BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 000384
(1590 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 122 bits (307), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 133/515 (25%), Positives = 239/515 (46%), Gaps = 45/515 (8%)
Query: 47 RIYQLKVFEVA-KRRNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHL 105
R YQ+++ + A +N + TG+GKT +++++ + Q + + G K ++FLA V +
Sbjct: 250 RSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPA-GRKAKVVFLATKVPV 308
Query: 106 VHQQYDVIRVHTDFEVEEYYGAKGV--DEWDSQCWQKEINKNDVLVMTPQILLDALRKAF 163
QQ +V + H FE + Y +G+ + + + +K I +D++V+TPQIL+++
Sbjct: 309 YEQQKNVFKHH--FE-RQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGT 365
Query: 164 L-SLDIVCFIVIDECHHATGNHPYTKIMKEFYHKSDNK----PKVFGMTASPVVRKGVSS 218
L SL I ++ DECH+ TGNHPY +M + + N P++ G+TAS GV +
Sbjct: 366 LTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASV----GVGN 421
Query: 219 AMDCEGQISE---LESTLDSQVFTI--EDKTEMEVFVPSAKESCRFYDQ---SKFCG--S 268
A + E I L S LD Q + E+ E++ F+ + R + + F S
Sbjct: 422 AKNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIIS 481
Query: 269 DLKGKLEVSWSKFDASLSKLQGSQLNCYKDMDDKHKTLRKQLSDYHAKILYCLD--ELGL 326
+L + E +++ + N KD ++ ++ ++L D E
Sbjct: 482 NLMSETEA----LMRTIAYVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLEDKEEESR 537
Query: 327 ICAYEAVKICLEKVLKAQEECEIYRQSSL--QCKYFLEEVLHVI-GSALPLADKIFLDFG 383
IC A+ IC E + K + I + + Y E +V G L + F
Sbjct: 538 IC--RALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHLTAKFQ 595
Query: 384 FDYSKAVDLGYIST----KLHELLQLF-LSFGKSTQVLCIIFVERIIAAKVVERFVKKVP 438
+ + L T KL EL+ + ++ + Q ++F + +++ +++ P
Sbjct: 596 EKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENP 655
Query: 439 FLTHLTVAYLT--GSTTSVDALTPKVQKEVLESFRGGKVN-LLFATDVIEEGMHVPNCSY 495
L ++ L G +T QK VL++F+ K N LL AT V +EG+ + C+
Sbjct: 656 ILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNL 715
Query: 496 VIRFDLPKTVSSYIQSRGRARQHNSQFILMLERSE 530
V+ ++ V+ IQ RGR R S+ IL+ ++E
Sbjct: 716 VVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTE 750
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 122 bits (305), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 133/515 (25%), Positives = 238/515 (46%), Gaps = 45/515 (8%)
Query: 47 RIYQLKVFEVA-KRRNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHL 105
R YQ+++ + A +N + TG+GKT +++++ + Q + + G K ++FLA V +
Sbjct: 250 RSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPA-GRKAKVVFLATKVPV 308
Query: 106 VHQQYDVIRVHTDFEVEEYYGAKGV--DEWDSQCWQKEINKNDVLVMTPQILLDALRKAF 163
QQ +V + H FE + Y +G+ + + + +K I +D++V+TPQIL+++
Sbjct: 309 YEQQKNVFKHH--FE-RQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGT 365
Query: 164 L-SLDIVCFIVIDECHHATGNHPYTKIMKEFYHKSDNK----PKVFGMTASPVVRKGVSS 218
L SL I ++ DECH+ TGNHPY +M + + N P++ G+TAS GV +
Sbjct: 366 LTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASV----GVGN 421
Query: 219 AMDCEGQISE---LESTLDSQVFTI--EDKTEMEVFVPSAKESCRFYDQ---SKFCG--S 268
A + E I L S LD Q + E+ E++ F+ + R + + F S
Sbjct: 422 AKNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIIS 481
Query: 269 DLKGKLEVSWSKFDASLSKLQGSQLNCYKDMDDKHKTLRKQLSDYHAKILYCLD--ELGL 326
+L + E ++ + N KD ++ ++ ++L D E
Sbjct: 482 NLMSETEA----LMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLEDKEEESR 537
Query: 327 ICAYEAVKICLEKVLKAQEECEIYRQSSL--QCKYFLEEVLHVI-GSALPLADKIFLDFG 383
IC A+ IC E + K + I + + Y E +V G L + F
Sbjct: 538 IC--RALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHLTAKFQ 595
Query: 384 FDYSKAVDLGYIST----KLHELLQLF-LSFGKSTQVLCIIFVERIIAAKVVERFVKKVP 438
+ + L T KL EL+ + ++ + Q ++F + +++ +++ P
Sbjct: 596 EKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENP 655
Query: 439 FLTHLTVAYLT--GSTTSVDALTPKVQKEVLESFRGGKVN-LLFATDVIEEGMHVPNCSY 495
L ++ L G +T QK VL++F+ K N LL AT V +EG+ + C+
Sbjct: 656 ILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNL 715
Query: 496 VIRFDLPKTVSSYIQSRGRARQHNSQFILMLERSE 530
V+ ++ V+ IQ RGR R S+ IL+ ++E
Sbjct: 716 VVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTE 750
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 120 bits (301), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 134/515 (26%), Positives = 239/515 (46%), Gaps = 45/515 (8%)
Query: 47 RIYQLKVFEVA-KRRNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHL 105
R YQ+++ + A +N + TG+GKT +++++ + Q + + G K ++FLA V +
Sbjct: 9 RSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPA-GRKAKVVFLATKVPV 67
Query: 106 VHQQYDVIRVHTDFEVEEYYGAKGV--DEWDSQCWQKEINKNDVLVMTPQILLDALRKAF 163
QQ +V + H FE + Y +G+ + + + +K I +D++V+TPQIL+++
Sbjct: 68 YEQQKNVFKHH--FE-RQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGT 124
Query: 164 L-SLDIVCFIVIDECHHATGNHPYTKIMKEFYHKSDNK----PKVFGMTASPVVRKGVSS 218
L SL I ++ DECH+ TGNHPY +M + + N P++ G+TAS GV +
Sbjct: 125 LTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASV----GVGN 180
Query: 219 AMDCEGQISE---LESTLDSQVFTI--EDKTEMEVFVPSAKESCRFYDQ---SKFCG--S 268
A + E I L S LD Q + E+ E++ F+ + R + + F S
Sbjct: 181 AKNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIIS 240
Query: 269 DLKGKLEVSWSKFDASLSKLQGSQLNCYKDMDDKHKTLRKQLSDYHAKILYCLD--ELGL 326
+L + E + + Q S+ KD ++ ++ ++L D E
Sbjct: 241 NLMSETEALMRTIYSVDTLSQNSK----KDFGTQNYEHWIVVTQRKCRLLQLEDKEEESR 296
Query: 327 ICAYEAVKICLEKVLKAQEECEIYRQSSL--QCKYFLEEVLHVI-GSALPLADKIFLDFG 383
IC A+ IC E + K + I + + Y E +V G L + F
Sbjct: 297 IC--RALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHLTAKFQ 354
Query: 384 FDYSKAVDLGYIST----KLHELLQLF-LSFGKSTQVLCIIFVERIIAAKVVERFVKKVP 438
+ + L T KL EL+ + ++ + Q ++F + +++ +++ P
Sbjct: 355 EKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENP 414
Query: 439 FLTHLTVAYLT--GSTTSVDALTPKVQKEVLESFRGGKVN-LLFATDVIEEGMHVPNCSY 495
L ++ L G +T QK VL++F+ K N LL AT V +EG+ + C+
Sbjct: 415 ILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNL 474
Query: 496 VIRFDLPKTVSSYIQSRGRARQHNSQFILMLERSE 530
V+ ++ V+ IQ RGR R S+ IL+ ++E
Sbjct: 475 VVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTE 509
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 110 bits (274), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 134/527 (25%), Positives = 234/527 (44%), Gaps = 71/527 (13%)
Query: 44 FIPRIYQLKV-FEVAKRRNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPT 102
F PR YQL++ K +NTI TG GKT +++++ + + G K ++F A
Sbjct: 11 FKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKF-PQGQKGKVVFFANQ 69
Query: 103 VHLVHQQYDVIRVHTDFEVEEYYGAKGVDEWDSQCWQKEINKNDVLVMTPQILLDALRKA 162
+ + QQ V + + G G + Q + ND++++TPQIL++ L+K
Sbjct: 70 IPVYEQQKSVFSKYFERHGYRVTGISGATAENVPVEQI-VENNDIIILTPQILVNNLKKG 128
Query: 163 FL-SLDIVCFIVIDECHHATGNHPYTKIMKEFYHK-----SDNKPKVFGMTASPVV--RK 214
+ SL I ++ DECH+ + HPY IM + + S P+V G+TAS V K
Sbjct: 129 TIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTASVGVGDAK 188
Query: 215 GVSSAMDCEGQISELESTLDSQVF-TIE---DKTEMEVFVPSA---KESCRFYDQSKFCG 267
A+D I +L ++LD+ V T++ ++ E V+ P K R D+ K+
Sbjct: 189 NTDEALD---YICKLCASLDASVIATVKHNLEELEQVVYKPQKFFRKVESRISDKFKYII 245
Query: 268 SDLKGKLEVSWSKF---DASLSKLQGSQLNCYK---------------DMDDKHKTLR-- 307
+ L E + +LS++Q + K M DK + R
Sbjct: 246 AQLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVTVQKACMVFQMPDKDEESRIC 305
Query: 308 KQLSDYHAKILYCLDELGLICAYEAVKICLEKV------LKAQEECEIYRQSSLQCKYFL 361
K L Y + + D L +I + +K L+ + ++A EI + + + + L
Sbjct: 306 KALFLYTSHLRKYNDAL-IISEHARMKDALDYLKDFFSNVRAAGFDEIEQDLTQRFEEKL 364
Query: 362 EEVLHVIGSALPLADKIFLDFGFDYSKAVDLGYISTKLHELLQLFLSFGKSTQVLCIIFV 421
+E+ + + D + K DL +I + + L + + + I+FV
Sbjct: 365 QEL-----------ESVSRDPSNENPKLEDLCFILQEEYHL---------NPETITILFV 404
Query: 422 ERIIAAKVVERFVKKVPFLTHLTVAYLT--GSTTSVDALTPKVQKEVLESFRG-GKVNLL 478
+ ++ +++ P L+ L LT G T +T QK +L++F+ G N+L
Sbjct: 405 KTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNIL 464
Query: 479 FATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGRARQHNSQFILM 525
AT V +EG+ + C+ VI ++ V IQ+RGR R S+ L+
Sbjct: 465 IATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSKCFLL 511
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 108 bits (269), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 133/527 (25%), Positives = 233/527 (44%), Gaps = 71/527 (13%)
Query: 44 FIPRIYQLKV-FEVAKRRNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPT 102
F PR YQL++ K +NTI TG GKT +++++ + + G K ++F A
Sbjct: 3 FKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKF-PQGQKGKVVFFANQ 61
Query: 103 VHLVHQQYDVIRVHTDFEVEEYYGAKGVDEWDSQCWQKEINKNDVLVMTPQILLDALRKA 162
+ + Q V + + G G + Q + ND++++TPQIL++ L+K
Sbjct: 62 IPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQI-VENNDIIILTPQILVNNLKKG 120
Query: 163 FL-SLDIVCFIVIDECHHATGNHPYTKIMKEFYHK-----SDNKPKVFGMTASPVV--RK 214
+ SL I ++ DECH+ + HPY IM + + S P+V G+TAS V K
Sbjct: 121 TIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTASVGVGDAK 180
Query: 215 GVSSAMDCEGQISELESTLDSQVF-TIE---DKTEMEVFVPSA---KESCRFYDQSKFCG 267
A+D I +L ++LD+ V T++ ++ E V+ P K R D+ K+
Sbjct: 181 NTDEALD---YICKLCASLDASVIATVKHNLEELEQVVYKPQKFFRKVESRISDKFKYII 237
Query: 268 SDLKGKLEVSWSKF---DASLSKLQGSQLNCYK---------------DMDDKHKTLR-- 307
+ L E + +LS++Q + K M DK + R
Sbjct: 238 AQLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVTVQKACMVFQMPDKDEESRIC 297
Query: 308 KQLSDYHAKILYCLDELGLICAYEAVKICLEKV------LKAQEECEIYRQSSLQCKYFL 361
K L Y + + D L +I + +K L+ + ++A EI + + + + L
Sbjct: 298 KALFLYTSHLRKYNDAL-IISEHARMKDALDYLKDFFSNVRAAGFDEIEQDLTQRFEEKL 356
Query: 362 EEVLHVIGSALPLADKIFLDFGFDYSKAVDLGYISTKLHELLQLFLSFGKSTQVLCIIFV 421
+E+ + + D + K DL +I + + L + + + I+FV
Sbjct: 357 QEL-----------ESVSRDPSNENPKLEDLCFILQEEYHL---------NPETITILFV 396
Query: 422 ERIIAAKVVERFVKKVPFLTHLTVAYLT--GSTTSVDALTPKVQKEVLESFRG-GKVNLL 478
+ ++ +++ P L+ L LT G T +T QK +L++F+ G N+L
Sbjct: 397 KTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNIL 456
Query: 479 FATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGRARQHNSQFILM 525
AT V +EG+ + C+ VI ++ V IQ+RGR R S+ L+
Sbjct: 457 IATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSKCFLL 503
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 107 bits (267), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 133/527 (25%), Positives = 233/527 (44%), Gaps = 71/527 (13%)
Query: 44 FIPRIYQLKV-FEVAKRRNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPT 102
F PR YQL++ K +NTI TG GKT +++++ + + G K ++F A
Sbjct: 12 FKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKF-PQGQKGKVVFFANQ 70
Query: 103 VHLVHQQYDVIRVHTDFEVEEYYGAKGVDEWDSQCWQKEINKNDVLVMTPQILLDALRKA 162
+ + Q V + + G G + Q + ND++++TPQIL++ L+K
Sbjct: 71 IPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQI-VENNDIIILTPQILVNNLKKG 129
Query: 163 FL-SLDIVCFIVIDECHHATGNHPYTKIMKEFYHK-----SDNKPKVFGMTASPVV--RK 214
+ SL I ++ DECH+ + HPY IM + + S P+V G+TAS V K
Sbjct: 130 TIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTASVGVGDAK 189
Query: 215 GVSSAMDCEGQISELESTLDSQVF-TIE---DKTEMEVFVPSA---KESCRFYDQSKFCG 267
A+D I +L ++LD+ V T++ ++ E V+ P K R D+ K+
Sbjct: 190 TTDEALD---YICKLCASLDASVIATVKHNLEELEQVVYKPQKFFRKVESRISDKFKYII 246
Query: 268 SDLKGKLEVSWSKF---DASLSKLQGSQLNCYK---------------DMDDKHKTLR-- 307
+ L E + +LS++Q + K M DK + R
Sbjct: 247 AQLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVTVQKACMVFQMPDKDEESRIC 306
Query: 308 KQLSDYHAKILYCLDELGLICAYEAVKICLEKV------LKAQEECEIYRQSSLQCKYFL 361
K L Y + + D L +I + +K L+ + ++A EI + + + + L
Sbjct: 307 KALFLYTSHLRKYNDAL-IISEHARMKDALDYLKDFFSNVRAAGFDEIEQDLTQRFEEKL 365
Query: 362 EEVLHVIGSALPLADKIFLDFGFDYSKAVDLGYISTKLHELLQLFLSFGKSTQVLCIIFV 421
+E+ + + D + K DL +I + + L + + + I+FV
Sbjct: 366 QEL-----------ESVSRDPSNENPKLEDLCFILQEEYHL---------NPETITILFV 405
Query: 422 ERIIAAKVVERFVKKVPFLTHLTVAYLT--GSTTSVDALTPKVQKEVLESFRG-GKVNLL 478
+ ++ +++ P L+ L LT G T +T QK +L++F+ G N+L
Sbjct: 406 KTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNIL 465
Query: 479 FATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGRARQHNSQFILM 525
AT V +EG+ + C+ VI ++ V IQ+RGR R S+ L+
Sbjct: 466 IATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSKCFLL 512
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 107 bits (266), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 137/531 (25%), Positives = 230/531 (43%), Gaps = 76/531 (14%)
Query: 47 RIYQLKVFEVA-KRRNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHL 105
R YQ++V + A + +N I L TG GKT +AV + KD K +I L V L
Sbjct: 9 RPYQMEVAQPALEGKNIIICLPTGCGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVLL 68
Query: 106 VHQQYDVIRVHTDFE--VEEYYGAKGVDEWDSQ---CWQKEINKNDVLVMTPQILLDAL- 159
V Q + +F+ ++++Y G+ D+Q + + + D+++ T QIL ++L
Sbjct: 69 VEQLF-----RKEFQPFLKKWYRVIGLS-GDTQLKISFPEVVKSCDIIISTAQILENSLL 122
Query: 160 -----RKAFLSLDIVCFIVIDECHHATGNHPYTKIMKEFYH--------KSDNK-----P 201
A + L I+IDECHH Y IM+ + K +NK P
Sbjct: 123 NLENGEDAGVQLSDFSLIIIDECHHTNKEAVYNNIMRHYLMQKLKNNRLKKENKPVIPLP 182
Query: 202 KVFGMTASPVVRKGVSSAMDCEGQISELESTLDSQVFTIED-KTEMEVFVPSAKESCRFY 260
++ G+TASP V G + E I +L + LD+ FTI+ K ++ +E C+ +
Sbjct: 183 QILGLTASPGV-GGATKQAKAEEHILKLCANLDA--FTIKTVKENLDQLKNQIQEPCKKF 239
Query: 261 DQSKFCGSD-LKGK-LEV-----------SWSKFDASLSKLQGSQL--NCYKDMDDKHKT 305
+ D K K LE+ S F + Q+ K+ + K +
Sbjct: 240 AIADATREDPFKEKLLEIMTRIQTYCQMSPMSDFGTQPYEQWAIQMEKKAAKEGNRKERV 299
Query: 306 LRKQLSDYHAKILYCLDELGLICAYEAVKICLEKVLKAQEECEIYRQSSLQCKYFLEEVL 365
+ L Y+ + L D + +I AY + E + K+ + E
Sbjct: 300 CAEHLRKYN-EALQINDTIRMIDAYTHL--------------ETFYNEEKDKKFAVIEDD 344
Query: 366 HVIGSALPLADKIFLDFGFDYSK-----AVDLGYISTKLHELLQLFLSFGKSTQ--VLCI 418
L D+ + F+ +K A + Y + KL +L + T+ I
Sbjct: 345 LKKPLKLDETDRFLMTLFFENNKMLKRLAENPEYENEKLTKLRNTIMEQYTRTEESARGI 404
Query: 419 IFVERIIAAKVVERFVKKVPFLTHLTVA--YLTGS--TTSVDALTPKVQKEVLESFRGGK 474
IF + +A + +++ + + V +L G+ ++ +T QKEV+ FR GK
Sbjct: 405 IFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTGK 464
Query: 475 VNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGRARQHNSQFILM 525
+NLL AT V EEG+ + C+ VIR+ L + +Q+RGRAR S ++L+
Sbjct: 465 INLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARGRARADESTYVLV 515
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 87.0 bits (214), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 58/167 (34%), Positives = 85/167 (50%), Gaps = 12/167 (7%)
Query: 46 PRIYQLKVFEVAKRRNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHL 105
PRIYQ ++ K N + VL TG GKT+IA+M+ + + + ++ LAPT L
Sbjct: 10 PRIYQEVIYAKCKETNCLIVLPTGLGKTLIAMMIAE-----YRLTKYGGKVLMLAPTKPL 64
Query: 106 VHQQYDVIRVHTDFEVEEYYGAKGVD--EWDSQCWQKEINKNDVLVMTPQILLDALRKAF 163
V Q + R + E+ G E S+ W + V+V TPQ + + L
Sbjct: 65 VLQHAESFRRLFNLPPEKIVALTGEKSPEERSKAWAR----AKVIVATPQTIENDLLAGR 120
Query: 164 LSLDIVCFIVIDECHHATGNHPYTKIMKEFYHKSDNKPKVFGMTASP 210
+SL+ V IV DE H A GN+ Y I +E+ ++ N P V G+TASP
Sbjct: 121 ISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKN-PLVIGLTASP 166
Score = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 42/150 (28%), Positives = 73/150 (48%), Gaps = 19/150 (12%)
Query: 381 DFGFDYSKAVDLGYISTKLHELLQLFLSFGKSTQVLCIIFVE-RIIAAKVVERFVKKVPF 439
+ G D+ K KL E+++ L +++++ I+F R A K+V VK
Sbjct: 337 EIGLDHPKM-------DKLKEIIREQLQRKQNSKI--IVFTNYRETAKKIVNELVK---- 383
Query: 440 LTHLTVAYLTGSTTSVD--ALTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVI 497
+ G + + L+ + QK +L+ F G+ N+L AT V EEG+ VP V+
Sbjct: 384 -DGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVV 442
Query: 498 RFD-LPKTVSSYIQSRGRARQHNSQFILML 526
++ +P + S IQ RGR +H +++L
Sbjct: 443 FYEPVPSAIRS-IQRRGRTGRHMPGRVIIL 471
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 83.2 bits (204), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 69/217 (31%), Positives = 109/217 (50%), Gaps = 18/217 (8%)
Query: 46 PRIYQLKVFEVAKR-RNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVH 104
PR YQL++ AK+ +NTI TG GKT +++++ + + G K ++F A +
Sbjct: 5 PRNYQLELALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPC-GQKGKVVFFANQIP 63
Query: 105 LVHQQYDVIRVHTD---FEVEEYYGAKGVDEWDSQCWQKEINKNDVLVMTPQILLDALRK 161
+ QQ V + + + + GA DS Q I ND++++TPQIL++ L
Sbjct: 64 VYEQQATVFSRYFERLGYNIASISGATS----DSVSVQHIIEDNDIIILTPQILVNNLNN 119
Query: 162 -AFLSLDIVCFIVIDECHHATGNHPYTKIMKEFY-HK----SDNKPKVFGMTASPVVRKG 215
A SL + + DECH+ + NHPY +I + HK D P+V G+TAS V
Sbjct: 120 GAIPSLSVFTLXIFDECHNTSKNHPYNQIXFRYLDHKLGESRDPLPQVVGLTASVGV-GD 178
Query: 216 VSSAMDCEGQISELESTLDSQVF-TIEDK-TEMEVFV 250
+A + I +L + LD+ V T+ D E+E V
Sbjct: 179 AKTAEEAXQHICKLCAALDASVIATVRDNVAELEQVV 215
Score = 62.4 bits (150), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 38/111 (34%), Positives = 60/111 (54%), Gaps = 3/111 (2%)
Query: 418 IIFVERIIAAKVVERFVKKVPFLTHLTVAYLTGS--TTSVDALTPKVQKEVLESFRG-GK 474
I+FV+ +++++++ P L+ L LTG T T QK VLE+FR G
Sbjct: 393 ILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGXTLPAQKCVLEAFRASGD 452
Query: 475 VNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGRARQHNSQFILM 525
N+L AT V +EG+ + C+ VI ++ V IQ+RGR R +S+ L+
Sbjct: 453 NNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGRGRARDSKCFLL 503
>pdb|2KOU|A Chain A, Dicer Like Protein
Length = 102
Score = 76.6 bits (187), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 36/100 (36%), Positives = 61/100 (61%), Gaps = 2/100 (2%)
Query: 567 VTTDSSVNLIHRYCEMLPSDKYYTPKPIFKYKSAEE--AYECELTLPSNAPFQTIVGPTS 624
++ SS++++++YC LP D+++ PKP F++K +E C +TLP+NAP I
Sbjct: 1 ISGGSSISMMYKYCSRLPHDEFFQPKPEFQFKPVDEFGGTICRITLPANAPISEIESSLL 60
Query: 625 RNKNLSKQLVCLEACEKLHQVGALNDHLLPSVEEPSENNL 664
+ +K+ CL+A +LH +G LND LLP ++ E+ L
Sbjct: 61 PSTEAAKKDACLKAVHELHNLGVLNDFLLPDSKDEIEDEL 100
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 64.3 bits (155), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 60/212 (28%), Positives = 97/212 (45%), Gaps = 33/212 (15%)
Query: 23 MGSSGHDHAVDGPSSSTNSINFIPRIYQLKVFEVA-KRRNTIAVLETGAGKTMIAVMLIK 81
MGS + V +S + P YQ++V + A + +N I L TG+GKT +AV + K
Sbjct: 13 MGSDSDEENVAARASPEPELQLRP--YQMEVAQPALEGKNIIICLPTGSGKTRVAVYIAK 70
Query: 82 DIAQAIKSNGFKKLIIFLAPTVHLVHQQYDVIRVHTDFE--VEEYYGAKGVDEWDSQ--- 136
D K +I L V LV Q + +F+ ++++Y G+ D+Q
Sbjct: 71 DHLDKKKKASEPGKVIVLVNKVLLVEQLF-----RKEFQPFLKKWYRVIGLS-GDTQLKI 124
Query: 137 CWQKEINKNDVLVMTPQILLDAL------RKAFLSLDIVCFIVIDECHHATGNHPYTKIM 190
+ + + D+++ T QIL ++L A + L I+IDECHH Y IM
Sbjct: 125 SFPEVVKSCDIIISTAQILENSLLNLENGEDAGVQLSDFSLIIIDECHHTNKEAVYNNIM 184
Query: 191 KEFYH--------KSDNK-----PKVFGMTAS 209
+ + K +NK P++ G+TAS
Sbjct: 185 RHYLMQKLKNNRLKKENKPVIPLPQILGLTAS 216
>pdb|2JGN|A Chain A, Ddx3 Helicase Domain
pdb|2JGN|B Chain B, Ddx3 Helicase Domain
pdb|2JGN|C Chain C, Ddx3 Helicase Domain
Length = 185
Score = 51.6 bits (122), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/114 (33%), Positives = 54/114 (47%), Gaps = 14/114 (12%)
Query: 402 LLQLFLSFGKSTQVLCIIFVERIIAAKVVERFVKKVPFLTHLTVAYLTGSTTSVDA-LTP 460
LL L + GK + L ++FVE A +E FL H A TS+ +
Sbjct: 36 LLDLLNATGKDS--LTLVFVETKKGADSLE------DFLYHEGYA-----CTSIHGDRSQ 82
Query: 461 KVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGR 514
+ ++E L FR GK +L AT V G+ + N +VI FDLP + Y+ GR
Sbjct: 83 RDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGR 136
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 51.2 bits (121), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 37/119 (31%), Positives = 54/119 (45%), Gaps = 12/119 (10%)
Query: 396 STKLHELLQLFLSFGKSTQVLCIIFVERIIAAKVVERFVKKVPFLTHLTVAYLTGSTTSV 455
S K LL L + GK + L ++FVE A +E F+ + + G +
Sbjct: 260 SDKRSFLLDLLNATGKDS--LTLVFVETKKGADSLEDFL----YHEGYACTSIHGDRSQR 313
Query: 456 DALTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGR 514
D ++E L FR GK +L AT V G+ + N +VI FDLP + Y+ GR
Sbjct: 314 D------REEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGR 366
Score = 32.7 bits (73), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 35/143 (24%), Positives = 64/143 (44%), Gaps = 28/143 (19%)
Query: 56 VAKRRNTIAVLETGAGKTMIAVMLIKDIAQ-----------AIKSNGFKK------LIIF 98
+ ++R+ +A +TG+GKT A L+ ++Q A+K NG + +
Sbjct: 49 IKEKRDLMACAQTGSGKT--AAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLV 106
Query: 99 LAPTVHLVHQQYDVIR---VHTDFEVEEYYGAKGVDEWDSQCWQKEINKN-DVLVMTPQI 154
LAPT L Q Y+ R + YG + + +++ + +LV TP
Sbjct: 107 LAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQ-----IRDLERGCHLLVATPGR 161
Query: 155 LLDALRKAFLSLDIVCFIVIDEC 177
L+D + + + LD ++V+DE
Sbjct: 162 LVDMMERGKIGLDFCKYLVLDEA 184
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 50.4 bits (119), Expect = 7e-06, Method: Composition-based stats.
Identities = 23/52 (44%), Positives = 32/52 (61%)
Query: 450 GSTTSVDALTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDL 501
G ++ T Q+EV+ FR GK+NLL AT V EEG+ + C+ VIR+ L
Sbjct: 190 GHSSEFKPXTQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>pdb|2EB1|A Chain A, Crystal Structure Of The C-Terminal Rnase Iii Domain Of
Human Dicer
pdb|2EB1|B Chain B, Crystal Structure Of The C-Terminal Rnase Iii Domain Of
Human Dicer
pdb|2EB1|C Chain C, Crystal Structure Of The C-Terminal Rnase Iii Domain Of
Human Dicer
Length = 200
Score = 50.1 bits (118), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 31/38 (81%)
Query: 1313 PKALGDLLESIVGAVLIDTKLNLDEVWRIFKPILSPIV 1350
PKA+GD+ ES+ GA+ +D+ ++L+ VW+++ P++ P++
Sbjct: 147 PKAMGDIFESLAGAIYMDSGMSLETVWQVYYPMMRPLI 184
Score = 37.4 bits (85), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 1064 ERLELLGDSVLKYAVSCHLFLTYPKKHE-GQLSARRSWAVCNSTLHKLGTDRKLQGYIR 1121
+RLE LGD++L Y ++ HL+ P++H G L+ RS V N+ L Y +
Sbjct: 44 QRLEFLGDAILDYLITKHLYED-PRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFK 101
>pdb|3C4T|A Chain A, Structure Of Rnaseiiib And Dsrna Binding Domains Of Mouse
Dicer
Length = 265
Score = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 31/38 (81%)
Query: 1313 PKALGDLLESIVGAVLIDTKLNLDEVWRIFKPILSPIV 1350
PKA+GD+ ES+ GA+ +D+ ++L+ VW+++ P++ P++
Sbjct: 154 PKAMGDIFESLAGAIYMDSGMSLEVVWQVYYPMMQPLI 191
Score = 36.6 bits (83), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 1064 ERLELLGDSVLKYAVSCHLFLTYPKKHE-GQLSARRSWAVCNSTLHKLGTDRKLQGYIR 1121
+RLE LGD++L Y ++ HL+ P++H G L+ RS V N+ L Y +
Sbjct: 51 QRLEFLGDAILDYLITKHLYED-PRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFK 108
Score = 30.0 bits (66), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 5/73 (6%)
Query: 1237 INEIKDIESKIGYEFTVKFLLQEAITHASVQEFYCYQNLYKHLQHCSTLLLSQ-ITEYVK 1295
I+ + E KI Y F K L +A THAS + + Y+ L+ +L IT+++
Sbjct: 12 ISGFETFEKKINYRFKNKAYLLQAFTHASYH-YNTITDXYQRLEFLGDAILDYLITKHLY 70
Query: 1296 SFPK---PGETTD 1305
P+ PG TD
Sbjct: 71 EDPRQHSPGVLTD 83
>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain
pdb|2P6N|B Chain B, Human Dead-box Rna Helicase Ddx41, Helicase Domain
Length = 191
Score = 49.3 bits (116), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 32/48 (66%)
Query: 467 LESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGR 514
+E+FR GK ++L ATDV +G+ P +VI +D+P+ + +Y+ GR
Sbjct: 97 IEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGR 144
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 48.1 bits (113), Expect = 3e-05, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 33/52 (63%)
Query: 463 QKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGR 514
+ E ++ G+VN+L ATDV G+ +P+ S+V FD+P++ +Y+ GR
Sbjct: 69 RNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGR 120
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 48.1 bits (113), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 47/88 (53%), Gaps = 2/88 (2%)
Query: 435 KKVPFLTH-LTVAYLTGSTTSVDALTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNC 493
+KV +LT + A T S+ D + K ++ +++ FR G +L +TDV G+ VP
Sbjct: 288 RKVDWLTEKMREANFTVSSMHGD-MPQKERESIMKEFRSGASRVLISTDVWARGLDVPQV 346
Query: 494 SYVIRFDLPKTVSSYIQSRGRARQHNSQ 521
S +I +DLP YI GR+ ++ +
Sbjct: 347 SLIINYDLPNNRELYIHRIGRSGRYGRK 374
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 48.1 bits (113), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 47/88 (53%), Gaps = 2/88 (2%)
Query: 435 KKVPFLTH-LTVAYLTGSTTSVDALTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNC 493
+KV +LT + A T S+ D + K ++ +++ FR G +L +TDV G+ VP
Sbjct: 288 RKVDWLTEKMREANFTVSSMHGD-MPQKERESIMKEFRSGASRVLISTDVWARGLDVPQV 346
Query: 494 SYVIRFDLPKTVSSYIQSRGRARQHNSQ 521
S +I +DLP YI GR+ ++ +
Sbjct: 347 SLIINYDLPNNRELYIHRIGRSGRYGRK 374
>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 410
Score = 48.1 bits (113), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 47/88 (53%), Gaps = 2/88 (2%)
Query: 435 KKVPFLTH-LTVAYLTGSTTSVDALTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNC 493
+KV +LT + A T S+ D + K ++ +++ FR G +L +TDV G+ VP
Sbjct: 287 RKVDWLTEKMREANFTVSSMHGD-MPQKERESIMKEFRSGASRVLISTDVWARGLDVPQV 345
Query: 494 SYVIRFDLPKTVSSYIQSRGRARQHNSQ 521
S +I +DLP YI GR+ ++ +
Sbjct: 346 SLIINYDLPNNRELYIHRIGRSGRYGRK 373
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 48.1 bits (113), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 47/88 (53%), Gaps = 2/88 (2%)
Query: 435 KKVPFLTH-LTVAYLTGSTTSVDALTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNC 493
+KV +LT + A T S+ D + K ++ +++ FR G +L +TDV G+ VP
Sbjct: 266 RKVDWLTEKMREANFTVSSMHGD-MPQKERESIMKEFRSGASRVLISTDVWARGLDVPQV 324
Query: 494 SYVIRFDLPKTVSSYIQSRGRARQHNSQ 521
S +I +DLP YI GR+ ++ +
Sbjct: 325 SLIINYDLPNNRELYIHRIGRSGRYGRK 352
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 47.8 bits (112), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 47/88 (53%), Gaps = 2/88 (2%)
Query: 435 KKVPFLTH-LTVAYLTGSTTSVDALTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNC 493
+KV +LT + A T S+ D + K ++ +++ FR G +L +TDV G+ VP
Sbjct: 251 RKVDWLTEKMREANFTVSSMHGD-MPQKERESIMKEFRSGASRVLISTDVWARGLDVPQV 309
Query: 494 SYVIRFDLPKTVSSYIQSRGRARQHNSQ 521
S +I +DLP YI GR+ ++ +
Sbjct: 310 SLIINYDLPNNRELYIHRIGRSGRYGRK 337
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 47.8 bits (112), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 47/88 (53%), Gaps = 2/88 (2%)
Query: 435 KKVPFLTH-LTVAYLTGSTTSVDALTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNC 493
+KV +LT + A T S+ D + K ++ +++ FR G +L +TDV G+ VP
Sbjct: 251 RKVDWLTEKMREANFTVSSMHGD-MPQKERESIMKEFRSGASRVLISTDVWARGLDVPQV 309
Query: 494 SYVIRFDLPKTVSSYIQSRGRARQHNSQ 521
S +I +DLP YI GR+ ++ +
Sbjct: 310 SLIINYDLPNNRELYIHRIGRSGRYGRK 337
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 46.2 bits (108), Expect = 2e-04, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 33/59 (55%)
Query: 457 ALTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGRA 515
L V+ +V E F+ + ++ AT G++ PN +V+ FD+P+ + SY Q GRA
Sbjct: 269 GLENNVRADVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPRNIESYYQETGRA 327
>pdb|3N3W|A Chain A, 2.2 Angstrom Resolution Crystal Structure Of Nuclease Domain
Ribonuclase Iii (Rnc) From Campylobacter Jejuni
pdb|3N3W|B Chain B, 2.2 Angstrom Resolution Crystal Structure Of Nuclease Domain
Ribonuclase Iii (Rnc) From Campylobacter Jejuni
Length = 248
Score = 45.8 bits (107), Expect = 2e-04, Method: Composition-based stats.
Identities = 27/75 (36%), Positives = 40/75 (53%)
Query: 1046 SLILEALTTLGCCESFSMERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNS 1105
+L++ ALT +S++ ERLE LGD+VL V +LF + K EG LS R+ V
Sbjct: 43 NLLIHALTHKSFKKSYNNERLEFLGDAVLDLVVGEYLFHKFAKDAEGDLSKLRAALVNEK 102
Query: 1106 TLHKLGTDRKLQGYI 1120
+ K+ L +I
Sbjct: 103 SFAKIANSLNLGDFI 117
>pdb|3O2R|A Chain A, Structural Flexibility In Region Involved In Dimer Formation
Of Nuclease Domain Of Ribonuclase Iii (Rnc) From
Campylobacter Jejuni
pdb|3O2R|C Chain C, Structural Flexibility In Region Involved In Dimer Formation
Of Nuclease Domain Of Ribonuclase Iii (Rnc) From
Campylobacter Jejuni
Length = 170
Score = 45.8 bits (107), Expect = 2e-04, Method: Composition-based stats.
Identities = 27/75 (36%), Positives = 40/75 (53%)
Query: 1046 SLILEALTTLGCCESFSMERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNS 1105
+L++ ALT +S++ ERLE LGD+VL V +LF + K EG LS R+ V
Sbjct: 43 NLLIHALTHKSFKKSYNNERLEFLGDAVLDLVVGEYLFHKFAKDAEGDLSKLRAALVNEK 102
Query: 1106 TLHKLGTDRKLQGYI 1120
+ K+ L +I
Sbjct: 103 SFAKIANSLNLGDFI 117
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 33/59 (55%)
Query: 457 ALTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGRA 515
L V+ +V E F+ + ++ AT G++ PN +V+ FD+P+ + SY Q GRA
Sbjct: 269 GLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRA 327
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 45/98 (45%), Gaps = 12/98 (12%)
Query: 418 IIFVERIIAAKVVERFVKKVPFLTHLTVAYLTGSTTSVDALTPKVQKE-VLESFRGGKVN 476
I+FVE A + F+ + F TTS+ + Q+E L F+ G +
Sbjct: 304 IVFVETKRGADFLASFLSEKEF-----------PTTSIHGDRLQSQREQALRDFKNGSMK 352
Query: 477 LLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGR 514
+L AT V G+ + N +VI +D+P + Y+ GR
Sbjct: 353 VLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGR 390
Score = 35.8 bits (81), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 34/128 (26%), Positives = 63/128 (49%), Gaps = 11/128 (8%)
Query: 56 VAKRRNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKL----IIFLAPTVHLVHQQYD 111
++ R+ +A +TG+GKT A L+ +++ ++ +L ++ ++PT L Q ++
Sbjct: 90 ISSGRDLMACAQTGSGKT--AAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFN 147
Query: 112 VIRVHTDFEVEEYYGAKGVDEWDSQCWQKE-INKN-DVLVMTPQILLDALRKAFLSLDIV 169
R F E Y V S Q E I + V++ TP LLD + + F++ +
Sbjct: 148 EAR---KFAFESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDT 204
Query: 170 CFIVIDEC 177
F+V+DE
Sbjct: 205 RFVVLDEA 212
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 45.1 bits (105), Expect = 3e-04, Method: Composition-based stats.
Identities = 27/88 (30%), Positives = 44/88 (50%), Gaps = 8/88 (9%)
Query: 458 LTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGRARQ 517
L V+ +++FR G+ ++L TDV G+ +P VI FD P+ + +YI GR +
Sbjct: 250 LPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGR 309
Query: 518 HNSQ-----FIL---MLERSERSVTDTA 537
+ FIL LE+ + V+ A
Sbjct: 310 MGRKGEAITFILNEYWLEKEVKKVSQKA 337
Score = 39.7 bits (91), Expect = 0.015, Method: Composition-based stats.
Identities = 32/120 (26%), Positives = 54/120 (45%), Gaps = 17/120 (14%)
Query: 60 RNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQQYDVIRVHTDF 119
+N + +TG+GKT + I ++ G K L++ PT L Q IR
Sbjct: 32 KNVVVRAKTGSGKTAAYAIPILEL-------GMKSLVV--TPTRELTRQVASHIR----- 77
Query: 120 EVEEYYGAKGVDEWDSQCWQKEINK---NDVLVMTPQILLDALRKAFLSLDIVCFIVIDE 176
++ Y K + + ++ +IN+ D++V TP LLD K + L ++IDE
Sbjct: 78 DIGRYMDTKVAEVYGGMPYKAQINRVRNADIVVATPGRLLDLWSKGVIDLSSFEIVIIDE 137
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 45.1 bits (105), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%)
Query: 463 QKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGRA 515
+ +V FR GKV L +D++ G+ + + VI FD PKT +Y+ GR+
Sbjct: 297 RNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRS 349
>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
pdb|2HJV|B Chain B, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
Length = 163
Score = 43.9 bits (102), Expect = 7e-04, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 28/50 (56%)
Query: 465 EVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGR 514
+V+ F+ G+ L ATDV G+ + N S VI +DLP SY+ GR
Sbjct: 76 DVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGR 125
>pdb|3RV1|A Chain A, Crystal Structure Of The N-Terminal And Rnase Iii Domains Of
K. Polysporus Dcr1 E224q Mutant
pdb|3RV1|B Chain B, Crystal Structure Of The N-Terminal And Rnase Iii Domains Of
K. Polysporus Dcr1 E224q Mutant
Length = 246
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 42/87 (48%), Gaps = 9/87 (10%)
Query: 1061 FSMERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNSTLH----KLGTDRKL 1116
S ERLE LGDS L VS ++ +P +EG LS + V N+ L KL ++L
Sbjct: 127 LSNERLEFLGDSWLGALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTKRL 186
Query: 1117 QGYIRDSAFDPRRWVAPGQLSLRPVPC 1143
QG I P R V ++S R C
Sbjct: 187 QGNIA----TPTR-VVKDKMSKRYADC 208
>pdb|3RV0|A Chain A, Crystal Structure Of K. Polysporus Dcr1 Without The
C-Terminal Dsrbd
pdb|3RV0|B Chain B, Crystal Structure Of K. Polysporus Dcr1 Without The
C-Terminal Dsrbd
pdb|3RV0|C Chain C, Crystal Structure Of K. Polysporus Dcr1 Without The
C-Terminal Dsrbd
pdb|3RV0|D Chain D, Crystal Structure Of K. Polysporus Dcr1 Without The
C-Terminal Dsrbd
Length = 341
Score = 42.7 bits (99), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 42/87 (48%), Gaps = 9/87 (10%)
Query: 1061 FSMERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNSTLH----KLGTDRKL 1116
S ERLE LGDS L VS ++ +P +EG LS + V N+ L KL ++L
Sbjct: 127 LSNERLEFLGDSWLGALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTKRL 186
Query: 1117 QGYIRDSAFDPRRWVAPGQLSLRPVPC 1143
QG I P R V ++S R C
Sbjct: 187 QGNIA----TPTR-VVKDKMSKRYADC 208
>pdb|3C4B|A Chain A, Structure Of Rnaseiiib And Dsrna Binding Domains Of Mouse
Dicer
Length = 265
Score = 42.4 bits (98), Expect = 0.002, Method: Composition-based stats.
Identities = 15/38 (39%), Positives = 26/38 (68%)
Query: 1313 PKALGDLLESIVGAVLIDTKLNLDEVWRIFKPILSPIV 1350
PKA GD+ ES+ GA+ D+ +L+ VW+++ P P++
Sbjct: 154 PKAXGDIFESLAGAIYXDSGXSLEVVWQVYYPXXQPLI 191
Score = 35.4 bits (80), Expect = 0.25, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 1064 ERLELLGDSVLKYAVSCHLFLTYPKKHE-GQLSARRSWAVCNSTLHKLGTDRKLQGYIR 1121
+RLE LGD++L Y ++ HL+ P++H G L+ RS V N+ L Y +
Sbjct: 51 QRLEFLGDAILDYLITKHLYED-PRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFK 108
>pdb|3O2R|B Chain B, Structural Flexibility In Region Involved In Dimer Formation
Of Nuclease Domain Of Ribonuclase Iii (Rnc) From
Campylobacter Jejuni
pdb|3O2R|D Chain D, Structural Flexibility In Region Involved In Dimer Formation
Of Nuclease Domain Of Ribonuclase Iii (Rnc) From
Campylobacter Jejuni
Length = 144
Score = 42.0 bits (97), Expect = 0.003, Method: Composition-based stats.
Identities = 23/62 (37%), Positives = 33/62 (53%)
Query: 1059 ESFSMERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNSTLHKLGTDRKLQG 1118
+S++ ERLE LGD+VL V +LF + K EG LS R+ V + K+ L
Sbjct: 31 KSYNNERLEFLGDAVLDLVVGEYLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGD 90
Query: 1119 YI 1120
+I
Sbjct: 91 FI 92
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 40.4 bits (93), Expect = 0.007, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 27/46 (58%)
Query: 463 QKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSY 508
++ VL +FR G+V +L ATDV G+ +P V+ + LP +Y
Sbjct: 70 RERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAY 115
>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
pdb|1HV8|B Chain B, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
Length = 367
Score = 40.4 bits (93), Expect = 0.008, Method: Composition-based stats.
Identities = 50/212 (23%), Positives = 101/212 (47%), Gaps = 21/212 (9%)
Query: 61 NTIAVLETGAGKTM-IAVMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQQYDVI---RVH 116
N +A TG+GKT A+ LI+ + + +NG + +I L PT L Q D I + +
Sbjct: 46 NIVAQARTGSGKTASFAIPLIELVNE---NNGIEAII--LTPTRELAIQVADEIESLKGN 100
Query: 117 TDFEVEEYYGAKGVDEWDSQCWQKEINKNDVLVMTPQILLDALRKAFLSLDIVCFIVIDE 176
+ ++ + YG K + K + +++V TP +LD + + L+L V + ++DE
Sbjct: 101 KNLKIAKIYGGKAIYPQ-----IKALKNANIVVGTPGRILDHINRGTLNLKNVKYFILDE 155
Query: 177 CHHATGNHPYTKIMKEFYHKSDNKPKVFGMTASPVVRKGVSSAMDCEGQISELESTLDSQ 236
N + K +++ + NK K + ++ R+ ++ A G S +++ +++
Sbjct: 156 ADEXL-NXGFIKDVEKILNAC-NKDKRILLFSATXPREILNLAKKYXGDYSFIKAKINAN 213
Query: 237 VFTIEDKTEMEVFVPSAKES-CRFYDQSKFCG 267
+ +++ +EV E+ CR +F G
Sbjct: 214 I----EQSYVEVNENERFEALCRLLKNKEFYG 241
Score = 38.9 bits (89), Expect = 0.021, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 32/57 (56%)
Query: 458 LTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGR 514
L+ +++V+ F+ K+ +L ATDV G+ V + + VI + LP+ SY GR
Sbjct: 272 LSQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGR 328
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 40.0 bits (92), Expect = 0.010, Method: Composition-based stats.
Identities = 24/93 (25%), Positives = 45/93 (48%), Gaps = 6/93 (6%)
Query: 428 KVVERFVKK--VPFLTHLTVAYLTGSTTSVDALTPKVQKE----VLESFRGGKVNLLFAT 481
+++ER K + F H + Y + A+T + +E +LE FR G+ + ++
Sbjct: 342 EILERHRKDKIIIFTRHNELVYRISKVFLIPAITHRTSREEREEILEGFRTGRFRAIVSS 401
Query: 482 DVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGR 514
V++EG+ VP+ + + + YIQ GR
Sbjct: 402 QVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 434
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 40.0 bits (92), Expect = 0.010, Method: Composition-based stats.
Identities = 24/93 (25%), Positives = 45/93 (48%), Gaps = 6/93 (6%)
Query: 428 KVVERFVKK--VPFLTHLTVAYLTGSTTSVDALTPKVQKE----VLESFRGGKVNLLFAT 481
+++ER K + F H + Y + A+T + +E +LE FR G+ + ++
Sbjct: 107 EILERHRKDKIIIFTRHNELVYRISKVFLIPAITHRTSREEREEILEGFRTGRFRAIVSS 166
Query: 482 DVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGR 514
V++EG+ VP+ + + + YIQ GR
Sbjct: 167 QVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 199
>pdb|2VSO|A Chain A, Crystal Structure Of A Translation Initiation Complex
pdb|2VSO|B Chain B, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|A Chain A, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|B Chain B, Crystal Structure Of A Translation Initiation Complex
Length = 395
Score = 40.0 bits (92), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 460 PKVQKE-VLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYI 509
P+ +++ +++ FR G +L +TD++ G+ V S VI +DLP +YI
Sbjct: 295 PQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYI 345
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 39.7 bits (91), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 39/124 (31%), Positives = 62/124 (50%), Gaps = 11/124 (8%)
Query: 60 RNTIAVLETGAGKTMI----AVMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQQYDVIRV 115
R+ +A +TG+GKT+ AV LI + + + NG LI L+PT L Q + V++
Sbjct: 92 RDLLAAAKTGSGKTLAFLIPAVELIVKL-RFMPRNGTGVLI--LSPTRELAMQTFGVLKE 148
Query: 116 HTDFEVEEYYGAKGVDEWDSQCWQKEINKNDVLVMTPQILLDALRK--AFLSLDIVCFIV 173
V Y G ++ QK N +++V TP LLD ++ F+ ++ C +V
Sbjct: 149 LMTHHVHTYGLIMGGSNRSAEA-QKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQC-LV 206
Query: 174 IDEC 177
IDE
Sbjct: 207 IDEA 210
>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|C Chain C, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|D Chain D, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|F Chain F, Crystal Structure Of The Eif4a-Pdcd4 Complex
Length = 388
Score = 39.7 bits (91), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 12/81 (14%)
Query: 435 KKVPFLTH------LTVAYLTGSTTSVDALTPKVQKEVLESFRGGKVNLLFATDVIEEGM 488
+KV +LT TV+ + G + K + ++ FR G +L TD++ G+
Sbjct: 265 RKVDWLTEKMHARDFTVSAMHGD------MDQKERDVIMREFRSGSSRVLITTDLLARGI 318
Query: 489 HVPNCSYVIRFDLPKTVSSYI 509
V S VI +DLP +YI
Sbjct: 319 DVQQVSLVINYDLPTNRENYI 339
Score = 34.3 bits (77), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 34/163 (20%), Positives = 71/163 (43%), Gaps = 6/163 (3%)
Query: 48 IYQLKVFEVAKRRNTIAVLETGAGKT-MIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHLV 106
I Q + K + IA ++G GKT A+ +++ I +K+ + LAPT L
Sbjct: 40 IQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQ----ALVLAPTRELA 95
Query: 107 HQQYDVIRVHTDFEVEEYYGAKGVDEWDSQCWQKEINKNDVLVMTPQILLDALRKAFLSL 166
Q V+ D+ + G ++ + ++ ++V TP + D L + +LS
Sbjct: 96 QQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSP 155
Query: 167 DIVCFIVIDECHHATGNHPYTKIMKEFYHKSDNKPKVFGMTAS 209
+ V+DE + + + + + K ++ +V ++A+
Sbjct: 156 KYIKMFVLDEADEML-SRGFKDQIYDIFQKLNSNTQVVLLSAT 197
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 39.7 bits (91), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 12/81 (14%)
Query: 435 KKVPFLTH------LTVAYLTGSTTSVDALTPKVQKEVLESFRGGKVNLLFATDVIEEGM 488
+KV +LT TV+ + G + K + ++ FR G +L TD++ G+
Sbjct: 291 RKVDWLTEKMHARDFTVSAMHGD------MDQKERDVIMREFRSGSSRVLITTDLLARGI 344
Query: 489 HVPNCSYVIRFDLPKTVSSYI 509
V S VI +DLP +YI
Sbjct: 345 DVQQVSLVINYDLPTNRENYI 365
Score = 36.2 bits (82), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 34/163 (20%), Positives = 71/163 (43%), Gaps = 6/163 (3%)
Query: 48 IYQLKVFEVAKRRNTIAVLETGAGKT-MIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHLV 106
I Q + K + IA ++G GKT A+ +++ I +K+ + LAPT L
Sbjct: 66 IQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQ----ALVLAPTRELA 121
Query: 107 HQQYDVIRVHTDFEVEEYYGAKGVDEWDSQCWQKEINKNDVLVMTPQILLDALRKAFLSL 166
Q V+ D+ + G ++ + ++ ++V TP + D L + +LS
Sbjct: 122 QQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSP 181
Query: 167 DIVCFIVIDECHHATGNHPYTKIMKEFYHKSDNKPKVFGMTAS 209
+ V+DE + + + + + K ++ +V ++A+
Sbjct: 182 KYIKMFVLDEADEML-SRGFKDQIYDIFQKLNSNTQVVLLSAT 223
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 39.3 bits (90), Expect = 0.018, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 460 PKVQKE-VLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQ 510
P+ +++ +++ FR G +L +TD++ G+ V S VI +DLP +YI
Sbjct: 65 PQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 116
>pdb|2GXQ|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 1
pdb|2GXS|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXS|B Chain B, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXU|A Chain A, Hera N-Terminal Domain In Complex With Orthophosphate,
Crystal Form 1
Length = 207
Score = 39.3 bits (90), Expect = 0.019, Method: Composition-based stats.
Identities = 36/120 (30%), Positives = 51/120 (42%), Gaps = 9/120 (7%)
Query: 60 RNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQ-QYDVIRVHTD 118
++ I TG GKT+ + I + + G K + L PT L Q ++ V
Sbjct: 39 KDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLTPTRELALQVASELTAVAPH 98
Query: 119 FEVEEYYGAKGVDEWDSQCWQKE--INKNDVLVMTPQILLDALRKAFLSLDIVCFIVIDE 176
+V YG G + QKE + D +V TP LD LR+ L L V V+DE
Sbjct: 99 LKVVAVYGGTGYGK------QKEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDE 152
>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWJ|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWK|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWK|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWL|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3MWL|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3NBF|A Chain A, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|B Chain B, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|C Chain C, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|D Chain D, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NEJ|A Chain A, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
pdb|3NEJ|B Chain B, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
Length = 207
Score = 39.3 bits (90), Expect = 0.019, Method: Composition-based stats.
Identities = 36/120 (30%), Positives = 51/120 (42%), Gaps = 9/120 (7%)
Query: 60 RNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQ-QYDVIRVHTD 118
++ I TG GKT+ + I + + G K + L PT L Q ++ V
Sbjct: 39 KDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLTPTRELALQVASELTAVAPH 98
Query: 119 FEVEEYYGAKGVDEWDSQCWQKE--INKNDVLVMTPQILLDALRKAFLSLDIVCFIVIDE 176
+V YG G + QKE + D +V TP LD LR+ L L V V+DE
Sbjct: 99 LKVVAVYGGTGYGK------QKEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDE 152
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 39.3 bits (90), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 6/55 (10%)
Query: 466 VLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTV------SSYIQSRGR 514
+++ FR G+ +L T+V+ G+ +P S V+ +DLP ++YI GR
Sbjct: 285 LIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGR 339
Score = 33.5 bits (75), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 35/125 (28%), Positives = 53/125 (42%), Gaps = 18/125 (14%)
Query: 60 RNTIAVLETGAGKTMI--AVMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQQYDVIRVHT 117
RN IA ++G GKT ML + + I LAP+ L Q +V++
Sbjct: 45 RNMIAQSQSGTGKTAAFSLTMLTR-----VNPEDASPQAICLAPSRELARQTLEVVQEMG 99
Query: 118 DFEVEEYYGAKGVDEW---DSQCWQKEINKNDVLVMTPQILLDALRKAFLSLDIVCFIVI 174
F K + DS K+IN V+V TP +LD +R+ + L + V+
Sbjct: 100 KF-------TKITSQLIVPDSFEKNKQINAQ-VIVGTPGTVLDLMRRKLMQLQKIKIFVL 151
Query: 175 DECHH 179
DE +
Sbjct: 152 DEADN 156
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 39.3 bits (90), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 6/64 (9%)
Query: 458 LTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTV------SSYIQS 511
L + + +++ FR G+ +L T+V+ G+ +P S V+ +DLP ++YI
Sbjct: 69 LQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHR 128
Query: 512 RGRA 515
GR
Sbjct: 129 IGRT 132
>pdb|3PEW|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3
pdb|3RRM|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Nup159, Gle1 H337r, Ip6
And Adp
pdb|3RRN|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Gle1 H337r And Ip6
Length = 395
Score = 39.3 bits (90), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 6/55 (10%)
Query: 466 VLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTV------SSYIQSRGR 514
+++ FR G+ +L T+V+ G+ +P S V+ +DLP ++YI GR
Sbjct: 285 LIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGR 339
Score = 33.5 bits (75), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 35/125 (28%), Positives = 53/125 (42%), Gaps = 18/125 (14%)
Query: 60 RNTIAVLETGAGKTMI--AVMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQQYDVIRVHT 117
RN IA ++G GKT ML + + I LAP+ L Q +V++
Sbjct: 45 RNMIAQSQSGTGKTAAFSLTMLTR-----VNPEDASPQAICLAPSRELARQTLEVVQEMG 99
Query: 118 DFEVEEYYGAKGVDEW---DSQCWQKEINKNDVLVMTPQILLDALRKAFLSLDIVCFIVI 174
F K + DS K+IN V+V TP +LD +R+ + L + V+
Sbjct: 100 KF-------TKITSQLIVPDSFEKNKQINAQ-VIVGTPGTVLDLMRRKLMQLQKIKIFVL 151
Query: 175 DECHH 179
DE +
Sbjct: 152 DEADN 156
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 38.9 bits (89), Expect = 0.021, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 27/46 (58%)
Query: 463 QKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSY 508
++ V+ +FR G+V +L ATDV G+ +P V+ + +P +Y
Sbjct: 67 RERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAY 112
>pdb|2FFL|A Chain A, Crystal Structure Of Dicer From Giardia Intestinalis
pdb|2FFL|B Chain B, Crystal Structure Of Dicer From Giardia Intestinalis
pdb|2FFL|C Chain C, Crystal Structure Of Dicer From Giardia Intestinalis
pdb|2FFL|D Chain D, Crystal Structure Of Dicer From Giardia Intestinalis
pdb|2QVW|A Chain A, Structure Of Giardia Dicer Refined Against Twinned Data
pdb|2QVW|B Chain B, Structure Of Giardia Dicer Refined Against Twinned Data
pdb|2QVW|C Chain C, Structure Of Giardia Dicer Refined Against Twinned Data
pdb|2QVW|D Chain D, Structure Of Giardia Dicer Refined Against Twinned Data
Length = 756
Score = 38.9 bits (89), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 29/47 (61%)
Query: 1064 ERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNSTLHKL 1110
++LELLGD+ LK +++ HL +P EG L+ R A NS L +L
Sbjct: 648 QKLELLGDAFLKCSLALHLHALHPTLTEGALTRMRQSAETNSVLGRL 694
Score = 33.5 bits (75), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 27/56 (48%)
Query: 1055 LGCCESFSMERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNSTLHKL 1110
G + +RLELLGD+VL + V+ L +P G L + V N L+ L
Sbjct: 326 FGVSHTDVFQRLELLGDAVLGFIVTARLLCLFPDASVGTLVELKMELVRNEALNYL 381
>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
H337r And Ip6
pdb|3PEV|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
And Ip6
Length = 188
Score = 38.5 bits (88), Expect = 0.030, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 33/63 (52%), Gaps = 6/63 (9%)
Query: 458 LTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTV------SSYIQS 511
L + + +++ FR G+ +L T+V+ G+ +P S V+ +DLP ++YI
Sbjct: 70 LQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHR 129
Query: 512 RGR 514
GR
Sbjct: 130 IGR 132
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 38.5 bits (88), Expect = 0.030, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 33/63 (52%), Gaps = 6/63 (9%)
Query: 458 LTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTV------SSYIQS 511
L + + +++ FR G+ +L T+V+ G+ +P S V+ +DLP ++YI
Sbjct: 71 LQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHR 130
Query: 512 RGR 514
GR
Sbjct: 131 IGR 133
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 38.5 bits (88), Expect = 0.034, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 460 PKVQKEVL-ESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQ 510
P+ +++ + + FR G +L +TD++ G+ V S VI +DLP +YI
Sbjct: 294 PQQERDTIXKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 345
>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
pdb|3FMP|D Chain D, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 479
Score = 38.1 bits (87), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 22/37 (59%)
Query: 466 VLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLP 502
V+E FR GK +L T+V G+ V S VI FDLP
Sbjct: 375 VIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 411
>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAX|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
Length = 193
Score = 38.1 bits (87), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 25/53 (47%)
Query: 463 QKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGRA 515
+ V FR G L TD+ G+ + + VI FD PK +Y+ GR+
Sbjct: 83 RNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRS 135
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 37.7 bits (86), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 32/107 (29%), Positives = 55/107 (51%), Gaps = 17/107 (15%)
Query: 398 KLHELLQLF--LSFGKSTQVLCIIFVERIIAAKVVERFVKKVPFLTHLTVAYLTGSTTSV 455
K + L++L+ L+ G+S IIF ++ A E +++ H TVA LTG+
Sbjct: 344 KYNVLVELYGLLTIGQS-----IIFCKKKDTA---EEIARRMTADGH-TVACLTGN---- 390
Query: 456 DALTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLP 502
L + +++SFR G +L T+VI G+ V + V+ +D+P
Sbjct: 391 --LEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMP 435
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 37.7 bits (86), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 22/37 (59%)
Query: 466 VLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLP 502
V+E FR GK +L T+V G+ V S VI FDLP
Sbjct: 324 VIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 360
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 37.7 bits (86), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 22/37 (59%)
Query: 466 VLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLP 502
V+E FR GK +L T+V G+ V S VI FDLP
Sbjct: 345 VIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 381
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 37.7 bits (86), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 22/37 (59%)
Query: 466 VLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLP 502
V+E FR GK +L T+V G+ V S VI FDLP
Sbjct: 308 VIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 344
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 37.4 bits (85), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 52/190 (27%), Positives = 82/190 (43%), Gaps = 30/190 (15%)
Query: 9 KRSFGEVHSP--NPPDMGSSGHDHAVDG----PSSSTNSINFIPRIYQLKVFEVA--KRR 60
++ + EVH P P GS V+ + + RI Q K++ A
Sbjct: 38 RKGYEEVHVPALKPKPFGSEEQLLPVEKLPKYAQAGFEGFKTLNRI-QSKLYRAALETDE 96
Query: 61 NTIAVLETGAGKTMIAVM-LIKDIAQAIKSNG------FKKLIIFLAPTVHLVHQQYDVI 113
N + TGAGKT +A+M ++++I + I +G FK II++AP LV +
Sbjct: 97 NLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFK--IIYIAPMRSLVQEMVGSF 154
Query: 114 --RVHT-DFEVEEYYGAKGVDEWDSQCWQKEINKNDVLVMTPQILLDALRKA--FLSLDI 168
R+ T V E G D Q ++EI+ ++V TP+ RK +
Sbjct: 155 GKRLATYGITVAELTG-------DHQLCKEEISATQIIVCTPEKWDIITRKGGERTYTQL 207
Query: 169 VCFIVIDECH 178
V I++DE H
Sbjct: 208 VRLIILDEIH 217
>pdb|1RIF|A Chain A, Crystal Structure Of The Uvsw Helicase From Bacteriophage
T4
pdb|1RIF|B Chain B, Crystal Structure Of The Uvsw Helicase From Bacteriophage
T4
Length = 282
Score = 37.0 bits (84), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 47/188 (25%), Positives = 79/188 (42%), Gaps = 26/188 (13%)
Query: 46 PRIYQLK-VFEVAKRRNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVH 104
P YQ VFE R I L T AG+++I +L + + ++ I+ + PT
Sbjct: 114 PHWYQKDAVFEGLVNRRRILNLPTSAGRSLIQALLARYYLE-----NYEGKILIIVPTTA 168
Query: 105 LVHQQYDVI---RVHTDFEVEEYYGAKGVDEWDSQCWQKEINKNDVLVMTPQILLDALRK 161
L Q D R+ + +++ G D+ K N V+V T Q ++ ++
Sbjct: 169 LTTQMADDFVDYRLFSHAMIKKIGGGASKDD-------KYKNDAPVVVGTWQTVVKQPKE 221
Query: 162 AFLSLDIVCFIVIDECHHATGNHPYTKIMKEFYHKSDNKPKVFGMTASPVVRKGVSSAMD 221
F + ++ DECH ATG K + +N FG++ S +R G ++ M
Sbjct: 222 WFSQFGM---MMNDECHLATG-----KSISSIISGLNNCMFKFGLSGS--LRDGKANIMQ 271
Query: 222 CEGQISEL 229
G E+
Sbjct: 272 YVGMFGEI 279
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 37.0 bits (84), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 52/190 (27%), Positives = 82/190 (43%), Gaps = 30/190 (15%)
Query: 9 KRSFGEVHSP--NPPDMGSSGHDHAVDG----PSSSTNSINFIPRIYQLKVFEVA--KRR 60
++ + EVH P P GS V+ + + RI Q K++ A
Sbjct: 38 RKGYEEVHVPALKPKPFGSEEQLLPVEKLPKYAQAGFEGFKTLNRI-QSKLYRAALETDE 96
Query: 61 NTIAVLETGAGKTMIAVM-LIKDIAQAIKSNG------FKKLIIFLAPTVHLVHQQYDVI 113
N + TGAGKT +A+M ++++I + I +G FK II++AP LV +
Sbjct: 97 NLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFK--IIYIAPMRSLVQEMVGSF 154
Query: 114 --RVHT-DFEVEEYYGAKGVDEWDSQCWQKEINKNDVLVMTPQILLDALRKA--FLSLDI 168
R+ T V E G D Q ++EI+ ++V TP+ RK +
Sbjct: 155 GKRLATYGITVAELTG-------DHQLCKEEISATQIIVCTPEKWDIITRKGGERTYTQL 207
Query: 169 VCFIVIDECH 178
V I++DE H
Sbjct: 208 VRLIILDEIH 217
>pdb|2A11|A Chain A, Crystal Structure Of Nuclease Domain Of Ribonuclase Iii From
Mycobacterium Tuberculosis
Length = 242
Score = 36.6 bits (83), Expect = 0.13, Method: Composition-based stats.
Identities = 18/44 (40%), Positives = 25/44 (56%)
Query: 1064 ERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNSTL 1107
ERLE LGD+VL ++ LF +P + EG L+ R+ V L
Sbjct: 43 ERLEFLGDAVLGLTITDALFHRHPDRSEGDLAKLRASVVNTQAL 86
>pdb|3O7X|A Chain A, Crystal Structure Of Human Hili Paz Domain
pdb|3O7X|B Chain B, Crystal Structure Of Human Hili Paz Domain
pdb|3O7X|C Chain C, Crystal Structure Of Human Hili Paz Domain
pdb|3O7X|D Chain D, Crystal Structure Of Human Hili Paz Domain
Length = 140
Score = 36.6 bits (83), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 3/72 (4%)
Query: 897 VVLAIHTGRIYSIVEIVNNSSAESPFDGNTDDDSKTFVNYFSEKYGIVLIHPGQPLL--R 954
+V+ + R Y I ++ N + + F +D TF+ Y+S+ YGI + QPLL R
Sbjct: 32 IVITRYNNRTYRIDDVDWNKTPKDSF-TMSDGKEITFLEYYSKNYGITVKEEDQPLLIHR 90
Query: 955 LKQSHNPHNLLV 966
+ + H +L+
Sbjct: 91 PSERQDNHGMLL 102
>pdb|3QIR|A Chain A, Crystal Structure Of Piwil2 Paz Domain
pdb|3QIR|B Chain B, Crystal Structure Of Piwil2 Paz Domain
pdb|3QIR|C Chain C, Crystal Structure Of Piwil2 Paz Domain
pdb|3QIR|D Chain D, Crystal Structure Of Piwil2 Paz Domain
Length = 148
Score = 36.6 bits (83), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 39/74 (52%), Gaps = 7/74 (9%)
Query: 897 VVLAIHTGRIYSIVEIVNNSSAESPFDGNTDDDSK--TFVNYFSEKYGIVLIHPGQPLL- 953
+V+ + R Y I ++ N ++P D T D K TF+ Y+S+ YGI + QPLL
Sbjct: 32 IVITRYNNRTYRIDDVDWN---KTPKDSFTMSDGKEITFLEYYSKNYGITVKEEDQPLLI 88
Query: 954 -RLKQSHNPHNLLV 966
R + + H +L+
Sbjct: 89 HRPSERQDNHGMLL 102
>pdb|1JFZ|A Chain A, Crystal Structure Of Mn(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.10
Angstrom Resolution
pdb|1JFZ|B Chain B, Crystal Structure Of Mn(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.10
Angstrom Resolution
pdb|1JFZ|C Chain C, Crystal Structure Of Mn(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.10
Angstrom Resolution
pdb|1JFZ|D Chain D, Crystal Structure Of Mn(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.10
Angstrom Resolution
pdb|1RC5|A Chain A, Crystal Structure Of Mg(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.30
Angstrom Resolution
pdb|1RC5|B Chain B, Crystal Structure Of Mg(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.30
Angstrom Resolution
pdb|1RC5|C Chain C, Crystal Structure Of Mg(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.30
Angstrom Resolution
pdb|1RC5|D Chain D, Crystal Structure Of Mg(Ii)-Complex Of Rnase Iii
Endonuclease Domain From Aquifex Aeolicus At 2.30
Angstrom Resolution
Length = 154
Score = 36.2 bits (82), Expect = 0.16, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 38/76 (50%)
Query: 1046 SLILEALTTLGCCESFSMERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNS 1105
SL+ +ALT + + E LE LGD+++ + + L P K EG LS +++ +
Sbjct: 20 SLLEKALTHVSYSKKEHYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEE 79
Query: 1106 TLHKLGTDRKLQGYIR 1121
+ L +L +IR
Sbjct: 80 FFNLLAQKLELHKFIR 95
Score = 31.6 bits (70), Expect = 3.4, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 1240 IKDIESKIGYEFTVKFLLQEAITHASVQEFYCYQNL 1275
++ +E K+GY F K LL++A+TH S + Y+ L
Sbjct: 5 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKEHYETL 40
>pdb|1I4S|A Chain A, Crystal Structure Of Rnase Iii Endonuclease Domain From
Aquifex Aeolicus At 2.15 Angstrom Resolution
pdb|1I4S|B Chain B, Crystal Structure Of Rnase Iii Endonuclease Domain From
Aquifex Aeolicus At 2.15 Angstrom Resolution
Length = 147
Score = 36.2 bits (82), Expect = 0.16, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 38/76 (50%)
Query: 1046 SLILEALTTLGCCESFSMERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNS 1105
SL+ +ALT + + E LE LGD+++ + + L P K EG LS +++ +
Sbjct: 19 SLLEKALTHVSYSKKEHYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEE 78
Query: 1106 TLHKLGTDRKLQGYIR 1121
+ L +L +IR
Sbjct: 79 FFNLLAQKLELHKFIR 94
Score = 31.6 bits (70), Expect = 3.7, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 1240 IKDIESKIGYEFTVKFLLQEAITHASVQEFYCYQNL 1275
++ +E K+GY F K LL++A+TH S + Y+ L
Sbjct: 4 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKEHYETL 39
>pdb|1YZ9|A Chain A, Crystal Structure Of Rnase Iii Mutant E110q From Aquifex
Aeolicus Complexed With Double Stranded Rna At 2.1-
Angstrom Resolution
pdb|1YZ9|B Chain B, Crystal Structure Of Rnase Iii Mutant E110q From Aquifex
Aeolicus Complexed With Double Stranded Rna At 2.1-
Angstrom Resolution
Length = 221
Score = 35.8 bits (81), Expect = 0.22, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 38/76 (50%)
Query: 1046 SLILEALTTLGCCESFSMERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNS 1105
SL+ +ALT + + E LE LGD+++ + + L P K EG LS +++ +
Sbjct: 19 SLLEKALTHVSYSKKEHYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEE 78
Query: 1106 TLHKLGTDRKLQGYIR 1121
+ L +L +IR
Sbjct: 79 FFNLLAQKLELHKFIR 94
Score = 31.2 bits (69), Expect = 4.5, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 1240 IKDIESKIGYEFTVKFLLQEAITHASVQEFYCYQNL 1275
++ +E K+GY F K LL++A+TH S + Y+ L
Sbjct: 4 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKEHYETL 39
>pdb|1RC7|A Chain A, Crystal Structure Of Rnase Iii Mutant E110k From Aquifex
Aeolicus Complexed With Ds-Rna At 2.15 Angstrom
Resolution
Length = 220
Score = 35.8 bits (81), Expect = 0.22, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 38/76 (50%)
Query: 1046 SLILEALTTLGCCESFSMERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNS 1105
SL+ +ALT + + E LE LGD+++ + + L P K EG LS +++ +
Sbjct: 19 SLLEKALTHVSYSKKEHYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEE 78
Query: 1106 TLHKLGTDRKLQGYIR 1121
+ L +L +IR
Sbjct: 79 FFNLLAQKLELHKFIR 94
Score = 31.2 bits (69), Expect = 4.5, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 1240 IKDIESKIGYEFTVKFLLQEAITHASVQEFYCYQNL 1275
++ +E K+GY F K LL++A+TH S + Y+ L
Sbjct: 4 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKEHYETL 39
>pdb|1YYO|A Chain A, Crystal Structure Of Rnase Iii Mutant E110k From Aquifex
Aeolicus Complexed With Double-stranded Rna At 2.9-
Angstrom Resolution
pdb|1YYO|B Chain B, Crystal Structure Of Rnase Iii Mutant E110k From Aquifex
Aeolicus Complexed With Double-stranded Rna At 2.9-
Angstrom Resolution
Length = 221
Score = 35.8 bits (81), Expect = 0.22, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 38/76 (50%)
Query: 1046 SLILEALTTLGCCESFSMERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNS 1105
SL+ +ALT + + E LE LGD+++ + + L P K EG LS +++ +
Sbjct: 19 SLLEKALTHVSYSKKEHYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEE 78
Query: 1106 TLHKLGTDRKLQGYIR 1121
+ L +L +IR
Sbjct: 79 FFNLLAQKLELHKFIR 94
Score = 31.2 bits (69), Expect = 4.5, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 1240 IKDIESKIGYEFTVKFLLQEAITHASVQEFYCYQNL 1275
++ +E K+GY F K LL++A+TH S + Y+ L
Sbjct: 4 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKEHYETL 39
>pdb|1YYK|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double-Stranded Rna At 2.5-Angstrom
Resolution
pdb|1YYK|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double-Stranded Rna At 2.5-Angstrom
Resolution
pdb|1YYW|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double Stranded Rna At 2.8-Angstrom
Resolution
pdb|1YYW|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double Stranded Rna At 2.8-Angstrom
Resolution
pdb|1YYW|C Chain C, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double Stranded Rna At 2.8-Angstrom
Resolution
pdb|1YYW|D Chain D, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double Stranded Rna At 2.8-Angstrom
Resolution
pdb|2NUE|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 2.9-Angstrom Resolution
pdb|2NUE|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 2.9-Angstrom Resolution
pdb|2NUF|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 2.5-Angstrom Resolution
pdb|2NUF|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 2.5-Angstrom Resolution
pdb|2NUG|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 1.7-Angstrom Resolution
pdb|2NUG|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 1.7-Angstrom Resolution
Length = 221
Score = 35.8 bits (81), Expect = 0.22, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 38/76 (50%)
Query: 1046 SLILEALTTLGCCESFSMERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNS 1105
SL+ +ALT + + E LE LGD+++ + + L P K EG LS +++ +
Sbjct: 19 SLLEKALTHVSYSKKEHYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEE 78
Query: 1106 TLHKLGTDRKLQGYIR 1121
+ L +L +IR
Sbjct: 79 FFNLLAQKLELHKFIR 94
Score = 31.2 bits (69), Expect = 4.5, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 1240 IKDIESKIGYEFTVKFLLQEAITHASVQEFYCYQNL 1275
++ +E K+GY F K LL++A+TH S + Y+ L
Sbjct: 4 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKEHYETL 39
>pdb|1WRB|A Chain A, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
pdb|1WRB|B Chain B, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
Length = 253
Score = 35.0 bits (79), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 35/131 (26%), Positives = 60/131 (45%), Gaps = 15/131 (11%)
Query: 56 VAKRRNTIAVLETGAGKT------MIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQ- 108
+ + R+ +A +TG+GKT +I ++ +D+ Q S + LAPT L Q
Sbjct: 57 ILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQI 116
Query: 109 --QYDVIRVHTDFEVEEYYGAKGVDEWDSQCWQKEINKN-DVLVMTPQILLDALRKAFLS 165
+ ++T YG D+ +E+ +LV TP L+D + K +S
Sbjct: 117 LSESQKFSLNTPLRSCVVYGGA-----DTHSQIREVQMGCHLLVATPGRLVDFIEKNKIS 171
Query: 166 LDIVCFIVIDE 176
L+ +IV+DE
Sbjct: 172 LEFCKYIVLDE 182
>pdb|2OCA|A Chain A, The Crystal Structure Of T4 Uvsw
Length = 510
Score = 34.7 bits (78), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 47/187 (25%), Positives = 78/187 (41%), Gaps = 24/187 (12%)
Query: 46 PRIYQLK-VFEVAKRRNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVH 104
P YQ VFE R I L T AG+++I +L + + ++ I+ + PT
Sbjct: 114 PHWYQKDAVFEGLVNRRRILNLPTSAGRSLIQALLARYYLE-----NYEGKILIIVPTTA 168
Query: 105 LVHQQYDVIRVHTDFEVEEYYGAKGVDEWDSQCWQKEINKND--VLVMTPQILLDALRKA 162
L Q D DF + + + + + KND V+V T Q ++ ++
Sbjct: 169 LTTQMAD------DFVDYRLFSHAMIKKIGGGASKDDKYKNDAPVVVGTWQTVVKQPKEW 222
Query: 163 FLSLDIVCFIVIDECHHATGNHPYTKIMKEFYHKSDNKPKVFGMTASPVVRKGVSSAMDC 222
F + ++ DECH ATG K + +N FG++ S +R G ++ M
Sbjct: 223 FSQFGM---MMNDECHLATG-----KSISSIISGLNNCMFKFGLSGS--LRDGKANIMQY 272
Query: 223 EGQISEL 229
G E+
Sbjct: 273 VGMFGEI 279
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 34.7 bits (78), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 30/57 (52%)
Query: 458 LTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGR 514
+T + +++ F+ + +L TDV GM PN V++ +P +++YI GR
Sbjct: 325 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 381
>pdb|3I5X|A Chain A, Structure Of Mss116p Bound To Ssrna And Amp-Pnp
pdb|3I5Y|A Chain A, Structure Of Mss116p Bound To Ssrna Containing A Single
5-Bru And Amp- Pnp
pdb|3I61|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-beryllium
Fluoride
pdb|3I62|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-aluminum
Fluoride
Length = 563
Score = 34.3 bits (77), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 30/58 (51%)
Query: 458 LTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGRA 515
+T + +++ F+ + +L TDV GM PN V++ +P +++YI GR
Sbjct: 376 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRT 433
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 34.3 bits (77), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 30/58 (51%)
Query: 458 LTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGRA 515
+T + +++ F+ + +L TDV GM PN V++ +P +++YI GR
Sbjct: 325 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRT 382
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 34.3 bits (77), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 55/113 (48%), Gaps = 12/113 (10%)
Query: 68 TGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQQYDVIRVHTDFEVEEYYGA 127
TG+GKT+IA M I + NG K I++ P L +++Y + D+E+ + A
Sbjct: 55 TGSGKTLIAEM---GIISFLLKNGGKA--IYVTPLRALTNEKYLTFK---DWELIGFKVA 106
Query: 128 KGVDEWDS-QCWQKEINKNDVLVMTPQILLDALRKAFLSLDIVCFIVIDECHH 179
++D+ W K D+++ T + L R L+ V + V+DE H+
Sbjct: 107 MTSGDYDTDDAWLKNY---DIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHY 156
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 34.3 bits (77), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 37/172 (21%), Positives = 78/172 (45%), Gaps = 15/172 (8%)
Query: 60 RNTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQQYDVIRVHTDF 119
+N + + T AGKT++A M + + +AIK G K L ++ P L ++Y+ F
Sbjct: 41 KNLLLAMPTAAGKTLLAEMAM--VREAIK--GGKSL--YVVPLRALAGEKYE------SF 88
Query: 120 EVEEYYGAK-GVDEWDSQCWQKEINKNDVLVMTPQILLDALRKAFLSLDIVCFIVIDECH 178
+ E G + G+ D + + + D++V T + +R + V +V+DE H
Sbjct: 89 KKWEKIGLRIGISTGDYESRDEHLGDCDIIVTTSEKADSLIRNRASWIKAVSCLVVDEIH 148
Query: 179 --HATGNHPYTKIMKEFYHKSDNKPKVFGMTASPVVRKGVSSAMDCEGQISE 228
+ +I+ + + +V G++A+ ++ +D + +S+
Sbjct: 149 LLDSEKRGATLEILVTKMRRMNKALRVIGLSATAPNVTEIAEWLDADYYVSD 200
>pdb|4DB2|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 34.3 bits (77), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 30/57 (52%)
Query: 458 LTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGR 514
+T + +++ F+ + +L TDV GM PN V++ +P +++YI GR
Sbjct: 70 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
>pdb|4DB4|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
pdb|4DB4|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
Length = 256
Score = 33.9 bits (76), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 30/57 (52%)
Query: 458 LTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGR 514
+T + +++ F+ + +L TDV GM PN V++ +P +++YI GR
Sbjct: 70 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
>pdb|4DB2|C Chain C, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|D Chain D, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 33.9 bits (76), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 30/57 (52%)
Query: 458 LTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGR 514
+T + +++ F+ + +L TDV GM PN V++ +P +++YI GR
Sbjct: 70 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
>pdb|2EZ6|A Chain A, Crystal Structure Of Aquifex Aeolicus Rnase Iii (d44n)
Complexed With Product Of Double-stranded Rna Processing
pdb|2EZ6|B Chain B, Crystal Structure Of Aquifex Aeolicus Rnase Iii (d44n)
Complexed With Product Of Double-stranded Rna Processing
Length = 221
Score = 33.9 bits (76), Expect = 0.80, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 38/76 (50%)
Query: 1046 SLILEALTTLGCCESFSMERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNS 1105
SL+ +ALT + + E LE LG++++ + + L P K EG LS +++ +
Sbjct: 19 SLLEKALTHVSYSKKEHYETLEFLGNALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEE 78
Query: 1106 TLHKLGTDRKLQGYIR 1121
+ L +L +IR
Sbjct: 79 FFNLLAQKLELHKFIR 94
Score = 31.2 bits (69), Expect = 4.5, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 1240 IKDIESKIGYEFTVKFLLQEAITHASVQEFYCYQNL 1275
++ +E K+GY F K LL++A+TH S + Y+ L
Sbjct: 4 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKEHYETL 39
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 33.1 bits (74), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 34/126 (26%), Positives = 63/126 (50%), Gaps = 16/126 (12%)
Query: 60 RNTIAVLETGAGKTMIAVMLIKDIA---QAIKSNGFKKLIIFLAPTVHLVHQQYDVIR-- 114
++ + +TG+GKT+ ++ + + Q ++G LII +PT L +Q ++V+R
Sbjct: 63 KDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLII--SPTRELAYQTFEVLRKV 120
Query: 115 -VHTDFEVEEYYGAKGVDEWDSQCWQKEINKNDVLVMTPQILLDALRK--AFLSLDIVCF 171
+ DF G K D + + IN ++LV TP LL + + +F + D+
Sbjct: 121 GKNHDFSAGLIIGGK-----DLKHEAERINNINILVCTPGRLLQHMDETVSFHATDL-QM 174
Query: 172 IVIDEC 177
+V+DE
Sbjct: 175 LVLDEA 180
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 33.1 bits (74), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 33/113 (29%), Positives = 55/113 (48%), Gaps = 20/113 (17%)
Query: 68 TGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQQYDVIRVHTDFEVEEYYGA 127
T AGKT++A I AQ++K+ K+ +I+ +P L +Q+Y E+ +G
Sbjct: 208 TSAGKTVVAEYAI---AQSLKN---KQRVIYTSPIKALSNQKYR--------ELLAEFGD 253
Query: 128 KGVDEWDSQCWQKEINKN-DVLVMTPQILLDALRKAFLSLDIVCFIVIDECHH 179
G+ D IN + LVMT +IL L + + V +++ DE H+
Sbjct: 254 VGLMTGDIT-----INPDAGCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHY 301
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 33.1 bits (74), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 33/113 (29%), Positives = 55/113 (48%), Gaps = 20/113 (17%)
Query: 68 TGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQQYDVIRVHTDFEVEEYYGA 127
T AGKT++A I AQ++K+ K+ +I+ +P L +Q+Y E+ +G
Sbjct: 110 TSAGKTVVAEYAI---AQSLKN---KQRVIYTSPIKALSNQKYR--------ELLAEFGD 155
Query: 128 KGVDEWDSQCWQKEINKN-DVLVMTPQILLDALRKAFLSLDIVCFIVIDECHH 179
G+ D IN + LVMT +IL L + + V +++ DE H+
Sbjct: 156 VGLMTGDIT-----INPDAGCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHY 203
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 32.7 bits (73), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 29/58 (50%)
Query: 458 LTPKVQKEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVIRFDLPKTVSSYIQSRGRA 515
L P+ + V + ++ ++ AT G+ P+ +VI + K++ +Y Q GRA
Sbjct: 301 LEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRA 358
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 32.3 bits (72), Expect = 1.9, Method: Composition-based stats.
Identities = 35/122 (28%), Positives = 52/122 (42%), Gaps = 18/122 (14%)
Query: 60 RNTIAVLETGAGKTMI--AVMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQQYDVIRVHT 117
RN IA ++G GKT ML + + I LAP+ L Q +V++
Sbjct: 62 RNMIAQSQSGTGKTAAFSLTMLTR-----VNPEDASPQAICLAPSRELARQTLEVVQEMG 116
Query: 118 DFEVEEYYGAKGVDEW---DSQCWQKEINKNDVLVMTPQILLDALRKAFLSLDIVCFIVI 174
F K + DS K+IN V+V TP +LD +R+ + L + V+
Sbjct: 117 KF-------TKITSQLIVPDSFEKNKQINAQ-VIVGTPGTVLDLMRRKLMQLQKIKIFVL 168
Query: 175 DE 176
DE
Sbjct: 169 DE 170
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 32.3 bits (72), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 35/163 (21%), Positives = 67/163 (41%), Gaps = 6/163 (3%)
Query: 48 IYQLKVFEVAKRRNTIAVLETGAGKT-MIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHLV 106
I Q + K + IA ++G GKT A+ +++ + K + LAPT L
Sbjct: 56 IQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEIEFKETQ----ALVLAPTRELA 111
Query: 107 HQQYDVIRVHTDFEVEEYYGAKGVDEWDSQCWQKEINKNDVLVMTPQILLDALRKAFLSL 166
Q VI D+ + G ++ + + ++V TP + D L + +LS
Sbjct: 112 QQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSP 171
Query: 167 DIVCFIVIDECHHATGNHPYTKIMKEFYHKSDNKPKVFGMTAS 209
+ V+DE + + + E + K + +V ++A+
Sbjct: 172 KWIKMFVLDEADEML-SRGFKDQIYEIFQKLNTSIQVVLLSAT 213
>pdb|2G9N|A Chain A, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
pdb|2G9N|B Chain B, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
Length = 221
Score = 32.3 bits (72), Expect = 2.2, Method: Composition-based stats.
Identities = 27/116 (23%), Positives = 48/116 (41%), Gaps = 3/116 (2%)
Query: 61 NTIAVLETGAGKTMIAVMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQQYDVIRVHTDFE 120
+ IA ++G G T + I Q I+ + + LAPT L Q V+ D+
Sbjct: 54 DVIAQAQSGTGXTATFAI---SILQQIELDLXATQALVLAPTRELAQQIQXVVMALGDYM 110
Query: 121 VEEYYGAKGVDEWDSQCWQKEINKNDVLVMTPQILLDALRKAFLSLDIVCFIVIDE 176
+ G ++ ++ ++V TP + D L + +LS + V+DE
Sbjct: 111 GASCHACIGGTNVRAEVQXLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDE 166
>pdb|1O0W|A Chain A, Crystal Structure Of Ribonuclease Iii (Tm1102) From
Thermotoga Maritima At 2.0 A Resolution
pdb|1O0W|B Chain B, Crystal Structure Of Ribonuclease Iii (Tm1102) From
Thermotoga Maritima At 2.0 A Resolution
Length = 252
Score = 32.0 bits (71), Expect = 2.6, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 25/46 (54%)
Query: 1062 SMERLELLGDSVLKYAVSCHLFLTYPKKHEGQLSARRSWAVCNSTL 1107
S E+LE LGD+VL+ V L+ YP+ G L+ +S A L
Sbjct: 61 SNEKLEFLGDAVLELFVCEILYKKYPEAEVGDLARVKSAAASEEVL 106
>pdb|3P6L|A Chain A, Crystal Structure Of A Sugar Phosphate IsomeraseEPIMERASE
(BDI_1903) From Parabacteroides Distasonis Atcc 8503 At
1.85 A Resolution
Length = 262
Score = 31.6 bits (70), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 1/69 (1%)
Query: 195 HKSDNKPKVFGMTASPVVRKGVSSAMDCEGQISELESTLDSQVFTIEDKTEMEVFVPSAK 254
H D PK G V G + +D +G + EL+S VF+IE + E VP K
Sbjct: 190 HFKDIAPKKAGENEQHDVIWG-TGILDVKGXLKELKSQNFKGVFSIEYEYNWENSVPDIK 248
Query: 255 ESCRFYDQS 263
E ++++++
Sbjct: 249 ECIQYFNKT 257
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 30.8 bits (68), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 39/80 (48%), Gaps = 4/80 (5%)
Query: 464 KEVLESFRGGKVNLLFATDVIEEGMHVPNCSYVI--RFDLPKTVSSYIQSRGR-ARQHNS 520
+ V+ F + N+L T +IE G+ +P + +I R D ++ Q RGR R H+
Sbjct: 854 ERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERAD-HFGLAQLHQLRGRVGRSHHQ 912
Query: 521 QFILMLERSERSVTDTALSR 540
+ +L +++T A R
Sbjct: 913 AYAWLLTPHPKAMTTDAQKR 932
>pdb|3O4Z|A Chain A, Tel2 Structure And Function In The Hsp90-Dependent
Maturation Of Mtor And Atr Complexes
pdb|3O4Z|B Chain B, Tel2 Structure And Function In The Hsp90-Dependent
Maturation Of Mtor And Atr Complexes
pdb|3O4Z|C Chain C, Tel2 Structure And Function In The Hsp90-Dependent
Maturation Of Mtor And Atr Complexes
pdb|3O4Z|D Chain D, Tel2 Structure And Function In The Hsp90-Dependent
Maturation Of Mtor And Atr Complexes
Length = 647
Score = 30.0 bits (66), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 44/87 (50%), Gaps = 14/87 (16%)
Query: 77 VMLIKDIAQAIKSNGFKKLIIFLAPTVHLVHQQYDVIRVHTDFEVEEYYGAKGV------ 130
++ +KD+ + + G + AP + L+ Q +IR DF++E Y A+G+
Sbjct: 393 IVFLKDLMKEYEKTGESRK----APLIPLLKQTVKLIRQKADFQLEVGYYAQGILSSIVC 448
Query: 131 --DEWDSQCWQK-EINK-NDVLVMTPQ 153
+E+D +++ IN +LV+ P+
Sbjct: 449 LNNEFDEPLFEQWRINALTSILVVLPE 475
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.135 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 45,752,909
Number of Sequences: 62578
Number of extensions: 1888534
Number of successful extensions: 3957
Number of sequences better than 100.0: 97
Number of HSP's better than 100.0 without gapping: 74
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 3808
Number of HSP's gapped (non-prelim): 149
length of query: 1590
length of database: 14,973,337
effective HSP length: 112
effective length of query: 1478
effective length of database: 7,964,601
effective search space: 11771680278
effective search space used: 11771680278
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.9 bits)