++ ++ SA
Sbjct: 127 VVGTPGRILDHINRGTLNLKNVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFSA 186
Query: 263 TWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEER 322
T +++ +AKKYM + + + Q + ++E+E+ + L N +
Sbjct: 187 TMPREILNLAKKYMGDYSFIKA-----KINANIEQSYVEVNENERFEALCRLLKNKEF-- 239
Query: 323 DKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVA 382
+VF K ++S L K+ +++GDLSQ RE + RI +ATDV
Sbjct: 240 -YGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVM 298
Query: 383 SRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEI 437
SRG+DV DL VINY P + E Y+HR+GRTGRAGK G++I+++ R+++ I
Sbjct: 299 SRGIDVNDLNCVINYHLPQNPESYMHRIGRTGRAGKKGKAISIINRREYKKLRYI 353
Score = 332 bits (855), Expect = e-106
Identities = 108/332 (32%), Positives = 183/332 (55%), Gaps = 18/332 (5%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSG-HDMIGIAQTGTGKTFAFLLPALIHTHLQTT 663
IL + N F P+ IQ + P+ ++ ++++ A+TG+GKT +F +P +
Sbjct: 15 DNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIEL------ 68
Query: 664 PISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLKAVCVYGGKELEPQLEKIREGCHI 722
++E G +++ PTRELA Q+ E+ + K LK +YGGK + PQ++ ++ +I
Sbjct: 69 -VNENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALKNA-NI 126
Query: 723 LIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSA 782
++ TPGR+ D ++R +++LK V + +LDEAD ML++GF + K N +++ ++ SA
Sbjct: 127 VVGTPGRILDHINRGTLNLKNVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFSA 186
Query: 783 TWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEER 842
T +++ +AKKYM + + + Q + ++E+E+ + L N +
Sbjct: 187 TMPREILNLAKKYMGDYSFIKA-----KINANIEQSYVEVNENERFEALCRLLKNKEF-- 239
Query: 843 DKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVA 902
+VF K ++S L K+ +++GDLSQ RE + RI +ATDV
Sbjct: 240 -YGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVM 298
Query: 903 SRGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
SRG+DV DL VINY P + E Y+HR+GRTG
Sbjct: 299 SRGIDVNDLNCVINYHLPQNPESYMHRIGRTG 330
>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 = 359 bits (924), Expect = e-117
Identities = 103/345 (29%), Positives = 174/345 (50%), Gaps = 26/345 (7%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 144
+I + + + F + +Q++ P+++ G +++ A+TG+GKT A+ +P L
Sbjct: 3 EKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPIL--------- 53
Query: 145 ISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLKAVCVYGGKEIEPQLEKIREGCHIL 203
E G LV+ PTREL Q+ + I Y K VYGG + Q+ ++R I+
Sbjct: 54 --EL-GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVR-NADIV 109
Query: 204 IATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 263
+ATPGRL D S+ IDL + V++DEAD M ++GF I + + T + SAT
Sbjct: 110 VATPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSAT 169
Query: 264 WNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERD 323
+++++V K ++ N ++ V K + + + ++ + +
Sbjct: 170 IPEEIRKVVKDFITNYEEIEACI----GLANVEHKFVHVKD--DWRSKVQALR--ENKDK 221
Query: 324 KVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVAS 383
V+VF+ + V+ L + + L GDL Q R ++ G + + TDVAS
Sbjct: 222 GVIVFVRTRNRVA----KLVRLFDNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVAS 277
Query: 384 RGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTR 428
RGLD+P + VIN+D P + Y+HR+GRTGR G+ GE+IT +
Sbjct: 278 RGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILN 322
Score = 333 bits (856), Expect = e-107
Identities = 97/331 (29%), Positives = 165/331 (49%), Gaps = 26/331 (7%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 664
+I + + + F + +Q++ P+++ G +++ A+TG+GKT A+ +P L
Sbjct: 3 EKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPIL--------- 53
Query: 665 ISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLKAVCVYGGKELEPQLEKIREGCHIL 723
E G LV+ PTREL Q+ + I Y K VYGG + Q+ ++R I+
Sbjct: 54 --EL-GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVR-NADIV 109
Query: 724 IATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 783
+ATPGRL D S+ IDL + V++DEAD M ++GF I + + T + SAT
Sbjct: 110 VATPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSAT 169
Query: 784 WNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERD 843
+++++V K ++ N ++ V K + + + ++ + +
Sbjct: 170 IPEEIRKVVKDFITNYEEIEACI----GLANVEHKFVHV--KDDWRSKVQALR--ENKDK 221
Query: 844 KVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVAS 903
V+VF+ + V + L + + L GDL Q R ++ G + + TDVAS
Sbjct: 222 GVIVFVRTRNRV----AKLVRLFDNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVAS 277
Query: 904 RGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
RGLD+P + VIN+D P + Y+HR+GRTG
Sbjct: 278 RGLDIPLVEKVINFDAPQDLRTYIHRIGRTG 308
>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 = 366 bits (940), Expect = e-116
Identities = 112/456 (24%), Positives = 200/456 (43%), Gaps = 29/456 (6%)
Query: 8 SDRKERDKWAREPKIIKNVYKEDPEVANMTPEQVEAFRKKNNDISVSVVTSDGQIDENPD 67
+D + + N + N P + + + + +
Sbjct: 5 NDGNRDQRNFGRNQRNNNSNRYRNSRFNSRPRTRSREDDDEVHFDKTTFSKLIHVPKEDN 64
Query: 68 FQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSG--HDMIGIAQTGTG 125
+ + ++ EI + + + F +P+Q + ++S HD+I A+TGTG
Sbjct: 65 SKEVTLDSLLEE-GVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTG 123
Query: 126 KTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-----DYKGLKA 180
KTFAFL+P HL T + +++APTR+LA QIE EV KI K
Sbjct: 124 KTFAFLIPIF--QHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYAC 181
Query: 181 VCVYGGKEIEPQLEKI-REGCHILIATPGRLNDFVSRASIDL-KAVSFVVLDEADRMLDL 238
V + GG + + K+ + +I+IATPGRL D + + S + V + VLDEADR+L++
Sbjct: 182 VSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEI 241
Query: 239 GFEPQIN-------KTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAA 291
GF + + + N +T++ SAT + VQ++A M + + ++D
Sbjct: 242 GFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNE 301
Query: 292 THTV---TQKIIILDEDEKKDWLMEFFDNM----DEERDKVMVFMGRKASVSAMSSDLAC 344
Q ++I ++ + + K ++F S + S L
Sbjct: 302 PEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKN 361
Query: 345 QYRKSCS---LYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPS 401
+++K +G ++Q R ++ + I V TDV +RG+D P++ V+ PS
Sbjct: 362 EFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPS 421
Query: 402 HIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEI 437
+ Y+HR+GRT R+GK G S+ + + + E+
Sbjct: 422 ELANYIHRIGRTARSGKEGSSVLFICKDELPFVREL 457
Score = 340 bits (873), Expect = e-106
Identities = 106/433 (24%), Positives = 188/433 (43%), Gaps = 29/433 (6%)
Query: 528 SDRKERDKWAREPKIIKNVYKEDPEVANMTPEQVEAFRKKNNDISVSVVTSDGQIDENPD 587
+D + + N + N P + + + + +
Sbjct: 5 NDGNRDQRNFGRNQRNNNSNRYRNSRFNSRPRTRSREDDDEVHFDKTTFSKLIHVPKEDN 64
Query: 588 FQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSG--HDMIGIAQTGTG 645
+ + ++ EI + + + F +P+Q + ++S HD+I A+TGTG
Sbjct: 65 SKEVTLDSLLEE-GVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTG 123
Query: 646 KTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-----DYKGLKA 700
KTFAFL+P HL T + +++APTR+LA QIE EV KI K
Sbjct: 124 KTFAFLIPIF--QHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYAC 181
Query: 701 VCVYGGKELEPQLEKI-REGCHILIATPGRLNDFVSRASIDL-KAVSFVVLDEADRMLDL 758
V + GG + + K+ + +I+IATPGRL D + + S + V + VLDEADR+L++
Sbjct: 182 VSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEI 241
Query: 759 GFEPQIN-------KTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAA 811
GF + + + N +T++ SAT + VQ++A M + + ++D
Sbjct: 242 GFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNE 301
Query: 812 THTV---TQKIIILDEDEKKDWLMEFFDNM----DEERDKVMVFMGRKASVSAMSSDLAC 864
Q ++I ++ + + K ++F S + S L
Sbjct: 302 PEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKN 361
Query: 865 QYRKSCS---LYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPS 921
+++K +G ++Q R ++ + I V TDV +RG+D P++ V+ PS
Sbjct: 362 EFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPS 421
Query: 922 HIEEYVHRVGRTG 934
+ Y+HR+GRT
Sbjct: 422 ELANYIHRIGRTA 434
>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 = 352 bits (906), Expect = e-116
Identities = 106/215 (49%), Positives = 152/215 (70%)
Query: 70 IPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFA 129
IP P FK AFQ YP++L+ + + P+PIQ+QAWPI++ G D+I +AQTGTGKT +
Sbjct: 14 IPKPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLS 73
Query: 130 FLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEI 189
+L+P IH Q +R GP +LV+ PTRELA +E E +K YKGLK++C+YGG+
Sbjct: 74 YLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSYKGLKSICIYGGRNR 133
Query: 190 EPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSI 249
Q+E I +G I+IATPGRLND S++L++++++V+DEAD+MLD+ FEPQI K +
Sbjct: 134 NGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILL 193
Query: 250 YINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 284
+ P+RQTVMTSATW V+++A Y+ +P+ V V
Sbjct: 194 DVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
Score = 350 bits (901), Expect = e-115
Identities = 106/215 (49%), Positives = 152/215 (70%)
Query: 590 IPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFA 649
IP P FK AFQ YP++L+ + + P+PIQ+QAWPI++ G D+I +AQTGTGKT +
Sbjct: 14 IPKPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLS 73
Query: 650 FLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEL 709
+L+P IH Q +R GP +LV+ PTRELA +E E +K YKGLK++C+YGG+
Sbjct: 74 YLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSYKGLKSICIYGGRNR 133
Query: 710 EPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSI 769
Q+E I +G I+IATPGRLND S++L++++++V+DEAD+MLD+ FEPQI K +
Sbjct: 134 NGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILL 193
Query: 770 YINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 804
+ P+RQTVMTSATW V+++A Y+ +P+ V V
Sbjct: 194 DVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>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 = 365 bits (939), Expect = e-116
Identities = 108/379 (28%), Positives = 183/379 (48%), Gaps = 28/379 (7%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSG--HDMIGIAQTGTGKTFAFLLPALIHTHLQT 142
EI + + + F +P+Q + ++S HD+I A+TGTGKTFAFL+P HL
Sbjct: 30 KEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIF--QHLIN 87
Query: 143 TPISERAGPSVLVMAPTRELATQIEREVNKI-----DYKGLKAVCVYGGKEIEPQLEKI- 196
T + +++APTR+LA QIE EV KI K V + GG + + K+
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 197 REGCHILIATPGRLNDFVSRASIDL-KAVSFVVLDEADRMLDLGFEPQIN-------KTS 248
+ +I+IATPGRL D + + S + V + VLDEADR+L++GF + + +
Sbjct: 148 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 207
Query: 249 IYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTV---TQKIIILDED 305
N +T++ SAT + VQ++A M + + ++D Q ++I ++
Sbjct: 208 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 267
Query: 306 EKKDWLMEFFDNM----DEERDKVMVFMGRKASVSAMSSDLACQYRK---SCSLYGDLSQ 358
+ + K ++F S + S L +++K +G ++Q
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 327
Query: 359 EDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGK 418
R ++ + I V TDV +RG+D P++ V+ PS + Y+HR+GRT R+GK
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 387
Query: 419 SGESITLMTRKDWSHAHEI 437
G S+ + + + E+
Sbjct: 388 EGSSVLFICKDELPFVREL 406
Score = 339 bits (872), Expect = e-106
Identities = 102/356 (28%), Positives = 171/356 (48%), Gaps = 28/356 (7%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSG--HDMIGIAQTGTGKTFAFLLPALIHTHLQT 662
EI + + + F +P+Q + ++S HD+I A+TGTGKTFAFL+P HL
Sbjct: 30 KEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIF--QHLIN 87
Query: 663 TPISERAGPSVLVMAPTRELATQIEREVNKI-----DYKGLKAVCVYGGKELEPQLEKI- 716
T + +++APTR+LA QIE EV KI K V + GG + + K+
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 717 REGCHILIATPGRLNDFVSRASIDL-KAVSFVVLDEADRMLDLGFEPQIN-------KTS 768
+ +I+IATPGRL D + + S + V + VLDEADR+L++GF + + +
Sbjct: 148 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 207
Query: 769 IYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTV---TQKIIILDED 825
N +T++ SAT + VQ++A M + + ++D Q ++I ++
Sbjct: 208 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 267
Query: 826 EKKDWLMEFFDNM----DEERDKVMVFMGRKASVSAMSSDLACQYRK---SCSLYGDLSQ 878
+ + K ++F S + S L +++K +G ++Q
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 327
Query: 879 EDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
R ++ + I V TDV +RG+D P++ V+ PS + Y+HR+GRT
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTA 383
>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 = 353 bits (908), Expect = e-113
Identities = 117/382 (30%), Positives = 203/382 (53%), Gaps = 15/382 (3%)
Query: 58 SDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMI 117
+ + + + + + +F ++LR + F PS IQ +A ++ G D+I
Sbjct: 23 TKVEFETSEEVDV---TPTFDT-MGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVI 78
Query: 118 GIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DYK 176
+Q+GTGKT F + L Q I R L++APTRELA QI++ + + DY
Sbjct: 79 AQSQSGTGKTATFSISVL-----QCLDIQVRE-TQALILAPTRELAVQIQKGLLALGDYM 132
Query: 177 GLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRML 236
++ GG + + K+ G H++ TPGR+ D + R S+ +A+ +VLDEAD ML
Sbjct: 133 NVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEML 192
Query: 237 DLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVT 296
+ GF+ QI Y+ P Q V+ SAT ++ + K+M +P+++ V +L +
Sbjct: 193 NKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLE-GIK 251
Query: 297 QK-IIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGD 355
Q + + E+ K D L + +D + ++F K V ++ + S++GD
Sbjct: 252 QFFVAVEREEWKFDTLCDLYDT--LTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGD 309
Query: 356 LSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGR 415
+ Q++RE +++ SG +R+ ++TDV +RGLDVP ++ +INYD P++ E Y+HR+GR+GR
Sbjct: 310 MPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR 369
Query: 416 AGKSGESITLMTRKDWSHAHEI 437
G+ G +I + D +I
Sbjct: 370 YGRKGVAINFVKNDDIRILRDI 391
Score = 328 bits (843), Expect = e-104
Identities = 111/361 (30%), Positives = 194/361 (53%), Gaps = 15/361 (4%)
Query: 578 SDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMI 637
+ + + + + + +F ++LR + F PS IQ +A ++ G D+I
Sbjct: 23 TKVEFETSEEVDV---TPTFDT-MGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVI 78
Query: 638 GIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DYK 696
+Q+GTGKT F + L Q I R L++APTRELA QI++ + + DY
Sbjct: 79 AQSQSGTGKTATFSISVL-----QCLDIQVRE-TQALILAPTRELAVQIQKGLLALGDYM 132
Query: 697 GLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRML 756
++ GG + + K+ G H++ TPGR+ D + R S+ +A+ +VLDEAD ML
Sbjct: 133 NVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEML 192
Query: 757 DLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVT 816
+ GF+ QI Y+ P Q V+ SAT ++ + K+M +P+++ V +L +
Sbjct: 193 NKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLE-GIK 251
Query: 817 QK-IIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGD 875
Q + + E+ K D L + +D + ++F K V ++ + S++GD
Sbjct: 252 QFFVAVEREEWKFDTLCDLYDT--LTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGD 309
Query: 876 LSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGE 935
+ Q++RE +++ SG +R+ ++TDV +RGLDVP ++ +INYD P++ E Y+HR+GR+G
Sbjct: 310 MPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR 369
Query: 936 F 936
+
Sbjct: 370 Y 370
>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 = 351 bits (903), Expect = e-113
Identities = 125/382 (32%), Positives = 200/382 (52%), Gaps = 17/382 (4%)
Query: 58 SDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMI 117
+ QI N D V F + +LR + F PS IQ +A ++ GHD++
Sbjct: 8 EESQIQTNYD----KVVYKFDD-MELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVL 62
Query: 118 GIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DYK 176
AQ+GTGKT F + AL Q S +A P L++APTRELA QI++ V + +
Sbjct: 63 AQAQSGTGKTGTFSIAAL-----QRIDTSVKA-PQALMLAPTRELALQIQKVVMALAFHM 116
Query: 177 GLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRML 236
+K GG E +R I++ TPGR+ D + R + +LDEAD ML
Sbjct: 117 DIKVHACIGGTSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEML 175
Query: 237 DLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVT 296
GF+ QI + + P Q V+ SAT DV V K+M NPV++ V +L +
Sbjct: 176 SSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLE-GIK 234
Query: 297 QKIIILDEDEKK-DWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGD 355
Q + ++E+E K + L + +D+ + ++F + V +++ L ++Y D
Sbjct: 235 QFYVNVEEEEYKYECLTDLYDS--ISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSD 292
Query: 356 LSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGR 415
L Q++R+ +++ SG +RI ++TD+ +RG+DV ++ VINYD P++ E Y+HR+GR GR
Sbjct: 293 LPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGR 352
Query: 416 AGKSGESITLMTRKDWSHAHEI 437
G+ G +I +T +D E+
Sbjct: 353 FGRKGVAINFVTNEDVGAMREL 374
Score = 326 bits (837), Expect = e-103
Identities = 119/361 (32%), Positives = 189/361 (52%), Gaps = 17/361 (4%)
Query: 578 SDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMI 637
+ QI N D V F + +LR + F PS IQ +A ++ GHD++
Sbjct: 8 EESQIQTNYD----KVVYKFDD-MELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVL 62
Query: 638 GIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DYK 696
AQ+GTGKT F + AL Q S +A P L++APTRELA QI++ V + +
Sbjct: 63 AQAQSGTGKTGTFSIAAL-----QRIDTSVKA-PQALMLAPTRELALQIQKVVMALAFHM 116
Query: 697 GLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRML 756
+K GG E +R I++ TPGR+ D + R + +LDEAD ML
Sbjct: 117 DIKVHACIGGTSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEML 175
Query: 757 DLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVT 816
GF+ QI + + P Q V+ SAT DV V K+M NPV++ V +L +
Sbjct: 176 SSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLE-GIK 234
Query: 817 QKIIILDEDEKK-DWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGD 875
Q + ++E+E K + L + +D+ + ++F + V +++ L ++Y D
Sbjct: 235 QFYVNVEEEEYKYECLTDLYDS--ISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSD 292
Query: 876 LSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGE 935
L Q++R+ +++ SG +RI ++TD+ +RG+DV ++ VINYD P++ E Y+HR+GR G
Sbjct: 293 LPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGR 352
Query: 936 F 936
F
Sbjct: 353 F 353
>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 = 349 bits (897), Expect = e-112
Identities = 126/394 (31%), Positives = 211/394 (53%), Gaps = 17/394 (4%)
Query: 47 KNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQA 106
++ D + +G I+ N + V SF +LR + F PS IQ +A
Sbjct: 16 RSRDNGPDGMEPEGVIESNWN----EIVDSFDD-MNLSESLLRGIYAYGFEKPSAIQQRA 70
Query: 107 WPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQI 166
+ G+D+I AQ+GTGKT F + L Q + +A LV+APTRELA QI
Sbjct: 71 ILPCIKGYDVIAQAQSGTGKTATFAISIL-----QQIELDLKA-TQALVLAPTRELAQQI 124
Query: 167 EREVNKI-DYKGLKAVCVYGGKEIEPQLEKIR-EGCHILIATPGRLNDFVSRASIDLKAV 224
++ V + DY G GG + +++K++ E HI++ TPGR+ D ++R + K +
Sbjct: 125 QKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYI 184
Query: 225 SFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 284
VLDEAD ML GF+ QI +N N Q V+ SAT DV V KK+M +P+++ V
Sbjct: 185 KMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILV 244
Query: 285 GSLDLAATHTVTQK-IIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLA 343
+L + Q I + E+ K D L + ++ + ++F+ + V ++ +
Sbjct: 245 KKEELTLE-GIRQFYINVEREEWKLDTLCDLYET--LTITQAVIFINTRRKVDWLTEKMH 301
Query: 344 CQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHI 403
+ +++GD+ Q++R++ + + SG +R+ + TD+ +RG+DV ++ VINYD P++
Sbjct: 302 ARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNR 361
Query: 404 EEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEI 437
E Y+HR+GR GR G+ G +I ++T +D +I
Sbjct: 362 ENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDI 395
Score = 324 bits (833), Expect = e-102
Identities = 120/373 (32%), Positives = 199/373 (53%), Gaps = 17/373 (4%)
Query: 567 KNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQA 626
++ D + +G I+ N + V SF +LR + F PS IQ +A
Sbjct: 16 RSRDNGPDGMEPEGVIESNWN----EIVDSFDD-MNLSESLLRGIYAYGFEKPSAIQQRA 70
Query: 627 WPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQI 686
+ G+D+I AQ+GTGKT F + L Q + +A LV+APTRELA QI
Sbjct: 71 ILPCIKGYDVIAQAQSGTGKTATFAISIL-----QQIELDLKA-TQALVLAPTRELAQQI 124
Query: 687 EREVNKI-DYKGLKAVCVYGGKELEPQLEKIR-EGCHILIATPGRLNDFVSRASIDLKAV 744
++ V + DY G GG + +++K++ E HI++ TPGR+ D ++R + K +
Sbjct: 125 QKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYI 184
Query: 745 SFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 804
VLDEAD ML GF+ QI +N N Q V+ SAT DV V KK+M +P+++ V
Sbjct: 185 KMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILV 244
Query: 805 GSLDLAATHTVTQK-IIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLA 863
+L + Q I + E+ K D L + ++ + ++F+ + V ++ +
Sbjct: 245 KKEELTLE-GIRQFYINVEREEWKLDTLCDLYET--LTITQAVIFINTRRKVDWLTEKMH 301
Query: 864 CQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHI 923
+ +++GD+ Q++R++ + + SG +R+ + TD+ +RG+DV ++ VINYD P++
Sbjct: 302 ARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNR 361
Query: 924 EEYVHRVGRTGEF 936
E Y+HR+GR G F
Sbjct: 362 ENYIHRIGRGGRF 374
>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 = 347 bits (893), Expect = e-111
Identities = 107/361 (29%), Positives = 183/361 (50%), Gaps = 15/361 (4%)
Query: 75 TSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPA 134
+ F+ F PE+LR + + F PS +Q + P + G D++ A++G GKT F+L
Sbjct: 8 SGFR-DFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLAT 66
Query: 135 LIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DY-KGLKAVCVYGGKEIEPQ 192
L Q SVLVM TRELA QI +E + Y +K +GG I+
Sbjct: 67 L-----QQLEPVTGQ-VSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKD 120
Query: 193 LEKIREGC-HILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLD-LGFEPQINKTSIY 250
E +++ C HI++ TPGR+ S++LK + +LDE D+ML+ L + +
Sbjct: 121 EEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRM 180
Query: 251 INPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDW 310
+Q +M SAT +K+++ V +K+M +P+++ V H + Q + L ++EK
Sbjct: 181 TPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRK 240
Query: 311 LMEFFDNMDEERDKVMVFMGRKASVSAMSSDL-ACQYRKSCSLYGDLSQEDREIALEDIT 369
L + D E ++V++F+ A++ L + + +++ + QE+R +
Sbjct: 241 LFDLLDV--LEFNQVVIFVKSVQRCIALAQLLVEQNFP-AIAIHRGMPQEERLSRYQQFK 297
Query: 370 SGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRK 429
RI VAT++ RG+D+ + NYD P + Y+HRV R GR G G +IT ++ +
Sbjct: 298 DFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDE 357
Query: 430 D 430
+
Sbjct: 358 N 358
Score = 326 bits (838), Expect = e-103
Identities = 102/347 (29%), Positives = 174/347 (50%), Gaps = 15/347 (4%)
Query: 595 TSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPA 654
+ F+ F PE+LR + + F PS +Q + P + G D++ A++G GKT F+L
Sbjct: 8 SGFR-DFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLAT 66
Query: 655 LIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DY-KGLKAVCVYGGKELEPQ 712
L Q SVLVM TRELA QI +E + Y +K +GG ++
Sbjct: 67 L-----QQLEPVTGQ-VSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKD 120
Query: 713 LEKIREGC-HILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLD-LGFEPQINKTSIY 770
E +++ C HI++ TPGR+ S++LK + +LDE D+ML+ L + +
Sbjct: 121 EEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRM 180
Query: 771 INPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDW 830
+Q +M SAT +K+++ V +K+M +P+++ V H + Q + L ++EK
Sbjct: 181 TPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRK 240
Query: 831 LMEFFDNMDEERDKVMVFMGRKASVSAMSSDL-ACQYRKSCSLYGDLSQEDREIALEDIT 889
L + D E ++V++F+ A++ L + + +++ + QE+R +
Sbjct: 241 LFDLLDV--LEFNQVVIFVKSVQRCIALAQLLVEQNFP-AIAIHRGMPQEERLSRYQQFK 297
Query: 890 SGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGEF 936
RI VAT++ RG+D+ + NYD P + Y+HRV R G F
Sbjct: 298 DFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRF 344
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 335 bits (861), Expect = e-105
Identities = 101/347 (29%), Positives = 174/347 (50%), Gaps = 23/347 (6%)
Query: 102 IQAQAWPILMSG--HDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPT 159
IQ +A P+L+S +MIG +Q+GTGKT AF L L S P + +AP+
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTML-----SRVDASVPK-PQAICLAPS 198
Query: 160 RELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASI 219
RELA QI V ++ K + +G K+ + + I+I TPG + D + R +
Sbjct: 199 RELARQIMDVVTEMG-KYTEVKTAFGIKDS--VPKGAKIDAQIVIGTPGTVMDLMKRRQL 255
Query: 220 DLKAVSFVVLDEADRMLD-LGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVN 278
D + + VLDEAD MLD G Q + + N Q V+ SAT+++ V++ A+++ N
Sbjct: 256 DARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPN 315
Query: 279 PVKVNVGSLDLAATHTVTQK-IIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSA 337
++ + + +L+ + Q + E+ K + L+E + + + ++F +K +
Sbjct: 316 ANEIRLKTEELSVE-GIKQLYMDCQSEEHKYNVLVELYGLLTI--GQSIIFCKKKDTAEE 372
Query: 338 MSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINY 397
++ + L G+L R+ ++ G +++ V T+V +RG+DV + V+NY
Sbjct: 373 IARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNY 432
Query: 398 DFPSH------IEEYVHRVGRTGRAGKSGESITLMT-RKDWSHAHEI 437
D P + Y+HR+GRTGR G+ G SI + +K W + I
Sbjct: 433 DMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDKKSWEEMNAI 479
Score = 309 bits (795), Expect = 1e-95
Identities = 94/325 (28%), Positives = 163/325 (50%), Gaps = 22/325 (6%)
Query: 622 IQAQAWPILMSG--HDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPT 679
IQ +A P+L+S +MIG +Q+GTGKT AF L L S P + +AP+
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTML-----SRVDASVPK-PQAICLAPS 198
Query: 680 RELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASI 739
RELA QI V ++ K + +G K+ + + I+I TPG + D + R +
Sbjct: 199 RELARQIMDVVTEMG-KYTEVKTAFGIKD--SVPKGAKIDAQIVIGTPGTVMDLMKRRQL 255
Query: 740 DLKAVSFVVLDEADRMLD-LGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVN 798
D + + VLDEAD MLD G Q + + N Q V+ SAT+++ V++ A+++ N
Sbjct: 256 DARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPN 315
Query: 799 PVKVNVGSLDLAATHTVTQK-IIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSA 857
++ + + +L+ + Q + E+ K + L+E + + + ++F +K +
Sbjct: 316 ANEIRLKTEELSVE-GIKQLYMDCQSEEHKYNVLVELYGLLTI--GQSIIFCKKKDTAEE 372
Query: 858 MSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINY 917
++ + L G+L R+ ++ G +++ V T+V +RG+DV + V+NY
Sbjct: 373 IARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNY 432
Query: 918 DFPSH------IEEYVHRVGRTGEF 936
D P + Y+HR+GRTG F
Sbjct: 433 DMPLDQAGRPDPQTYLHRIGRTGRF 457
>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase,
mRNA-export, nuclear pore, hydrolase-RNA complex; HET:
ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A*
3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A
3pev_A* 3peu_A*
Length = 395
Score = 324 bits (832), Expect = e-102
Identities = 102/366 (27%), Positives = 185/366 (50%), Gaps = 27/366 (7%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSG--HDMIGIAQTGTGKTFAFLLPALIHTHLQT 142
PE+L+ + + F PS IQ +A P+L+ +MI +Q+GTGKT AF L L
Sbjct: 14 PELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML-----TR 68
Query: 143 TPISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLKAV-CVYGGKEIEPQLEKIREGC 200
+ + P + +AP+RELA Q V ++ + + + V E Q+
Sbjct: 69 VNPEDAS-PQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQI-----NA 122
Query: 201 HILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLD-LGFEPQINKTSIYINPNRQTVM 259
+++ TPG + D + R + L+ + VLDEAD MLD G Q + ++ + Q V+
Sbjct: 123 QVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVL 182
Query: 260 TSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQK-IIILDEDEKKDWLMEFFDNM 318
SAT+ V++ AKK + N + + + ++ + Q + +E +K D L E + M
Sbjct: 183 FSATFADAVRQYAKKIVPNANTLELQTNEVNVD-AIKQLYMDCKNEADKFDVLTELYGLM 241
Query: 319 DEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVA 378
++F+ K + + + L + + L+GDL ++R+ ++D G +++ +
Sbjct: 242 TI--GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLIT 299
Query: 379 TDVASRGLDVPDLTHVINYDFPSHI------EEYVHRVGRTGRAGKSGESITLMT-RKDW 431
T+V +RG+D+P ++ V+NYD P+ Y+HR+GRTGR G+ G +I+ + + +
Sbjct: 300 TNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSF 359
Query: 432 SHAHEI 437
+ I
Sbjct: 360 NILSAI 365
Score = 300 bits (770), Expect = 2e-93
Identities = 98/344 (28%), Positives = 174/344 (50%), Gaps = 26/344 (7%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSG--HDMIGIAQTGTGKTFAFLLPALIHTHLQT 662
PE+L+ + + F PS IQ +A P+L+ +MI +Q+GTGKT AF L L
Sbjct: 14 PELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML-----TR 68
Query: 663 TPISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLKAV-CVYGGKELEPQLEKIREGC 720
+ + P + +AP+RELA Q V ++ + + + V E Q+
Sbjct: 69 VNPEDAS-PQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQI-----NA 122
Query: 721 HILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLD-LGFEPQINKTSIYINPNRQTVM 779
+++ TPG + D + R + L+ + VLDEAD MLD G Q + ++ + Q V+
Sbjct: 123 QVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVL 182
Query: 780 TSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQK-IIILDEDEKKDWLMEFFDNM 838
SAT+ V++ AKK + N + + + ++ + Q + +E +K D L E + M
Sbjct: 183 FSATFADAVRQYAKKIVPNANTLELQTNEVNVD-AIKQLYMDCKNEADKFDVLTELYGLM 241
Query: 839 DEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVA 898
++F+ K + + + L + + L+GDL ++R+ ++D G +++ +
Sbjct: 242 TI--GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLIT 299
Query: 899 TDVASRGLDVPDLTHVINYDFPSHI------EEYVHRVGRTGEF 936
T+V +RG+D+P ++ V+NYD P+ Y+HR+GRTG F
Sbjct: 300 TNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRF 343
>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 = 318 bits (817), Expect = e-102
Identities = 100/259 (38%), Positives = 149/259 (57%), Gaps = 18/259 (6%)
Query: 49 NDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWP 108
+ I VSV PD+ N + +F + P I + S+ P+PIQ A P
Sbjct: 5 DSIPVSV--------TGPDYSATNVIENFDELKLD-PTIRNNILLASYQRPTPIQKNAIP 55
Query: 109 ILMSGHDMIGIAQTGTGKTFAFLLPALIH---THLQTTPISERAGPSVLVMAPTRELATQ 165
++ D++ AQTG+GKT AFL+P + H L S+ A P L++APTRELA Q
Sbjct: 56 AILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQ 115
Query: 166 IEREVNKIDYK-GLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAV 224
I E K L++ VYGG + Q+ +++ GCH+L+ATPGRL DF+ + I L+
Sbjct: 116 ILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFC 175
Query: 225 SFVVLDEADRMLDLGFEPQINKTSIYINP----NRQTVMTSATWNKDVQRVAKKYMVNPV 280
++VLDEADRMLD+GFEPQI K N NRQT+M SAT+ K++Q++A ++ N +
Sbjct: 176 KYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYI 235
Query: 281 KVNVGSLDLAATHTVTQKI 299
+ VG + + + ++ Q+I
Sbjct: 236 FMTVGRVG-STSDSIKQEI 253
Score = 316 bits (811), Expect = e-101
Identities = 100/259 (38%), Positives = 149/259 (57%), Gaps = 18/259 (6%)
Query: 569 NDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWP 628
+ I VSV PD+ N + +F + P I + S+ P+PIQ A P
Sbjct: 5 DSIPVSV--------TGPDYSATNVIENFDELKLD-PTIRNNILLASYQRPTPIQKNAIP 55
Query: 629 ILMSGHDMIGIAQTGTGKTFAFLLPALIH---THLQTTPISERAGPSVLVMAPTRELATQ 685
++ D++ AQTG+GKT AFL+P + H L S+ A P L++APTRELA Q
Sbjct: 56 AILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQ 115
Query: 686 IEREVNKIDYK-GLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAV 744
I E K L++ VYGG + Q+ +++ GCH+L+ATPGRL DF+ + I L+
Sbjct: 116 ILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFC 175
Query: 745 SFVVLDEADRMLDLGFEPQINKTSIYINP----NRQTVMTSATWNKDVQRVAKKYMVNPV 800
++VLDEADRMLD+GFEPQI K N NRQT+M SAT+ K++Q++A ++ N +
Sbjct: 176 KYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYI 235
Query: 801 KVNVGSLDLAATHTVTQKI 819
+ VG + + + ++ Q+I
Sbjct: 236 FMTVGRVG-STSDSIKQEI 253
>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 = 317 bits (815), Expect = e-100
Identities = 101/367 (27%), Positives = 182/367 (49%), Gaps = 26/367 (7%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSG--HDMIGIAQTGTGKTFAFLLPALIHTHLQT 142
P++L+ + + F PS IQ A P++++ ++I +Q+GTGKT AF+L L
Sbjct: 34 PQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML-----SQ 88
Query: 143 TPISERAGPSVLVMAPTRELATQIEREVNKI-DY-KGLKAVCVYGGKEIEPQLEKIREGC 200
+ + P L ++PT ELA Q + + ++ + LK G ++E +
Sbjct: 89 VEPANKY-PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQ---KISE 144
Query: 201 HILIATPGRLNDFVSRA-SIDLKAVSFVVLDEADRMLDL-GFEPQINKTSIYINPNRQTV 258
I+I TPG + D+ S+ ID K + VLDEAD M+ G + Q + + N Q +
Sbjct: 145 QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQML 204
Query: 259 MTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQK-IIILDEDEKKDWLMEFFDN 317
+ SAT+ V + A+K + +P + + + T+ Q ++ DEK L +
Sbjct: 205 LFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD-TIKQYYVLCSSRDEKFQALCNLYGA 263
Query: 318 MDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICV 377
+ + M+F + + S ++++L+ + + L G++ E R +E G ++ V
Sbjct: 264 ITI--AQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLV 321
Query: 378 ATDVASRGLDVPDLTHVINYDFP------SHIEEYVHRVGRTGRAGKSGESITLMT-RKD 430
T+V +RG+DV ++ VIN+D P E Y+HR+GRTGR GK G ++ ++ +
Sbjct: 322 TTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHS 381
Query: 431 WSHAHEI 437
+ + I
Sbjct: 382 MNILNRI 388
Score = 294 bits (754), Expect = 5e-91
Identities = 98/345 (28%), Positives = 171/345 (49%), Gaps = 25/345 (7%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSG--HDMIGIAQTGTGKTFAFLLPALIHTHLQT 662
P++L+ + + F PS IQ A P++++ ++I +Q+GTGKT AF+L L
Sbjct: 34 PQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML-----SQ 88
Query: 663 TPISERAGPSVLVMAPTRELATQIEREVNKI-DY-KGLKAVCVYGGKELEPQLEKIREGC 720
+ + P L ++PT ELA Q + + ++ + LK G +LE +
Sbjct: 89 VEPANKY-PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQ---KISE 144
Query: 721 HILIATPGRLNDFVSRA-SIDLKAVSFVVLDEADRMLDL-GFEPQINKTSIYINPNRQTV 778
I+I TPG + D+ S+ ID K + VLDEAD M+ G + Q + + N Q +
Sbjct: 145 QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQML 204
Query: 779 MTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQK-IIILDEDEKKDWLMEFFDN 837
+ SAT+ V + A+K + +P + + + T+ Q ++ DEK L +
Sbjct: 205 LFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD-TIKQYYVLCSSRDEKFQALCNLYGA 263
Query: 838 MDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICV 897
+ + M+F + + S ++++L+ + + L G++ E R +E G ++ V
Sbjct: 264 ITI--AQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLV 321
Query: 898 ATDVASRGLDVPDLTHVINYDFP------SHIEEYVHRVGRTGEF 936
T+V +RG+DV ++ VIN+D P E Y+HR+GRTG F
Sbjct: 322 TTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRF 366
>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 = 316 bits (813), Expect = 1e-98
Identities = 115/454 (25%), Positives = 212/454 (46%), Gaps = 34/454 (7%)
Query: 2 EELMALSDRKERDKWAREPKIIKNVYKEDP----EVANMTPEQVEAFRKKNNDISVSVVT 57
E L L ++E+ K ++K + E + + + ++N + +
Sbjct: 18 ESLSNLHLKEEKIKPDTNGAVVKTNANAEKTDEEEKEDRAAQSLLNKLIRSNLVDNTNQV 77
Query: 58 SDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSG--HD 115
Q D N V SF++ + P++L+ + + F PS IQ A P++++ +
Sbjct: 78 EVLQRDPNSPLY---SVKSFEE-LRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQN 133
Query: 116 MIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-D 174
+I +Q+GTGKT AF+L L + + P L ++PT ELA Q + + ++
Sbjct: 134 LIAQSQSGTGKTAAFVLAML-----SQVEPANKY-PQCLCLSPTYELALQTGKVIEQMGK 187
Query: 175 Y-KGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRA-SIDLKAVSFVVLDEA 232
+ LK G ++E + I+I TPG + D+ S+ ID K + VLDEA
Sbjct: 188 FYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEA 244
Query: 233 DRMLDL-GFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAA 291
D M+ G + Q + + N Q ++ SAT+ V + A+K + +P + + +
Sbjct: 245 DVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL 304
Query: 292 THTVTQK-IIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSC 350
T+ Q ++ DEK L + + + M+F + + S ++++L+ + +
Sbjct: 305 D-TIKQYYVLCSSRDEKFQALCNLYGAITI--AQAMIFCHTRKTASWLAAELSKEGHQVA 361
Query: 351 SLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFP------SHIE 404
L G++ E R +E G ++ V T+V +RG+DV ++ VIN+D P E
Sbjct: 362 LLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNE 421
Query: 405 EYVHRVGRTGRAGKSGESITLMT-RKDWSHAHEI 437
Y+HR+GRTGR GK G ++ ++ + + + I
Sbjct: 422 TYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRI 455
Score = 296 bits (761), Expect = 4e-91
Identities = 113/438 (25%), Positives = 203/438 (46%), Gaps = 33/438 (7%)
Query: 516 DPEPTMEELMALSDRKERDKWAREPKIIKNVYKEDP----EVANMTPEQVEAFRKKNNDI 571
+ E E L L ++E+ K ++K + E + + + ++N +
Sbjct: 12 EQEAAAESLSNLHLKEEKIKPDTNGAVVKTNANAEKTDEEEKEDRAAQSLLNKLIRSNLV 71
Query: 572 SVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILM 631
+ Q D N V SF++ + P++L+ + + F PS IQ A P+++
Sbjct: 72 DNTNQVEVLQRDPNSPLY---SVKSFEE-LRLKPQLLQGVYAMGFNRPSKIQENALPLML 127
Query: 632 SG--HDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIERE 689
+ ++I +Q+GTGKT AF+L L + + P L ++PT ELA Q +
Sbjct: 128 AEPPQNLIAQSQSGTGKTAAFVLAML-----SQVEPANKY-PQCLCLSPTYELALQTGKV 181
Query: 690 VNKI-DY-KGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRA-SIDLKAVSF 746
+ ++ + LK G +LE + I+I TPG + D+ S+ ID K +
Sbjct: 182 IEQMGKFYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKV 238
Query: 747 VVLDEADRMLDL-GFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVG 805
VLDEAD M+ G + Q + + N Q ++ SAT+ V + A+K + +P + +
Sbjct: 239 FVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLK 298
Query: 806 SLDLAATHTVTQK-IIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLAC 864
+ T+ Q ++ DEK L + + + M+F + + S ++++L+
Sbjct: 299 REEETLD-TIKQYYVLCSSRDEKFQALCNLYGAITI--AQAMIFCHTRKTASWLAAELSK 355
Query: 865 QYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFP---- 920
+ + L G++ E R +E G ++ V T+V +RG+DV ++ VIN+D P
Sbjct: 356 EGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKD 415
Query: 921 --SHIEEYVHRVGRTGEF 936
E Y+HR+GRTG F
Sbjct: 416 GNPDNETYLHRIGRTGRF 433
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 300 bits (770), Expect = 2e-93
Identities = 67/384 (17%), Positives = 126/384 (32%), Gaps = 57/384 (14%)
Query: 81 FQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHL 140
+ Y + + + Q ++ G +A TG GKT ++ AL
Sbjct: 4 WNEYEDFRSFFKKKFGKDLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLA-- 61
Query: 141 QTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIR--- 197
R G ++ PT L Q + K+ + +K Y + E + + +
Sbjct: 62 -------RKGKKSALVFPTVTLVKQTLERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFE 114
Query: 198 -EGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQ 256
+ HIL+ + ++ +R + K FV +D+ D +L + I
Sbjct: 115 EDDYHILVFSTQFVSK--NREKLSQKRFDFVFVDDVDAVLKASRNIDTLLMMVGIPEEII 172
Query: 257 TVMTSATWNKDVQRVAKK---------------------YMVNPVKVNVGSLDLAATHTV 295
S + K + + VG L A +
Sbjct: 173 RKAFSTIKQGKIYERPKNLKPGILVVSSATAKPRGIRPLLFRDLLNFTVGRLVSVAR-NI 231
Query: 296 TQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGD 355
T I EK L+E F D +++F + + L K
Sbjct: 232 THVRISSRSKEKLVELLEIFR------DGILIFAQTEEEGKELYEYL-----KRFKFNVG 280
Query: 356 LSQEDREIALEDITSGYARICVATDV----ASRGLDVPD-LTHVINYDFPSHIE--EYVH 408
+ + E ED G I + +RG+D+P+ + +VI + PS + Y+
Sbjct: 281 ETWSEFEKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQ 340
Query: 409 RVGRTGRAGKSG--ESITLMTRKD 430
GR+ R + ++++ +D
Sbjct: 341 ASGRSSRILNGVLVKGVSVIFEED 364
Score = 290 bits (745), Expect = 1e-89
Identities = 67/368 (18%), Positives = 117/368 (31%), Gaps = 55/368 (14%)
Query: 601 FQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHL 660
+ Y + + + Q ++ G +A TG GKT ++ AL
Sbjct: 4 WNEYEDFRSFFKKKFGKDLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLA-- 61
Query: 661 QTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGG---KELEPQLEKIR 717
R G ++ PT L Q + K+ + +K Y +E E +
Sbjct: 62 -------RKGKKSALVFPTVTLVKQTLERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFE 114
Query: 718 EG-CHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQ 776
E HIL+ + ++ +R + K FV +D+ D +L + I
Sbjct: 115 EDDYHILVFSTQFVSK--NREKLSQKRFDFVFVDDVDAVLKASRNIDTLLMMVGIPEEII 172
Query: 777 TVMTSATWNKDVQRVAKK---------------------YMVNPVKVNVGSLDLAATHTV 815
S + K + + VG L A +
Sbjct: 173 RKAFSTIKQGKIYERPKNLKPGILVVSSATAKPRGIRPLLFRDLLNFTVGRLVSVAR-NI 231
Query: 816 TQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGD 875
T I EK L+E F D +++F + + L K
Sbjct: 232 THVRISSRSKEKLVELLEIFR------DGILIFAQTEEEGKELYEYL-----KRFKFNVG 280
Query: 876 LSQEDREIALEDITSGYARICVATDV----ASRGLDVPD-LTHVINYDFPSHIE--EYVH 928
+ + E ED G I + +RG+D+P+ + +VI + PS + Y+
Sbjct: 281 ETWSEFEKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQ 340
Query: 929 RVGRTGEF 936
GR+
Sbjct: 341 ASGRSSRI 348
>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 = 291 bits (748), Expect = 2e-92
Identities = 74/259 (28%), Positives = 133/259 (51%), Gaps = 29/259 (11%)
Query: 39 EQVEAFRKKNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHY---PEILRQLENLS 95
++ R K+ + V +D +P+P+ +F+Q Q Y +L+ + +
Sbjct: 2 MKINFLRNKHK---IHVQGTD----------LPDPIATFQQLDQEYKINSRLLQNILDAG 48
Query: 96 FTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLV 155
F P+PIQ QA P+++ G +++ A TG+GKT AF +P L+ L+ G L+
Sbjct: 49 FQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILM--QLKQPA---NKGFRALI 103
Query: 156 MAPTRELATQIEREVNKI-DYKGLKAVCVYGGKEI-EPQLEKIREGCHILIATPGRLNDF 213
++PTRELA+QI RE+ KI + G + ++ + K + IL+ TP RL
Sbjct: 104 ISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYL 163
Query: 214 VSR--ASIDLKAVSFVVLDEADRMLD---LGFEPQINKTSIYI-NPNRQTVMTSATWNKD 267
+ + IDL +V ++V+DE+D++ + GF Q+ + + + M SAT+ D
Sbjct: 164 LKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYD 223
Query: 268 VQRVAKKYMVNPVKVNVGS 286
V++ K + N + V++G+
Sbjct: 224 VEQWCKLNLDNVISVSIGA 242
Score = 290 bits (744), Expect = 8e-92
Identities = 74/259 (28%), Positives = 133/259 (51%), Gaps = 29/259 (11%)
Query: 559 EQVEAFRKKNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHY---PEILRQLENLS 615
++ R K+ + V +D +P+P+ +F+Q Q Y +L+ + +
Sbjct: 2 MKINFLRNKHK---IHVQGTD----------LPDPIATFQQLDQEYKINSRLLQNILDAG 48
Query: 616 FTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLV 675
F P+PIQ QA P+++ G +++ A TG+GKT AF +P L+ L+ G L+
Sbjct: 49 FQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILM--QLKQPA---NKGFRALI 103
Query: 676 MAPTRELATQIEREVNKI-DYKGLKAVCVYGGKE-LEPQLEKIREGCHILIATPGRLNDF 733
++PTRELA+QI RE+ KI + G + ++ + K + IL+ TP RL
Sbjct: 104 ISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYL 163
Query: 734 VSR--ASIDLKAVSFVVLDEADRMLD---LGFEPQINKTSIYI-NPNRQTVMTSATWNKD 787
+ + IDL +V ++V+DE+D++ + GF Q+ + + + M SAT+ D
Sbjct: 164 LKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYD 223
Query: 788 VQRVAKKYMVNPVKVNVGS 806
V++ K + N + V++G+
Sbjct: 224 VEQWCKLNLDNVISVSIGA 242
>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 = 243 bits (622), Expect = 8e-75
Identities = 88/200 (44%), Positives = 116/200 (58%), Gaps = 4/200 (2%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 144
PEIL L TTP+PIQA A P+ + G D+IG A+TGTGKT AF LP L +
Sbjct: 10 PEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIA--ERLAPSQ 67
Query: 145 ISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHILI 204
R P LV+ PTRELA Q+ E+ + LK V VYGG Q E + G ++
Sbjct: 68 ERGRK-PRALVLTPTRELALQVASELTAVA-PHLKVVAVYGGTGYGKQKEALLRGADAVV 125
Query: 205 ATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATW 264
ATPGR D++ + +DL V VLDEAD ML +GFE ++ P+RQT++ SAT
Sbjct: 126 ATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSATL 185
Query: 265 NKDVQRVAKKYMVNPVKVNV 284
+R+A++YM NPV +NV
Sbjct: 186 PSWAKRLAERYMKNPVLINV 205
Score = 240 bits (615), Expect = 7e-74
Identities = 88/200 (44%), Positives = 116/200 (58%), Gaps = 4/200 (2%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 664
PEIL L TTP+PIQA A P+ + G D+IG A+TGTGKT AF LP L +
Sbjct: 10 PEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIA--ERLAPSQ 67
Query: 665 ISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILI 724
R P LV+ PTRELA Q+ E+ + LK V VYGG Q E + G ++
Sbjct: 68 ERGRK-PRALVLTPTRELALQVASELTAVA-PHLKVVAVYGGTGYGKQKEALLRGADAVV 125
Query: 725 ATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATW 784
ATPGR D++ + +DL V VLDEAD ML +GFE ++ P+RQT++ SAT
Sbjct: 126 ATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSATL 185
Query: 785 NKDVQRVAKKYMVNPVKVNV 804
+R+A++YM NPV +NV
Sbjct: 186 PSWAKRLAERYMKNPVLINV 205
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 240 bits (616), Expect = 7e-74
Identities = 81/217 (37%), Positives = 123/217 (56%), Gaps = 12/217 (5%)
Query: 75 TSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPA 134
T F + F P I+ ++ L F P+ IQ + P + G M+G +QTGTGKT A+LLP
Sbjct: 4 TQFTR-FPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLLPI 62
Query: 135 LIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-----DYKGLKAVCVYGGKEI 189
+ ++ ERA ++ APTRELATQI E KI + + A C+ GG +
Sbjct: 63 M--EKIKP----ERAEVQAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDK 116
Query: 190 EPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSI 249
+ LEK+ HI+I TPGR+NDF+ ++D+ +V+DEAD MLD+GF +++ +
Sbjct: 117 QKALEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLMLDMGFITDVDQIAA 176
Query: 250 YINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGS 286
+ + Q ++ SAT + ++ KKYM NP V+V
Sbjct: 177 RMPKDLQMLVFSATIPEKLKPFLKKYMENPTFVHVLE 213
Score = 238 bits (610), Expect = 6e-73
Identities = 81/217 (37%), Positives = 123/217 (56%), Gaps = 12/217 (5%)
Query: 595 TSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPA 654
T F + F P I+ ++ L F P+ IQ + P + G M+G +QTGTGKT A+LLP
Sbjct: 4 TQFTR-FPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLLPI 62
Query: 655 LIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-----DYKGLKAVCVYGGKEL 709
+ ++ ERA ++ APTRELATQI E KI + + A C+ GG +
Sbjct: 63 M--EKIKP----ERAEVQAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDK 116
Query: 710 EPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSI 769
+ LEK+ HI+I TPGR+NDF+ ++D+ +V+DEAD MLD+GF +++ +
Sbjct: 117 QKALEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLMLDMGFITDVDQIAA 176
Query: 770 YINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGS 806
+ + Q ++ SAT + ++ KKYM NP V+V
Sbjct: 177 RMPKDLQMLVFSATIPEKLKPFLKKYMENPTFVHVLE 213
>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 = 238 bits (610), Expect = 1e-72
Identities = 81/243 (33%), Positives = 127/243 (52%), Gaps = 9/243 (3%)
Query: 46 KKNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQ 105
N S+ D + + +FK + + L +T P+ IQ +
Sbjct: 14 GTENLYFQSMEEHDSPTEASQPIVEEEETKTFKD-LGVTDVLCEACDQLGWTKPTKIQIE 72
Query: 106 AWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQ 165
A P+ + G D+IG+A+TG+GKT AF LP L L TP LV+ PTRELA Q
Sbjct: 73 AIPLALQGRDIIGLAETGSGKTGAFALPIL--NALLETP----QRLFALVLTPTRELAFQ 126
Query: 166 IEREVNKI-DYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLND-FVSRASIDLKA 223
I + + G+++ + GG + Q + + HI+IATPGRL D + +L+A
Sbjct: 127 ISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRA 186
Query: 224 VSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVN 283
+ ++V+DEADR+L++ FE +++K I +R+T + SAT K VQ++ + + NPVK
Sbjct: 187 LKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCA 246
Query: 284 VGS 286
V S
Sbjct: 247 VSS 249
Score = 237 bits (607), Expect = 4e-72
Identities = 81/243 (33%), Positives = 127/243 (52%), Gaps = 9/243 (3%)
Query: 566 KKNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQ 625
N S+ D + + +FK + + L +T P+ IQ +
Sbjct: 14 GTENLYFQSMEEHDSPTEASQPIVEEEETKTFKD-LGVTDVLCEACDQLGWTKPTKIQIE 72
Query: 626 AWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQ 685
A P+ + G D+IG+A+TG+GKT AF LP L L TP LV+ PTRELA Q
Sbjct: 73 AIPLALQGRDIIGLAETGSGKTGAFALPIL--NALLETP----QRLFALVLTPTRELAFQ 126
Query: 686 IEREVNKI-DYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLND-FVSRASIDLKA 743
I + + G+++ + GG + Q + + HI+IATPGRL D + +L+A
Sbjct: 127 ISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRA 186
Query: 744 VSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVN 803
+ ++V+DEADR+L++ FE +++K I +R+T + SAT K VQ++ + + NPVK
Sbjct: 187 LKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCA 246
Query: 804 VGS 806
V S
Sbjct: 247 VSS 249
>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 = 232 bits (595), Expect = 5e-71
Identities = 60/201 (29%), Positives = 108/201 (53%), Gaps = 8/201 (3%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 144
E+L + + + PSPIQ ++ PI +SG D++ A+ GTGK+ A+L+P L +
Sbjct: 12 RELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLL-----ERLD 66
Query: 145 ISERAGPSVLVMAPTRELATQIEREVNKI--DYKGLKAVCVYGGKEIEPQLEKIREGCHI 202
+ + +V+ PTRELA Q+ + ++ G K + GG + + ++ + H+
Sbjct: 67 LKKDN-IQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHV 125
Query: 203 LIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSA 262
+IATPGR+ D + + + V +VLDEAD++L F + + + NRQ ++ SA
Sbjct: 126 VIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSA 185
Query: 263 TWNKDVQRVAKKYMVNPVKVN 283
T+ VQ+ ++ P ++N
Sbjct: 186 TFPLSVQKFMNSHLEKPYEIN 206
Score = 231 bits (591), Expect = 2e-70
Identities = 61/201 (30%), Positives = 108/201 (53%), Gaps = 8/201 (3%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 664
E+L + + + PSPIQ ++ PI +SG D++ A+ GTGK+ A+L+P L +
Sbjct: 12 RELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLL-----ERLD 66
Query: 665 ISERAGPSVLVMAPTRELATQIEREVNKI--DYKGLKAVCVYGGKELEPQLEKIREGCHI 722
+ + +V+ PTRELA Q+ + ++ G K + GG L + ++ + H+
Sbjct: 67 LKKDN-IQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHV 125
Query: 723 LIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSA 782
+IATPGR+ D + + + V +VLDEAD++L F + + + NRQ ++ SA
Sbjct: 126 VIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSA 185
Query: 783 TWNKDVQRVAKKYMVNPVKVN 803
T+ VQ+ ++ P ++N
Sbjct: 186 TFPLSVQKFMNSHLEKPYEIN 206
>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 = 230 bits (590), Expect = 5e-70
Identities = 80/227 (35%), Positives = 113/227 (49%), Gaps = 13/227 (5%)
Query: 59 DGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIG 118
+ QI N D V F + +LR + F PS IQ +A ++ GHD++
Sbjct: 2 ESQIQTNYD----KVVYKFDD-MELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLA 56
Query: 119 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DYKG 177
AQ+GTGKT F + AL Q S +A P L++APTRELA QI++ V + +
Sbjct: 57 QAQSGTGKTGTFSIAAL-----QRIDTSVKA-PQALMLAPTRELALQIQKVVMALAFHMD 110
Query: 178 LKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLD 237
+K GG E +R I++ TPGR+ D + R + +LDEAD ML
Sbjct: 111 IKVHACIGGTSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLS 169
Query: 238 LGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 284
GF+ QI + + P Q V+ SAT DV V K+M NPV++ V
Sbjct: 170 SGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILV 216
Score = 229 bits (586), Expect = 2e-69
Identities = 80/227 (35%), Positives = 113/227 (49%), Gaps = 13/227 (5%)
Query: 579 DGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIG 638
+ QI N D V F + +LR + F PS IQ +A ++ GHD++
Sbjct: 2 ESQIQTNYD----KVVYKFDD-MELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLA 56
Query: 639 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DYKG 697
AQ+GTGKT F + AL Q S +A P L++APTRELA QI++ V + +
Sbjct: 57 QAQSGTGKTGTFSIAAL-----QRIDTSVKA-PQALMLAPTRELALQIQKVVMALAFHMD 110
Query: 698 LKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLD 757
+K GG E +R I++ TPGR+ D + R + +LDEAD ML
Sbjct: 111 IKVHACIGGTSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLS 169
Query: 758 LGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 804
GF+ QI + + P Q V+ SAT DV V K+M NPV++ V
Sbjct: 170 SGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILV 216
>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 = 231 bits (591), Expect = 5e-70
Identities = 80/228 (35%), Positives = 120/228 (52%), Gaps = 13/228 (5%)
Query: 59 DGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIG 118
G I+ N + V +F +LR + F PS IQ +A + G+D+I
Sbjct: 18 GGVIESNWN----EIVDNFDD-MNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIA 72
Query: 119 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DYKG 177
AQ+GTGKT F + L Q I + LV+APTRELA QI++ + + DY G
Sbjct: 73 QAQSGTGKTATFAISIL-----QQLEIEFKE-TQALVLAPTRELAQQIQKVILALGDYMG 126
Query: 178 LKAVCVYGGKEIEPQLEKIR-EGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRML 236
GG + +++K++ E HI++ TPGR+ D ++R + K + VLDEAD ML
Sbjct: 127 ATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEML 186
Query: 237 DLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 284
GF+ QI + +N + Q V+ SAT DV V KK+M +P+++ V
Sbjct: 187 SRGFKDQIYEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRILV 234
Score = 229 bits (586), Expect = 2e-69
Identities = 80/228 (35%), Positives = 120/228 (52%), Gaps = 13/228 (5%)
Query: 579 DGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIG 638
G I+ N + V +F +LR + F PS IQ +A + G+D+I
Sbjct: 18 GGVIESNWN----EIVDNFDD-MNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIA 72
Query: 639 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DYKG 697
AQ+GTGKT F + L Q I + LV+APTRELA QI++ + + DY G
Sbjct: 73 QAQSGTGKTATFAISIL-----QQLEIEFKE-TQALVLAPTRELAQQIQKVILALGDYMG 126
Query: 698 LKAVCVYGGKELEPQLEKIR-EGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRML 756
GG + +++K++ E HI++ TPGR+ D ++R + K + VLDEAD ML
Sbjct: 127 ATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEML 186
Query: 757 DLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 804
GF+ QI + +N + Q V+ SAT DV V KK+M +P+++ V
Sbjct: 187 SRGFKDQIYEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRILV 234
>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 = 228 bits (584), Expect = 4e-69
Identities = 75/226 (33%), Positives = 119/226 (52%), Gaps = 6/226 (2%)
Query: 61 QIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIA 120
++ +N + N +T F F + L+ L+ + + IQ Q + + G D++G A
Sbjct: 11 RLMQNYEKINVNEITRFSD-FPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAA 69
Query: 121 QTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLK 179
+TG+GKT AFL+P L L + G VL+++PTRELA Q + K+
Sbjct: 70 KTGSGKTLAFLVPVL--EALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFS 127
Query: 180 AVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSR-ASIDLKAVSFVVLDEADRMLDL 238
A + GGK+++ + E+I +IL+ TPGRL + S + +VLDEADR+LD+
Sbjct: 128 AGLIIGGKDLKHEAERIN-NINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDM 186
Query: 239 GFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 284
GF +N + RQT++ SAT K V+ +A+ + NP V V
Sbjct: 187 GFADTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWV 232
Score = 228 bits (584), Expect = 4e-69
Identities = 76/226 (33%), Positives = 119/226 (52%), Gaps = 6/226 (2%)
Query: 581 QIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIA 640
++ +N + N +T F F + L+ L+ + + IQ Q + + G D++G A
Sbjct: 11 RLMQNYEKINVNEITRFSD-FPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAA 69
Query: 641 QTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLK 699
+TG+GKT AFL+P L L + G VL+++PTRELA Q + K+
Sbjct: 70 KTGSGKTLAFLVPVL--EALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFS 127
Query: 700 AVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSR-ASIDLKAVSFVVLDEADRMLDL 758
A + GGK+L+ + E+I +IL+ TPGRL + S + +VLDEADR+LD+
Sbjct: 128 AGLIIGGKDLKHEAERIN-NINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDM 186
Query: 759 GFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 804
GF +N + RQT++ SAT K V+ +A+ + NP V V
Sbjct: 187 GFADTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWV 232
>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 = 222 bits (567), Expect = 6e-67
Identities = 67/204 (32%), Positives = 109/204 (53%), Gaps = 10/204 (4%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 144
PE+LR + + F PS +Q + P + G D++ A++G GKT F+L LQ
Sbjct: 23 PELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLAT-----LQQLE 77
Query: 145 ISERAGPSVLVMAPTRELATQIEREVNKI-DY-KGLKAVCVYGGKEIEPQLEKIREGC-H 201
SVLVM TRELA QI +E + Y +K +GG I+ E +++ C H
Sbjct: 78 PVTGQ-VSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPH 136
Query: 202 ILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLD-LGFEPQINKTSIYINPNRQTVMT 260
I++ TPGR+ S++LK + +LDE D+ML+ L + + +Q +M
Sbjct: 137 IVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMF 196
Query: 261 SATWNKDVQRVAKKYMVNPVKVNV 284
SAT +K+++ V +K+M +P+++ V
Sbjct: 197 SATLSKEIRPVCRKFMQDPMEIFV 220
Score = 219 bits (561), Expect = 5e-66
Identities = 66/204 (32%), Positives = 109/204 (53%), Gaps = 10/204 (4%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 664
PE+LR + + F PS +Q + P + G D++ A++G GKT F+L LQ
Sbjct: 23 PELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLAT-----LQQLE 77
Query: 665 ISERAGPSVLVMAPTRELATQIEREVNKI-DY-KGLKAVCVYGGKELEPQLEKIREGC-H 721
SVLVM TRELA QI +E + Y +K +GG ++ E +++ C H
Sbjct: 78 PVTGQ-VSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPH 136
Query: 722 ILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLD-LGFEPQINKTSIYINPNRQTVMT 780
I++ TPGR+ S++LK + +LDE D+ML+ L + + +Q +M
Sbjct: 137 IVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMF 196
Query: 781 SATWNKDVQRVAKKYMVNPVKVNV 804
SAT +K+++ V +K+M +P+++ V
Sbjct: 197 SATLSKEIRPVCRKFMQDPMEIFV 220
>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 = 221 bits (565), Expect = 2e-66
Identities = 64/230 (27%), Positives = 113/230 (49%), Gaps = 13/230 (5%)
Query: 63 DENPDFQIPNPVTSFKQAFQHY---PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGI 119
+P + + + + F+ +L L F PSP+Q +A P+ G D+I
Sbjct: 8 LSSPRTRTGDVLLAEPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQ 67
Query: 120 AQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DY-KG 177
A++GTGKT F A L + + + +L++APTRE+A QI + I +G
Sbjct: 68 AKSGTGKTCVFSTIA-----LDSLVLENLS-TQILILAPTREIAVQIHSVITAIGIKMEG 121
Query: 178 LKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLD 237
L+ GG + +++ CHI + +PGR+ + ++ ++ +LDEAD++L+
Sbjct: 122 LECHVFIGGTPLSQDKTRLK-KCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLE 180
Query: 238 LG-FEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGS 286
G F+ QIN + ++Q + SAT+ + + KYM +P V + S
Sbjct: 181 EGSFQEQINWIYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVRLNS 230
Score = 220 bits (562), Expect = 4e-66
Identities = 65/230 (28%), Positives = 113/230 (49%), Gaps = 13/230 (5%)
Query: 583 DENPDFQIPNPVTSFKQAFQHY---PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGI 639
+P + + + + F+ +L L F PSP+Q +A P+ G D+I
Sbjct: 8 LSSPRTRTGDVLLAEPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQ 67
Query: 640 AQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DY-KG 697
A++GTGKT F A L + + + +L++APTRE+A QI + I +G
Sbjct: 68 AKSGTGKTCVFSTIA-----LDSLVLENLS-TQILILAPTREIAVQIHSVITAIGIKMEG 121
Query: 698 LKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLD 757
L+ GG L +++ CHI + +PGR+ + ++ ++ +LDEAD++L+
Sbjct: 122 LECHVFIGGTPLSQDKTRLK-KCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLE 180
Query: 758 LG-FEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGS 806
G F+ QIN + ++Q + SAT+ + + KYM +P V + S
Sbjct: 181 EGSFQEQINWIYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVRLNS 230
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 213 bits (544), Expect = 3e-64
Identities = 60/180 (33%), Positives = 98/180 (54%), Gaps = 10/180 (5%)
Query: 275 YMVNPVKVNVGSLDL------AATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVF 328
+ + V++G+ +L AA+ V Q++ + E+ K +L+E V++F
Sbjct: 4 HHHHSSGVDLGTENLYFQSMGAASLDVIQEVEYVKEEAKMVYLLECLQKTP---PPVLIF 60
Query: 329 MGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDV 388
+KA V A+ L + ++ +++G QE+R A+E G + VATDVAS+GLD
Sbjct: 61 AEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDF 120
Query: 389 PDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTR-KDWSHAHEIIPILEEGGHE 447
P + HVINYD P IE YVHR+GRTG +G +G + T + + D S ++ +L E +
Sbjct: 121 PAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFINKACDESVLMDLKALLLEAKQK 180
Score = 183 bits (466), Expect = 3e-53
Identities = 53/146 (36%), Positives = 82/146 (56%), Gaps = 9/146 (6%)
Query: 795 YMVNPVKVNVGSLDL------AATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVF 848
+ + V++G+ +L AA+ V Q++ + E+ K +L+E V++F
Sbjct: 4 HHHHSSGVDLGTENLYFQSMGAASLDVIQEVEYVKEEAKMVYLLECLQKTP---PPVLIF 60
Query: 849 MGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDV 908
+KA V A+ L + ++ +++G QE+R A+E G + VATDVAS+GLD
Sbjct: 61 AEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDF 120
Query: 909 PDLTHVINYDFPSHIEEYVHRVGRTG 934
P + HVINYD P IE YVHR+GRTG
Sbjct: 121 PAIQHVINYDMPEEIENYVHRIGRTG 146
>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 = 214 bits (546), Expect = 2e-63
Identities = 68/233 (29%), Positives = 118/233 (50%), Gaps = 10/233 (4%)
Query: 58 SDGQIDENPDFQIPNPVTSFKQAFQHYP-----EILRQLENLSFTTPSPIQAQAWPILMS 112
+D E P + +F L+ ++ + FT + IQ ++ L+
Sbjct: 31 NDEDESEVPSLPLGLTGAFEDTSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLE 90
Query: 113 GHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNK 172
G D++ A+TG+GKT AFL+PA+ + R G VL+++PTRELA Q + +
Sbjct: 91 GRDLLAAAKTGSGKTLAFLIPAV--ELIVKLRFMPRNGTGVLILSPTRELAMQTFGVLKE 148
Query: 173 I-DYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSR-ASIDLKAVSFVVLD 230
+ + + GG + +K+ G +I++ATPGRL D + K + +V+D
Sbjct: 149 LMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVID 208
Query: 231 EADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVN-PVKV 282
EADR+LD+GFE ++ + + RQT++ SAT + V+ +A+ + P+ V
Sbjct: 209 EADRILDVGFEEELKQIIKLLPTRRQTMLFSATQTRKVEDLARISLKKEPLYV 261
Score = 213 bits (545), Expect = 3e-63
Identities = 68/233 (29%), Positives = 118/233 (50%), Gaps = 10/233 (4%)
Query: 578 SDGQIDENPDFQIPNPVTSFKQAFQHYP-----EILRQLENLSFTTPSPIQAQAWPILMS 632
+D E P + +F L+ ++ + FT + IQ ++ L+
Sbjct: 31 NDEDESEVPSLPLGLTGAFEDTSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLE 90
Query: 633 GHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNK 692
G D++ A+TG+GKT AFL+PA+ + R G VL+++PTRELA Q + +
Sbjct: 91 GRDLLAAAKTGSGKTLAFLIPAV--ELIVKLRFMPRNGTGVLILSPTRELAMQTFGVLKE 148
Query: 693 I-DYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSR-ASIDLKAVSFVVLD 750
+ + + GG + +K+ G +I++ATPGRL D + K + +V+D
Sbjct: 149 LMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVID 208
Query: 751 EADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVN-PVKV 802
EADR+LD+GFE ++ + + RQT++ SAT + V+ +A+ + P+ V
Sbjct: 209 EADRILDVGFEEELKQIIKLLPTRRQTMLFSATQTRKVEDLARISLKKEPLYV 261
>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 = 210 bits (538), Expect = 2e-63
Identities = 57/170 (33%), Positives = 97/170 (57%), Gaps = 2/170 (1%)
Query: 278 NPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSA 337
+ N+ + + +TQK++ ++E +K+ +L++ + ++ +VF+ K +
Sbjct: 4 HHHHENLY-FQGSTSENITQKVVWVEESDKRSFLLDLLNATGKD-SLTLVFVETKKGADS 61
Query: 338 MSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINY 397
+ L + S++GD SQ DRE AL SG + I VAT VA+RGLD+ ++ HVIN+
Sbjct: 62 LEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINF 121
Query: 398 DFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEIIPILEEGGHE 447
D PS IEEYVHR+GRTGR G G + + ++ + +++ +L E E
Sbjct: 122 DLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQE 171
Score = 175 bits (446), Expect = 1e-50
Identities = 51/137 (37%), Positives = 82/137 (59%), Gaps = 2/137 (1%)
Query: 798 NPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSA 857
+ N+ + + +TQK++ ++E +K+ +L++ + ++ +VF+ K +
Sbjct: 4 HHHHENLY-FQGSTSENITQKVVWVEESDKRSFLLDLLNATGKD-SLTLVFVETKKGADS 61
Query: 858 MSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINY 917
+ L + S++GD SQ DRE AL SG + I VAT VA+RGLD+ ++ HVIN+
Sbjct: 62 LEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINF 121
Query: 918 DFPSHIEEYVHRVGRTG 934
D PS IEEYVHR+GRTG
Sbjct: 122 DLPSDIEEYVHRIGRTG 138
>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 = 209 bits (533), Expect = 4e-61
Identities = 76/299 (25%), Positives = 136/299 (45%), Gaps = 23/299 (7%)
Query: 516 DPEPTMEELMALSDRKERDKWAREPKIIKNVYKEDP----EVANMTPEQVEAFRKKNNDI 571
+ E E L L ++E+ K ++K + E + + + ++N +
Sbjct: 12 EQEAAAESLSNLHLKEEKIKPDTNGAVVKTNANAEKTDEEEKEDRAAQSLLNKLIRSNLV 71
Query: 572 SVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILM 631
+ Q D N V SF++ + P++L+ + + F PS IQ A P+++
Sbjct: 72 DNTNQVEVLQRDPNSPL---YSVKSFEE-LRLKPQLLQGVYAMGFNRPSKIQENALPLML 127
Query: 632 SG--HDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIERE 689
+ ++I +Q+GTGKT AF+L L + + P L ++PT ELA Q +
Sbjct: 128 AEPPQNLIAQSQSGTGKTAAFVLAML-----SQVEPANKY-PQCLCLSPTYELALQTGKV 181
Query: 690 VNKI-DY-KGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRA-SIDLKAVSF 746
+ ++ + LK G +LE + I+I TPG + D+ S+ ID K +
Sbjct: 182 IEQMGKFYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKV 238
Query: 747 VVLDEADRMLD-LGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 804
VLDEAD M+ G + Q + + N Q ++ SAT+ V + A+K + +P + +
Sbjct: 239 FVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKL 297
Score = 207 bits (528), Expect = 2e-60
Identities = 68/262 (25%), Positives = 124/262 (47%), Gaps = 19/262 (7%)
Query: 29 EDPEVANMTPEQVEAFRKKNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEIL 88
++ E + + + ++N + + Q D N V SF++ + P++L
Sbjct: 49 DEEEKEDRAAQSLLNKLIRSNLVDNTNQVEVLQRDPNSPL---YSVKSFEE-LRLKPQLL 104
Query: 89 RQLENLSFTTPSPIQAQAWPILMSG--HDMIGIAQTGTGKTFAFLLPALIHTHLQTTPIS 146
+ + + F PS IQ A P++++ ++I +Q+GTGKT AF+L L +
Sbjct: 105 QGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML-----SQVEPA 159
Query: 147 ERAGPSVLVMAPTRELATQIEREVNKI-DY-KGLKAVCVYGGKEIEPQLEKIREGCHILI 204
+ P L ++PT ELA Q + + ++ + LK G ++E + I+I
Sbjct: 160 NKY-PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQ---KISEQIVI 215
Query: 205 ATPGRLNDFVSRA-SIDLKAVSFVVLDEADRMLD-LGFEPQINKTSIYINPNRQTVMTSA 262
TPG + D+ S+ ID K + VLDEAD M+ G + Q + + N Q ++ SA
Sbjct: 216 GTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSA 275
Query: 263 TWNKDVQRVAKKYMVNPVKVNV 284
T+ V + A+K + +P + +
Sbjct: 276 TFEDSVWKFAQKVVPDPNVIKL 297
>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 = 151 bits (384), Expect = 2e-42
Identities = 47/144 (32%), Positives = 80/144 (55%), Gaps = 1/144 (0%)
Query: 294 TVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLY 353
+ Q D+ E K L+ E + +VF+ ++ V +++ L +C L
Sbjct: 3 KIHQWYYRADDLEHKTALLVHLLK-QPEATRSIVFVRKRERVHELANWLREAGINNCYLE 61
Query: 354 GDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRT 413
G++ Q R A++ +T G + VATDVA+RG+D+PD++HV N+D P + Y+HR+GRT
Sbjct: 62 GEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRT 121
Query: 414 GRAGKSGESITLMTRKDWSHAHEI 437
RAG+ G +I+L+ D ++
Sbjct: 122 ARAGRKGTAISLVEAHDHLLLGKV 145
Score = 124 bits (315), Expect = 3e-33
Identities = 40/121 (33%), Positives = 67/121 (55%), Gaps = 1/121 (0%)
Query: 814 TVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLY 873
+ Q D+ E K L+ E + +VF+ ++ V +++ L +C L
Sbjct: 3 KIHQWYYRADDLEHKTALLVHLLK-QPEATRSIVFVRKRERVHELANWLREAGINNCYLE 61
Query: 874 GDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRT 933
G++ Q R A++ +T G + VATDVA+RG+D+PD++HV N+D P + Y+HR+GRT
Sbjct: 62 GEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRT 121
Query: 934 G 934
Sbjct: 122 A 122
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 143 bits (362), Expect = 1e-39
Identities = 48/144 (33%), Positives = 76/144 (52%), Gaps = 2/144 (1%)
Query: 294 TVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLY 353
+ +I + E+ K L + E D ++F K V+ ++ +L ++
Sbjct: 9 NIEHAVIQVREENKFSLLKDVLMT--ENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIH 66
Query: 354 GDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRT 413
G + QEDR + + G R VATDVA+RG+D+ +++ VINYD P E YVHR GRT
Sbjct: 67 GGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRT 126
Query: 414 GRAGKSGESITLMTRKDWSHAHEI 437
GRAG G++I+ +T + +I
Sbjct: 127 GRAGNKGKAISFVTAFEKRFLADI 150
Score = 116 bits (292), Expect = 3e-30
Identities = 41/123 (33%), Positives = 63/123 (51%), Gaps = 2/123 (1%)
Query: 814 TVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLY 873
+ +I + E+ K L + E D ++F K V+ ++ +L ++
Sbjct: 9 NIEHAVIQVREENKFSLLKDVLMT--ENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIH 66
Query: 874 GDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRT 933
G + QEDR + + G R VATDVA+RG+D+ +++ VINYD P E YVHR GRT
Sbjct: 67 GGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRT 126
Query: 934 GEF 936
G
Sbjct: 127 GRA 129
>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 = 138 bits (351), Expect = 2e-37
Identities = 47/144 (32%), Positives = 71/144 (49%), Gaps = 2/144 (1%)
Query: 294 TVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLY 353
T ++ + + + L + D+ MVF KA ++ L + +L+
Sbjct: 5 TYEEEAVPAPVRGRLEVLSDLLYV--ASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALH 62
Query: 354 GDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRT 413
GDLSQ +RE L G R+ VATDVA+RGLD+P + V++Y P E Y HR GRT
Sbjct: 63 GDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRT 122
Query: 414 GRAGKSGESITLMTRKDWSHAHEI 437
GRAG+ G + L ++ +
Sbjct: 123 GRAGRGGRVVLLYGPRERRDVEAL 146
Score = 114 bits (287), Expect = 7e-29
Identities = 42/121 (34%), Positives = 61/121 (50%), Gaps = 2/121 (1%)
Query: 814 TVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLY 873
T ++ + + + L + D+ MVF KA ++ L + +L+
Sbjct: 5 TYEEEAVPAPVRGRLEVLSDLLYV--ASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALH 62
Query: 874 GDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRT 933
GDLSQ +RE L G R+ VATDVA+RGLD+P + V++Y P E Y HR GRT
Sbjct: 63 GDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRT 122
Query: 934 G 934
G
Sbjct: 123 G 123
>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 = 138 bits (349), Expect = 3e-36
Identities = 57/271 (21%), Positives = 104/271 (38%), Gaps = 17/271 (6%)
Query: 294 TVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLY 353
T ++ + + + L + D+ MVF KA ++ L + +L+
Sbjct: 2 TYEEEAVPAPVRGRLEVLSDLLYV--ASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALH 59
Query: 354 GDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRT 413
GD+SQ +RE + G R+ VATDVA+RGLD+P + V++Y P E Y HR GRT
Sbjct: 60 GDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRT 119
Query: 414 GRAGKSGESITLMTRKDWSHAHEI------------IPILEEGGHESYMIWRRDSRIALH 461
GRAG+ G + L ++ + P EE +
Sbjct: 120 GRAGRGGRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLLARLARVPE 179
Query: 462 VILEGGEEVVEEEEGGEDGMEILVGVDLEVVMEGEEEGEVAIQMINKIDLGRHIDPEPTM 521
++ E +E++ + L +++ G + + P ++
Sbjct: 180 KDYRLYQDFAGRLF-AEGRVEVVAAL-LALLLGGAPAERSLLTGEEGWRTYKATGPRLSL 237
Query: 522 EELMALSDRKERDKWAREPKIIKNVYKEDPE 552
L+AL + + + + + Y +
Sbjct: 238 PRLVALL-KGQGLEVGKVAEAEGGFYVDLRP 267
Score = 113 bits (285), Expect = 9e-28
Identities = 40/121 (33%), Positives = 61/121 (50%), Gaps = 2/121 (1%)
Query: 814 TVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLY 873
T ++ + + + L + D+ MVF KA ++ L + +L+
Sbjct: 2 TYEEEAVPAPVRGRLEVLSDLLYV--ASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALH 59
Query: 874 GDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRT 933
GD+SQ +RE + G R+ VATDVA+RGLD+P + V++Y P E Y HR GRT
Sbjct: 60 GDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRT 119
Query: 934 G 934
G
Sbjct: 120 G 120
>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 = 133 bits (336), Expect = 6e-36
Identities = 40/146 (27%), Positives = 73/146 (50%), Gaps = 3/146 (2%)
Query: 293 HTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSL 352
H + Q + L ++EK L + D + E ++V++F+ A++ L Q + ++
Sbjct: 4 HGLQQYYVKLKDNEKNRKLFDLLDVL--EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI 61
Query: 353 YGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGR 412
+ + QE+R + RI VAT++ RG+D+ + NYD P + Y+HRV R
Sbjct: 62 HRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVAR 121
Query: 413 TGRAGKSGESITLMT-RKDWSHAHEI 437
GR G G +IT ++ D +++
Sbjct: 122 AGRFGTKGLAITFVSDENDAKILNDV 147
Score = 113 bits (286), Expect = 3e-29
Identities = 35/124 (28%), Positives = 62/124 (50%), Gaps = 2/124 (1%)
Query: 813 HTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSL 872
H + Q + L ++EK L + D + E ++V++F+ A++ L Q + ++
Sbjct: 4 HGLQQYYVKLKDNEKNRKLFDLLDVL--EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI 61
Query: 873 YGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGR 932
+ + QE+R + RI VAT++ RG+D+ + NYD P + Y+HRV R
Sbjct: 62 HRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVAR 121
Query: 933 TGEF 936
G F
Sbjct: 122 AGRF 125
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 123 bits (311), Expect = 1e-32
Identities = 44/146 (30%), Positives = 86/146 (58%), Gaps = 3/146 (2%)
Query: 293 HTVTQKIIILDEDEKK-DWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCS 351
+ Q + ++E+E K + L + +D++ + ++F + V +++ L +
Sbjct: 2 EGIKQFYVNVEEEEYKYECLTDLYDSISV--TQAVIFCNTRRKVEELTTKLRNDKFTVSA 59
Query: 352 LYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVG 411
+Y DL Q++R+ +++ SG +RI ++TD+ +RG+DV ++ VINYD P++ E Y+HR+G
Sbjct: 60 IYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIG 119
Query: 412 RTGRAGKSGESITLMTRKDWSHAHEI 437
R GR G+ G +I +T +D E+
Sbjct: 120 RGGRFGRKGVAINFVTNEDVGAMREL 145
Score = 101 bits (253), Expect = 6e-25
Identities = 38/125 (30%), Positives = 75/125 (60%), Gaps = 3/125 (2%)
Query: 813 HTVTQKIIILDEDEKK-DWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCS 871
+ Q + ++E+E K + L + +D++ + ++F + V +++ L +
Sbjct: 2 EGIKQFYVNVEEEEYKYECLTDLYDSISV--TQAVIFCNTRRKVEELTTKLRNDKFTVSA 59
Query: 872 LYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVG 931
+Y DL Q++R+ +++ SG +RI ++TD+ +RG+DV ++ VINYD P++ E Y+HR+G
Sbjct: 60 IYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIG 119
Query: 932 RTGEF 936
R G F
Sbjct: 120 RGGRF 124
>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 = 122 bits (309), Expect = 3e-32
Identities = 33/141 (23%), Positives = 67/141 (47%), Gaps = 8/141 (5%)
Query: 303 DEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDRE 362
+K L + ++ + ++F + + ++ ++ + L G+L+ E R
Sbjct: 17 HRKDKYQALCNIYGSITIG--QAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRA 74
Query: 363 IALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPS------HIEEYVHRVGRTGRA 416
++ G ++ + T+V +RG+DV +T V+N+D P E Y+HR+GRTGR
Sbjct: 75 SIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRF 134
Query: 417 GKSGESITLMTRKDWSHAHEI 437
GK G + ++ + +I
Sbjct: 135 GKKGLAFNMIEVDELPSLMKI 155
Score = 98.4 bits (246), Expect = 7e-24
Identities = 29/120 (24%), Positives = 58/120 (48%), Gaps = 8/120 (6%)
Query: 823 DEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDRE 882
+K L + ++ + ++F + + ++ ++ + L G+L+ E R
Sbjct: 17 HRKDKYQALCNIYGSITIG--QAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRA 74
Query: 883 IALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPS------HIEEYVHRVGRTGEF 936
++ G ++ + T+V +RG+DV +T V+N+D P E Y+HR+GRTG F
Sbjct: 75 SIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRF 134
>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 = 92.9 bits (230), Expect = 9e-20
Identities = 54/358 (15%), Positives = 119/358 (33%), Gaps = 27/358 (7%)
Query: 95 SFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVL 154
P Q + + + + TG GKT ++ + L + G VL
Sbjct: 6 DLIQPRIYQEVIYAKCK-ETNCLIVLPTGLGKTLIAMM--IAEYRL------TKYGGKVL 56
Query: 155 VMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFV 214
++APT+ L Q ++ + + G++ + K +++ATP + + +
Sbjct: 57 MLAPTKPLVLQHAESFRRLFNLPPEKIVALTGEKSPEERSKAWARAKVIVATPQTIENDL 116
Query: 215 SRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATW---NKDVQRV 271
I L+ VS +V DEA R + I + N + +A+ + + V
Sbjct: 117 LAGRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEKIMEV 176
Query: 272 AKKYMVNPVKVNVGSLDLAATHTVTQKI--IILDEDEKKDWLMEFFDNMDEERDKVMVFM 329
+ ++ + + + + +D E + + M + K +
Sbjct: 177 INNLGIEHIEYRSENSPDVRPYVKGIRFEWVRVDLPEIYKEVRKLLREMLRDALKPLAET 236
Query: 330 GRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVP 389
G S S +I E++ G + + L +
Sbjct: 237 GLLESSSPDIPKKEVLR-------------AGQIINEEMAKGNHDLRGLLLYHAMALKLH 283
Query: 390 DLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEIIPILEEGGHE 447
++ S + Y+ ++ +AG + S + + K A ++ +E G +
Sbjct: 284 HAIELLETQGLSALRAYIKKLYEEAKAGSTKASKEIFSDKRMKKAISLLVQAKEIGLD 341
Score = 89.1 bits (220), Expect = 1e-18
Identities = 41/257 (15%), Positives = 86/257 (33%), Gaps = 14/257 (5%)
Query: 615 SFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVL 674
P Q + + + + TG GKT ++ + L + G VL
Sbjct: 6 DLIQPRIYQEVIYAKCK-ETNCLIVLPTGLGKTLIAMM--IAEYRL------TKYGGKVL 56
Query: 675 VMAPTRELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFV 734
++APT+ L Q ++ + + G++ + K +++ATP + + +
Sbjct: 57 MLAPTKPLVLQHAESFRRLFNLPPEKIVALTGEKSPEERSKAWARAKVIVATPQTIENDL 116
Query: 735 SRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATW---NKDVQRV 791
I L+ VS +V DEA R + I + N + +A+ + + V
Sbjct: 117 LAGRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEKIMEV 176
Query: 792 AKKYMVNPVKVNVGSLDLAATHTVTQKI--IILDEDEKKDWLMEFFDNMDEERDKVMVFM 849
+ ++ + + + + +D E + + M + K +
Sbjct: 177 INNLGIEHIEYRSENSPDVRPYVKGIRFEWVRVDLPEIYKEVRKLLREMLRDALKPLAET 236
Query: 850 GRKASVSAMSSDLACQY 866
G S S
Sbjct: 237 GLLESSSPDIPKKEVLR 253
Score = 81.4 bits (200), Expect = 4e-16
Identities = 35/140 (25%), Positives = 61/140 (43%), Gaps = 11/140 (7%)
Query: 305 DEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGD--------L 356
D+ K+ + E + ++VF + + + ++L K+ G L
Sbjct: 346 DKLKEIIREQLQRKQNSK--IIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGL 403
Query: 357 SQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRA 416
SQ ++++ L++ G + VAT V GLDVP++ V+ Y+ + R GRTGR
Sbjct: 404 SQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGRH 463
Query: 417 GKSGESITLMTRKDWSHAHE 436
G I LM + A+
Sbjct: 464 -MPGRVIILMAKGTRDEAYY 482
Score = 73.3 bits (179), Expect = 1e-13
Identities = 29/118 (24%), Positives = 53/118 (44%), Gaps = 10/118 (8%)
Query: 825 DEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGD--------L 876
D+ K+ + E + ++VF + + + ++L K+ G L
Sbjct: 346 DKLKEIIREQLQRKQNSK--IIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGL 403
Query: 877 SQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 934
SQ ++++ L++ G + VAT V GLDVP++ V+ Y+ + R GRTG
Sbjct: 404 SQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTG 461
>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 = 82.0 bits (202), Expect = 4e-16
Identities = 58/387 (14%), Positives = 105/387 (27%), Gaps = 86/387 (22%)
Query: 84 YPEILRQLENLSFTTPSPIQA---QAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHL 140
+E++ T SP+ + S A TG+GK+ + A
Sbjct: 200 KAVDFVPVESMETTMRSPVFTDNSSPPAVPQSFQVAHLHAPTGSGKS-TKVPAAYA---- 254
Query: 141 QTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGC 200
G VLV+ P+ ++K I + I G
Sbjct: 255 -------AQGYKVLVLNPSVAATLGFGAYMSKA---------HGIDPNIRTGVRTITTGA 298
Query: 201 HILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQT--V 258
+ +T G+ F++ A ++ DE D I V
Sbjct: 299 PVTYSTYGK---FLADGGCSGGAYDIIICDECHST-DSTTILGIGTVLDQAETAGARLVV 354
Query: 259 MTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKII---ILDEDEKKDWLMEFF 315
+ +AT + TV I L + + +
Sbjct: 355 LATAT-------------------------PPGSVTVPHPNIEEVALSNTGEIPFYGKAI 389
Query: 316 DNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARI 375
+ ++F K +++ L+ + + Y L + I + +
Sbjct: 390 PIEAIRGGRHLIFCHSKKKCDELAAKLSGLGINAVAYYRGLD-------VSVIPTIGDVV 442
Query: 376 CVATDVASRGL--DV-------PDLTHVINYDFPSHI-----------EEYVHRVGRTGR 415
VATD G D +T +++ R GRTGR
Sbjct: 443 VVATDALMTGYTGDFDSVIDCNTCVTQTVDFSLDPTFTIETTTVPQDAVSRSQRRGRTGR 502
Query: 416 AGKSGESITLMTRKDWSHAHEIIPILE 442
G+ G + + S + + E
Sbjct: 503 -GRRGIYRFVTPGERPSGMFDSSVLCE 528
Score = 75.0 bits (184), Expect = 5e-14
Identities = 52/359 (14%), Positives = 95/359 (26%), Gaps = 85/359 (23%)
Query: 604 YPEILRQLENLSFTTPSPIQA---QAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHL 660
+E++ T SP+ + S A TG+GK+ + A
Sbjct: 200 KAVDFVPVESMETTMRSPVFTDNSSPPAVPQSFQVAHLHAPTGSGKS-TKVPAAYA---- 254
Query: 661 QTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGC 720
G VLV+ P+ ++K + + I G
Sbjct: 255 -------AQGYKVLVLNPSVAATLGFGAYMSKA---------HGIDPNIRTGVRTITTGA 298
Query: 721 HILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQT--V 778
+ +T G+ F++ A ++ DE D I V
Sbjct: 299 PVTYSTYGK---FLADGGCSGGAYDIIICDECHST-DSTTILGIGTVLDQAETAGARLVV 354
Query: 779 MTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKII---ILDEDEKKDWLMEFF 835
+ +AT + TV I L + + +
Sbjct: 355 LATAT-------------------------PPGSVTVPHPNIEEVALSNTGEIPFYGKAI 389
Query: 836 DNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARI 895
+ ++F K +++ L+ + + Y L + I + +
Sbjct: 390 PIEAIRGGRHLIFCHSKKKCDELAAKLSGLGINAVAYYRGLD-------VSVIPTIGDVV 442
Query: 896 CVATDVASRGL--DV-------PDLTHVINYDFPSHI-----------EEYVHRVGRTG 934
VATD G D +T +++ R GRTG
Sbjct: 443 VVATDALMTGYTGDFDSVIDCNTCVTQTVDFSLDPTFTIETTTVPQDAVSRSQRRGRTG 501
>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 = 69.6 bits (169), Expect = 3e-12
Identities = 58/481 (12%), Positives = 135/481 (28%), Gaps = 28/481 (5%)
Query: 1 MEELMALSDRKERDKWAREPKIIKNVYKEDPEVANMTPEQVEAFRKKNNDISVSVVTSDG 60
+ +L+ R +++ W + ++ + + A + S +
Sbjct: 153 ITKLIECLCRSDKEHWPKSLQLALDTTGYYRASELWDIREDNAKDVDSEMTDASEDCLEA 212
Query: 61 QIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIA 120
+ + + + + ++ + I + Q + ++G + + A
Sbjct: 213 SMTYSEEAEPDDNLSENLGSAAEG--IGKPPPVYETKKARSYQIELAQPAINGKNALICA 270
Query: 121 QTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLK 179
TG+GKTF +L + H Q P V+ +A + Q + + +G
Sbjct: 271 PTGSGKTFVSIL--ICEHHFQNMPAGR--KAKVVFLATKVPVYEQQKNVFKHHFERQGYS 326
Query: 180 AVCVYGGKEIEPQLEKIREGCHILIATPGRL-NDFVSRASIDLKAVSFVVLDEADRMLD- 237
+ G +EK+ E I++ TP L N F L + ++ DE
Sbjct: 327 VQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGN 386
Query: 238 ---------------LGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKV 282
+ + + + + + +
Sbjct: 387 HPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAIST 446
Query: 283 NVGSLDLAATHTVTQKII-ILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSS- 340
++ +I L + + N+ E + +M + ++S S
Sbjct: 447 VRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIYSVDTLSQNSKK 506
Query: 341 DLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFP 400
D Q ++ R + LED D +
Sbjct: 507 DFGTQNY--EHWIVVTQRKCRLLQLEDKEEESRICRALFICTEHLRKYNDALIISEDARI 564
Query: 401 SHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEIIPILEEGGHESYMIWRRDSRIAL 460
Y+ + G E +T K E+I + ++ +E+ + +
Sbjct: 565 IDALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPELIALSKDETNENPKLEELVCILDD 624
Query: 461 H 461
Sbjct: 625 A 625
Score = 66.2 bits (160), Expect = 4e-11
Identities = 41/349 (11%), Positives = 100/349 (28%), Gaps = 25/349 (7%)
Query: 517 PEPTMEELMALSDRKERDKWAREPKIIKNVYKEDPEVANMTPEQVEAFRKKNNDISVSVV 576
+ +L+ R +++ W + ++ + + A + S
Sbjct: 149 KAAGITKLIECLCRSDKEHWPKSLQLALDTTGYYRASELWDIREDNAKDVDSEMTDASED 208
Query: 577 TSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDM 636
+ + + + + + ++ + I + Q + ++G +
Sbjct: 209 CLEASMTYSEEAEPDDNLSENLGSAAEG--IGKPPPVYETKKARSYQIELAQPAINGKNA 266
Query: 637 IGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DY 695
+ A TG+GKTF +L + H Q P V+ +A + Q + +
Sbjct: 267 LICAPTGSGKTFVSIL--ICEHHFQNMPAGR--KAKVVFLATKVPVYEQQKNVFKHHFER 322
Query: 696 KGLKAVCVYGGKELEPQLEKIREGCHILIATPGRL-NDFVSRASIDLKAVSFVVLDEADR 754
+G + G +EK+ E I++ TP L N F L + ++ DE
Sbjct: 323 QGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHN 382
Query: 755 MLD----------------LGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVN 798
+ + + + + +
Sbjct: 383 TTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQ 442
Query: 799 PVKVNVGSLDLAATHTVTQKII-ILDEDEKKDWLMEFFDNMDEERDKVM 846
+ ++ +I L + + N+ E + +M
Sbjct: 443 AISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALM 491
Score = 53.4 bits (127), Expect = 3e-07
Identities = 32/152 (21%), Positives = 62/152 (40%), Gaps = 18/152 (11%)
Query: 305 DEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLAC----QYRKSCSLYG------ 354
+E L + + + + ++F +A VSA+ + Y K L G
Sbjct: 616 EELVCILDDAYRYNPQ--TRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQ 673
Query: 355 --DLSQEDREIALEDITSG-YARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVG 411
++ ++ L+ + R+ +AT VA G+D+ V+ Y++ ++ + + G
Sbjct: 674 TTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRG 733
Query: 412 RTGRAGKSGESITLMTRKDWSHAHEIIPILEE 443
R GRA S L+T K +E +E
Sbjct: 734 R-GRAAGS--KCILVTSKTEVVENEKCNRYKE 762
Score = 49.6 bits (117), Expect = 4e-06
Identities = 23/121 (19%), Positives = 50/121 (41%), Gaps = 15/121 (12%)
Query: 825 DEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLAC----QYRKSCSLYG------ 874
+E L + + + + ++F +A VSA+ + Y K L G
Sbjct: 616 EELVCILDDAYRYNPQ--TRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQ 673
Query: 875 --DLSQEDREIALEDITSG-YARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVG 931
++ ++ L+ + R+ +AT VA G+D+ V+ Y++ ++ + + G
Sbjct: 674 TTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRG 733
Query: 932 R 932
R
Sbjct: 734 R 734
>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 = 69.1 bits (168), Expect = 5e-12
Identities = 84/606 (13%), Positives = 177/606 (29%), Gaps = 198/606 (32%)
Query: 379 TDVASRGLDVPDLTHVINYDFPS-----HIEEYVHRVGRTGRAGKSGESITLMTRKDWSH 433
+ D+ V F +++ + +++++ H
Sbjct: 9 FETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSI---------------LSKEEIDH 53
Query: 434 AHEIIPILEEGGHES---YMIWRRDSRIALHVILEGGEEVVEEEEGGEDGMEILVGVDLE 490
I+ S + W +L EE+V++ +E ++ ++ +
Sbjct: 54 ------IIMSKDAVSGTLRLFW---------TLLSKQEEMVQK------FVEEVLRINYK 92
Query: 491 VVMEGEEEGEVAIQMINKIDLGRHIDPEPTMEELMALSDRKERDKWAREPKIIK-NVYKE 549
+M I+ + P + DR D K NV +
Sbjct: 93 FLMS-------PIKTEQR-------QPSMMTRMYIEQRDRLYNDN----QVFAKYNVSR- 133
Query: 550 DPEVANMTPEQVEAFRKK------NNDISV--------SVVTSDGQIDENPDFQIPNPV- 594
+ R+ ++ + + V D + ++ +
Sbjct: 134 --------LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF 185
Query: 595 -TSFKQAFQHYPE-ILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLL 652
+ K + PE +L L+ L + Q P S D
Sbjct: 186 WLNLKN--CNSPETVLEMLQKLLY--------QIDPNWTSRSD----------------- 218
Query: 653 PALIHTHLQTTPI---SERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEL 709
H + S +A L+ + E + V + K A +
Sbjct: 219 ------HSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ--NAKAWNAFNL------ 264
Query: 710 EPQLEKIREGCHILIATPGR-LNDFVS-----RASIDLKAVSFVVLDEADRML------- 756
C IL+ T + + DF+S S+D +++ DE +L
Sbjct: 265 ---------SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL-TPDEVKSLLLKYLDCR 314
Query: 757 --DLGFEPQINKTSIYINPNRQTVMTSA-------TWNKDVQRVAKKYMVNPVKVNVGSL 807
DL ++ NP R+ + + TW+ + V + ++ ++ L
Sbjct: 315 PQDL--PREVLT----TNP-RRLSIIAESIRDGLATWDN-WKHVNCDKLTTIIESSLNVL 366
Query: 808 DLAATHTVTQKIIILDEDEK--KDWLMEFFDNMD-EERDKVMVFMGRKASVSAMSSDLAC 864
+ A + ++ + L + ++ + V+ + + S +
Sbjct: 367 EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY-------SLVEK 419
Query: 865 QYRKS-CSLYG---DLSQE-DREIALEDITSGYARICVATDVASRGLDVPDLT--HVINY 917
Q ++S S+ +L + + E AL R V + D DL ++ Y
Sbjct: 420 QPKESTISIPSIYLELKVKLENEYALH-------RSIVDHYNIPKTFDSDDLIPPYLDQY 472
Query: 918 DFPSHI 923
F SHI
Sbjct: 473 -FYSHI 477
Score = 62.2 bits (150), Expect = 7e-10
Identities = 72/480 (15%), Positives = 147/480 (30%), Gaps = 130/480 (27%)
Query: 1 MEELMALSDRKER-----DKWAREPKIIKNVYKEDPEVANMTPEQVEAFRKKNNDISVSV 55
++ ++ D + + + + E+ N + + + S+
Sbjct: 51 IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINY-KFLMSPIKTEQRQPSMMT 109
Query: 56 VTSDGQID----ENPDFQIPNPVTSFKQAFQHYPEILRQ-LENLSFTTPSPIQAQAWPIL 110
Q D +N F V+ + + LRQ L L P+ ++
Sbjct: 110 RMYIEQRDRLYNDNQVF-AKYNVSRLQPYLK-----LRQALLELR---PAK-----NVLI 155
Query: 111 MSGHDMIGIAQTGTGKT---------------FAF---------------LLPALIHTHL 140
++G GKT F +L L
Sbjct: 156 ---DGVLGS-----GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY 207
Query: 141 QTTP-ISERAGPSVLVMAPTRELATQIEREVNKIDYKG----LKAVCVYGGKEIEPQLEK 195
Q P + R+ S + + ++ R + Y+ L V +
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ---NAKA---WNA 261
Query: 196 IREGCHILIATPGR-LNDFVS-----RASIDLKAVSFVVLDEADRML---------DLGF 240
C IL+ T + + DF+S S+D +++ DE +L DL
Sbjct: 262 FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL-TPDEVKSLLLKYLDCRPQDL-- 318
Query: 241 EPQINKTSIYINPNRQTVMTSA-------TWNKDVQRVAKKYMVNPVKVNVGSLDLAATH 293
++ NP R+ + + TW+ + V + ++ ++ L+ A
Sbjct: 319 PREVLT----TNP-RRLSIIAESIRDGLATWDN-WKHVNCDKLTTIIESSLNVLEPAEYR 372
Query: 294 TVTQKIIILDEDEK--KDWLMEFFDNMD-EERDKVMVFMGRKASVSAMSSDLACQYRKS- 349
+ ++ + L + ++ + V+ + + S + Q ++S
Sbjct: 373 KMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY-------SLVEKQPKEST 425
Query: 350 CSLYG---DLSQE-DREIALEDITSGYARICVATDVASRGLDVPDLT--HVINYDFPSHI 403
S+ +L + + E AL R V + D DL ++ Y F SHI
Sbjct: 426 ISIPSIYLELKVKLENEYALH-------RSIVDHYNIPKTFDSDDLIPPYLDQY-FYSHI 477
Score = 53.3 bits (127), Expect = 4e-07
Identities = 72/652 (11%), Positives = 194/652 (29%), Gaps = 174/652 (26%)
Query: 60 GQID-ENPDFQIPNPVTSFKQAF--QHYPEILRQ------LENLSFTTPSPIQAQA---W 107
G+ + D + +F F + ++ + ++++ + + W
Sbjct: 12 GEHQYQYKDI-LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHI-IMSKDAVSGTLRLFW 69
Query: 108 PILMSGHDMIGIA-QTGTGKTFAFLLPALIHTHLQTTPIS-------ERAGPSVLVMAP- 158
+L +M+ + + FL+ + Q + ++ +R V A
Sbjct: 70 TLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY 129
Query: 159 --TR-ELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGC--HILIATPGRLNDF 213
+R + ++ + + ++ + K V + G G + +
Sbjct: 130 NVSRLQPYLKLRQALLEL--RPAKNVLIDGVL-----------GSGKTWVALDV--CLSY 174
Query: 214 VSRASIDLKA--VSFVVLDEADRMLDLGFEPQINKTSIYINPN---RQTVMTSATWNK-D 267
+ +D K ++ + + +L+ + K I+PN R ++
Sbjct: 175 KVQCKMDFKIFWLNLKNCNSPETVLE-----MLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229
Query: 268 VQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMV 327
+Q ++ + + N L ++L + + F+ K+++
Sbjct: 230 IQAELRRLLKSKPYEN--CL------------LVLL-NVQNAKAWNAFNL----SCKILL 270
Query: 328 FMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIAL-EDITSGYARICVATDVASRGL 386
R V+ L+ +S + + L D +
Sbjct: 271 -TTRFKQVT---DFLSAATTT------HISLDHHSMTLTPDEVKSLLLKYLDCRPQ---- 316
Query: 387 DVPDLTHVIN-----------YDFPSHIEEYVH-RVGRTGRAGKSGESITLMTRKDWSHA 434
D+P N D + + + H + +S S+ ++ ++
Sbjct: 317 DLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES--SLNVLEPAEYRKM 374
Query: 435 HEIIPILEEGGHESYMIWRRDSRIALHVI----LEGGEEVVEE-----------EEGGED 479
+ + + + I ++ + + V E+ ++
Sbjct: 375 FDRLSVFPP-----------SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Query: 480 GMEILVGVDLEVVMEGEEEGEVAIQMINKID----------------------LGRHIDP 517
+ + LE+ ++ E E + +++ + +G H+
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLK- 482
Query: 518 EPTMEELMALSDRKERD-KWAREPKIIKNVYKEDPE--VANMTPEQVEAFRKKNNDISVS 574
E M L D ++ E KI + + + N T +Q++ ++ I +
Sbjct: 483 NIEHPERMTLFRMVFLDFRFL-EQKIRHDSTAWNASGSILN-TLQQLKFYKPY---ICDN 537
Query: 575 VVTSDGQIDENPDFQIPN--------PVTSFKQ-AFQH-----YPEILRQLE 612
+ ++ DF +P T + A + E +Q++
Sbjct: 538 DPKYERLVNAILDF-LPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQ 588
Score = 52.5 bits (125), Expect = 7e-07
Identities = 97/696 (13%), Positives = 181/696 (26%), Gaps = 227/696 (32%)
Query: 317 NMDEE--------RDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALE-- 366
+MD E +D + VF A + C+ + LS+E+ + +
Sbjct: 6 HMDFETGEHQYQYKDILSVFE------DAFVDNFDCKDVQD-MPKSILSKEEIDHIIMSK 58
Query: 367 -DITSGYARICVATDVASRGLD--VPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESI 423
++ + V ++ INY F + + R S +
Sbjct: 59 DAVSGTLRLFWTLLSKQEEMVQKFVEEV-LRINYKF---LMSPIKTEQR----QPSMMTR 110
Query: 424 TLMTRKD--WSHAHEIIPILEEGGHESYMIWRRDSRIALH-----------VILEGGEEV 470
+ ++D ++ Y + R + L V+++G
Sbjct: 111 MYIEQRDRLYNDNQVFAK---------YNVSRLQPYLKLRQALLELRPAKNVLIDGV--- 158
Query: 471 VEEEEGGEDGMEILVGVDLEVVMEGEEEGEVAIQMINKI---DLGRHIDPEPTMEELMAL 527
G G + L+V +V +M KI +L PE +E L L
Sbjct: 159 -----LGS-GKTWVA---LDVC----LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL 205
Query: 528 -----------SDRKERDK----WAREPK---IIKNVYKE-----DPEVANMTPEQVEAF 564
SD K + + Y+ V N + AF
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL-NVQN--AKAWNAF 262
Query: 565 RKKNNDIS--VSVVTSDGQI--DENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPS 620
++S + + T Q+ + + E+ L P
Sbjct: 263 -----NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP-DEVKSLLLKYLDCRPQ 316
Query: 621 --PIQA-QAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMA 677
P + P +S +I I L T +
Sbjct: 317 DLPREVLTTNPRRLS---IIA---------------ESIRDGLATWDNWKHVN------- 351
Query: 678 PTRELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRL-NDFVSR 736
+L T IE +N ++ + ++ +L HI + D +
Sbjct: 352 -CDKLTTIIESSLNVLEPAEYRK--MF------DRLSVFPPSAHIPTILLSLIWFDVIKS 402
Query: 737 ASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYM 796
VV+++ + + E Q +++I I + K +
Sbjct: 403 -------DVMVVVNKLHKYSLV--EKQPKESTISIP--------------SIYLELKVKL 439
Query: 797 VNPVKVNVGSLDLAATHTVTQKII----ILDEDEKKDWLMEFFDN--------------M 838
N A H + I+ I + D + + D
Sbjct: 440 EN----------EYALH---RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEH 486
Query: 839 DEERD---KVMV---FMGRK-----------ASVSAMSSDLACQYRK----SCSLYGDLS 877
E V + F+ +K S+ L Y+ + Y
Sbjct: 487 PERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLK-FYKPYICDNDPKY---- 541
Query: 878 QEDREIALEDITSGYARICVA---TDVASRGLDVPD 910
E A+ D + TD+ L D
Sbjct: 542 -ERLVNAILDFLPKIEENLICSKYTDLLRIALMAED 576
>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 = 68.3 bits (167), Expect = 7e-12
Identities = 65/391 (16%), Positives = 133/391 (34%), Gaps = 58/391 (14%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWP-ILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTT 143
I L+ + P QA+A ++ G + + T +GKT + A++H L
Sbjct: 10 ERIKSTLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEI-AMVHRILTQ- 67
Query: 144 PISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHIL 203
G + + P + LA + +E + GL+ G + + + I+
Sbjct: 68 ------GGKAVYIVPLKALAEEKFQEFQDWEKIGLRVAMATGDYDSKD---EWLGKYDII 118
Query: 204 IATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 263
IAT + + + S +K V +V DE + + ++ Q + SAT
Sbjct: 119 IATAEKFDSLLRHGSSWIKDVKILVADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSAT 178
Query: 264 WNKDVQRVAK----------------KYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEK 307
+ + +A+ + V + ++++ +K
Sbjct: 179 IG-NPEELAEWLNAELIVSDWRPVKLRRGVFYQGFVTWEDGSIDRFSSWEELVYDAIRKK 237
Query: 308 K----------------DWLMEFFDNMD-EERDKVMVFMGRKASVSAMSSDLACQYRKSC 350
K L + ++ + + + + + + LA R
Sbjct: 238 KGALIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIRGGV 297
Query: 351 SLY-GDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVIN----YDFPSHIE- 404
+ + L +++R + E+ G + VAT S G++ P +I Y
Sbjct: 298 AFHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERI 357
Query: 405 ---EYVHRVGRTGRAG--KSGESITLMTRKD 430
E +GR GR + GE I +++ D
Sbjct: 358 PIIEVHQMLGRAGRPKYDEVGEGI-IVSTSD 387
Score = 61.8 bits (150), Expect = 7e-10
Identities = 36/180 (20%), Positives = 68/180 (37%), Gaps = 12/180 (6%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWP-ILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTT 663
I L+ + P QA+A ++ G + + T +GKT + A++H L
Sbjct: 10 ERIKSTLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEI-AMVHRILTQ- 67
Query: 664 PISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHIL 723
G + + P + LA + +E + GL+ G + + + I+
Sbjct: 68 ------GGKAVYIVPLKALAEEKFQEFQDWEKIGLRVAMATGDYDSKD---EWLGKYDII 118
Query: 724 IATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 783
IAT + + + S +K V +V DE + + ++ Q + SAT
Sbjct: 119 IATAEKFDSLLRHGSSWIKDVKILVADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSAT 178
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal
helicase, DNA repair,, DNA binding protein/DNA complex;
3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2
c.37.1.19 c.37.1.19 PDB: 2p6u_A
Length = 702
Score = 66.4 bits (162), Expect = 3e-11
Identities = 74/408 (18%), Positives = 139/408 (34%), Gaps = 92/408 (22%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 144
+ L+ P QA+A + SG +++ T GKT + A++ ++
Sbjct: 12 SYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEM-AMVREAIK--- 67
Query: 145 ISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHILI 204
G L + P R LA + K + GL+ + + G + E + E + + C I++
Sbjct: 68 -----GGKSLYVVPLRALAGEKYESFKKWEKIGLR-IGISTG-DYESRDEHLGD-CDIIV 119
Query: 205 ATPGRLNDFVSRASIDLKAVSFVVLDE----AD------------RMLDLGFEPQINKTS 248
T + + + + +KAVS +V+DE +M
Sbjct: 120 TTSEKADSLIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMR------------ 167
Query: 249 IYINPNRQTVMTSATWNKDVQRVAK-------KYMVNPVKVNVGSLDLAATHTVTQKIII 301
+N + + SAT +V +A+ PV + G L
Sbjct: 168 -RMNKALRVIGLSATAP-NVTEIAEWLDADYYVSDWRPVPLVEGVLCEGTLELFDGAF-- 223
Query: 302 LDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLA------------------ 343
++ E + E V+VF + + L+
Sbjct: 224 --STSRRVKFEELVEECVAENGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILE 281
Query: 344 ------CQYRKSCSLYG------DLSQEDREIALEDITSGYARICVATDVASRGLDVPDL 391
+ C G L R + + G ++ VAT + G+++P
Sbjct: 282 ENEGEMSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPAR 341
Query: 392 THVIN----YDFPSH---IEEYVHRVGRTGRAG--KSGESITLMTRKD 430
++ +D S + EY GR GR G + GE+I ++ ++D
Sbjct: 342 RVIVRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRD 389
Score = 57.5 bits (139), Expect = 1e-08
Identities = 34/147 (23%), Positives = 65/147 (44%), Gaps = 12/147 (8%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTP 664
+ L+ P QA+A + SG +++ T GKT + A++ ++
Sbjct: 12 SYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEM-AMVREAIK--- 67
Query: 665 ISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILI 724
G L + P R LA + K + GL+ + + G + E + E + + C I++
Sbjct: 68 -----GGKSLYVVPLRALAGEKYESFKKWEKIGLR-IGISTG-DYESRDEHLGD-CDIIV 119
Query: 725 ATPGRLNDFVSRASIDLKAVSFVVLDE 751
T + + + + +KAVS +V+DE
Sbjct: 120 TTSEKADSLIRNRASWIKAVSCLVVDE 146
>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 = 62.9 bits (153), Expect = 4e-11
Identities = 30/156 (19%), Positives = 58/156 (37%), Gaps = 12/156 (7%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTF-AFLLPALIHTHLQTT 143
+ + P Q + + G ++I TG+GKT A + HL
Sbjct: 20 ENVAARASPEPELQLRPYQMEVAQPALEGKNIIICLPTGSGKTRVAVYI---AKDHLDKK 76
Query: 144 PISERAGPSVLVMAPTRELATQ-IEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHI 202
+ G V+V+ L Q +E K + + + G +++ ++ + C I
Sbjct: 77 KKASEPGK-VIVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDI 135
Query: 203 LIATPGRL------NDFVSRASIDLKAVSFVVLDEA 232
+I+T L + A + L S +++DE
Sbjct: 136 IISTAQILENSLLNLENGEDAGVQLSDFSLIIIDEC 171
Score = 62.1 bits (151), Expect = 5e-11
Identities = 31/156 (19%), Positives = 58/156 (37%), Gaps = 12/156 (7%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTF-AFLLPALIHTHLQTT 663
+ + P Q + + G ++I TG+GKT A + HL
Sbjct: 20 ENVAARASPEPELQLRPYQMEVAQPALEGKNIIICLPTGSGKTRVAVYI---AKDHLDKK 76
Query: 664 PISERAGPSVLVMAPTRELATQ-IEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHI 722
+ G V+V+ L Q +E K + + + G +L+ ++ + C I
Sbjct: 77 KKASEPGK-VIVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDI 135
Query: 723 LIATPGRL------NDFVSRASIDLKAVSFVVLDEA 752
+I+T L + A + L S +++DE
Sbjct: 136 IISTAQILENSLLNLENGEDAGVQLSDFSLIIIDEC 171
>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 = 63.3 bits (154), Expect = 1e-10
Identities = 54/344 (15%), Positives = 102/344 (29%), Gaps = 77/344 (22%)
Query: 98 TPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMA 157
P I I G GKT +LP+++ L L++A
Sbjct: 4 MGEPDYEVDEDIFRKKRLTIMDLHPGAGKT-KRILPSIVREAL-------LRRLRTLILA 55
Query: 158 PTRELATQIEREVNK--IDYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVS 215
PTR +A ++E + I Y+ + G+EI + + +
Sbjct: 56 PTRVVAAEMEEALRGLPIRYQTPAVKSDHTGREI------------VDLMCHATFTTRL- 102
Query: 216 RASIDLKAVSFVVLDEA-----DRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQR 270
+S + + +V+DEA + G+ + + +AT
Sbjct: 103 LSSTRVPNYNLIVMDEAHFTDPCSVAARGYISTRVEM-----GEAAAIFMTATPPGSTDP 157
Query: 271 VAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMG 330
+ +P++ + + +T FD + + + K + F+
Sbjct: 158 FPQSN--SPIEDIEREIPERSWNTG-------------------FDWITDYQGKTVWFVP 196
Query: 331 RKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGL--D- 387
+ + +++ L ++ L V TD++ G
Sbjct: 197 SIKAGNDIANCLRKSGKRVIQLSRKTFDT----EYPKTKLTDWDFVVTTDISEMGANFRA 252
Query: 388 --VPD----LTHVINYDFPSHIEEYV----------HRVGRTGR 415
V D L VI D P + R GR GR
Sbjct: 253 GRVIDPRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIGR 296
Score = 59.5 bits (144), Expect = 3e-09
Identities = 49/341 (14%), Positives = 98/341 (28%), Gaps = 73/341 (21%)
Query: 618 TPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMA 677
P I I G GKT +LP+++ L L++A
Sbjct: 4 MGEPDYEVDEDIFRKKRLTIMDLHPGAGKT-KRILPSIVREAL-------LRRLRTLILA 55
Query: 678 PTRELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRA 737
PTR +A ++E + + + Y ++ + + + +
Sbjct: 56 PTRVVAAEMEEALRGLPIR-------YQTPAVK---SDHTGREIVDLMCHATFTTRL-LS 104
Query: 738 SIDLKAVSFVVLDEA-----DRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVA 792
S + + +V+DEA + G+ + + +AT
Sbjct: 105 STRVPNYNLIVMDEAHFTDPCSVAARGYISTRVEM-----GEAAAIFMTATPPGSTDPFP 159
Query: 793 KKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRK 852
+ +P++ + + +T FD + + + K + F+
Sbjct: 160 QSN--SPIEDIEREIPERSWNTG-------------------FDWITDYQGKTVWFVPSI 198
Query: 853 ASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGL--D--- 907
+ + +++ L ++ L V TD++ G
Sbjct: 199 KAGNDIANCLRKSGKRVIQLSRKTFDT----EYPKTKLTDWDFVVTTDISEMGANFRAGR 254
Query: 908 VPD----LTHVINYDFPSHIEEYV----------HRVGRTG 934
V D L VI D P + R GR G
Sbjct: 255 VIDPRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIG 295
>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 = 62.5 bits (152), Expect = 3e-10
Identities = 44/331 (13%), Positives = 90/331 (27%), Gaps = 73/331 (22%)
Query: 109 ILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIER 168
+L G + G GKT LP ++ + LV+APTR + ++++
Sbjct: 4 MLKKGMTTVLDFHPGAGKT-RRFLPQILAECAR-------RRLRTLVLAPTRVVLSEMKE 55
Query: 169 EVNKIDYK-GLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFV 227
+ +D K +A +G I L + + +
Sbjct: 56 AFHGLDVKFHTQAFSAHGSGRE-----------VIDAMCHATLTYRMLE-PTRVVNWEVI 103
Query: 228 VLDE-----ADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKV 282
++DE + G+ + T++ +AT + N
Sbjct: 104 IMDEAHFLDPASIAARGWAAHRAR-----ANESATILMTAT---PPGTSDEFPHSNGEIE 155
Query: 283 NVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDL 342
+V + + D + ++ F+ + + M++ L
Sbjct: 156 DVQTDIPSEPWNTGH------------------DWILADKRPTAWFLPSIRAANVMAASL 197
Query: 343 ACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVI------- 395
+ L + I +ATD+A G ++ + V+
Sbjct: 198 RKAGKSVVVLNRKTFER----EYPTIKQKKPDFILATDIAEMGANL-CVERVLDCRTAFK 252
Query: 396 -NYDFPSHIEEY--------VHRVGRTGRAG 417
R GR G
Sbjct: 253 PVLVDEGRKVAIKGPLRISASSAAQRRGRIG 283
Score = 58.7 bits (142), Expect = 4e-09
Identities = 38/292 (13%), Positives = 81/292 (27%), Gaps = 55/292 (18%)
Query: 629 ILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIER 688
+L G + G GKT LP ++ + LV+APTR + ++++
Sbjct: 4 MLKKGMTTVLDFHPGAGKT-RRFLPQILAECAR-------RRLRTLVLAPTRVVLSEMKE 55
Query: 689 EVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVV 748
+ GL I L + + ++
Sbjct: 56 A-----FHGLDVKFHTQAFS-----AHGSGREVIDAMCHATLTYRMLE-PTRVVNWEVII 104
Query: 749 LDE-----ADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVN 803
+DE + G+ + T++ +AT + N +
Sbjct: 105 MDEAHFLDPASIAARGWAAHRAR-----ANESATILMTAT---PPGTSDEFPHSNGEIED 156
Query: 804 VGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLA 863
V + + D + ++ F+ + + M++ L
Sbjct: 157 VQTDIPSEPWNTGH------------------DWILADKRPTAWFLPSIRAANVMAASLR 198
Query: 864 CQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVI 915
+ L + I +ATD+A G ++ + V+
Sbjct: 199 KAGKSVVVLNRKTFER----EYPTIKQKKPDFILATDIAEMGANL-CVERVL 245
>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 = 62.2 bits (151), Expect = 5e-10
Identities = 69/369 (18%), Positives = 108/369 (29%), Gaps = 103/369 (27%)
Query: 122 TGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAV 181
TG+GKT + L++ PT LA Q + + G + V
Sbjct: 117 TGSGKTHVAMA------------AINELSTPTLIVVPTLALAEQWKERLGIF---GEEYV 161
Query: 182 CVYGGKEIEP-------------QLEKIREGCHILI------------------------ 204
+ G+ E EK+ +LI
Sbjct: 162 GEFSGRIKELKPLTVSTYDSAYVNAEKLGNRFMLLIFDEVHHLPAESYVQIAQMSIAPFR 221
Query: 205 ----ATPGRLNDF-----------VSRASIDLKA----------VSFVVLDEADRMLDLG 239
AT R + V D A FV L E +R+
Sbjct: 222 LGLTATFEREDGRHEILKEVVGGKVFELFPDSLAGKHLAKYTIKRIFVPLAEDERVEYEK 281
Query: 240 FEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKI 299
E + ++ T+ + +NK V A +
Sbjct: 282 REKVYKQ---FLRARGITLRRAEDFNKIVMASGYDERAYE----------ALRAWEEARR 328
Query: 300 IILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQE 359
I + K L E + +DK+++F V +S + S+E
Sbjct: 329 IAFNSKNKIRKLREILE--RHRKDKIIIFTRHNELVYRISKVFLIPA-----ITHRTSRE 381
Query: 360 DREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIE---EYVHRVGRTGRA 416
+RE LE +G R V++ V G+DVPD + S EY+ R+GR R
Sbjct: 382 EREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGV---IMSGSGSAREYIQRLGRILRP 438
Query: 417 GKSGESITL 425
K + L
Sbjct: 439 SKGKKEAVL 447
Score = 58.7 bits (142), Expect = 5e-09
Identities = 66/356 (18%), Positives = 104/356 (29%), Gaps = 103/356 (28%)
Query: 642 TGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAV 701
TG+GKT + L++ PT LA Q + + G + V
Sbjct: 117 TGSGKTHVAMA------------AINELSTPTLIVVPTLALAEQWKERLGIF---GEEYV 161
Query: 702 CVYGGKELEP-------------QLEKIREGCHILI------------------------ 724
+ G+ E EK+ +LI
Sbjct: 162 GEFSGRIKELKPLTVSTYDSAYVNAEKLGNRFMLLIFDEVHHLPAESYVQIAQMSIAPFR 221
Query: 725 ----ATPGRLNDF-----------VSRASIDLKA----------VSFVVLDEADRMLDLG 759
AT R + V D A FV L E +R+
Sbjct: 222 LGLTATFEREDGRHEILKEVVGGKVFELFPDSLAGKHLAKYTIKRIFVPLAEDERVEYEK 281
Query: 760 FEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKI 819
E + ++ T+ + +NK V A +
Sbjct: 282 REKVYKQ---FLRARGITLRRAEDFNKIVMASGYDERAYE----------ALRAWEEARR 328
Query: 820 IILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQE 879
I + K L E + +DK+++F V +S + S+E
Sbjct: 329 IAFNSKNKIRKLREILE--RHRKDKIIIFTRHNELVYRISKVFLIPA-----ITHRTSRE 381
Query: 880 DREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIE---EYVHRVGR 932
+RE LE +G R V++ V G+DVPD + S EY+ R+GR
Sbjct: 382 EREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGV---IMSGSGSAREYIQRLGR 434
>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 = 62.8 bits (152), Expect = 6e-10
Identities = 93/535 (17%), Positives = 146/535 (27%), Gaps = 177/535 (33%)
Query: 516 DPEPT-MEELMA-----LSDRKERDKWAREPKIIKNVYKEDPEVANMTPEQVEAFRK--- 566
D EPT EL+ +S E K + +++ E F
Sbjct: 51 DDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTE--------------FENCYL 96
Query: 567 KNNDISVSVVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQA 626
+ NDI ++ Q ++ + + ++ A R + F S
Sbjct: 97 EGNDIH-ALAAKLLQENDTTLVKTKELIKNYITA--------RIMAKRPFDKKSN----- 142
Query: 627 WPILMSGHDMIGIAQTGTGKTFA-F--------LLPALIHTHLQTTPISERAGPSVLVMA 677
L G + A F L L T G + A
Sbjct: 143 -SALFRA------VGEGNAQLVAIFGGQGNTDDYFEELRD--LYQTY-HVLVGDLIKFSA 192
Query: 678 PT-RELATQIEREVNKIDYKGLKAVCVYGGKELEP------------------QLEKIRE 718
T EL + K+ +GL + P QL
Sbjct: 193 ETLSELIRT-TLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVV 251
Query: 719 GCHILIATPGRLNDFVSRASIDLKAV-------------SFVVLDEADRMLDLGF----- 760
+L TPG L ++ A+ + + SF + + + F
Sbjct: 252 TAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESF--FVSVRKAITVLFFIGVR 309
Query: 761 ----------EPQINKTSIYINPNRQTVMTSAT--WNKDVQRVAKK-------------Y 795
P I + S+ N + M S + + VQ K
Sbjct: 310 CYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEIS 369
Query: 796 MVN-PVKVNV-G---SL--------DLAATHTVTQKIIILDEDEKKDWLMEF------F- 835
+VN + V G SL A + Q I E K + F F
Sbjct: 370 LVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSE-RKLKFSNRFLPVASPFH 428
Query: 836 -DNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLY----G-DLSQEDREIALEDIT 889
+ D + + + +VS + D+ +Y G DL I E I
Sbjct: 429 SHLLVPASDLINKDLVKN-NVSFNAKDIQIP------VYDTFDGSDLRVLSGSI-SERIV 480
Query: 890 SGYARICV----ATDVASRGLDVPDLTHVINYDF-P---SHIEEYVHRV--GRTG 934
R+ V T + TH++ DF P S + HR G TG
Sbjct: 481 DCIIRLPVKWETTTQFKA--------THIL--DFGPGGASGLGVLTHRNKDG-TG 524
Score = 61.2 bits (148), Expect = 1e-09
Identities = 57/347 (16%), Positives = 100/347 (28%), Gaps = 121/347 (34%)
Query: 220 DLKAVSFV---VLDEADRML--DLGFEPQINKTSIY-I---NPNRQTVMTSATWNKDVQR 270
DL S V + AD GF SI I NP T+ + +R
Sbjct: 1634 DLYKTSKAAQDVWNRADNHFKDTYGF-------SILDIVINNPVNLTIHFGG---EKGKR 1683
Query: 271 VAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMG 330
+ + Y ++ +D K + + F ++E F
Sbjct: 1684 IRENYS---------AMIFETI---------VDGKLKTE---KIFKEINEHSTSYT-FRS 1721
Query: 331 RKASVS-------AMSSDLACQYRKSCSLYGDLSQEDREIALEDITSG-----Y-ARICV 377
K +S A+ + + DL + I + +G Y A +
Sbjct: 1722 EKGLLSATQFTQPAL---TLM----EKAAFEDL-KSKGLIPADATFAGHSLGEYAALASL 1773
Query: 378 ATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEI 437
A DV + + L V+ Y R G
Sbjct: 1774 A-DV----MSIESLVEVVFY--------------R-GMT-----------------MQVA 1796
Query: 438 IPILEEGGHESYMIWRRDSRIALHVILEGGEEVVEE--EEGGE---------DGMEILVG 486
+P E G MI R+A E + VVE + G + + +
Sbjct: 1797 VPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAA 1856
Query: 487 VDLEVVMEGEEEG-EVAIQMINKIDLGRHIDPEPTMEELMALSDRKE 532
G+ + ++N I L + ID +++ ++L + +
Sbjct: 1857 --------GDLRALDTVTNVLNFIKLQK-IDIIE-LQKSLSLEEVEG 1893
Score = 58.5 bits (141), Expect = 9e-09
Identities = 87/526 (16%), Positives = 141/526 (26%), Gaps = 174/526 (33%)
Query: 3 ELMA-----LSDRKERDKWAREPKIIKNVYKEDPEVANMTPEQVEAFRK---KNNDISVS 54
EL+ +S E K + +++ E F + NDI +
Sbjct: 59 ELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTE--------------FENCYLEGNDIH-A 103
Query: 55 VVTSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGH 114
+ Q ++ + + ++ A R + F S L
Sbjct: 104 LAAKLLQENDTTLVKTKELIKNYITA--------RIMAKRPFDKKSN------SALFRA- 148
Query: 115 DMIGIAQTGTGKTFA-F--------LLPALIHTHLQTTPISERAGPSVLVMAPT-RELAT 164
G + A F L L T G + A T EL
Sbjct: 149 -----VGEGNAQLVAIFGGQGNTDDYFEELRD--LYQTY-HVLVGDLIKFSAETLSELIR 200
Query: 165 QIEREVNKIDYKGLKAVCVYGGKEIEP------------------QLEKIREGCHILIAT 206
+ K+ +GL + P QL +L T
Sbjct: 201 T-TLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFT 259
Query: 207 PGRLNDFVSRASIDLKAV-------------SFVVLDEADRMLDLGF------------- 240
PG L ++ A+ + + SF + + + F
Sbjct: 260 PGELRSYLKGATGHSQGLVTAVAIAETDSWESF--FVSVRKAITVLFFIGVRCYEAYPNT 317
Query: 241 --EPQINKTSIYINPNRQTVMTSAT--WNKDVQRVAKK-------------YMVN-PVKV 282
P I + S+ N + M S + + VQ K +VN +
Sbjct: 318 SLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNL 377
Query: 283 NV-G---SL--------DLAATHTVTQKIIILDEDEKKDWLMEF------F--DNMDEER 322
V G SL A + Q I E K + F F +
Sbjct: 378 VVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSE-RKLKFSNRFLPVASPFHSHLLVPAS 436
Query: 323 DKVMVFMGRKASVSAMSSDLACQYRKSCSLY----G-DLSQEDREIALEDITSGYARICV 377
D + + + +VS + D+ +Y G DL I E I R+ V
Sbjct: 437 DLINKDLVKN-NVSFNAKDIQIP------VYDTFDGSDLRVLSGSI-SERIVDCIIRLPV 488
Query: 378 ----ATDVASRGLDVPDLTHVINYDF-P---SHIEEYVHRVGRTGR 415
T + TH++ DF P S + HR + G
Sbjct: 489 KWETTTQFKA--------THIL--DFGPGGASGLGVLTHRN-KDGT 523
Score = 43.9 bits (103), Expect = 3e-04
Identities = 100/675 (14%), Positives = 182/675 (26%), Gaps = 286/675 (42%)
Query: 105 QAW---PILMSGHDMIGIAQTGTGKTFAFLLPALIHTH--------LQTTPISERAGPSV 153
A+ P+ +S H + L+P + P
Sbjct: 2 DAYSTRPLTLS-HGSL---------EHVLLVPTASFFIASQLQEQFNKILP--------- 42
Query: 154 LVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEP--QLEKIREGCHILIATPGRLN 211
PT A + EP E L+ +
Sbjct: 43 ---EPTEGFA-----------------------ADDEPTTPAE--------LVG---KFL 65
Query: 212 DFVSRASIDLKAVSF-----VVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNK 266
+VS K F + L E FE + Y+
Sbjct: 66 GYVSSLVEPSKVGQFDQVLNLCLTE--------FE------NCYLE------------GN 99
Query: 267 DVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDE---DEKKDWLMEFFDNMDEERD 323
D+ H + K++ ++ + K+ + +
Sbjct: 100 DI------------------------HALAAKLLQENDTTLVKTKELIKNYI-------- 127
Query: 324 KVMVFMGRKASVSAMSSDL--ACQYRKSCSLY------GDLS---QEDREI------ALE 366
+ R +S L A + L G+ +E R++ +
Sbjct: 128 TARIMAKRPFD-KKSNSALFRAVG-EGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVG 185
Query: 367 DITSGYARICV--------ATDVASRGLDV------PDLTHVINY------DFP------ 400
D+ A A V ++GL++ P T +Y P
Sbjct: 186 DLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQ 245
Query: 401 -SHIEEYVHRVG------RTGRAGKSGESITLMT------RKDWSHAHEIIP-ILEE--- 443
+H +G R+ G +G S L+T W + +
Sbjct: 246 LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFF 305
Query: 444 -G--GHESYMIWRRDSRIALHVILEGGEEVVEEEEGGEDGMEILVGVDLEVV-------- 492
G +E+Y ++ + ++ E+ +E EG M + + E V
Sbjct: 306 IGVRCYEAY----PNTSLPPSIL----EDSLENNEGVPSPMLSISNLTQEQVQDYVNKTN 357
Query: 493 MEGEEEGEVAIQMINKIDLG-RHI----DPEPTMEELMALSD--RKER-----DKW---- 536
+V I ++N G +++ P + L L+ RK + D+
Sbjct: 358 SHLPAGKQVEISLVN----GAKNLVVSGPP----QSLYGLNLTLRKAKAPSGLDQSRIPF 409
Query: 537 -AREPKIIKNVYKEDPEVAN------MTPEQVEAFRKKNNDISVSVVTSDGQIDENPDFQ 589
R+ K N + P VA+ + P A N D+ + V+ + + D Q
Sbjct: 410 SERKLK-FSNRF--LP-VASPFHSHLLVP----ASDLINKDLVKNNVSFNAK-----DIQ 456
Query: 590 IPNPVTSFKQA--FQHY-PEILRQLENLSFTTPSPIQAQAWP---------IL------M 631
I PV + I ++ + P++ W IL
Sbjct: 457 I--PVYDTFDGSDLRVLSGSISERIVDCIIR--LPVK---WETTTQFKATHILDFGPGGA 509
Query: 632 SGH-DMIGIAQTGTG 645
SG + + GTG
Sbjct: 510 SGLGVLTHRNKDGTG 524
Score = 43.9 bits (103), Expect = 3e-04
Identities = 41/242 (16%), Positives = 62/242 (25%), Gaps = 80/242 (33%)
Query: 740 DLKAVSFV---VLDEADRML--DLGFEPQINKTSIY-I---NPNRQTVMTSATWNKDVQR 790
DL S V + AD GF SI I NP T+ + +R
Sbjct: 1634 DLYKTSKAAQDVWNRADNHFKDTYGF-------SILDIVINNPVNLTIHFGG---EKGKR 1683
Query: 791 VAKKYMV----NPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEF------------ 834
+ + Y V + + + ++ +F
Sbjct: 1684 IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAA 1743
Query: 835 FDNMDEE--RDKVMVFMGRKASV---SAMSSDLACQ--------------YRKSCSLYGD 875
F+++ + F G S+ +A LA YR G
Sbjct: 1744 FEDLKSKGLIPADATFAGH--SLGEYAA----LASLADVMSIESLVEVVFYR------GM 1791
Query: 876 LSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVG-RTG 934
Q E S Y I + + L + V RVG RTG
Sbjct: 1792 TMQVAVP-RDELGRSNYGMIAINPGRVAASFSQEAL------------QYVVERVGKRTG 1838
Query: 935 EF 936
Sbjct: 1839 WL 1840
>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 = 61.1 bits (147), Expect = 2e-09
Identities = 60/468 (12%), Positives = 146/468 (31%), Gaps = 28/468 (5%)
Query: 1 MEELMALSDRKERDKWAREPKIIKNVYKEDPEVANMTPEQVEAFRKKNNDISVSVVTSDG 60
+ +L+ R +++ W + ++ + + A + S +
Sbjct: 153 ITKLIECLCRSDKEHWPKSLQLALDTTGYYRASELWDIREDNAKDVDSEMTDASEDCLEA 212
Query: 61 QIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIA 120
+ + + + + ++ + I + Q + ++G + + A
Sbjct: 213 SMTYSEEAEPDDNLSENLGSAAEG--IGKPPPVYETKKARSYQIELAQPAINGKNALICA 270
Query: 121 QTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DYKGLK 179
TG+GKTF +L + H Q P +A V+ +A + Q + + +G
Sbjct: 271 PTGSGKTFVSIL--ICEHHFQNMPAGRKA--KVVFLATKVPVYEQQKNVFKHHFERQGYS 326
Query: 180 AVCVYGGKEIEPQLEKIREGCHILIATPGRL-NDFVSRASIDLKAVSFVVLDEADRMLD- 237
+ G +EK+ E I++ TP L N F L + ++ DE
Sbjct: 327 VQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGN 386
Query: 238 ---------------LGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKV 282
+ + + + + + +
Sbjct: 387 HPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAIST 446
Query: 283 NVGSLDLAATHTVTQKI-IILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSD 341
++ +I + L + + N+ E + +M + ++S S
Sbjct: 447 VRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIAYVDTLSQNSKK 506
Query: 342 LACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFP- 400
++ + ++Q + + +RIC A + + L + +I+ D
Sbjct: 507 DFG--TQNYEHWIVVTQRKCRLLQLEDKEEESRICRALFICTEHLRKYNDALIISEDARI 564
Query: 401 SHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEIIPILEEGGHES 448
Y+ + G E +T K E+I + ++ +E+
Sbjct: 565 IDALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPELIALSKDETNEN 612
Score = 60.4 bits (145), Expect = 2e-09
Identities = 37/242 (15%), Positives = 82/242 (33%), Gaps = 8/242 (3%)
Query: 517 PEPTMEELMALSDRKERDKWAREPKIIKNVYKEDPEVANMTPEQVEAFRKKNNDISVSVV 576
+ +L+ R +++ W + ++ + + A + S
Sbjct: 149 KAAGITKLIECLCRSDKEHWPKSLQLALDTTGYYRASELWDIREDNAKDVDSEMTDASED 208
Query: 577 TSDGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDM 636
+ + + + + + ++ + I + Q + ++G +
Sbjct: 209 CLEASMTYSEEAEPDDNLSENLGSAAEG--IGKPPPVYETKKARSYQIELAQPAINGKNA 266
Query: 637 IGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKI-DY 695
+ A TG+GKTF +L + H Q P +A V+ +A + Q + +
Sbjct: 267 LICAPTGSGKTFVSIL--ICEHHFQNMPAGRKA--KVVFLATKVPVYEQQKNVFKHHFER 322
Query: 696 KGLKAVCVYGGKELEPQLEKIREGCHILIATPGRL-NDFVSRASIDLKAVSFVVLDEADR 754
+G + G +EK+ E I++ TP L N F L + ++ DE
Sbjct: 323 QGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHN 382
Query: 755 ML 756
Sbjct: 383 TT 384
Score = 56.9 bits (136), Expect = 3e-08
Identities = 43/292 (14%), Positives = 97/292 (33%), Gaps = 31/292 (10%)
Query: 165 QIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAV 224
+ R + +D + +G + E + + C +L + RA
Sbjct: 489 ALMRTIAYVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRICRALFICTEH 548
Query: 225 SFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 284
D D ++ + + + + + Q + K+ ++
Sbjct: 549 LRKYNDALIISEDARIIDALSYLTEFFTNVKNG-----PYTELEQHLTAKFQEKEPELIA 603
Query: 285 GSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLAC 344
S D + +++ L + + + R ++F +A VSA+ +
Sbjct: 604 LSKDETNENPKLEEL--------VCILDDAYRYNPQTR--TLLFAKTRALVSALKKCMEE 653
Query: 345 ----QYRKSCSLYG--------DLSQEDREIALEDITSG-YARICVATDVASRGLDVPDL 391
Y K L G ++ ++ L+ + R+ +AT VA G+D+
Sbjct: 654 NPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQC 713
Query: 392 THVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEIIPILEE 443
V+ Y++ ++ + + GR +G L+T K +E +E
Sbjct: 714 NLVVLYEYSGNVTKMIQVR---GRGRAAGSKCILVTSKTEVVENEKCNRYKE 762
Score = 53.0 bits (126), Expect = 5e-07
Identities = 37/261 (14%), Positives = 87/261 (33%), Gaps = 28/261 (10%)
Query: 685 QIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAV 744
+ R + +D + +G + E + + C +L + RA
Sbjct: 489 ALMRTIAYVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRICRALFICTEH 548
Query: 745 SFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNV 804
D D ++ + + + + + Q + K+ ++
Sbjct: 549 LRKYNDALIISEDARIIDALSYLTEFFTNVKNG-----PYTELEQHLTAKFQEKEPELIA 603
Query: 805 GSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLAC 864
S D + +++ L + + + R ++F +A VSA+ +
Sbjct: 604 LSKDETNENPKLEEL--------VCILDDAYRYNPQTR--TLLFAKTRALVSALKKCMEE 653
Query: 865 ----QYRKSCSLYG--------DLSQEDREIALEDITSG-YARICVATDVASRGLDVPDL 911
Y K L G ++ ++ L+ + R+ +AT VA G+D+
Sbjct: 654 NPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQC 713
Query: 912 THVINYDFPSHIEEYVHRVGR 932
V+ Y++ ++ + + GR
Sbjct: 714 NLVVLYEYSGNVTKMIQVRGR 734
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 59.9 bits (144), Expect = 2e-09
Identities = 40/304 (13%), Positives = 104/304 (34%), Gaps = 10/304 (3%)
Query: 161 ELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASID 220
E + ++ +G ++ E + + + C + V +A
Sbjct: 243 ETEKLAKDVSEELGKLFQIQNREFGTQKYEQWIVGVHKACSVFQMADKEEESRVCKALFL 302
Query: 221 LKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPV 280
+ D D +N + + R+ +++ + + +++
Sbjct: 303 YTSHLRKYNDALIISEDAQMTDALNYLKAFFHDVREA-----AFDETERELTRRFEEKLE 357
Query: 281 KVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMV---FMGRKASVSA 337
++ S D + + + + ++ ++E + R V ++ ++S
Sbjct: 358 ELEKVSRDPSNENPKLRDLYLVLQEEYHLKPETKTILFVKTRALVDALKKWIEENPALSF 417
Query: 338 MSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINY 397
+ + ++ G + + SG I +AT VA G+D+ + VI Y
Sbjct: 418 LKPGILTGRGRTNRATGMTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILY 477
Query: 398 DFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEIIPILEEGGHESYMIWRRDSR 457
++ ++ + + GR GRA + + L + D + I E+ +ES + +
Sbjct: 478 EYVGNVIKMIQTRGR-GRA-RDSKCFLLTSSADVIEKEKANMIKEKIMNESILRLQTWDE 535
Query: 458 IALH 461
+
Sbjct: 536 MKFG 539
Score = 56.8 bits (136), Expect = 3e-08
Identities = 50/371 (13%), Positives = 107/371 (28%), Gaps = 24/371 (6%)
Query: 111 MSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREV 170
G + I A TG GKTF LL + HL+ P ++ V+ A + Q
Sbjct: 17 KKGKNTIICAPTGCGKTFVSLL--ICEHHLKKFPCGQKG--KVVFFANQIPVYEQQATVF 72
Query: 171 NKI-DYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASID-LKAVSFVV 228
++ + G + G ++ I E I+I TP L + ++ +I L + ++
Sbjct: 73 SRYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIPSLSVFTLMI 132
Query: 229 LDEADRM-----------------LDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRV 271
DE L +P + + T+ + + ++
Sbjct: 133 FDECHNTSKNHPYNQIMFRYLDHKLGESRDPLPQVVGLTASVGVGDAKTAEEAMQHICKL 192
Query: 272 AKKYMVNPVKVNVG-SLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMG 330
+ + +L QKI + + +E +K+ +
Sbjct: 193 CAALDASVIATVRDNVAELEQVVYKPQKISRKVASRTSNTFKCIISQLMKETEKLAKDVS 252
Query: 331 RKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPD 390
+ + +K + + + D S D
Sbjct: 253 EELGKLFQIQNREFGTQKYEQWIVGVHKACSVFQMADKEEESRVCKALFLYTSHLRKYND 312
Query: 391 LTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEIIPILEEGGHESYM 450
+ + Y+ R E+ +TR+ E+ + + +E+
Sbjct: 313 ALIISEDAQMTDALNYLKAFFHDVREAAFDETERELTRRFEEKLEELEKVSRDPSNENPK 372
Query: 451 IWRRDSRIALH 461
+ +
Sbjct: 373 LRDLYLVLQEE 383
Score = 55.7 bits (133), Expect = 5e-08
Identities = 30/127 (23%), Positives = 51/127 (40%), Gaps = 6/127 (4%)
Query: 631 MSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREV 690
G + I A TG GKTF LL + HL+ P ++ V+ A + Q
Sbjct: 17 KKGKNTIICAPTGCGKTFVSLL--ICEHHLKKFPCGQKG--KVVFFANQIPVYEQQATVF 72
Query: 691 NKI-DYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASID-LKAVSFVV 748
++ + G + G ++ I E I+I TP L + ++ +I L + ++
Sbjct: 73 SRYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIPSLSVFTLMI 132
Query: 749 LDEADRM 755
DE
Sbjct: 133 FDECHNT 139
Score = 53.0 bits (126), Expect = 4e-07
Identities = 31/255 (12%), Positives = 86/255 (33%), Gaps = 8/255 (3%)
Query: 681 ELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASID 740
E + ++ +G ++ E + + + C + V +A
Sbjct: 243 ETEKLAKDVSEELGKLFQIQNREFGTQKYEQWIVGVHKACSVFQMADKEEESRVCKALFL 302
Query: 741 LKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPV 800
+ D D +N + + R+ +++ + + +++
Sbjct: 303 YTSHLRKYNDALIISEDAQMTDALNYLKAFFHDVREA-----AFDETERELTRRFEEKLE 357
Query: 801 KVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMV---FMGRKASVSA 857
++ S D + + + + ++ ++E + R V ++ ++S
Sbjct: 358 ELEKVSRDPSNENPKLRDLYLVLQEEYHLKPETKTILFVKTRALVDALKKWIEENPALSF 417
Query: 858 MSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINY 917
+ + ++ G + + SG I +AT VA G+D+ + VI Y
Sbjct: 418 LKPGILTGRGRTNRATGMTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILY 477
Query: 918 DFPSHIEEYVHRVGR 932
++ ++ + + GR
Sbjct: 478 EYVGNVIKMIQTRGR 492
>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase,
ATP-binding, reticulum, nucleotidyltransferase,
multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4}
PDB: 2vbc_A 2wzq_A
Length = 618
Score = 58.8 bits (142), Expect = 5e-09
Identities = 51/370 (13%), Positives = 102/370 (27%), Gaps = 77/370 (20%)
Query: 72 NPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFL 131
+ + + P I I G GKT +
Sbjct: 145 KVIGLYGNGVVTKSGDYVSAITQAERIGEPDYEVDEDIFRKKRLTIMDLHPGAGKTKR-I 203
Query: 132 LPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKID--YKGLKAVCVYGGKEI 189
LP+++ L + L++APTR +A ++E + + Y+ + G+EI
Sbjct: 204 LPSIVREAL-------KRRLRTLILAPTRVVAAEMEEALRGLPIRYQTPAVKSDHTGREI 256
Query: 190 EPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDE-----ADRMLDLGFEPQI 244
+ + + +S + + +V+DE + G+
Sbjct: 257 ------------VDLMCHATFTTRL-LSSTRVPNYNLIVMDEAHFTDPCSVAARGYISTR 303
Query: 245 NKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDE 304
+ + +AT +P++ + + +T I
Sbjct: 304 VEM-----GEAAAIFMTAT--PPGSTDPFPQSNSPIEDIEREIPERSWNTGFDWI----- 351
Query: 305 DEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIA 364
+ + K + F+ + + +++ L ++ L
Sbjct: 352 --------------TDYQGKTVWFVPSIKAGNDIANCLRKSGKRVIQLSRKTFDT----E 393
Query: 365 LEDITSGYARICVATDVASRGL-----DVPD----LTHVINYDFPSHIEEYV-------- 407
V TD++ G V D L VI D P +
Sbjct: 394 YPKTKLTDWDFVVTTDISEMGANFRAGRVIDPRRCLKPVILTDGPERVILAGPIPVTPAS 453
Query: 408 --HRVGRTGR 415
R GR GR
Sbjct: 454 AAQRRGRIGR 463
Score = 55.0 bits (132), Expect = 8e-08
Identities = 49/369 (13%), Positives = 101/369 (27%), Gaps = 77/369 (20%)
Query: 592 NPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFL 651
+ + + P I I G GKT +
Sbjct: 145 KVIGLYGNGVVTKSGDYVSAITQAERIGEPDYEVDEDIFRKKRLTIMDLHPGAGKTKR-I 203
Query: 652 LPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKID--YKGLKAVCVYGGKEL 709
LP+++ L + L++APTR +A ++E + + Y+ + G+E+
Sbjct: 204 LPSIVREAL-------KRRLRTLILAPTRVVAAEMEEALRGLPIRYQTPAVKSDHTGREI 256
Query: 710 EPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDE-----ADRMLDLGFEPQI 764
+ + + +S + + +V+DE + G+
Sbjct: 257 ------------VDLMCHATFTTRL-LSSTRVPNYNLIVMDEAHFTDPCSVAARGYISTR 303
Query: 765 NKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDE 824
+ + +AT +P++ + + +T I
Sbjct: 304 VEM-----GEAAAIFMTAT--PPGSTDPFPQSNSPIEDIEREIPERSWNTGFDWI----- 351
Query: 825 DEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIA 884
+ + K + F+ + + +++ L ++ L
Sbjct: 352 --------------TDYQGKTVWFVPSIKAGNDIANCLRKSGKRVIQLSRKTFDT----E 393
Query: 885 LEDITSGYARICVATDVASRGL-----DVPD----LTHVINYDFPSHIEEYV-------- 927
V TD++ G V D L VI D P +
Sbjct: 394 YPKTKLTDWDFVVTTDISEMGANFRAGRVIDPRRCLKPVILTDGPERVILAGPIPVTPAS 453
Query: 928 --HRVGRTG 934
R GR G
Sbjct: 454 AAQRRGRIG 462
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 58.8 bits (141), Expect = 6e-09
Identities = 38/313 (12%), Positives = 102/313 (32%), Gaps = 26/313 (8%)
Query: 160 RELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASI 219
R+ + +R ++ +G ++ E + +++ C + + +A
Sbjct: 251 RDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVTVQKACMVFQMPDKDEESRICKALF 310
Query: 220 DLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNP 279
+ D + ++ + + R +A +++ Q + +++
Sbjct: 311 LYTSHLRKYNDALIISEHARMKDALDYLKDFFSNVR-----AAGFDEIEQDLTQRFEEKL 365
Query: 280 VKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASV--SA 337
++ S D + + + + L E + E + V +
Sbjct: 366 QELESVSRDPSNENPKLEDLC--------FILQEEYHLNPETITILFVKTRALVDALKNW 417
Query: 338 MSSDLACQYRKSCSLYG--------DLSQEDREIALEDI-TSGYARICVATDVASRGLDV 388
+ + + K L G ++ ++ L+ SG I +AT VA G+D+
Sbjct: 418 IEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDI 477
Query: 389 PDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEIIPILEEGGHES 448
VI Y++ ++ + + GR + + L + +I E+ ++S
Sbjct: 478 AQCNLVILYEYVGNVIKMIQTRGRGRA--RGSKCFLLTSNAGVIEKEQINMYKEKMMNDS 535
Query: 449 YMIWRRDSRIALH 461
+ +
Sbjct: 536 ILRLQTWDEAVFR 548
Score = 53.4 bits (127), Expect = 3e-07
Identities = 36/152 (23%), Positives = 58/152 (38%), Gaps = 6/152 (3%)
Query: 98 TPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMA 157
P Q + M G + I A TG GKTF LL + HL+ P + V+ A
Sbjct: 13 KPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLL--ICEHHLKKFPQGQ--KGKVVFFA 68
Query: 158 PTRELATQIEREVNKI-DYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSR 216
+ Q + +K + G + + G +E+I E I+I TP L + + +
Sbjct: 69 NQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKK 128
Query: 217 ASID-LKAVSFVVLDEADRMLDLGFEPQINKT 247
+I L + ++ DE I
Sbjct: 129 GTIPSLSIFTLMIFDECHNTSKQHPYNMIMFN 160
Score = 53.4 bits (127), Expect = 3e-07
Identities = 36/152 (23%), Positives = 58/152 (38%), Gaps = 6/152 (3%)
Query: 618 TPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMA 677
P Q + M G + I A TG GKTF LL + HL+ P + V+ A
Sbjct: 13 KPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLL--ICEHHLKKFPQGQ--KGKVVFFA 68
Query: 678 PTRELATQIEREVNKI-DYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSR 736
+ Q + +K + G + + G +E+I E I+I TP L + + +
Sbjct: 69 NQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKK 128
Query: 737 ASID-LKAVSFVVLDEADRMLDLGFEPQINKT 767
+I L + ++ DE I
Sbjct: 129 GTIPSLSIFTLMIFDECHNTSKQHPYNMIMFN 160
Score = 52.7 bits (125), Expect = 5e-07
Identities = 34/264 (12%), Positives = 89/264 (33%), Gaps = 24/264 (9%)
Query: 680 RELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASI 739
R+ + +R ++ +G ++ E + +++ C + + +A
Sbjct: 251 RDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVTVQKACMVFQMPDKDEESRICKALF 310
Query: 740 DLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNP 799
+ D + ++ + + R +A +++ Q + +++
Sbjct: 311 LYTSHLRKYNDALIISEHARMKDALDYLKDFFSNVR-----AAGFDEIEQDLTQRFEEKL 365
Query: 800 VKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASV--SA 857
++ S D + + + + L E + E + V +
Sbjct: 366 QELESVSRDPSNENPKLEDLC--------FILQEEYHLNPETITILFVKTRALVDALKNW 417
Query: 858 MSSDLACQYRKSCSLYG--------DLSQEDREIALEDI-TSGYARICVATDVASRGLDV 908
+ + + K L G ++ ++ L+ SG I +AT VA G+D+
Sbjct: 418 IEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDI 477
Query: 909 PDLTHVINYDFPSHIEEYVHRVGR 932
VI Y++ ++ + + GR
Sbjct: 478 AQCNLVILYEYVGNVIKMIQTRGR 501
>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 = 58.9 bits (143), Expect = 6e-09
Identities = 58/331 (17%), Positives = 103/331 (31%), Gaps = 74/331 (22%)
Query: 620 SPIQAQ-AWPI-LMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMA 677
P Q W ++ A TG GKT L +L G V+
Sbjct: 56 EPRAIQKMWAKRILRKESFAATAPTGVGKTSFGLAMSLFLA---------LKGKRCYVIF 106
Query: 678 PTRELATQIEREVNKIDYKGLKAVCV----YGG----KELEPQLEKIREGCHILIATPGR 729
PT L Q + K K Y G +E E ++ +R I+I T
Sbjct: 107 PTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRN-FKIVITT--- 162
Query: 730 LNDFVSRASIDLKAVSFVVLDEADRMLD-----------LGFEPQINKTSIYINPNRQTV 778
F+S+ +L F+ +D+ D +L LGF + S +
Sbjct: 163 -TQFLSKHYRELGHFDFIFVDDVDAILKASKNVDKLLHLLGFHYDLKTKSWVGEARGCLM 221
Query: 779 MTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEF---- 834
+++AT K + + ++N ++GS + + + L +
Sbjct: 222 VSTATAKKGKKAELFRQLLN---FDIGSSRITVRNVEDVAVNDESISTLSSILEKLGTGG 278
Query: 835 --FDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGY 892
+ EE +++ + K + +++ ++ E G
Sbjct: 279 IIYARTGEEAEEIYESLKNKFRIGIVTA-------------------TKKGDYEKFVEG- 318
Query: 893 ARICVATDVAS------RGLDVPDLTHVINY 917
I A RGLD+P I +
Sbjct: 319 -EIDHLIGTAHYYGTLVRGLDLP---ERIRF 345
Score = 58.5 bits (142), Expect = 9e-09
Identities = 58/331 (17%), Positives = 103/331 (31%), Gaps = 74/331 (22%)
Query: 100 SPIQAQ-AWPI-LMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMA 157
P Q W ++ A TG GKT L +L G V+
Sbjct: 56 EPRAIQKMWAKRILRKESFAATAPTGVGKTSFGLAMSLFLA---------LKGKRCYVIF 106
Query: 158 PTRELATQIEREVNKIDYKGLKAVCV----YGG----KEIEPQLEKIREGCHILIATPGR 209
PT L Q + K K Y G +E E ++ +R I+I T
Sbjct: 107 PTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRN-FKIVITT--- 162
Query: 210 LNDFVSRASIDLKAVSFVVLDEADRMLD-----------LGFEPQINKTSIYINPNRQTV 258
F+S+ +L F+ +D+ D +L LGF + S +
Sbjct: 163 -TQFLSKHYRELGHFDFIFVDDVDAILKASKNVDKLLHLLGFHYDLKTKSWVGEARGCLM 221
Query: 259 MTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEF---- 314
+++AT K + + ++N ++GS + + + L +
Sbjct: 222 VSTATAKKGKKAELFRQLLN---FDIGSSRITVRNVEDVAVNDESISTLSSILEKLGTGG 278
Query: 315 --FDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGY 372
+ EE +++ + K + +++ ++ E G
Sbjct: 279 IIYARTGEEAEEIYESLKNKFRIGIVTA-------------------TKKGDYEKFVEG- 318
Query: 373 ARICVATDVAS------RGLDVPDLTHVINY 397
I A RGLD+P I +
Sbjct: 319 -EIDHLIGTAHYYGTLVRGLDLP---ERIRF 345
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 56.4 bits (136), Expect = 2e-08
Identities = 40/321 (12%), Positives = 86/321 (26%), Gaps = 75/321 (23%)
Query: 119 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGL 178
G GKT +LP L+ + + +++APTR +A+++ +
Sbjct: 8 DLHPGAGKT-RRVLPQLVREAV-------KKRLRTVILAPTRVVASEMYEALRG------ 53
Query: 179 KAVCVYGGKEIEPQLEKIREGCH-ILIATPGRLNDFVSRASIDLKAVSFVVLDEA----- 232
+ + P ++ R G + + + + + ++DEA
Sbjct: 54 -----EPIRYMTPAVQSERTGNEIVDFMCHSTFTMKL-LQGVRVPNYNLYIMDEAHFLDP 107
Query: 233 DRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAAT 292
+ G+ + + +AT N ++ +
Sbjct: 108 ASVAARGYIETRVS-----MGDAGAIFMTAT---PPGTTEAFPPSNSPIIDEETRIPDKA 159
Query: 293 HTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSL 352
+ I E + + F+ + + + L +K L
Sbjct: 160 WNSGYEWIT------------------EFDGRTVWFVHSIKQGAEIGTCLQKAGKKVLYL 201
Query: 353 YGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVG- 411
+ S + TD++ G + VI D I+ +
Sbjct: 202 NRKTFES----EYPKCKSEKWDFVITTDISEMGANF-KADRVI--DPRKTIKPILLDGRV 254
Query: 412 ---------------RTGRAG 417
R GR G
Sbjct: 255 SMQGPIAITPASAAQRRGRIG 275
Score = 53.7 bits (129), Expect = 2e-07
Identities = 34/300 (11%), Positives = 80/300 (26%), Gaps = 57/300 (19%)
Query: 639 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGL 698
G GKT +LP L+ + + +++APTR +A+++ +
Sbjct: 8 DLHPGAGKT-RRVLPQLVREAV-------KKRLRTVILAPTRVVASEMYEALR------- 52
Query: 699 KAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEA-----D 753
Y ++ + + + + + + ++DEA
Sbjct: 53 GEPIRYMTPAVQ---SERTGNEIVDFMCHSTFTMKL-LQGVRVPNYNLYIMDEAHFLDPA 108
Query: 754 RMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATH 813
+ G+ + + +AT N ++ +
Sbjct: 109 SVAARGYIETRVS-----MGDAGAIFMTAT---PPGTTEAFPPSNSPIIDEETRIPDKAW 160
Query: 814 TVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLY 873
+ I E + + F+ + + + L +K L
Sbjct: 161 NSGYEWIT------------------EFDGRTVWFVHSIKQGAEIGTCLQKAGKKVLYLN 202
Query: 874 GDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRT 933
+ S + TD++ G + VI D I+ + +
Sbjct: 203 RKTFES----EYPKCKSEKWDFVITTDISEMGANF-KADRVI--DPRKTIKPILLDGRVS 255
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 53.8 bits (128), Expect = 2e-07
Identities = 54/396 (13%), Positives = 113/396 (28%), Gaps = 49/396 (12%)
Query: 59 DGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQA-WPILMSGHDMI 117
+ +P ++ F + L P Q A + L++ ++
Sbjct: 76 GYKAWIDPQINEKEELSRKD--FDEWLSKLEIYSGNKRIEPHWYQKDAVFEGLVNRRRIL 133
Query: 118 GIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYK- 176
+ + LL + + +L++ PT L TQ+ +
Sbjct: 134 NLPTSAGRSLIQALLARYYLENYE---------GKILIIVPTTALTTQMADDFVDYRLFS 184
Query: 177 GLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRML 236
+ GG + + + T + ++ DE
Sbjct: 185 HAMIKKIGGGASKDDKYKNDAPVVVGTWQTVVKQPKEWFSQ------FGMMMNDECHLAT 238
Query: 237 DLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVT 296
I+ N + ++ + + + M + V + L VT
Sbjct: 239 GKSISSIISG---LNNCMFKFGLSGSLRDGKANIMQYVGMFGEIFKPVTTSKLMEDGQVT 295
Query: 297 QKII--------------------------ILDEDEKKDWLMEFFDNMDEERDKVMVFMG 330
+ I I ++ W+ + + ++ + V
Sbjct: 296 ELKINSIFLRYPDEFTTKLKGKTYQEEIKIITGLSKRNKWIAKLAIKLAQKDENAFVMFK 355
Query: 331 RKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVAT-DVASRGLDVP 389
+ A+ + +Y K + G++ E R I +G I VA+ V S G+ V
Sbjct: 356 HVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVFSTGISVK 415
Query: 390 DLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITL 425
+L HV+ + +GR R S T+
Sbjct: 416 NLHHVVLAHGVKSKIIVLQTIGRVLRKHGSKTIATV 451
Score = 50.7 bits (120), Expect = 2e-06
Identities = 51/383 (13%), Positives = 109/383 (28%), Gaps = 49/383 (12%)
Query: 579 DGQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQA-WPILMSGHDMI 637
+ +P ++ F + L P Q A + L++ ++
Sbjct: 76 GYKAWIDPQINEKEELSRKD--FDEWLSKLEIYSGNKRIEPHWYQKDAVFEGLVNRRRIL 133
Query: 638 GIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYK- 696
+ + LL + + +L++ PT L TQ+ +
Sbjct: 134 NLPTSAGRSLIQALLARYYLENYE---------GKILIIVPTTALTTQMADDFVDYRLFS 184
Query: 697 GLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRML 756
+ GG + + + T + ++ DE
Sbjct: 185 HAMIKKIGGGASKDDKYKNDAPVVVGTWQTVVKQPKEWFSQ------FGMMMNDECHLAT 238
Query: 757 DLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVT 816
I+ N + ++ + + + M + V + L VT
Sbjct: 239 GKSISSIISG---LNNCMFKFGLSGSLRDGKANIMQYVGMFGEIFKPVTTSKLMEDGQVT 295
Query: 817 QKII--------------------------ILDEDEKKDWLMEFFDNMDEERDKVMVFMG 850
+ I I ++ W+ + + ++ + V
Sbjct: 296 ELKINSIFLRYPDEFTTKLKGKTYQEEIKIITGLSKRNKWIAKLAIKLAQKDENAFVMFK 355
Query: 851 RKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICVAT-DVASRGLDVP 909
+ A+ + +Y K + G++ E R I +G I VA+ V S G+ V
Sbjct: 356 HVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVFSTGISVK 415
Query: 910 DLTHVINYDFPSHIEEYVHRVGR 932
+L HV+ + +GR
Sbjct: 416 NLHHVVLAHGVKSKIIVLQTIGR 438
>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 = 52.6 bits (125), Expect = 4e-07
Identities = 33/152 (21%), Positives = 62/152 (40%), Gaps = 18/152 (11%)
Query: 305 DEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLAC----QYRKSCSLYG------ 354
+E L + + + R ++F +A VSA+ + Y K L G
Sbjct: 375 EELVCILDDAYRYNPQTR--TLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQ 432
Query: 355 --DLSQEDREIALEDITSG-YARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVG 411
++ ++ L+ + R+ +AT VA G+D+ V+ Y++ ++ + + G
Sbjct: 433 TTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRG 492
Query: 412 RTGRAGKSGESITLMTRKDWSHAHEIIPILEE 443
R GRA S L+T K +E +E
Sbjct: 493 R-GRAAGS--KCILVTSKTEVVENEKCNRYKE 521
Score = 52.6 bits (125), Expect = 4e-07
Identities = 51/384 (13%), Positives = 107/384 (27%), Gaps = 26/384 (6%)
Query: 98 TPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMA 157
Q + ++G + + A TG+GKTF +L H + V+ +A
Sbjct: 7 KARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAK----VVFLA 62
Query: 158 PTRELATQ-IEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRL-NDFVS 215
+ Q + + +G + G +EK+ E I++ TP L N F
Sbjct: 63 TKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFED 122
Query: 216 RASIDLKAVSFVVLDEADR---------MLDLGFEPQINKTSIYI-------NPNRQTVM 259
L + ++ DE ++ E + N S +
Sbjct: 123 GTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAK 182
Query: 260 TSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKII-ILDEDEKKDWLMEFFDNM 318
+ + + + + ++ +I L + + N+
Sbjct: 183 NIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIISNL 242
Query: 319 DEERDKVM-VFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICV 377
E + +M D Q + + ++ R + LED
Sbjct: 243 MSETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIV--VTQRKCRLLQLEDKEEESRICRA 300
Query: 378 ATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAGKSGESITLMTRKDWSHAHEI 437
D + Y+ + G E +T K E+
Sbjct: 301 LFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPEL 360
Query: 438 IPILEEGGHESYMIWRRDSRIALH 461
I + ++ +E+ + +
Sbjct: 361 IALSKDETNENPKLEELVCILDDA 384
Score = 51.5 bits (122), Expect = 1e-06
Identities = 28/142 (19%), Positives = 50/142 (35%), Gaps = 6/142 (4%)
Query: 618 TPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMA 677
Q + ++G + + A TG+GKTF +L H + V+ +A
Sbjct: 7 KARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAK----VVFLA 62
Query: 678 PTRELATQ-IEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRL-NDFVS 735
+ Q + + +G + G +EK+ E I++ TP L N F
Sbjct: 63 TKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFED 122
Query: 736 RASIDLKAVSFVVLDEADRMLD 757
L + ++ DE
Sbjct: 123 GTLTSLSIFTLMIFDECHNTTG 144
Score = 48.4 bits (114), Expect = 9e-06
Identities = 24/121 (19%), Positives = 50/121 (41%), Gaps = 15/121 (12%)
Query: 825 DEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLAC----QYRKSCSLYG------ 874
+E L + + + R ++F +A VSA+ + Y K L G
Sbjct: 375 EELVCILDDAYRYNPQTR--TLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQ 432
Query: 875 --DLSQEDREIALEDITSG-YARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVG 931
++ ++ L+ + R+ +AT VA G+D+ V+ Y++ ++ + + G
Sbjct: 433 TTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRG 492
Query: 932 R 932
R
Sbjct: 493 R 493
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 52.0 bits (125), Expect = 8e-07
Identities = 31/149 (20%), Positives = 60/149 (40%), Gaps = 14/149 (9%)
Query: 605 PEILRQLENLSFTTPSPIQAQAWP-ILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTT 663
++ ++ +P Q +A L+ G+ ++ + TG+GKT + +I
Sbjct: 17 SNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEM-GIISF----- 70
Query: 664 PISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHIL 723
+ + G ++ V P R L + + G K G + + + I+
Sbjct: 71 -LLKNGGKAIYV-TPLRALTNEKYLTFKDWELIGFKVAMTSGDYDTDDAW---LKNYDII 125
Query: 724 IATPGRLNDFVSRASID-LKAVSFVVLDE 751
I T +L D + R + L V++ VLDE
Sbjct: 126 ITTYEKL-DSLWRHRPEWLNEVNYFVLDE 153
Score = 52.0 bits (125), Expect = 9e-07
Identities = 31/149 (20%), Positives = 60/149 (40%), Gaps = 14/149 (9%)
Query: 85 PEILRQLENLSFTTPSPIQAQAWP-ILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTT 143
++ ++ +P Q +A L+ G+ ++ + TG+GKT + +I
Sbjct: 17 SNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEM-GIISF----- 70
Query: 144 PISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHIL 203
+ + G ++ V P R L + + G K G + + + I+
Sbjct: 71 -LLKNGGKAIYV-TPLRALTNEKYLTFKDWELIGFKVAMTSGDYDTDDAW---LKNYDII 125
Query: 204 IATPGRLNDFVSRASID-LKAVSFVVLDE 231
I T +L D + R + L V++ VLDE
Sbjct: 126 ITTYEKL-DSLWRHRPEWLNEVNYFVLDE 153
Score = 32.8 bits (75), Expect = 0.71
Identities = 32/173 (18%), Positives = 54/173 (31%), Gaps = 25/173 (14%)
Query: 310 WLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYG------DLSQEDREI 363
+ + + + + + + + + + SD + KS G LS+ R++
Sbjct: 271 KIANYMNFVSLDENALSEILKQLDDIEEGGSDE-KELLKSLISKGVAYHHAGLSKALRDL 329
Query: 364 ALEDITSGYARICVATD------------VASRGLDVPDLTHVINYDFPSHIEEYVHRVG 411
E ++ VAT V + + YD I EY G
Sbjct: 330 IEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEIP-IMEYKQMSG 388
Query: 412 RTGRAGK--SGESITLMTRKDWSHAHEIIPILEEGGH--ESYMIWRRDSRIAL 460
R GR G GESI ++ R + ES + R L
Sbjct: 389 RAGRPGFDQIGESI-VVVRDKEDVDRVFKKYVLSDVEPIESKLGSERAFYTFL 440
>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 = 23/116 (19%), Positives = 53/116 (45%), Gaps = 5/116 (4%)
Query: 305 DEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDL-ACQYRKSCSLYGDLSQEDREI 363
D + +WLM + + + KV+V + A+ + L + ++ + +S +R+
Sbjct: 488 DPRVEWLMGYLTSHRSQ--KVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDR 545
Query: 364 ALEDITS--GYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAG 417
A A++ + +++ S G + +H++ +D P + + R+GR R G
Sbjct: 546 AAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDRIG 601
Score = 49.3 bits (117), Expect = 5e-06
Identities = 21/111 (18%), Positives = 51/111 (45%), Gaps = 5/111 (4%)
Query: 825 DEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDL-ACQYRKSCSLYGDLSQEDREI 883
D + +WLM + + + KV+V + A+ + L + ++ + +S +R+
Sbjct: 488 DPRVEWLMGYLTSHRSQ--KVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDR 545
Query: 884 ALEDITS--GYARICVATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGR 932
A A++ + +++ S G + +H++ +D P + + R+GR
Sbjct: 546 AAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFNPDLLEQRIGR 596
>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane,
nucleotide-binding, RNA replication, transmembrane,
viral protein; 1.80A {Japanese encephalitis virus} PDB:
2v8o_A 2qeq_A
Length = 459
Score = 47.1 bits (112), Expect = 2e-05
Identities = 39/322 (12%), Positives = 84/322 (26%), Gaps = 75/322 (23%)
Query: 119 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGL 178
G+GKT +LP +I + + V+APTR +A ++ + +
Sbjct: 27 DLHPGSGKTRK-ILPQIIKDAI-------QQRLRTAVLAPTRVVAAEMAEALRGLPV--- 75
Query: 179 KAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDE-----AD 233
+ + + + + L + + + V+DE
Sbjct: 76 -------RYQTSAVQREHQGNEIVDVMCHATLTHRLMS-PNRVPNYNLFVMDEAHFTDPA 127
Query: 234 RMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATH 293
+ G+ + + +AT P+ + A
Sbjct: 128 SIAARGYIATKVEL-----GEAAAIFMTATPPGTTDPFPDSNA--PIHDLQDEIPDRAWS 180
Query: 294 TVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLY 353
+ ++ + E K + F+ + ++ L +K L
Sbjct: 181 SG-------------------YEWITEYAGKTVWFVASVKMGNEIAMCLQRAGKKVIQLN 221
Query: 354 GDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVI----------NYDFPSHI 403
+G + TD++ G + + VI + +
Sbjct: 222 RKSYDT----EYPKCKNGDWDFVITTDISEMGANF-GASRVIDCRKSVKPTILEEGEGRV 276
Query: 404 EEYVH----------RVGRTGR 415
R GR GR
Sbjct: 277 ILGNPSPITSASAAQRRGRVGR 298
Score = 42.1 bits (99), Expect = 7e-04
Identities = 38/321 (11%), Positives = 83/321 (25%), Gaps = 75/321 (23%)
Query: 639 IAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGL 698
G+GKT +LP +I + + V+APTR +A ++ + +
Sbjct: 27 DLHPGSGKTRK-ILPQIIKDAI-------QQRLRTAVLAPTRVVAAEMAEALRGLPV--- 75
Query: 699 KAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDE-----AD 753
+ + + + + L + + + V+DE
Sbjct: 76 -------RYQTSAVQREHQGNEIVDVMCHATLTHRLMS-PNRVPNYNLFVMDEAHFTDPA 127
Query: 754 RMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATH 813
+ G+ + + +AT P+ + A
Sbjct: 128 SIAARGYIATKVEL-----GEAAAIFMTATPPGTTDPFPDSNA--PIHDLQDEIPDRAWS 180
Query: 814 TVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLY 873
+ ++ + E K + F+ + ++ L +K L
Sbjct: 181 SG-------------------YEWITEYAGKTVWFVASVKMGNEIAMCLQRAGKKVIQLN 221
Query: 874 GDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVI----------NYDFPSHI 923
+G + TD++ G + + VI + +
Sbjct: 222 RKSYDT----EYPKCKNGDWDFVITTDISEMGANF-GASRVIDCRKSVKPTILEEGEGRV 276
Query: 924 EEYVH----------RVGRTG 934
R GR G
Sbjct: 277 ILGNPSPITSASAAQRRGRVG 297
>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold,
winged-helix-turn-helix, antiparallel-coiled-COI domain,
ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces
cerevisiae}
Length = 1108
Score = 44.1 bits (103), Expect = 2e-04
Identities = 51/320 (15%), Positives = 93/320 (29%), Gaps = 39/320 (12%)
Query: 468 EEVVEEEEGGEDGMEILVGVDLEVVMEGEEEGEVAIQMINKIDLGRHIDPEPTMEELMAL 527
EE E +G + + +++ + + + + + +
Sbjct: 46 EETPVELPTDSNGEKNADTNVGDTPDHTQDKKHGLEEEKEEHEENNSENKKIKSNKSKTE 105
Query: 528 SDRKERDKWAREPKIIKNVYKEDPEVANMTPEQVEAFRKKNNDISVSVVTSDGQIDENPD 587
K+ + +E +T + + V + N D
Sbjct: 106 DKNKKVVVPVLADSFEQEASREVDASKGLTNSETLQVEQDGKVRLSHQVRHQVALPPNYD 165
Query: 588 FQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKT 647
+ P + YP L P Q A + G ++ A T GKT
Sbjct: 166 Y-TPIAEHKRVNEARTYPFTL-----------DPFQDTAISCIDRGESVLVSAHTSAGKT 213
Query: 648 ----FAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCV 703
+A S + V+ +P + L+ Q RE+
Sbjct: 214 VVAEYAIAQ-------------SLKNKQRVIYTSPIKALSNQKYRELLA----------E 250
Query: 704 YGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQ 763
+G L I L+ T L + R S ++ V++V+ DE M D
Sbjct: 251 FGDVGLMTGDITINPDAGCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVV 310
Query: 764 INKTSIYINPNRQTVMTSAT 783
+T I + + V SAT
Sbjct: 311 WEETIILLPDKVRYVFLSAT 330
Score = 39.8 bits (92), Expect = 0.005
Identities = 37/170 (21%), Positives = 59/170 (34%), Gaps = 27/170 (15%)
Query: 98 TPSPIQAQAWPILMSGHDMIGIAQTGTGKT----FAFLLPALIHTHLQTTPISERAGPSV 153
T P Q A + G ++ A T GKT +A S + V
Sbjct: 184 TLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQ-------------SLKNKQRV 230
Query: 154 LVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDF 213
+ +P + L+ Q RE+ +G + I L+ T L
Sbjct: 231 IYTSPIKALSNQKYRELLA----------EFGDVGLMTGDITINPDAGCLVMTTEILRSM 280
Query: 214 VSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 263
+ R S ++ V++V+ DE M D +T I + + V SAT
Sbjct: 281 LYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSAT 330
Score = 31.7 bits (71), Expect = 1.5
Identities = 22/87 (25%), Positives = 35/87 (40%), Gaps = 10/87 (11%)
Query: 353 YGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVI----NYDFPSHIE---- 404
+ L +E+ G+ ++ AT+ S GL++P T V +D
Sbjct: 511 HSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGG 570
Query: 405 EYVHRVGRTGRAG--KSGESITLMTRK 429
EY+ GR GR G G I ++ K
Sbjct: 571 EYIQMSGRAGRRGLDDRGIVIMMIDEK 597
>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3
catalytic subunit; nucleotide-binding, capsid protein;
2.75A {Murray valley encephalitis virus}
Length = 673
Score = 41.8 bits (98), Expect = 0.001
Identities = 47/358 (13%), Positives = 97/358 (27%), Gaps = 80/358 (22%)
Query: 84 YPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTT 143
Y + Q E + P + +L + G GKT +LP +I +
Sbjct: 215 YVSAIVQGERVEEPVPEAYNPE---MLKKRQLTVLDLHPGAGKTRR-ILPQIIKDAI--- 267
Query: 144 PISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCH-I 202
+ V+APTR +A ++ + + + P +++ G +
Sbjct: 268 ----QKRLRTAVLAPTRVVAAEMAEALRG-----------LPVRYLTPAVQREHSGNEIV 312
Query: 203 LIATPGRLNDFVSRASIDLKAVSFVVLDE-----ADRMLDLGFEPQINKTSIYINPNRQT 257
+ L + + + + V+DE + G+ +
Sbjct: 313 DVMCHATLTHRLMS-PLRVPNYNLFVMDEAHFTDPASIAARGYIATRVE-----AGEAAA 366
Query: 258 VMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDN 317
+ +AT PV + A + + I
Sbjct: 367 IFMTATPPGTSDPFPDTNS--PVHDVSSEIPDRAWSSGFEWIT----------------- 407
Query: 318 MDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICV 377
+ K + F+ + ++ L ++ L +G +
Sbjct: 408 --DYAGKTVWFVASVKMSNEIAQCLQRAGKRVIQLNRKSYDT----EYPKCKNGDWDFVI 461
Query: 378 ATDVASRGLDVPDLTHVI----------NYDFPSHIEEYVH----------RVGRTGR 415
TD++ G + + VI + + V R GR GR
Sbjct: 462 TTDISEMGANF-GASRVIDCRKSVKPTILDEGEGRVILSVPSAITSASAAQRRGRVGR 518
Score = 38.8 bits (90), Expect = 0.008
Identities = 42/318 (13%), Positives = 89/318 (27%), Gaps = 60/318 (18%)
Query: 604 YPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTT 663
Y + Q E + P + +L + G GKT +LP +I +
Sbjct: 215 YVSAIVQGERVEEPVPEAYNPE---MLKKRQLTVLDLHPGAGKTRR-ILPQIIKDAI--- 267
Query: 664 PISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCH-I 722
+ V+APTR +A ++ + + L P +++ G +
Sbjct: 268 ----QKRLRTAVLAPTRVVAAEMAEALRG-----------LPVRYLTPAVQREHSGNEIV 312
Query: 723 LIATPGRLNDFVSRASIDLKAVSFVVLDE-----ADRMLDLGFEPQINKTSIYINPNRQT 777
+ L + + + + V+DE + G+ +
Sbjct: 313 DVMCHATLTHRLMS-PLRVPNYNLFVMDEAHFTDPASIAARGYIATRVE-----AGEAAA 366
Query: 778 VMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDN 837
+ +AT PV + A + + I
Sbjct: 367 IFMTATPPGTSDPFPDTNS--PVHDVSSEIPDRAWSSGFEWIT----------------- 407
Query: 838 MDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALEDITSGYARICV 897
+ K + F+ + ++ L ++ L +G +
Sbjct: 408 --DYAGKTVWFVASVKMSNEIAQCLQRAGKRVIQLNRKSYDT----EYPKCKNGDWDFVI 461
Query: 898 ATDVASRGLDVPDLTHVI 915
TD++ G + + VI
Sbjct: 462 TTDISEMGANF-GASRVI 478
>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 = 40.5 bits (94), Expect = 0.002
Identities = 39/168 (23%), Positives = 60/168 (35%), Gaps = 23/168 (13%)
Query: 618 TPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPA--LIHTHLQTTPISERAGPSVLV 675
T P Q A + G ++ A T GKT + A I L + V+
Sbjct: 86 TLDPFQDTAISCIDRGESVLVSAHTSAGKT----VVAEYAIAQSL-------KNKQRVIY 134
Query: 676 MAPTRELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVS 735
+P + L+ Q RE+ +G L I L+ T L +
Sbjct: 135 TSPIKALSNQKYRELLA----------EFGDVGLMTGDITINPDAGCLVMTTEILRSMLY 184
Query: 736 RASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 783
R S ++ V++V+ DE M D +T I + + V SAT
Sbjct: 185 RGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSAT 232
Score = 40.5 bits (94), Expect = 0.003
Identities = 38/168 (22%), Positives = 60/168 (35%), Gaps = 23/168 (13%)
Query: 98 TPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPA--LIHTHLQTTPISERAGPSVLV 155
T P Q A + G ++ A T GKT + A I L + V+
Sbjct: 86 TLDPFQDTAISCIDRGESVLVSAHTSAGKT----VVAEYAIAQSL-------KNKQRVIY 134
Query: 156 MAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVS 215
+P + L+ Q RE+ +G + I L+ T L +
Sbjct: 135 TSPIKALSNQKYRELLA----------EFGDVGLMTGDITINPDAGCLVMTTEILRSMLY 184
Query: 216 RASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSAT 263
R S ++ V++V+ DE M D +T I + + V SAT
Sbjct: 185 RGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSAT 232
Score = 32.1 bits (72), Expect = 1.1
Identities = 22/87 (25%), Positives = 35/87 (40%), Gaps = 10/87 (11%)
Query: 353 YGDLSQEDREIALEDITSGYARICVATDVASRGLDVPDLTHVI----NYDFPSHIE---- 404
+ L +E+ G+ ++ AT+ S GL++P T V +D
Sbjct: 413 HSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGG 472
Query: 405 EYVHRVGRTGRAG--KSGESITLMTRK 429
EY+ GR GR G G I ++ K
Sbjct: 473 EYIQMSGRAGRRGLDDRGIVIMMIDEK 499
>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 = 37.9 bits (89), Expect = 0.016
Identities = 24/76 (31%), Positives = 35/76 (46%), Gaps = 2/76 (2%)
Query: 356 LSQEDREIALEDITSGYARICVATDVA-SRGLDVPDLTHVINYDFPSHIEEYVHRVGRTG 414
L R E +I VAT VA G++ P++ V+++D P +IE Y GR G
Sbjct: 270 LENNVRADVQEKFQRDDLQIVVAT-VAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAG 328
Query: 415 RAGKSGESITLMTRKD 430
R G E++ D
Sbjct: 329 RDGLPAEAMLFYDPAD 344
Score = 29.8 bits (68), Expect = 4.3
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 5/64 (7%)
Query: 876 LSQEDREIALEDITSGYARICVATDVA-SRGLDVPDLTHVINYDFPSHIEEY---VHRVG 931
L R E +I VAT VA G++ P++ V+++D P +IE Y R G
Sbjct: 270 LENNVRADVQEKFQRDDLQIVVAT-VAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAG 328
Query: 932 RTGE 935
R G
Sbjct: 329 RDGL 332
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 37.2 bits (85), Expect = 0.029
Identities = 56/380 (14%), Positives = 109/380 (28%), Gaps = 69/380 (18%)
Query: 78 KQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIH 137
KQ F + P A M + T +GKT+ A+
Sbjct: 122 KQIFPVLDCKDDLRKISDLRIPPNWYPDA--RAMQRKIIFHSGPTNSGKTYH----AI-- 173
Query: 138 THLQTTPISER--AGPSVLVMAPTRELATQIEREVNKIDYKGLKAVCVYGGKEIEPQLEK 195
++ + S + P + LA +I + N G+ V G + + Q
Sbjct: 174 ---------QKYFSAKSGVYCGPLKLLAHEIFEKSNA---AGVPCDLVTGEERVTVQPNG 221
Query: 196 IREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNR 255
+ + V+DE + D + + +
Sbjct: 222 KQASHVSCTVEMCSVTTP----------YEVAVIDEIQMIRDPARGWAWTRALLGLCAEE 271
Query: 256 QTVMTSATWNKDVQRVAKKYMVNPVKVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFF 315
+ ++ V +L T ++ L
Sbjct: 272 VHLCGEPA------------AIDLVM------ELMYTTGEEVEVRDYKRLTPISVLDHAL 313
Query: 316 DNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDLSQEDREIALE--DITSGYA 373
+++D R + K + ++S + + +S +YG L + + + +
Sbjct: 314 ESLDNLRPGDCIVCFSKNDIYSVSRQIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPC 373
Query: 374 RICVATDVASRGLDVPDLTHVI-----NYDFPSHIEEYVHRV---------GRTGRAGKS 419
+I VATD GL++ + +I E + + GR GR
Sbjct: 374 KILVATDAIGMGLNLS-IRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGRFSSR 432
Query: 420 GES--ITLMTRKDWSHAHEI 437
+ +T M +D S EI
Sbjct: 433 FKEGEVTTMNHEDLSLLKEI 452
Score = 36.1 bits (82), Expect = 0.056
Identities = 61/417 (14%), Positives = 125/417 (29%), Gaps = 69/417 (16%)
Query: 509 IDLGRHIDPEPTMEELMALSDRKERDKWAREPKIIKNVYKEDPEVANMTPEQVEAFRKKN 568
+L R +D + L RKE K + + ++ + +FR
Sbjct: 37 AELTRPLDKNEVKKVLDKFYKRKEIQKLGADYGLDARLF----------HQAFISFRNYI 86
Query: 569 N-----DISVSVVTSD-GQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPI 622
D+ + +V +D + D P + KQ F + P
Sbjct: 87 MQSHSLDVDIHIVLNDICFGAAHADDLFPFFLRHAKQIFPVLDCKDDLRKISDLRIPPNW 146
Query: 623 QAQAWPILMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISER--AGPSVLVMAPTR 680
A M + T +GKT+ A+ ++ + S + P +
Sbjct: 147 YPDA--RAMQRKIIFHSGPTNSGKTYH----AI-----------QKYFSAKSGVYCGPLK 189
Query: 681 ELATQIEREVNKIDYKGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASID 740
LA +I + N G+ V G E ++ + + T +
Sbjct: 190 LLAHEIFEKSNA---AGVPCDLVTG--EERVTVQPNGKQASHVSCTVEMCSVTTPY---- 240
Query: 741 LKAVSFVVLDEADRMLDLGFEPQINKTSIYINPNRQTVMTSATWNKDVQRVAKKYMVNPV 800
V+DE + D + + + + ++ V
Sbjct: 241 ----EVAVIDEIQMIRDPARGWAWTRALLGLCAEEVHLCGEPA------------AIDLV 284
Query: 801 KVNVGSLDLAATHTVTQKIIILDEDEKKDWLMEFFDNMDEERDKVMVFMGRKASVSAMSS 860
+L T ++ L +++D R + K + ++S
Sbjct: 285 M------ELMYTTGEEVEVRDYKRLTPISVLDHALESLDNLRPGDCIVCFSKNDIYSVSR 338
Query: 861 DLACQYRKSCSLYGDLSQEDREIALE--DITSGYARICVATDVASRGLDVPDLTHVI 915
+ + +S +YG L + + + + +I VATD GL++ + +I
Sbjct: 339 QIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGLNLS-IRRII 394
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase,
nucleotide excision repair,; 2.20A {Thermoplasma
acidophilum} PDB: 2vsf_A*
Length = 620
Score = 36.6 bits (85), Expect = 0.036
Identities = 18/93 (19%), Positives = 35/93 (37%), Gaps = 13/93 (13%)
Query: 110 LMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIERE 169
L + + + TG+GKT L AL + S VL + T Q+ +E
Sbjct: 19 LQKSYGVALESPTGSGKTIMALKSALQY--------SSERKLKVLYLVRTNSQEEQVIKE 70
Query: 170 VNKIDYK-GLKAVCVYGGKE---IEPQLEKIRE 198
+ + ++A+ + G+ I ++
Sbjct: 71 LRSLSSTMKIRAIPM-QGRVNMCILYRMVDDLH 102
Score = 36.6 bits (85), Expect = 0.039
Identities = 17/80 (21%), Positives = 32/80 (40%), Gaps = 10/80 (12%)
Query: 630 LMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIERE 689
L + + + TG+GKT L AL + S VL + T Q+ +E
Sbjct: 19 LQKSYGVALESPTGSGKTIMALKSALQY--------SSERKLKVLYLVRTNSQEEQVIKE 70
Query: 690 VNKIDYK-GLKAVCVYGGKE 708
+ + ++A+ + G+
Sbjct: 71 LRSLSSTMKIRAIPM-QGRV 89
>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 = 34.2 bits (79), Expect = 0.22
Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 2/77 (2%)
Query: 355 DLSQEDREIALEDITSGYARICVATDVA-SRGLDVPDLTHVINYDFPSHIEEYVHRVGRT 413
+L ED+ ++ ++ VAT VA G+D PD+ VI++ +E Y GR
Sbjct: 300 NLEPEDKTTVHRKWSANEIQVVVAT-VAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRA 358
Query: 414 GRAGKSGESITLMTRKD 430
GR + I D
Sbjct: 359 GRDDMKADCILYYGFGD 375
>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer
aging, hydrolase; HET: FLC; 2.00A {Sulfolobus
acidocaldarius} PDB: 3crw_1*
Length = 551
Score = 33.5 bits (76), Expect = 0.34
Identities = 22/94 (23%), Positives = 31/94 (32%), Gaps = 15/94 (15%)
Query: 110 LMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIERE 169
L + + A TG+GKT LL +L P VL + T I R+
Sbjct: 19 LRNNFLVALNAPTGSGKTLFSLLVSLEV------------KPKVLFVVRTHNEFYPIYRD 66
Query: 170 VNKIDYKGLKAVCVYGGKE---IEPQLEKIREGC 200
+ KI K GK + + E
Sbjct: 67 LTKIREKRNITFSFLVGKPSSCLYAEKGAESEDI 100
Score = 33.1 bits (75), Expect = 0.46
Identities = 23/94 (24%), Positives = 31/94 (32%), Gaps = 15/94 (15%)
Query: 630 LMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIERE 689
L + + A TG+GKT LL +L P VL + T I R+
Sbjct: 19 LRNNFLVALNAPTGSGKTLFSLLVSLEV------------KPKVLFVVRTHNEFYPIYRD 66
Query: 690 VNKIDYKGLKAVCVYGGKE---LEPQLEKIREGC 720
+ KI K GK L + E
Sbjct: 67 LTKIREKRNITFSFLVGKPSSCLYAEKGAESEDI 100
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 32.5 bits (73), Expect = 0.86
Identities = 38/208 (18%), Positives = 72/208 (34%), Gaps = 34/208 (16%)
Query: 60 GQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGI 119
+ D + + + +F + P R F Q +A L G +
Sbjct: 10 KEWAHVVD--LNHKIENF---DELIPNPARSW---PFE-LDTFQKEAVYHLEQGDSVFVA 60
Query: 120 AQTGTGKT----FAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDY 175
A T GKT +A + + R + +P + L+ Q R+ + +
Sbjct: 61 AHTSAGKTVVAEYAIAM-------------AHRNMTKTIYTSPIKALSNQKFRDFKET-F 106
Query: 176 KGLKAVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRM 235
+ + G +I P + LI T L + R + ++ V FV+ DE +
Sbjct: 107 DDVNIGLITGDVQINPD-------ANCLIMTTEILRSMLYRGADLIRDVEFVIFDEVHYV 159
Query: 236 LDLGFEPQINKTSIYINPNRQTVMTSAT 263
D + I + + + ++ SAT
Sbjct: 160 NDQDRGVVWEEVIIMLPQHVKFILLSAT 187
Score = 31.4 bits (70), Expect = 1.9
Identities = 37/208 (17%), Positives = 72/208 (34%), Gaps = 34/208 (16%)
Query: 580 GQIDENPDFQIPNPVTSFKQAFQHYPEILRQLENLSFTTPSPIQAQAWPILMSGHDMIGI 639
+ D + + + +F + P R F Q +A L G +
Sbjct: 10 KEWAHVVD--LNHKIENF---DELIPNPARSW---PFE-LDTFQKEAVYHLEQGDSVFVA 60
Query: 640 AQTGTGKT----FAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDY 695
A T GKT +A + + R + +P + L+ Q R+ + +
Sbjct: 61 AHTSAGKTVVAEYAIAM-------------AHRNMTKTIYTSPIKALSNQKFRDFKET-F 106
Query: 696 KGLKAVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVSFVVLDEADRM 755
+ + G ++ P + LI T L + R + ++ V FV+ DE +
Sbjct: 107 DDVNIGLITGDVQINPD-------ANCLIMTTEILRSMLYRGADLIRDVEFVIFDEVHYV 159
Query: 756 LDLGFEPQINKTSIYINPNRQTVMTSAT 783
D + I + + + ++ SAT
Sbjct: 160 NDQDRGVVWEEVIIMLPQHVKFILLSAT 187
>1ryp_N 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_N*
1jd2_M* 1g65_M 1vsy_N 1z7q_N 2f16_M* 2fak_M* 2fny_M*
2gpl_M* 3d29_M* 3dy3_M* 3dy4_M* 3e47_M* 3gpj_M* 3gpt_M*
3gpw_M* 3hye_M* 3l5q_R 3mg0_M* 3mg4_M* ...
Length = 233
Score = 31.5 bits (72), Expect = 1.1
Identities = 9/75 (12%), Positives = 26/75 (34%), Gaps = 12/75 (16%)
Query: 22 IIKNVYKEDPEVANMTPEQVEAFRKK------NND------ISVSVVTSDGQIDENPDFQ 69
+++ V + ++ T + E D S++++ + + + Q
Sbjct: 154 LLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQ 213
Query: 70 IPNPVTSFKQAFQHY 84
+ N F + + Y
Sbjct: 214 VENMKWDFAKDIKGY 228
Score = 31.5 bits (72), Expect = 1.1
Identities = 9/75 (12%), Positives = 26/75 (34%), Gaps = 12/75 (16%)
Query: 542 IIKNVYKEDPEVANMTPEQVEAFRKK------NND------ISVSVVTSDGQIDENPDFQ 589
+++ V + ++ T + E D S++++ + + + Q
Sbjct: 154 LLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQ 213
Query: 590 IPNPVTSFKQAFQHY 604
+ N F + + Y
Sbjct: 214 VENMKWDFAKDIKGY 228
>1g0u_M Proteasome component PRE4; ubiquitin, degradation, protease,
NTN-hydrolase; 2.40A {Saccharomyces cerevisiae} SCOP:
d.153.1.4 PDB: 2zcy_M* 3bdm_M* 3mg6_M* 3mg7_M* 3mg8_M*
3nzj_M* 3nzw_M* 3nzx_M*
Length = 266
Score = 31.2 bits (71), Expect = 1.4
Identities = 9/72 (12%), Positives = 23/72 (31%), Gaps = 12/72 (16%)
Query: 25 NVYKEDPEVANMTPEQVEAFRKK------NND------ISVSVVTSDGQIDENPDFQIPN 72
V + ++ T + E D S++++ + + + Q+ N
Sbjct: 190 KVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVEN 249
Query: 73 PVTSFKQAFQHY 84
F + + Y
Sbjct: 250 MKWDFAKDIKGY 261
Score = 31.2 bits (71), Expect = 1.4
Identities = 9/72 (12%), Positives = 23/72 (31%), Gaps = 12/72 (16%)
Query: 545 NVYKEDPEVANMTPEQVEAFRKK------NND------ISVSVVTSDGQIDENPDFQIPN 592
V + ++ T + E D S++++ + + + Q+ N
Sbjct: 190 KVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVEN 249
Query: 593 PVTSFKQAFQHY 604
F + + Y
Sbjct: 250 MKWDFAKDIKGY 261
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 30.4 bits (69), Expect = 2.2
Identities = 22/115 (19%), Positives = 42/115 (36%), Gaps = 34/115 (29%)
Query: 122 TGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAV 181
TG+GKT + A I+ T L++ PT LA Q + + G + V
Sbjct: 117 TGSGKTHVAM--AAINELSTPT----------LIVVPTLALAEQWKERLGIF---GEEYV 161
Query: 182 CVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVS----FVVLDEA 232
+ G+ +E + ++T A ++ + + ++ DE
Sbjct: 162 GEFSGRI--------KELKPLTVST-------YDSAYVNAEKLGNRFMLLIFDEV 201
Score = 30.4 bits (69), Expect = 2.2
Identities = 22/115 (19%), Positives = 42/115 (36%), Gaps = 34/115 (29%)
Query: 642 TGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLKAV 701
TG+GKT + A I+ T L++ PT LA Q + + G + V
Sbjct: 117 TGSGKTHVAM--AAINELSTPT----------LIVVPTLALAEQWKERLGIF---GEEYV 161
Query: 702 CVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVS----FVVLDEA 752
+ G+ +E + ++T A ++ + + ++ DE
Sbjct: 162 GEFSGRI--------KELKPLTVST-------YDSAYVNAEKLGNRFMLLIFDEV 201
>3ttg_A Putative aminomethyltransferase; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG; 2.00A
{Leptospirillum rubarum}
Length = 355
Score = 30.3 bits (69), Expect = 3.4
Identities = 5/58 (8%), Positives = 15/58 (25%), Gaps = 5/58 (8%)
Query: 882 EIALEDITSGYARICV----ATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGE 935
+ + D++ + I + V D + + + +H
Sbjct: 125 KAKITDMSDHFREIRLVGPETISVLLSLFDN-NFSGSSFRMLKNGGYVLIHPTSFQHN 181
Score = 29.1 bits (66), Expect = 8.0
Identities = 5/60 (8%), Positives = 15/60 (25%), Gaps = 5/60 (8%)
Query: 362 EIALEDITSGYARICV----ATDVASRGLDVPDLTHVINYDFPSHIEEYVHRVGRTGRAG 417
+ + D++ + I + V D + + + +H
Sbjct: 125 KAKITDMSDHFREIRLVGPETISVLLSLFDN-NFSGSSFRMLKNGGYVLIHPTSFQHNLD 183
>3thi_A Protein (thiaminase I); thiamin degradation, transferase; 2.00A
{Bacillus subtilis} SCOP: c.94.1.1 PDB: 2thi_A 4thi_A
Length = 371
Score = 29.6 bits (66), Expect = 5.7
Identities = 6/42 (14%), Positives = 17/42 (40%)
Query: 26 VYKEDPEVANMTPEQVEAFRKKNNDISVSVVTSDGQIDENPD 67
+Y P+ A ++ ++++ + + D + PD
Sbjct: 7 IYPYVPDPARFQAAVLDQWQRQEPGVKLEFTDWDSYSADPPD 48
Score = 29.6 bits (66), Expect = 5.7
Identities = 6/42 (14%), Positives = 17/42 (40%)
Query: 546 VYKEDPEVANMTPEQVEAFRKKNNDISVSVVTSDGQIDENPD 587
+Y P+ A ++ ++++ + + D + PD
Sbjct: 7 IYPYVPDPARFQAAVLDQWQRQEPGVKLEFTDWDSYSADPPD 48
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}
Length = 540
Score = 29.6 bits (66), Expect = 6.6
Identities = 17/94 (18%), Positives = 30/94 (31%), Gaps = 17/94 (18%)
Query: 110 LMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIERE 169
L G ++ A+ G GKT + + VL+ T I +
Sbjct: 23 LKHGKTLLLNAKPGLGKTVFVEVLGMQL------------KKKVLIFTRTHSQLDSIYKN 70
Query: 170 VNKIDYKGLKAVCVYGGKE--IEPQLEKIREGCH 201
+ GLK + G I Q ++ + +
Sbjct: 71 AKLL---GLKTGFLIGKSASCIYAQGDEEPDEIN 101
Score = 28.8 bits (64), Expect = 10.0
Identities = 16/94 (17%), Positives = 29/94 (30%), Gaps = 17/94 (18%)
Query: 630 LMSGHDMIGIAQTGTGKTFAFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIERE 689
L G ++ A+ G GKT + + VL+ T I +
Sbjct: 23 LKHGKTLLLNAKPGLGKTVFVEVLGMQL------------KKKVLIFTRTHSQLDSIYKN 70
Query: 690 VNKIDYKGLKAVCVYGGKEL--EPQLEKIREGCH 721
+ GLK + G Q ++ + +
Sbjct: 71 AKLL---GLKTGFLIGKSASCIYAQGDEEPDEIN 101
>3f1p_A Endothelial PAS domain-containing protein 1; PAS domain,
heterodimer, internal cavity, activator, angiogenesis,
congenital erythrocytosis; 1.17A {Homo sapiens} PDB:
3f1o_A* 3f1n_A 3h7w_A* 3h82_A* 1p97_A 2a24_A
Length = 117
Score = 28.0 bits (63), Expect = 6.7
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 5/41 (12%)
Query: 211 NDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQ-INKTSIY 250
F+S S+D+K F D+ L +G+ P+ + S Y
Sbjct: 9 KTFLSEHSMDMK---FTYCDDRITEL-IGYHPEELLGRSAY 45
Score = 28.0 bits (63), Expect = 6.7
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 5/41 (12%)
Query: 731 NDFVSRASIDLKAVSFVVLDEADRMLDLGFEPQ-INKTSIY 770
F+S S+D+K F D+ L +G+ P+ + S Y
Sbjct: 9 KTFLSEHSMDMK---FTYCDDRITEL-IGYHPEELLGRSAY 45
>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 = 29.3 bits (66), Expect = 7.0
Identities = 14/95 (14%), Positives = 29/95 (30%), Gaps = 11/95 (11%)
Query: 311 LMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDL----------SQED 360
L +F D K +VF + M L + D +
Sbjct: 429 LTDFMKRTDRFA-KTIVFCVDQEHADEMRRALNNLNSDLSRKHPDYVARVTSEEGKIGKG 487
Query: 361 REIALEDITSGYARICVATDVASRGLDVPDLTHVI 395
+++ + I + + + G+D P +V+
Sbjct: 488 HLSRFQELETSTPVILTTSQLLTTGVDAPTCKNVV 522
Score = 29.3 bits (66), Expect = 7.0
Identities = 14/95 (14%), Positives = 29/95 (30%), Gaps = 11/95 (11%)
Query: 831 LMEFFDNMDEERDKVMVFMGRKASVSAMSSDLACQYRKSCSLYGDL----------SQED 880
L +F D K +VF + M L + D +
Sbjct: 429 LTDFMKRTDRFA-KTIVFCVDQEHADEMRRALNNLNSDLSRKHPDYVARVTSEEGKIGKG 487
Query: 881 REIALEDITSGYARICVATDVASRGLDVPDLTHVI 915
+++ + I + + + G+D P +V+
Sbjct: 488 HLSRFQELETSTPVILTTSQLLTTGVDAPTCKNVV 522
Score = 29.3 bits (66), Expect = 7.4
Identities = 21/120 (17%), Positives = 36/120 (30%), Gaps = 20/120 (16%)
Query: 122 TGTGKTF--AFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLK 179
TGTGKT + L T + P +L +A L + +
Sbjct: 207 TGTGKTVVAFQISWKLWSARWNRTGDYRK--PRILFLADRNVLVDDPKDKTFT------- 257
Query: 180 AVCVYGGKEIEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVS-----FVVLDEADR 234
+G + + K+ + I A + R K +++DE R
Sbjct: 258 ---PFGDARHKIEGGKVVKSREIYFAIYQSIASD-ERRPGLYKEFPQDFFDLIIIDECHR 313
Score = 29.0 bits (65), Expect = 9.9
Identities = 21/120 (17%), Positives = 36/120 (30%), Gaps = 20/120 (16%)
Query: 642 TGTGKTF--AFLLPALIHTHLQTTPISERAGPSVLVMAPTRELATQIEREVNKIDYKGLK 699
TGTGKT + L T + P +L +A L + +
Sbjct: 207 TGTGKTVVAFQISWKLWSARWNRTGDYRK--PRILFLADRNVLVDDPKDKTFT------- 257
Query: 700 AVCVYGGKELEPQLEKIREGCHILIATPGRLNDFVSRASIDLKAVS-----FVVLDEADR 754
+G + + K+ + I A + R K +++DE R
Sbjct: 258 ---PFGDARHKIEGGKVVKSREIYFAIYQSIASD-ERRPGLYKEFPQDFFDLIIIDECHR 313
>2kr7_A FKBP-type peptidyl-prolyl CIS-trans isomerase SLY; protein,
rotamase; NMR {Helicobacter pylori}
Length = 151
Score = 28.0 bits (63), Expect = 8.3
Identities = 10/61 (16%), Positives = 24/61 (39%), Gaps = 8/61 (13%)
Query: 447 ESYMIWRRDSRIALH--VILEGGEEVVEEEEGGEDGMEILVGVD-----LEVVMEGEEEG 499
+++ + + V +G V++ E +E ++G + LE + + G
Sbjct: 2 QNHDLESIKQAALIEYEVREQGSSIVLDSNISKEP-LEFIIGTNQIIAGLEKAVLKAQIG 60
Query: 500 E 500
E
Sbjct: 61 E 61
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
0.317 0.134 0.386
Gapped
Lambda K H
0.267 0.0478 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 14,868,308
Number of extensions: 969195
Number of successful extensions: 3281
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2860
Number of HSP's successfully gapped: 197
Length of query: 936
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 834
Effective length of database: 3,853,851
Effective search space: 3214111734
Effective search space used: 3214111734
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 62 (28.3 bits)