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= 004808
(729 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 189 bits (481), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 126/365 (34%), Positives = 194/365 (53%), Gaps = 19/365 (5%)
Query: 126 SFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGR-DICGSAITGSGKTAAFALPTL 184
+F ELNLS +L A G+ KPT IQ IPL L +I A TGSGKTA+FA+P +
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 185 ERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALR 244
E L+ I AI ILTPTRELA+QV IE + +++ + GG + Q AL+
Sbjct: 67 E-LVNENNGIEAI---ILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALK 122
Query: 245 SMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQ 304
+ +IVV TPGR++DH+ N + L GF ++ +++ C K ++
Sbjct: 123 N-ANIVVGTPGRILDHI-NRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKR 180
Query: 305 TMLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQ--EAVLL 362
+LFSAT ++ L+L K + D S + + + N+ EA+
Sbjct: 181 ILLFSATXPREI-----LNLAK--KYXGDYSFIK-AKINANIEQSYVEVNENERFEALCR 232
Query: 363 SLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVD 422
L +K F ++F TK+ L KA +HG+L+Q+QR + + LF+++ +
Sbjct: 233 LLKNKEFYG--LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIR 290
Query: 423 FLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLL 482
LIATDV +RG+D+ + VINY P++ SY HR+GRT RAG++G A++ + + L
Sbjct: 291 ILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKL 350
Query: 483 KAIAK 487
+ I +
Sbjct: 351 RYIER 355
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 179 bits (454), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 127/406 (31%), Positives = 192/406 (47%), Gaps = 35/406 (8%)
Query: 123 HANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALP 182
H SF ++ + ++ E Y++PTP+Q IP+ RD+ A TGSGKTAAF LP
Sbjct: 13 HIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLP 72
Query: 183 TLERLLY-----------------RPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDI 225
L ++ R K+ P L+L PTRELAVQ++ K + + +
Sbjct: 73 ILSQIYSDGPGEALRAMKENGRYGRRKQYPI--SLVLAPTRELAVQIYEEARKFSYRSRV 130
Query: 226 RCCLVVGGLSTKMQETALRSMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLE 285
R C+V GG Q L ++VATPGR++D + R+L+
Sbjct: 131 RPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERG-KIGLDFCKYLVLDEADRMLD 189
Query: 286 LGFSAEIHELVR---LCPKR-RQTMLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPST 341
+GF +I +V + PK R TM+FSAT +++ L + L + + L+ + ST
Sbjct: 190 MGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAV---GRVGST 246
Query: 342 LTXXXXXXXXXXXXNQEAVLLSLCSKTF-TSKVIIFSGTKQAAHRLKILFGLAALKAAEL 400
++ + LL L + T S ++F TK+ A L+ +
Sbjct: 247 SENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSI 306
Query: 401 HGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGR 460
HG+ +Q R EAL FR L+AT VAARGLDI V+ VIN+ P D+ YVHR+GR
Sbjct: 307 HGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGR 366
Query: 461 TARAGREGYAVTFVTDNDRSLLKAIAKRAGSKLKSRIVAEQSITKW 506
T R G G A +F + + ++ K + L + A+Q + W
Sbjct: 367 TGRVGNLGLATSFFNERNINITKDL-------LDLLVEAKQEVPSW 405
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 178 bits (452), Expect = 9e-45, Method: Compositional matrix adjust.
Identities = 119/350 (34%), Positives = 180/350 (51%), Gaps = 24/350 (6%)
Query: 138 RACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRPKRIPAI 197
+A +G+ T +Q+ IPL L G+++ A TGSGKTAA+A+P LE +
Sbjct: 7 QAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILE---------LGM 57
Query: 198 RVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVVATPGRM 257
+ L++TPTREL QV S I I ++ D + V GG+ K Q +R+ DIVVATPGR+
Sbjct: 58 KSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRN-ADIVVATPGRL 116
Query: 258 IDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSATLTEDVD 317
+D L + + E+GF +I ++ R+ T LFSAT+ E++
Sbjct: 117 LD-LWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIR 175
Query: 318 ELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCSKTFTSKVIIFS 377
+++K +T + A + + + + VI+F
Sbjct: 176 KVVKDFITNYEEIEA--------CIGLANVEHKFVHVKDDWRSKVQALRENKDKGVIVFV 227
Query: 378 GTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDII 437
T+ +L LF A EL G+L Q+ R ++ FR+ D LI TDVA+RGLDI
Sbjct: 228 RTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIP 283
Query: 438 GVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAIAK 487
V+ VIN+ P+DL +Y+HR+GRT R GR+G A+TF+ N+ L K + K
Sbjct: 284 LVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFIL-NEYWLEKEVKK 332
>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 = 177 bits (449), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 112/371 (30%), Positives = 181/371 (48%), Gaps = 12/371 (3%)
Query: 126 SFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLE 185
+F + L LLR A G+ KP+ IQ I + GRD+ + +G+GKTA F++ L+
Sbjct: 38 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 97
Query: 186 RLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRS 245
L + + A LIL PTRELAVQ+ + + + +++C +GG + L
Sbjct: 98 CLDIQVRETQA---LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 154
Query: 246 MPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQT 305
+V TPGR+ D +R S +L GF +I+++ R P Q
Sbjct: 155 GQHVVAGTPGRVFDMIRRR-SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 213
Query: 306 MLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLC 365
+L SATL ++ E+ +T P+R+ + LT +E +LC
Sbjct: 214 VLISATLPHEILEMTNKFMTDPIRILV-----KRDELTLEGIKQFFVAVEREEWKFDTLC 268
Query: 366 S--KTFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVD 422
T T ++ +IF TK+ L A + +HG++ Q +R ++ FR
Sbjct: 269 DLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASR 328
Query: 423 FLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLL 482
LI+TDV ARGLD+ V +INY P + Y+HR+GR+ R GR+G A+ FV ++D +L
Sbjct: 329 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRIL 388
Query: 483 KAIAKRAGSKL 493
+ I + +++
Sbjct: 389 RDIEQYYSTQI 399
>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 = 177 bits (449), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 112/371 (30%), Positives = 181/371 (48%), Gaps = 12/371 (3%)
Query: 126 SFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLE 185
+F + L LLR A G+ KP+ IQ I + GRD+ + +G+GKTA F++ L+
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
Query: 186 RLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRS 245
L + + A LIL PTRELAVQ+ + + + +++C +GG + L
Sbjct: 99 CLDIQVRETQA---LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 155
Query: 246 MPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQT 305
+V TPGR+ D +R S +L GF +I+++ R P Q
Sbjct: 156 GQHVVAGTPGRVFDMIRRR-SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 214
Query: 306 MLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLC 365
+L SATL ++ E+ +T P+R+ + LT +E +LC
Sbjct: 215 VLISATLPHEILEMTNKFMTDPIRILV-----KRDELTLEGIKQFFVAVEREEWKFDTLC 269
Query: 366 S--KTFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVD 422
T T ++ +IF TK+ L A + +HG++ Q +R ++ FR
Sbjct: 270 DLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASR 329
Query: 423 FLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLL 482
LI+TDV ARGLD+ V +INY P + Y+HR+GR+ R GR+G A+ FV ++D +L
Sbjct: 330 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRIL 389
Query: 483 KAIAKRAGSKL 493
+ I + +++
Sbjct: 390 RDIEQYYSTQI 400
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 177 bits (449), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 114/371 (30%), Positives = 181/371 (48%), Gaps = 12/371 (3%)
Query: 126 SFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLE 185
+F + L LLR A G+ KP+ IQ I + GRD+ + +G+GKTA F++ L+
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 186 RLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRS 245
L + + A LIL PTRELAVQV + + + +++C +GG + L
Sbjct: 62 CLDIQVRETQA---LILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 118
Query: 246 MPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQT 305
+V TPGR+ D +R S +L GF +I+++ R P Q
Sbjct: 119 GQHVVAGTPGRVFDMIRRR-SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 177
Query: 306 MLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLC 365
+L SATL ++ E+ +T P+R+ + LT +E +LC
Sbjct: 178 VLISATLPHEILEMTNKFMTDPIRILV-----KRDELTLEGIKQFFVAVEREEWKFDTLC 232
Query: 366 S--KTFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVD 422
T T ++ +IF TK+ L A + +HG++ Q +R ++ FR
Sbjct: 233 DLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASR 292
Query: 423 FLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLL 482
LI+TDV ARGLD+ V +INY P + Y+HR+GR+ R GR+G AV FV ++D +L
Sbjct: 293 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVL 352
Query: 483 KAIAKRAGSKL 493
+ I + +++
Sbjct: 353 RDIEQYYSTQI 363
>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 = 177 bits (448), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 112/371 (30%), Positives = 181/371 (48%), Gaps = 12/371 (3%)
Query: 126 SFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLE 185
+F + L LLR A G+ KP+ IQ I + GRD+ + +G+GKTA F++ L+
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
Query: 186 RLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRS 245
L + + A LIL PTRELAVQ+ + + + +++C +GG + L
Sbjct: 99 CLDIQVRETQA---LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 155
Query: 246 MPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQT 305
+V TPGR+ D +R S +L GF +I+++ R P Q
Sbjct: 156 GQHVVAGTPGRVFDMIRRR-SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 214
Query: 306 MLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLC 365
+L SATL ++ E+ +T P+R+ + LT +E +LC
Sbjct: 215 VLISATLPHEILEMTNKFMTDPIRILV-----KRDELTLEGIKQFFVAVEREEWKFDTLC 269
Query: 366 S--KTFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVD 422
T T ++ +IF TK+ L A + +HG++ Q +R ++ FR
Sbjct: 270 DLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASR 329
Query: 423 FLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLL 482
LI+TDV ARGLD+ V +INY P + Y+HR+GR+ R GR+G A+ FV ++D +L
Sbjct: 330 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRIL 389
Query: 483 KAIAKRAGSKL 493
+ I + +++
Sbjct: 390 RDIEQYYSTQI 400
>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 = 177 bits (448), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 112/371 (30%), Positives = 181/371 (48%), Gaps = 12/371 (3%)
Query: 126 SFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLE 185
+F + L LLR A G+ KP+ IQ I + GRD+ + +G+GKTA F++ L+
Sbjct: 17 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 76
Query: 186 RLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRS 245
L + + A LIL PTRELAVQ+ + + + +++C +GG + L
Sbjct: 77 CLDIQVRETQA---LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 133
Query: 246 MPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQT 305
+V TPGR+ D +R S +L GF +I+++ R P Q
Sbjct: 134 GQHVVAGTPGRVFDMIRRR-SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 192
Query: 306 MLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLC 365
+L SATL ++ E+ +T P+R+ + LT +E +LC
Sbjct: 193 VLISATLPHEILEMTNKFMTDPIRILV-----KRDELTLEGIKQFFVAVEREEWKFDTLC 247
Query: 366 S--KTFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVD 422
T T ++ +IF TK+ L A + +HG++ Q +R ++ FR
Sbjct: 248 DLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASR 307
Query: 423 FLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLL 482
LI+TDV ARGLD+ V +INY P + Y+HR+GR+ R GR+G A+ FV ++D +L
Sbjct: 308 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRIL 367
Query: 483 KAIAKRAGSKL 493
+ I + +++
Sbjct: 368 RDIEQYYSTQI 378
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 176 bits (447), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 119/386 (30%), Positives = 180/386 (46%), Gaps = 16/386 (4%)
Query: 124 ANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPT 183
N+F + L R LL G+ KP+PIQ IP+A+TGRDI A G+GKTAAF +PT
Sbjct: 20 GNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPT 79
Query: 184 LERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETAL 243
LE++ +PK + I+ LI+ PTRELA+Q ++ + + I C + GG + + L
Sbjct: 80 LEKV--KPK-LNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRL 136
Query: 244 RSMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 303
I+V TPGR++D L + ++L F I +++ P
Sbjct: 137 NETVHILVGTPGRVLD-LASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTH 195
Query: 304 QTMLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLS 363
Q++LFSAT V E + L KP + + TL + L +
Sbjct: 196 QSLLFSATFPLTVKEFMVKHLHKPYEI----NLMEELTLKGITQYYAFVEERQKLHCLNT 251
Query: 364 LCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDF 423
L SK ++ IIF + L H + Q +R + FR+ V
Sbjct: 252 LFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRT 311
Query: 424 LIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLK 483
L+ +D+ RG+DI V VIN+ P+ +Y+HR+GR+ R G G A+ + NDR L
Sbjct: 312 LVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLY 371
Query: 484 AIAKRAGSKL--------KSRIVAEQ 501
I + G+++ KS VAE
Sbjct: 372 KIEQELGTEIAAIPATIDKSLYVAEN 397
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 176 bits (445), Expect = 5e-44, Method: Compositional matrix adjust.
Identities = 114/373 (30%), Positives = 178/373 (47%), Gaps = 8/373 (2%)
Query: 119 GASFHANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAA 178
G+ H + F + L LLRA G+ P+ +Q CIP A+ G D+ A +G GKTA
Sbjct: 1 GSPGHMSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAV 60
Query: 179 FALPTLERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFT-DIRCCLVVGGLSTK 237
F L TL++L + VL++ TRELA Q+ E+ +++ +++ + GGLS K
Sbjct: 61 FVLATLQQL---EPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIK 117
Query: 238 MQETALR-SMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELV 296
E L+ + P IVV TPGR++ RN L +L ++ E+
Sbjct: 118 KDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIF 177
Query: 297 RLCPKRRQTMLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXN 356
R+ P +Q M+FSATL++++ + + + P+ + D K TL
Sbjct: 178 RMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETK--LTLHGLQQYYVKLKDNE 235
Query: 357 QEAVLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELF 416
+ L L ++V+IF + Q L L A +H + Q +RL + F
Sbjct: 236 KNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQF 295
Query: 417 RKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTD 476
+ L+AT++ RG+DI V NY P D +Y+HRV R R G +G A+TFV+D
Sbjct: 296 KDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSD 355
Query: 477 -NDRSLLKAIAKR 488
ND +L + R
Sbjct: 356 ENDAKILNDVQDR 368
>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 = 174 bits (441), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 115/353 (32%), Positives = 178/353 (50%), Gaps = 18/353 (5%)
Query: 144 GYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRPKRIPAIR--VLI 201
GY PTPIQ IP+ +GRD+ A TGSGKTAAF LP L +LL P + R V+I
Sbjct: 75 GYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVI 134
Query: 202 LTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVVATPGRMIDHL 261
++PTRELA+Q+ + K A + ++ +V GG S + Q + +V+ATPGR++D +
Sbjct: 135 VSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFV 194
Query: 262 RNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKR--RQTMLFSATLTEDVD-- 317
+ R+L++GFS ++ ++ R QT++FSAT E++
Sbjct: 195 DRTF-ITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTLMFSATFPEEIQRM 253
Query: 318 --ELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCSKTFTSKVII 375
E +K + + + + T+ + + L+ + S+ I+
Sbjct: 254 AGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYA-------KRSKLIEILSEQ-ADGTIV 305
Query: 376 FSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLD 435
F TK+ A L +HG+ Q+QR +AL F+ + LIAT VA+RGLD
Sbjct: 306 FVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLD 365
Query: 436 IIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFV-TDNDRSLLKAIAK 487
I ++ VINY P + YVHR+GRT R G G A +F + DR++ + K
Sbjct: 366 IKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVK 418
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 173 bits (439), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 114/371 (30%), Positives = 180/371 (48%), Gaps = 12/371 (3%)
Query: 126 SFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLE 185
+F + L LLR A G+ KP+ IQ I + GRD+ + +G+GKTA F++ L+
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 186 RLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRS 245
L + + A LIL PTRELAVQV + + + +++ +GG + L
Sbjct: 62 CLDIQVRETQA---LILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDY 118
Query: 246 MPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQT 305
+V TPGR+ D +R S +L GF +I+++ R P Q
Sbjct: 119 GQHVVAGTPGRVFDMIRRR-SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 177
Query: 306 MLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLC 365
+L SATL +V E+ +T P+R+ + LT +E +LC
Sbjct: 178 VLISATLPHEVLEMTNKFMTDPIRILV-----KRDELTLEGIKQFFVAVEREEWKFDTLC 232
Query: 366 S--KTFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVD 422
T T ++ +IF TK+ L A + +HG++ Q +R ++ FR
Sbjct: 233 DLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASR 292
Query: 423 FLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLL 482
LI+TDV ARGLD+ V +INY P + Y+HR+GR+ R GR+G AV FV ++D +L
Sbjct: 293 VLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVL 352
Query: 483 KAIAKRAGSKL 493
+ I + +++
Sbjct: 353 RDIEQYYSTQI 363
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 172 bits (436), Expect = 6e-43, Method: Compositional matrix adjust.
Identities = 115/374 (30%), Positives = 179/374 (47%), Gaps = 9/374 (2%)
Query: 119 GASFHANS-FMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTA 177
G+ H +S F + L LLRA G+ P+ +Q CIP A+ G D+ A +G GKTA
Sbjct: 1 GSPGHMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTA 60
Query: 178 AFALPTLERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFT-DIRCCLVVGGLST 236
F L TL++L + VL++ TRELA Q+ E+ +++ +++ + GGLS
Sbjct: 61 VFVLATLQQL---EPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSI 117
Query: 237 KMQETALR-SMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHEL 295
K E L+ + P IVV TPGR++ RN L +L ++ E+
Sbjct: 118 KKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEI 177
Query: 296 VRLCPKRRQTMLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXX 355
R+ P +Q M+FSATL++++ + + + P+ + D K TL
Sbjct: 178 FRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETK--LTLHGLQQYYVKLKDN 235
Query: 356 NQEAVLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALEL 415
+ L L ++V+IF + Q L L A +H + Q +RL +
Sbjct: 236 EKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQ 295
Query: 416 FRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVT 475
F+ L+AT++ RG+DI V NY P D +Y+HRV R R G +G A+TFV+
Sbjct: 296 FKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVS 355
Query: 476 D-NDRSLLKAIAKR 488
D ND +L + R
Sbjct: 356 DENDAKILNDVQDR 369
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 172 bits (436), Expect = 6e-43, Method: Compositional matrix adjust.
Identities = 115/374 (30%), Positives = 179/374 (47%), Gaps = 9/374 (2%)
Query: 119 GASFHANS-FMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTA 177
G+ H +S F + L LLRA G+ P+ +Q CIP A+ G D+ A +G GKTA
Sbjct: 1 GSPGHMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTA 60
Query: 178 AFALPTLERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFT-DIRCCLVVGGLST 236
F L TL++L + VL++ TRELA Q+ E+ +++ +++ + GGLS
Sbjct: 61 VFVLATLQQL---EPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSI 117
Query: 237 KMQETALR-SMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHEL 295
K E L+ + P IVV TPGR++ RN L +L ++ E+
Sbjct: 118 KKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEI 177
Query: 296 VRLCPKRRQTMLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXX 355
R+ P +Q M+FSATL++++ + + + P+ + D K TL
Sbjct: 178 FRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETK--LTLHGLQQYYVKLKDN 235
Query: 356 NQEAVLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALEL 415
+ L L ++V+IF + Q L L A +H + Q +RL +
Sbjct: 236 EKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQ 295
Query: 416 FRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVT 475
F+ L+AT++ RG+DI V NY P D +Y+HRV R R G +G A+TFV+
Sbjct: 296 FKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVS 355
Query: 476 D-NDRSLLKAIAKR 488
D ND +L + R
Sbjct: 356 DENDAKILNDVQDR 369
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 169 bits (428), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 86/204 (42%), Positives = 125/204 (61%), Gaps = 3/204 (1%)
Query: 126 SFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLE 185
+F +L ++ L AC+ LG++KPT IQ IPLAL GRDI G A TGSGKT AFALP L
Sbjct: 44 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILN 103
Query: 186 RLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRS 245
LL P+R+ A L+LTPTRELA Q+ E + ++ ++VGG+ + Q AL
Sbjct: 104 ALLETPQRLFA---LVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAK 160
Query: 246 MPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQT 305
P I++ATPGR+IDHL N+ R+L + F E+ +++++ P+ R+T
Sbjct: 161 KPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKT 220
Query: 306 MLFSATLTEDVDELIKLSLTKPLR 329
LFSAT+T+ V +L + +L P++
Sbjct: 221 FLFSATMTKKVQKLQRAALKNPVK 244
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 152 bits (385), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 113/366 (30%), Positives = 179/366 (48%), Gaps = 13/366 (3%)
Query: 124 ANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPT 183
+SF ++NLS LLR A G+ KP+ IQ I + G D+ A +G+GKTA FA+
Sbjct: 39 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISI 98
Query: 184 LERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETAL 243
L+++ K A + L+L PTRELA Q+ ++ + + C +GG + + + L
Sbjct: 99 LQQIELDLK---ATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKL 155
Query: 244 R-SMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKR 302
+ P I+V TPGR+ D L N +L GF +I+++ +
Sbjct: 156 QMEAPHIIVGTPGRVFDML-NRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSN 214
Query: 303 RQTMLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLL 362
Q +L SAT+ DV E+ K + P+R+ + LT +E L
Sbjct: 215 TQVVLLSATMPSDVLEVTKKFMRDPIRILV-----KKEELTLEGIRQFYINVEREEWKLD 269
Query: 363 SLCS--KTFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQ 419
+LC +T T ++ +IF T++ L + +HG++ Q +R + FR
Sbjct: 270 TLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSG 329
Query: 420 HVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDR 479
LI TD+ ARG+D+ V VINY P + +Y+HR+GR R GR+G A+ VT+ D+
Sbjct: 330 SSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDK 389
Query: 480 SLLKAI 485
L+ I
Sbjct: 390 RTLRDI 395
>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 = 150 bits (380), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 113/366 (30%), Positives = 179/366 (48%), Gaps = 13/366 (3%)
Query: 124 ANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPT 183
+SF ++NLS LLR A G+ KP+ IQ I + G D+ A +G+GKTA FA+
Sbjct: 13 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISI 72
Query: 184 LERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETAL 243
L+++ K A + L+L PTRELA Q+ ++ + + C +GG + + + L
Sbjct: 73 LQQIELDLK---ATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKL 129
Query: 244 R-SMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKR 302
+ P I+V TPGR+ D L N +L GF +I+++ +
Sbjct: 130 QMEAPHIIVGTPGRVFDML-NRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSN 188
Query: 303 RQTMLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLL 362
Q +L SAT+ DV E+ K + P+R+ + LT +E L
Sbjct: 189 TQVVLLSATMPSDVLEVTKKFMRDPIRILV-----KKEELTLEGIRQFYINVEREEWKLD 243
Query: 363 SLCS--KTFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQ 419
+LC +T T ++ +IF T++ L + +HG++ Q +R + FR
Sbjct: 244 TLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSG 303
Query: 420 HVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDR 479
LI TD+ ARG+D+ V VINY P + +Y+HR+GR R GR+G A+ VT+ D+
Sbjct: 304 SSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDK 363
Query: 480 SLLKAI 485
L+ I
Sbjct: 364 RTLRDI 369
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 146 bits (368), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 117/389 (30%), Positives = 187/389 (48%), Gaps = 30/389 (7%)
Query: 124 ANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTG--RDICGSAITGSGKTAAFAL 181
A SF EL L+ LL+ A+ + KP+ IQ +PL L R++ + +G+GKTAAF+L
Sbjct: 4 AKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL 63
Query: 182 PTLERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQET 241
L R+ P+ + + + L P+RELA Q +++++ +FT I L+V K ++
Sbjct: 64 TMLTRV--NPED-ASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQI 120
Query: 242 ALRSMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPK 301
+ ++V TPG ++D +R + L + G + + R PK
Sbjct: 121 NAQ----VIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPK 176
Query: 302 RRQTMLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEA-- 359
Q +LFSAT + V + K + +A+ + + + N+
Sbjct: 177 DTQLVLFSATFADAVRQY-----AKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKF 231
Query: 360 -VLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAE---LHGNLTQAQRLEALEL 415
VL L IIF TK+ A+ +L+G + E LHG+L +R ++
Sbjct: 232 DVLTELYGLMTIGSSIIFVATKKTAN---VLYGKLKSEGHEVSILHGDLQTQERDRLIDD 288
Query: 416 FRKQHVDFLIATDVAARGLDIIGVQTVINYACPR------DLTSYVHRVGRTARAGREGY 469
FR+ LI T+V ARG+DI V V+NY P D +Y+HR+GRT R GR+G
Sbjct: 289 FREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGV 348
Query: 470 AVTFVTD-NDRSLLKAIAKRAGSKLKSRI 497
A++FV D N ++L AI K G +R+
Sbjct: 349 AISFVHDKNSFNILSAIQKYFGDIEMTRV 377
>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 = 146 bits (368), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 117/389 (30%), Positives = 187/389 (48%), Gaps = 30/389 (7%)
Query: 124 ANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTG--RDICGSAITGSGKTAAFAL 181
A SF EL L+ LL+ A+ + KP+ IQ +PL L R++ + +G+GKTAAF+L
Sbjct: 4 AKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL 63
Query: 182 PTLERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQET 241
L R+ P+ + + + L P+RELA Q +++++ +FT I L+V K ++
Sbjct: 64 TMLTRV--NPED-ASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQI 120
Query: 242 ALRSMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPK 301
+ ++V TPG ++D +R + L + G + + R PK
Sbjct: 121 NAQ----VIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPK 176
Query: 302 RRQTMLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEA-- 359
Q +LFSAT + V + K + +A+ + + + N+
Sbjct: 177 DTQLVLFSATFADAVRQY-----AKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKF 231
Query: 360 -VLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAE---LHGNLTQAQRLEALEL 415
VL L IIF TK+ A+ +L+G + E LHG+L +R ++
Sbjct: 232 DVLTELYGVMTIGSSIIFVATKKTAN---VLYGKLKSEGHEVSILHGDLQTQERDRLIDD 288
Query: 416 FRKQHVDFLIATDVAARGLDIIGVQTVINYACPR------DLTSYVHRVGRTARAGREGY 469
FR+ LI T+V ARG+DI V V+NY P D +Y+HR+GRT R GR+G
Sbjct: 289 FREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGV 348
Query: 470 AVTFVTD-NDRSLLKAIAKRAGSKLKSRI 497
A++FV D N ++L AI K G +R+
Sbjct: 349 AISFVHDKNSFNILSAIQKYFGDIEMTRV 377
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 143 bits (360), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 106/379 (27%), Positives = 176/379 (46%), Gaps = 25/379 (6%)
Query: 132 LSRPLLRACEALGYSKPTPIQAACIPLALTG--RDICGSAITGSGKTAAFALPTLERLLY 189
L + + +A + + TP+Q I L+ D+ A TG+GKT AF +P + L+
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 190 -RPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFT----DIRCCLVVGGLSTKMQETALR 244
+ ++ +I+ PTR+LA+Q+ + ++KI C +VGG + +
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 245 SM-PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 303
+ P+IV+ATPGR+ID L + RLLE+GF ++ + + ++
Sbjct: 148 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 207
Query: 304 -------QTMLFSATLTEDVDELIKLSLTKPLRLSAD------PSA-KRPSTLTXXXXXX 349
+T+LFSATL + V +L + K L D P A +R
Sbjct: 208 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 267
Query: 350 XXXXXXNQEAVLLSLCSKTFTSKVIIFSGT-KQAAHRLKILFG--LAALKAAELHGNLTQ 406
E + + + K IIF+ T K + IL L E HG +TQ
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 327
Query: 407 AQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGR 466
+R ++ F+K L+ TDV ARG+D V V+ P +L +Y+HR+GRTAR+G+
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 387
Query: 467 EGYAVTFVTDNDRSLLKAI 485
EG +V F+ ++ ++ +
Sbjct: 388 EGSSVLFICKDELPFVREL 406
>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 = 140 bits (354), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 106/379 (27%), Positives = 176/379 (46%), Gaps = 25/379 (6%)
Query: 132 LSRPLLRACEALGYSKPTPIQAACIPLALTG--RDICGSAITGSGKTAAFALPTLERLLY 189
L + + +A + + TP+Q I L+ D+ A TG+GKT AF +P + L+
Sbjct: 79 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 138
Query: 190 -RPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFT----DIRCCLVVGGLSTKMQETALR 244
+ ++ +I+ PTR+LA+Q+ + ++KI C +VGG + +
Sbjct: 139 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 198
Query: 245 SM-PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 303
+ P+IV+ATPGR+ID L + RLLE+GF ++ + + ++
Sbjct: 199 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 258
Query: 304 -------QTMLFSATLTEDVDELIKLSLTKPLRLSAD------PSA-KRPSTLTXXXXXX 349
+T+LFSATL + V +L + K L D P A +R
Sbjct: 259 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 318
Query: 350 XXXXXXNQEAVLLSLCSKTFTSKVIIFSGT-KQAAHRLKILFG--LAALKAAELHGNLTQ 406
E + + + K IIF+ T K + IL L E HG +TQ
Sbjct: 319 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 378
Query: 407 AQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGR 466
+R ++ F+K L+ TDV ARG+D V V+ P +L +Y+HR+GRTAR+G+
Sbjct: 379 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 438
Query: 467 EGYAVTFVTDNDRSLLKAI 485
EG +V F+ ++ ++ +
Sbjct: 439 EGSSVLFICKDELPFVREL 457
>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 = 139 bits (351), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 105/371 (28%), Positives = 175/371 (47%), Gaps = 13/371 (3%)
Query: 127 FMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLER 186
F ++ L LLR G+ +P+ IQ I + G D+ A +G+GKT F++ L+R
Sbjct: 24 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 83
Query: 187 LLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSM 246
+ + A + L+L PTRELA+Q+ ++ +A DI+ +GG S LR
Sbjct: 84 I---DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRD- 139
Query: 247 PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTM 306
IVV TPGR+ D+++ +L GF +I+++ L P Q +
Sbjct: 140 AQIVVGTPGRVFDNIQRR-RFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVV 198
Query: 307 LFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEA---VLLS 363
L SAT+ DV E+ + P+R+ + LT +E L
Sbjct: 199 LLSATMPNDVLEVTTKFMRNPVRILV-----KKDELTLEGIKQFYVNVEEEEYKYECLTD 253
Query: 364 LCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDF 423
L ++ +IF T++ L + ++ +L Q +R ++ FR
Sbjct: 254 LYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRI 313
Query: 424 LIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLK 483
LI+TD+ ARG+D+ V VINY P + +Y+HR+GR R GR+G A+ FVT+ D ++
Sbjct: 314 LISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMR 373
Query: 484 AIAKRAGSKLK 494
+ K ++++
Sbjct: 374 ELEKFYSTQIE 384
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 139 bits (351), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 104/379 (27%), Positives = 175/379 (46%), Gaps = 25/379 (6%)
Query: 132 LSRPLLRACEALGYSKPTPIQAACIPLALTG--RDICGSAITGSGKTAAFALPTLERLL- 188
L + + +A + + TP+Q I L+ D+ A TG+GKT AF +P + L+
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 189 YRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFT----DIRCCLVVGGLSTKMQETALR 244
+ ++ +I+ PTR+LA+Q+ + ++KI C +VGG + +
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 245 SM-PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 303
+ P+IV+ATPGR+ID L + RLLE+GF ++ + + ++
Sbjct: 148 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 207
Query: 304 -------QTMLFSATLTEDVDELIKLSLTKPLRLSAD------PSA-KRPSTLTXXXXXX 349
+T+LFSATL + V +L + K L D P A +R
Sbjct: 208 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 267
Query: 350 XXXXXXNQEAVLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAA---LKAAELHGNLTQ 406
E + + + K IIF+ T + L + L E HG +TQ
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 327
Query: 407 AQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGR 466
+R ++ F+K L+ TDV ARG+D V V+ P +L +Y+HR+GRTAR+G+
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 387
Query: 467 EGYAVTFVTDNDRSLLKAI 485
EG +V F+ ++ ++ +
Sbjct: 388 EGSSVLFICKDELPFVREL 406
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 132 bits (332), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 75/203 (36%), Positives = 117/203 (57%), Gaps = 4/203 (1%)
Query: 127 FMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLER 186
F + LS+ L+ + Y T IQ I LAL G+D+ G+A TGSGKT AF +P LE
Sbjct: 27 FSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEA 86
Query: 187 LLYRPKRIP--AIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALR 244
L YR + + VLI++PTRELA Q ++ K+ + D L++GG K + +
Sbjct: 87 L-YRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERIN 145
Query: 245 SMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQ 304
++ +I+V TPGR++ H+ ++S R+L++GF+ ++ ++ PK+RQ
Sbjct: 146 NI-NILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQ 204
Query: 305 TMLFSATLTEDVDELIKLSLTKP 327
T+LFSAT T+ V +L +LSL P
Sbjct: 205 TLLFSATQTKSVKDLARLSLKNP 227
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 132 bits (331), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 106/371 (28%), Positives = 169/371 (45%), Gaps = 13/371 (3%)
Query: 127 FMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLER 186
F + L LLR G+ +P+ IQ I + G D+ A +G+GKT F++ L+R
Sbjct: 23 FDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 187 LLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSM 246
+ + A + L L PTRELA+Q+ ++ +A DI+ +GG S LR
Sbjct: 83 I---DTSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGLRD- 138
Query: 247 PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTM 306
IVV TPGR+ D+++ L GF +I+++ L P Q +
Sbjct: 139 AQIVVGTPGRVFDNIQRR-RFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVV 197
Query: 307 LFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQE---AVLLS 363
L SAT DV E+ P+R+ + LT +E L
Sbjct: 198 LLSATXPNDVLEVTTKFXRNPVRILV-----KKDELTLEGIKQFYVNVEEEEYKYECLTD 252
Query: 364 LCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDF 423
L ++ +IF T++ L + ++ +L Q +R + FR
Sbjct: 253 LYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRI 312
Query: 424 LIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLK 483
LI+TD+ ARG+D+ V VINY P + +Y+HR+GR R GR+G A+ FVT+ D +
Sbjct: 313 LISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAXR 372
Query: 484 AIAKRAGSKLK 494
+ K ++++
Sbjct: 373 ELEKFYSTQIE 383
>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 = 131 bits (329), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 80/186 (43%), Positives = 103/186 (55%), Gaps = 3/186 (1%)
Query: 127 FMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLER 186
F + L +L A G + PTPIQAA +PLAL G+D+ G A TG+GKT AFALP ER
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 187 LLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSM 246
L +R R L+LTPTRELA+QV S + +A ++ V GG Q+ AL
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVA--PHLKVVAVYGGTGYGKQKEALLRG 120
Query: 247 PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTM 306
D VVATPGR +D+LR + +L +GF E+ L+ P RQT+
Sbjct: 121 ADAVVATPGRALDYLRQGV-LDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTL 179
Query: 307 LFSATL 312
LFSATL
Sbjct: 180 LFSATL 185
>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 = 130 bits (326), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 79/186 (42%), Positives = 103/186 (55%), Gaps = 3/186 (1%)
Query: 127 FMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLER 186
F + L +L A G + PTPI+AA +PLAL G+D+ G A TG+GKT AFALP ER
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 187 LLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSM 246
L +R R L+LTPTRELA+QV S + +A ++ V GG Q+ AL
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVAP--HLKVVAVYGGTGYGKQKEALLRG 120
Query: 247 PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTM 306
D VVATPGR +D+LR + +L +GF E+ L+ P RQT+
Sbjct: 121 ADAVVATPGRALDYLRQGV-LDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTL 179
Query: 307 LFSATL 312
LFSATL
Sbjct: 180 LFSATL 185
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 129 bits (325), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 87/238 (36%), Positives = 136/238 (57%), Gaps = 12/238 (5%)
Query: 97 KPEDEDDFSNAGDTKSFFAPADGASFHANSFMEL-NL-SRPLLRACEALGYSKPTPIQAA 154
KP++++D S + S GA F SF L NL + L+A + +G++ T IQ
Sbjct: 28 KPDNDEDES---EVPSLPLGLTGA-FEDTSFASLCNLVNENTLKAIKEMGFTNMTEIQHK 83
Query: 155 CIPLALTGRDICGSAITGSGKTAAFALPTLE---RLLYRPKRIPAIRVLILTPTRELAVQ 211
I L GRD+ +A TGSGKT AF +P +E +L + P+ VLIL+PTRELA+Q
Sbjct: 84 SIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRN--GTGVLILSPTRELAMQ 141
Query: 212 VHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVVATPGRMIDHLRNSMSXXXXX 271
+++++ L++GG + + L + +I+VATPGR++DH++N+
Sbjct: 142 TFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKN 201
Query: 272 XXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSATLTEDVDELIKLSLTK-PL 328
R+L++GF E+ ++++L P RRQTMLFSAT T V++L ++SL K PL
Sbjct: 202 LQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSATQTRKVEDLARISLKKEPL 259
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 121 bits (304), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 96/339 (28%), Positives = 157/339 (46%), Gaps = 27/339 (7%)
Query: 151 IQAACIPLALTG--RDICGSAITGSGKTAAFALPTLERLLYRPKRIPAIRVLILTPTREL 208
IQ +PL L+ R++ G + +G+GKTAAFAL L R+ +P + + L P+REL
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRV---DASVPKPQAICLAPSREL 201
Query: 209 AVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVVATPGRMIDHLRNSMSXX 268
A Q+ ++ ++ ++T+++ G+ + + A + IV+ TPG ++D ++
Sbjct: 202 ARQIMDVVTEMGKYTEVKTAF---GIKDSVPKGA-KIDAQIVIGTPGTVMDLMKRRQLDA 257
Query: 269 XXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSATLTEDVDELIKLSLTKPL 328
L + G + + L P+ Q +LFSAT +E V++ +
Sbjct: 258 RDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAE------- 310
Query: 329 RLSADPSAKRPST--LTXXXXXXXXXXXXNQE---AVLLSLCSKTFTSKVIIFSGTKQAA 383
R + + + R T L+ ++E VL+ L + IIF K A
Sbjct: 311 RFAPNANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSIIFCKKKDTA 370
Query: 384 HRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVI 443
+ A L GNL AQR ++ FR L+ T+V ARG+D+ V V+
Sbjct: 371 EEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVV 430
Query: 444 NYACPRDLT------SYVHRVGRTARAGREGYAVTFVTD 476
NY P D +Y+HR+GRT R GR G ++ FV D
Sbjct: 431 NYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHD 469
>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 = 119 bits (299), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 101/369 (27%), Positives = 169/369 (45%), Gaps = 30/369 (8%)
Query: 122 FHANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALT--GRDICGSAITGSGKTAAF 179
+ SF EL L LL+ A+G+++P+ IQ +PL L +++ + +G+GKTAAF
Sbjct: 89 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAF 148
Query: 180 ALPTLERLLYRP-KRIPAIRVLILTPTRELAVQVHSMIEKIAQFT-DIRCCLVVGGLSTK 237
L L ++ P + P + L L+PT ELA+Q +IE++ +F +++ V G K
Sbjct: 149 VLAMLSQV--EPANKYP--QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG--NK 202
Query: 238 MQETALRSMPDIVVATPGRMIDHL-RNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELV 296
+ E + IV+ TPG ++D + + G + +
Sbjct: 203 L-ERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 261
Query: 297 RLCPKRRQTMLFSATLTEDVDELIKLSLTKPLRLSADPSA----KRPSTLTXXXXXXXXX 352
R+ P+ Q +LFSAT + V + + ++ DP+ + TL
Sbjct: 262 RMLPRNCQMLLFSATFEDSVWKFAQ-------KVVPDPNVIKLKREEETLDTIKQYYVLC 314
Query: 353 XXXNQE-AVLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLE 411
+++ L +L ++ +IF T++ A L + A L G + QR
Sbjct: 315 SSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAA 374
Query: 412 ALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDL------TSYVHRVGRTARAG 465
+E FR+ L+ T+V ARG+D+ V VIN+ P D +Y+HR+GRT R G
Sbjct: 375 VIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFG 434
Query: 466 REGYAVTFV 474
+ G AV V
Sbjct: 435 KRGLAVNMV 443
>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 = 119 bits (298), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 101/369 (27%), Positives = 169/369 (45%), Gaps = 30/369 (8%)
Query: 122 FHANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALT--GRDICGSAITGSGKTAAF 179
+ SF EL L LL+ A+G+++P+ IQ +PL L +++ + +G+GKTAAF
Sbjct: 22 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAF 81
Query: 180 ALPTLERLLYRP-KRIPAIRVLILTPTRELAVQVHSMIEKIAQFT-DIRCCLVVGGLSTK 237
L L ++ P + P + L L+PT ELA+Q +IE++ +F +++ V G K
Sbjct: 82 VLAMLSQV--EPANKYP--QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG--NK 135
Query: 238 MQETALRSMPDIVVATPGRMIDHL-RNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELV 296
+ E + IV+ TPG ++D + + G + +
Sbjct: 136 L-ERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 194
Query: 297 RLCPKRRQTMLFSATLTEDVDELIKLSLTKPLRLSADPSA----KRPSTLTXXXXXXXXX 352
R+ P+ Q +LFSAT + V + + ++ DP+ + TL
Sbjct: 195 RMLPRNCQMLLFSATFEDSVWKFAQ-------KVVPDPNVIKLKREEETLDTIKQYYVLC 247
Query: 353 XXXNQE-AVLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLE 411
+++ L +L ++ +IF T++ A L + A L G + QR
Sbjct: 248 SSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAA 307
Query: 412 ALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDL------TSYVHRVGRTARAG 465
+E FR+ L+ T+V ARG+D+ V VIN+ P D +Y+HR+GRT R G
Sbjct: 308 VIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFG 367
Query: 466 REGYAVTFV 474
+ G AV V
Sbjct: 368 KRGLAVNMV 376
>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 = 119 bits (297), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 101/369 (27%), Positives = 169/369 (45%), Gaps = 30/369 (8%)
Query: 122 FHANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALT--GRDICGSAITGSGKTAAF 179
+ SF EL L LL+ A+G+++P+ IQ +PL L +++ + +G+GKTAAF
Sbjct: 59 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAF 118
Query: 180 ALPTLERLLYRP-KRIPAIRVLILTPTRELAVQVHSMIEKIAQFT-DIRCCLVVGGLSTK 237
L L ++ P + P + L L+PT ELA+Q +IE++ +F +++ V G K
Sbjct: 119 VLAMLSQV--EPANKYP--QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG--NK 172
Query: 238 MQETALRSMPDIVVATPGRMIDHL-RNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELV 296
+ E + IV+ TPG ++D + + G + +
Sbjct: 173 L-ERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 231
Query: 297 RLCPKRRQTMLFSATLTEDVDELIKLSLTKPLRLSADPSA----KRPSTLTXXXXXXXXX 352
R+ P+ Q +LFSAT + V + + ++ DP+ + TL
Sbjct: 232 RMLPRNCQMLLFSATFEDSVWKFAQ-------KVVPDPNVIKLKREEETLDTIKQYYVLC 284
Query: 353 XXXNQE-AVLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLE 411
+++ L +L ++ +IF T++ A L + A L G + QR
Sbjct: 285 SSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAA 344
Query: 412 ALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDL------TSYVHRVGRTARAG 465
+E FR+ L+ T+V ARG+D+ V VIN+ P D +Y+HR+GRT R G
Sbjct: 345 VIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFG 404
Query: 466 REGYAVTFV 474
+ G AV V
Sbjct: 405 KRGLAVNMV 413
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 119 bits (297), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 101/369 (27%), Positives = 169/369 (45%), Gaps = 30/369 (8%)
Query: 122 FHANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALT--GRDICGSAITGSGKTAAF 179
+ SF EL L LL+ A+G+++P+ IQ +PL L +++ + +G+GKTAAF
Sbjct: 38 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAF 97
Query: 180 ALPTLERLLYRP-KRIPAIRVLILTPTRELAVQVHSMIEKIAQFT-DIRCCLVVGGLSTK 237
L L ++ P + P + L L+PT ELA+Q +IE++ +F +++ V G K
Sbjct: 98 VLAMLSQV--EPANKYP--QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG--NK 151
Query: 238 MQETALRSMPDIVVATPGRMIDHL-RNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELV 296
+ E + IV+ TPG ++D + + G + +
Sbjct: 152 L-ERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 210
Query: 297 RLCPKRRQTMLFSATLTEDVDELIKLSLTKPLRLSADPSA----KRPSTLTXXXXXXXXX 352
R+ P+ Q +LFSAT + V + + ++ DP+ + TL
Sbjct: 211 RMLPRNCQMLLFSATFEDSVWKFAQ-------KVVPDPNVIKLKREEETLDTIKQYYVLC 263
Query: 353 XXXNQE-AVLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLE 411
+++ L +L ++ +IF T++ A L + A L G + QR
Sbjct: 264 SSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAA 323
Query: 412 ALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDL------TSYVHRVGRTARAG 465
+E FR+ L+ T+V ARG+D+ V VIN+ P D +Y+HR+GRT R G
Sbjct: 324 VIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFG 383
Query: 466 REGYAVTFV 474
+ G AV V
Sbjct: 384 KRGLAVNMV 392
>pdb|1T6N|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Uap56
pdb|1T6N|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Uap56
Length = 220
Score = 112 bits (279), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 67/213 (31%), Positives = 110/213 (51%), Gaps = 5/213 (2%)
Query: 120 ASFHANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAF 179
S H++ F + L LLRA G+ P+ +Q CIP A+ G D+ A +G GKTA F
Sbjct: 9 VSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVF 68
Query: 180 ALPTLERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFT-DIRCCLVVGGLSTKM 238
L TL++L + VL++ TRELA Q+ E+ +++ +++ + GGLS K
Sbjct: 69 VLATLQQL---EPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKK 125
Query: 239 QETAL-RSMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVR 297
E L ++ P IVV TPGR++ RN L +L ++ E+ R
Sbjct: 126 DEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFR 185
Query: 298 LCPKRRQTMLFSATLTEDVDELIKLSLTKPLRL 330
+ P +Q M+FSATL++++ + + + P+ +
Sbjct: 186 MTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEI 218
>pdb|1VEC|A Chain A, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
pdb|1VEC|B Chain B, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
Length = 206
Score = 108 bits (269), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 65/209 (31%), Positives = 107/209 (51%), Gaps = 5/209 (2%)
Query: 124 ANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPT 183
N F + L R LL +G+ KP+PIQ IP+AL+GRDI A G+GK+ A+ +P
Sbjct: 2 GNEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPL 61
Query: 184 LERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQ-FTDIRCCLVVGGLSTKMQETA 242
LERL + I A +++ PTRELA+QV + ++++ + GG + +
Sbjct: 62 LERLDLKKDNIQA---MVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMR 118
Query: 243 LRSMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKR 302
L +V+ATPGR++D ++ ++ +LL F + +++ PK
Sbjct: 119 LDDTVHVVIATPGRILDLIKKGVA-KVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKN 177
Query: 303 RQTMLFSATLTEDVDELIKLSLTKPLRLS 331
RQ +L+SAT V + + L KP ++
Sbjct: 178 RQILLYSATFPLSVQKFMNSHLEKPYEIN 206
>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 = 107 bits (268), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 78/220 (35%), Positives = 115/220 (52%), Gaps = 15/220 (6%)
Query: 112 SFFAPADGASFHANSFMELNLSRPLLRACEALG-YSKPTPIQAACIPLALTGRDICGSAI 170
S P A+ +F EL L P +R L Y +PTPIQ IP L RDI A
Sbjct: 10 SVTGPDYSATNVIENFDELKLD-PTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQ 68
Query: 171 TGSGKTAAFALPTLERLLY------RPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTD 224
TGSGKTAAF +P + L+ R + + LIL PTRELA+Q+ S +K + T
Sbjct: 69 TGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTP 128
Query: 225 IRCCLVVGGLSTKMQETALRSMPDIVVATPGRMIDHL-RNSMSXXXXXXXXXXXXXXXRL 283
+R C+V GG T Q ++ ++VATPGR++D + +N +S R+
Sbjct: 129 LRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKIS--LEFCKYIVLDEADRM 186
Query: 284 LELGFSAEIHELVR--LCPK--RRQTMLFSATLTEDVDEL 319
L++GF +I +++ P RQT++FSAT +++ +L
Sbjct: 187 LDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKL 226
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 106 bits (265), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 68/208 (32%), Positives = 104/208 (50%), Gaps = 5/208 (2%)
Query: 124 ANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPT 183
++F ++NL LLR A G+ KP+ IQ I + G D+ A +G+GKTA FA+
Sbjct: 29 VDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISI 88
Query: 184 LERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETAL 243
L++L K A L+L PTRELA Q+ +I + + C +GG + + + L
Sbjct: 89 LQQLEIEFKETQA---LVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKL 145
Query: 244 RS-MPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKR 302
++ P IVV TPGR+ D L N +L GF +I+E+ +
Sbjct: 146 QAEAPHIVVGTPGRVFDML-NRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTS 204
Query: 303 RQTMLFSATLTEDVDELIKLSLTKPLRL 330
Q +L SAT+ DV E+ K + P+R+
Sbjct: 205 IQVVLLSATMPTDVLEVTKKFMRDPIRI 232
>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 = 104 bits (260), Expect = 2e-22, Method: Composition-based stats.
Identities = 64/207 (30%), Positives = 104/207 (50%), Gaps = 5/207 (2%)
Query: 125 NSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTL 184
+SF ++NLS LLR A G+ P+ IQ I + G D+ A +G+G TA FA+ L
Sbjct: 15 DSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISIL 74
Query: 185 ERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALR 244
+++ + A + L+L PTRELA Q+ ++ + + C +GG + + + L+
Sbjct: 75 QQI---ELDLXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQXLQ 131
Query: 245 -SMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 303
P I+V TPGR+ D L N +L GF +I+++ +
Sbjct: 132 MEAPHIIVGTPGRVFDML-NRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNT 190
Query: 304 QTMLFSATLTEDVDELIKLSLTKPLRL 330
Q +L SAT+ DV E+ + P+R+
Sbjct: 191 QVVLLSATMPSDVLEVTXXFMRDPIRI 217
>pdb|1QDE|A Chain A, Crystal Structure Of The Atpase Domain Of Translation
Initiation Factor 4a From Saccharomyces Cerevisiae-The
Prototype Of The Dead Box Protein Family
Length = 224
Score = 99.0 bits (245), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 62/204 (30%), Positives = 100/204 (49%), Gaps = 5/204 (2%)
Query: 127 FMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLER 186
F ++ L LLR G+ +P+ IQ I + G D+ A +G+GKT F++ L+R
Sbjct: 16 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 75
Query: 187 LLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSM 246
+ + A + L+L PTRELA+Q+ ++ +A DI+ +GG S LR
Sbjct: 76 I---DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRD- 131
Query: 247 PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTM 306
IVV TPGR+ D+++ +L GF +I+++ L P Q +
Sbjct: 132 AQIVVGTPGRVFDNIQRR-RFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVV 190
Query: 307 LFSATLTEDVDELIKLSLTKPLRL 330
L SAT+ DV E+ + P+R+
Sbjct: 191 LLSATMPNDVLEVTTKFMRNPVRI 214
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 99.0 bits (245), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 62/204 (30%), Positives = 100/204 (49%), Gaps = 5/204 (2%)
Query: 127 FMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLER 186
F ++ L LLR G+ +P+ IQ I + G D+ A +G+GKT F++ L+R
Sbjct: 23 FDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 187 LLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSM 246
+ + A + L+L PTRELA+Q+ ++ +A DI+ +GG S LR
Sbjct: 83 I---DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRD- 138
Query: 247 PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTM 306
IVV TPGR+ D+++ +L GF +I+++ L P Q +
Sbjct: 139 AQIVVGTPGRVFDNIQRR-RFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVV 197
Query: 307 LFSATLTEDVDELIKLSLTKPLRL 330
L SAT+ DV E+ + P+R+
Sbjct: 198 LLSATMPNDVLEVTTKFMRNPVRI 221
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 96.7 bits (239), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 62/196 (31%), Positives = 101/196 (51%), Gaps = 3/196 (1%)
Query: 126 SFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLE 185
+F E N ++ +++PT IQA P+AL+G D+ G A TGSGKT ++ LP +
Sbjct: 44 NFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIV 103
Query: 186 RLLYRP--KRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETAL 243
+ ++P +R L+L PTRELA QV + + + ++ + GG Q L
Sbjct: 104 HINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDL 163
Query: 244 RSMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 303
+I +ATPGR+ID L + R+L++GF +I ++V R
Sbjct: 164 ERGVEICIATPGRLIDFLECGKT-NLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDR 222
Query: 304 QTMLFSATLTEDVDEL 319
QT+++SAT ++V +L
Sbjct: 223 QTLMWSATWPKEVRQL 238
>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 = 96.3 bits (238), Expect = 6e-20, Method: Composition-based stats.
Identities = 51/145 (35%), Positives = 84/145 (57%)
Query: 356 NQEAVLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALEL 415
++ A+L+ L + ++ I+F ++ H L A + L G + Q +R EA++
Sbjct: 16 HKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKR 75
Query: 416 FRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVT 475
+ V+ L+ATDVAARG+DI V V N+ PR +Y+HR+GRTARAGR+G A++ V
Sbjct: 76 LTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVE 135
Query: 476 DNDRSLLKAIAKRAGSKLKSRIVAE 500
+D LL + + +K+R++ E
Sbjct: 136 AHDHLLLGKVGRYIEEPIKARVIDE 160
>pdb|3FE2|A Chain A, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
pdb|3FE2|B Chain B, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
Length = 242
Score = 95.5 bits (236), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 62/196 (31%), Positives = 101/196 (51%), Gaps = 3/196 (1%)
Query: 126 SFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLE 185
+F E N ++ +++PT IQA P+AL+G D+ G A TGSGKT ++ LP +
Sbjct: 30 NFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIV 89
Query: 186 RLLYRP--KRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETAL 243
+ ++P +R L+L PTRELA QV + + + ++ + GG Q L
Sbjct: 90 HINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDL 149
Query: 244 RSMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 303
+I +ATPGR+ID L + R+L++GF +I ++V R
Sbjct: 150 ERGVEICIATPGRLIDFLECGKT-NLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDR 208
Query: 304 QTMLFSATLTEDVDEL 319
QT+++SAT ++V +L
Sbjct: 209 QTLMWSATWPKEVRQL 224
>pdb|1Q0U|A Chain A, Crystal Structure Of The Bstdead N-Terminal Domain
pdb|1Q0U|B Chain B, Crystal Structure Of The Bstdead N-Terminal Domain
Length = 219
Score = 90.5 bits (223), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 62/198 (31%), Positives = 96/198 (48%), Gaps = 12/198 (6%)
Query: 136 LLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRPKRIP 195
++ A + L + KPT IQ IP AL G G + TG+GKT A+ LP E++ +P+R
Sbjct: 15 IIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKI--KPERA- 71
Query: 196 AIRVLILTPTRELAVQVHSMIEKIAQFTD------IRCCLVVGGLSTKMQETALRSMPDI 249
++ +I PTRELA Q++ KI +F RC ++GG + L P I
Sbjct: 72 EVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARC--LIGGTDKQKALEKLNVQPHI 129
Query: 250 VVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFS 309
V+ TPGR+ D +R + L+ GF ++ ++ PK Q ++FS
Sbjct: 130 VIGTPGRINDFIREQ-ALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKDLQXLVFS 188
Query: 310 ATLTEDVDELIKLSLTKP 327
AT+ E + +K P
Sbjct: 189 ATIPEKLKPFLKKYXENP 206
>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 = 89.7 bits (221), Expect = 5e-18, Method: Composition-based stats.
Identities = 46/121 (38%), Positives = 70/121 (57%)
Query: 374 IIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARG 433
IIF TK+ ++L ++HG + Q R + + F++ +L+ATDVAARG
Sbjct: 39 IIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARG 98
Query: 434 LDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAIAKRAGSKL 493
+DI + VINY P + SYVHR GRT RAG +G A++FVT ++ L I + G ++
Sbjct: 99 IDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFEKRFLADIEEYIGFEI 158
Query: 494 K 494
+
Sbjct: 159 Q 159
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 89.4 bits (220), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 69/210 (32%), Positives = 104/210 (49%), Gaps = 10/210 (4%)
Query: 129 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLL 188
E ++ LL+ G+ PTPIQ IP+ L GR++ SA TGSGKT AF++P L +L
Sbjct: 33 EYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLK 92
Query: 189 YRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLV-VGGLSTKMQETALRSMP 247
+ R LI++PTRELA Q+H + KI++ T R ++ ++ K
Sbjct: 93 QPANK--GFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKF 150
Query: 248 DIVVATPGRMIDHLR-NSMSXXXXXXXXXXXXXXXRLLE---LGFSAEIHELVRLCP--K 301
DI+V TP R+I L+ + +L E GF ++ + C K
Sbjct: 151 DILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHK 210
Query: 302 RRQTMLFSATLTEDVDELIKLSLTKPLRLS 331
R+ M FSAT DV++ KL+L + +S
Sbjct: 211 VRRAM-FSATFAYDVEQWCKLNLDNVISVS 239
>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 = 89.0 bits (219), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 48/124 (38%), Positives = 70/124 (56%), Gaps = 1/124 (0%)
Query: 360 VLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQ 419
V L C + V+IF+ K + L ++A +HG Q +R +A+E FR+
Sbjct: 44 VYLLECLQKTPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREG 103
Query: 420 HVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDN-D 478
D L+ATDVA++GLD +Q VINY P ++ +YVHR+GRT +G G A TF+ D
Sbjct: 104 KKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFINKACD 163
Query: 479 RSLL 482
S+L
Sbjct: 164 ESVL 167
>pdb|2OXC|A Chain A, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|2OXC|B Chain B, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|3B7G|A Chain A, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
pdb|3B7G|B Chain B, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
Length = 230
Score = 88.2 bits (217), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 70/219 (31%), Positives = 107/219 (48%), Gaps = 24/219 (10%)
Query: 127 FMELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLER 186
F L LSRP+L A G+ +P+P+Q IPL G D+ A +G+GKT F+ L+
Sbjct: 26 FESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDS 85
Query: 187 LLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIA-QFTDIRCCLVVGGLSTKMQETALRS 245
L+ + ++LIL PTRE+AVQ+HS+I I + + C + +GG +T L+
Sbjct: 86 LVLENL---STQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKK 142
Query: 246 MPDIVVATPGRM-----IDHLRNSMSXXXXXXXXXXXXXXXRLLELG-FSAEIHELVRLC 299
I V +PGR+ +D+L +LLE G F +I+ +
Sbjct: 143 C-HIAVGSPGRIKQLIELDYLNPG------SIRLFILDEADKLLEEGSFQEQINWIYSSL 195
Query: 300 PKRRQTMLFSATLTEDVDELIKLSLTKPLRLSADPSAKR 338
P +Q + SAT E + +LTK +R DP+ R
Sbjct: 196 PASKQMLAVSAT----YPEFLANALTKYMR---DPTFVR 227
>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 = 87.4 bits (215), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 53/152 (34%), Positives = 78/152 (51%), Gaps = 8/152 (5%)
Query: 356 NQEAVLLSLCSKTF-TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALE 414
++ + LL L + T S ++F TK+ A L+ +HG+ +Q R EAL
Sbjct: 31 DKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALH 90
Query: 415 LFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFV 474
FR L+AT VAARGLDI V+ VIN+ P D+ YVHR+GRT R G G A +F
Sbjct: 91 QFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFF 150
Query: 475 TDNDRSLLKAIAKRAGSKLKSRIVAEQSITKW 506
+ + ++ K + L + A+Q + W
Sbjct: 151 NERNINITKDL-------LDLLVEAKQEVPSW 175
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 83.6 bits (205), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 55/148 (37%), Positives = 78/148 (52%), Gaps = 13/148 (8%)
Query: 360 VLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAE---LHGNLTQAQRLEALELF 416
VL L IIF TK+ A+ +L+G + E LHG+L +R ++ F
Sbjct: 25 VLTELYGLMTIGSSIIFVATKKTAN---VLYGKLKSEGHEVSILHGDLQTQERDRLIDDF 81
Query: 417 RKQHVDFLIATDVAARGLDIIGVQTVINYACPR------DLTSYVHRVGRTARAGREGYA 470
R+ LI T+V ARG+DI V V+NY P D +Y+HR+GRT R GR+G A
Sbjct: 82 REGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVA 141
Query: 471 VTFVTD-NDRSLLKAIAKRAGSKLKSRI 497
++FV D N ++L AI K G +R+
Sbjct: 142 ISFVHDKNSFNILSAIQKYFGDIEMTRV 169
>pdb|3IUY|A Chain A, Crystal Structure Of Ddx53 Dead-Box Domain
pdb|3IUY|B Chain B, Crystal Structure Of Ddx53 Dead-Box Domain
Length = 228
Score = 83.2 bits (204), Expect = 5e-16, Method: Composition-based stats.
Identities = 59/196 (30%), Positives = 101/196 (51%), Gaps = 5/196 (2%)
Query: 136 LLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRP---K 192
LL++ +G KPTPIQ+ P+ L G D+ A TG+GKT ++ +P L +P +
Sbjct: 31 LLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISRE 90
Query: 193 RIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVVA 252
+ +L+LTPTRELA+ V + K + + ++ + GG + Q + DI++A
Sbjct: 91 QRNGPGMLVLTPTRELALHVEAECSKYS-YKGLKSICIYGGRNRNGQIEDISKGVDIIIA 149
Query: 253 TPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSATL 312
TPGR+ D L+ + S ++L++ F +I +++ RQT++ SAT
Sbjct: 150 TPGRLND-LQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTSATW 208
Query: 313 TEDVDELIKLSLTKPL 328
+ V +L L P+
Sbjct: 209 PDTVRQLALSYLKDPM 224
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 82.8 bits (203), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 60/202 (29%), Positives = 101/202 (50%), Gaps = 9/202 (4%)
Query: 122 FHANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALTG--RDICGSAITGSGKTAAF 179
+ A SF EL L+ LL+ A+ + KP+ IQ +PL L R++ + +G+GKTAAF
Sbjct: 19 YSAKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAF 78
Query: 180 ALPTLERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQ 239
+L L R+ P+ + + + L P+RELA Q +++++ +FT I L+V K +
Sbjct: 79 SLTMLTRV--NPEDA-SPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNK 135
Query: 240 ETALRSMPDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLC 299
+ + ++V TPG ++D +R + L + G + + R
Sbjct: 136 QINAQ----VIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL 191
Query: 300 PKRRQTMLFSATLTEDVDELIK 321
PK Q +LFSAT + V + K
Sbjct: 192 PKDTQLVLFSATFADAVRQYAK 213
>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 = 82.0 bits (201), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 34/91 (37%), Positives = 55/91 (60%)
Query: 395 LKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSY 454
L E HG +TQ +R ++ F+K L+ TDV ARG+D V V+ P +L +Y
Sbjct: 61 LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANY 120
Query: 455 VHRVGRTARAGREGYAVTFVTDNDRSLLKAI 485
+HR+GRTAR+G+EG +V F+ ++ ++ +
Sbjct: 121 IHRIGRTARSGKEGSSVLFICKDELPFVREL 151
>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 = 82.0 bits (201), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 34/91 (37%), Positives = 55/91 (60%)
Query: 395 LKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSY 454
L E HG +TQ +R ++ F+K L+ TDV ARG+D V V+ P +L +Y
Sbjct: 61 LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANY 120
Query: 455 VHRVGRTARAGREGYAVTFVTDNDRSLLKAI 485
+HR+GRTAR+G+EG +V F+ ++ ++ +
Sbjct: 121 IHRIGRTARSGKEGSSVLFICKDELPFVREL 151
>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 = 81.6 bits (200), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 34/91 (37%), Positives = 55/91 (60%)
Query: 395 LKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSY 454
L E HG +TQ +R ++ F+K L+ TDV ARG+D V V+ P +L +Y
Sbjct: 61 LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANY 120
Query: 455 VHRVGRTARAGREGYAVTFVTDNDRSLLKAI 485
+HR+GRTAR+G+EG +V F+ ++ ++ +
Sbjct: 121 IHRIGRTARSGKEGSSVLFICKDELPFVREL 151
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 81.3 bits (199), Expect = 2e-15, Method: Composition-based stats.
Identities = 52/134 (38%), Positives = 75/134 (55%), Gaps = 13/134 (9%)
Query: 374 IIFSGTKQAAHRLKILFGLAALKAAE---LHGNLTQAQRLEALELFRKQHVDFLIATDVA 430
IIF TK+ A+ +L+G + E LHG+L +R ++ FR+ LI T+V
Sbjct: 41 IIFVATKKTAN---VLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 97
Query: 431 ARGLDIIGVQTVINYACPR------DLTSYVHRVGRTARAGREGYAVTFVTD-NDRSLLK 483
ARG+DI V V+NY P D +Y+HR+GRT R GR+G A++FV D N ++L
Sbjct: 98 ARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILS 157
Query: 484 AIAKRAGSKLKSRI 497
AI K G +R+
Sbjct: 158 AIQKYFGDIEXTRV 171
>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 = 81.3 bits (199), Expect = 2e-15, Method: Composition-based stats.
Identities = 52/134 (38%), Positives = 75/134 (55%), Gaps = 13/134 (9%)
Query: 374 IIFSGTKQAAHRLKILFGLAALKAAE---LHGNLTQAQRLEALELFRKQHVDFLIATDVA 430
IIF TK+ A+ +L+G + E LHG+L +R ++ FR+ LI T+V
Sbjct: 40 IIFVATKKTAN---VLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 96
Query: 431 ARGLDIIGVQTVINYACPR------DLTSYVHRVGRTARAGREGYAVTFVTD-NDRSLLK 483
ARG+DI V V+NY P D +Y+HR+GRT R GR+G A++FV D N ++L
Sbjct: 97 ARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILS 156
Query: 484 AIAKRAGSKLKSRI 497
AI K G +R+
Sbjct: 157 AIQKYFGDIEXTRV 170
>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 = 74.7 bits (182), Expect = 2e-13, Method: Composition-based stats.
Identities = 42/134 (31%), Positives = 67/134 (50%)
Query: 361 LLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQH 420
L +L S+ ++ IIF + Q L +H + Q R FR
Sbjct: 35 LNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGL 94
Query: 421 VDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRS 480
L+ TD+ RG+DI V VIN+ P+ +Y+HR+GR+ R G G A+ +T +DR
Sbjct: 95 CRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLITYDDRF 154
Query: 481 LLKAIAKRAGSKLK 494
LK+I ++ G+++K
Sbjct: 155 NLKSIEEQLGTEIK 168
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 71.6 bits (174), Expect = 1e-12, Method: Composition-based stats.
Identities = 41/119 (34%), Positives = 61/119 (51%), Gaps = 1/119 (0%)
Query: 371 SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVA 430
++V+IF + Q L L A +H + Q +RL + F+ L+AT++
Sbjct: 32 NQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLF 91
Query: 431 ARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTD-NDRSLLKAIAKR 488
RG+DI V NY P D +Y+HRV R R G +G A+TFV+D ND +L + R
Sbjct: 92 GRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDR 150
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 69.3 bits (168), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 57/200 (28%), Positives = 97/200 (48%), Gaps = 12/200 (6%)
Query: 122 FHANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALT--GRDICGSAITGSGKTAAF 179
+ SF EL L LL+ A+G+++P+ IQ +PL L +++ + +G+GKTAAF
Sbjct: 89 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAF 148
Query: 180 ALPTLERLLYRP-KRIPAIRVLILTPTRELAVQVHSMIEKIAQF-TDIRCCLVVGGLSTK 237
L L ++ P + P + L L+PT ELA+Q +IE++ +F +++ V G K
Sbjct: 149 VLAMLSQV--EPANKYP--QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG--NK 202
Query: 238 MQETALRSMPDIVVATPGRMIDHL-RNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELV 296
+ E + IV+ TPG ++D + + G + +
Sbjct: 203 L-ERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 261
Query: 297 RLCPKRRQTMLFSATLTEDV 316
R+ P+ Q +LFSAT + V
Sbjct: 262 RMLPRNCQMLLFSATFEDSV 281
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 68.2 bits (165), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 57/200 (28%), Positives = 97/200 (48%), Gaps = 12/200 (6%)
Query: 122 FHANSFMELNLSRPLLRACEALGYSKPTPIQAACIPLALT--GRDICGSAITGSGKTAAF 179
+ SF EL L LL+ A+G+++P+ IQ +PL L +++ + +G+GKTAAF
Sbjct: 22 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAF 81
Query: 180 ALPTLERLLYRP-KRIPAIRVLILTPTRELAVQVHSMIEKIAQF-TDIRCCLVVGGLSTK 237
L L ++ P + P + L L+PT ELA+Q +IE++ +F +++ V G K
Sbjct: 82 VLAMLSQV--EPANKYP--QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG--NK 135
Query: 238 MQETALRSMPDIVVATPGRMIDHL-RNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELV 296
+ E + IV+ TPG ++D + + G + +
Sbjct: 136 L-ERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 194
Query: 297 RLCPKRRQTMLFSATLTEDV 316
R+ P+ Q +LFSAT + V
Sbjct: 195 RMLPRNCQMLLFSATFEDSV 214
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 66.2 bits (160), Expect = 6e-11, Method: Composition-based stats.
Identities = 41/129 (31%), Positives = 63/129 (48%), Gaps = 6/129 (4%)
Query: 372 KVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAA 431
+ IIF T++ A L + + + L G LT QR ++ FR LI T+V A
Sbjct: 36 QAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCA 95
Query: 432 RGLDIIGVQTVINYACP------RDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAI 485
RG+D+ V V+N+ P D +Y+HR+GRT R G++G A + ++ L I
Sbjct: 96 RGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKI 155
Query: 486 AKRAGSKLK 494
S +K
Sbjct: 156 QDHFNSSIK 164
>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 = 60.8 bits (146), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 52/137 (37%), Positives = 73/137 (53%), Gaps = 4/137 (2%)
Query: 360 VLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAAL--KAAELHGNLTQAQRLEALELFR 417
VL L + ++F+ TK A +I GL L A LHG+++Q +R + FR
Sbjct: 18 VLSDLLYVASPDRAMVFTRTK--AETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFR 75
Query: 418 KQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDN 477
+ V L+ATDVAARGLDI V V++Y P +Y HR GRT RAGR G V
Sbjct: 76 QGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGRVVLLYGPR 135
Query: 478 DRSLLKAIAKRAGSKLK 494
+R ++A+ + G + K
Sbjct: 136 ERRDVEALERAVGRRFK 152
>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 = 59.7 bits (143), Expect = 6e-09, Method: Composition-based stats.
Identities = 51/125 (40%), Positives = 70/125 (56%), Gaps = 4/125 (3%)
Query: 372 KVIIFSGTKQAAHRLKILFGLAAL--KAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 429
+ ++F+ TK A +I GL L A LHG+L+Q +R L FR+ V L+ATDV
Sbjct: 33 RAMVFTRTK--AETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDV 90
Query: 430 AARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAIAKRA 489
AARGLDI V V++Y P +Y HR GRT RAGR G V +R ++A+ +
Sbjct: 91 AARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAV 150
Query: 490 GSKLK 494
G + K
Sbjct: 151 GRRFK 155
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 56.6 bits (135), Expect = 5e-08, Method: Composition-based stats.
Identities = 40/134 (29%), Positives = 70/134 (52%)
Query: 361 LLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQH 420
L L ++ +IF T++ L + ++ +L Q +R ++ FR
Sbjct: 21 LTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGS 80
Query: 421 VDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRS 480
LI+TD+ ARG+D+ V VINY P + +Y+HR+GR R GR+G A+ FVT+ D
Sbjct: 81 SRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVG 140
Query: 481 LLKAIAKRAGSKLK 494
++ + K ++++
Sbjct: 141 AMRELEKFYSTQIE 154
>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 = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/113 (32%), Positives = 51/113 (45%), Gaps = 15/113 (13%)
Query: 374 IIFSGTKQAAHRLKIL------FGLAALKAAELHGN--------LTQAQRLEALELFRKQ 419
IIF+ T+Q+A+ L F +KA L G +TQ ++ E + FR
Sbjct: 404 IIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTG 463
Query: 420 HVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVT 472
++ LIAT VA GLDI VI Y + + V GR ARA Y +
Sbjct: 464 KINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARGR-ARADESTYVLV 515
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 42/90 (46%)
Query: 394 ALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTS 453
+ AA H L R + E F++ + ++AT G++ V+ V+++ PR++ S
Sbjct: 260 GISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIES 319
Query: 454 YVHRVGRTARAGREGYAVTFVTDNDRSLLK 483
Y GR R G A+ F D + L+
Sbjct: 320 YYQETGRAGRDGLPAEAMLFYDPADMAWLR 349
Score = 33.1 bits (74), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%)
Query: 141 EALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTL 184
E GY + P Q I L+GRD TG GK+ + +P L
Sbjct: 19 ETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL 62
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 41/90 (45%)
Query: 394 ALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTS 453
+ AA H L R + E F++ + ++AT G++ V+ V+++ PR++ S
Sbjct: 260 GISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPRNIES 319
Query: 454 YVHRVGRTARAGREGYAVTFVTDNDRSLLK 483
Y GR R G A F D + L+
Sbjct: 320 YYQETGRAGRDGLPAEAXLFYDPADXAWLR 349
Score = 33.1 bits (74), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%)
Query: 141 EALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTL 184
E GY + P Q I L+GRD TG GK+ + +P L
Sbjct: 19 ETFGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPAL 62
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 30/91 (32%), Positives = 43/91 (47%), Gaps = 14/91 (15%)
Query: 370 TSKVIIFSGTKQAAHRLKIL------FGLAALKAAELHGN--------LTQAQRLEALEL 415
+++ IIF+ T+Q+A+ L F +KA L G TQ ++ E +
Sbjct: 150 SARGIIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAGHSSEFKPXTQNEQREVISK 209
Query: 416 FRKQHVDFLIATDVAARGLDIIGVQTVINYA 446
FR ++ LIAT VA GLDI VI Y
Sbjct: 210 FRTGKINLLIATTVAEEGLDIKECNIVIRYG 240
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 38.1 bits (87), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 39/83 (46%), Gaps = 1/83 (1%)
Query: 395 LKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSY 454
K +HG L+Q ++ + F + D L++T V G+D+ ++ R +
Sbjct: 614 FKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLAQ 673
Query: 455 VHRV-GRTARAGREGYAVTFVTD 476
+H++ GR R G+E Y V D
Sbjct: 674 LHQLRGRVGRGGQEAYCFLVVGD 696
>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 = 37.7 bits (86), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 45/102 (44%), Gaps = 8/102 (7%)
Query: 370 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGN--------LTQAQRLEALELFRKQHV 421
SK+I+F+ ++ A ++ +KA G L+Q ++ L+ F +
Sbjct: 361 NSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEF 420
Query: 422 DFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTAR 463
+ L+AT V GLD+ V V+ Y + R GRT R
Sbjct: 421 NVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR 462
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 6/121 (4%)
Query: 370 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 429
+ ++ + TK+ A L A +K A LH + +R+E + R D L+ ++
Sbjct: 470 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 529
Query: 430 AARGLDIIGVQTVI-----NYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 484
GLDI V V R S + +GR AR G+ + + +S+ A
Sbjct: 530 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN-GHVIMYADTITKSMEIA 588
Query: 485 I 485
I
Sbjct: 589 I 589
>pdb|1T5L|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
pdb|1T5L|B Chain B, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
Length = 658
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 6/121 (4%)
Query: 370 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 429
+ ++ + TK+ A L A +K A LH + +R+E + R D L+ ++
Sbjct: 445 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 504
Query: 430 AARGLDIIGVQTVI-----NYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 484
GLDI V V R S + +GR AR G+ + + +S+ A
Sbjct: 505 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA-NGHVIMYADTITKSMEIA 563
Query: 485 I 485
I
Sbjct: 564 I 564
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 6/121 (4%)
Query: 370 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 429
+ ++ + TK+ A L A +K A LH + +R+E + R D L+ ++
Sbjct: 445 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 504
Query: 430 AARGLDIIGVQTVI-----NYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 484
GLDI V V R S + +GR AR G+ + + +S+ A
Sbjct: 505 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA-NGHVIMYADTITKSMEIA 563
Query: 485 I 485
I
Sbjct: 564 I 564
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 6/121 (4%)
Query: 370 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 429
+ ++ + TK+ A L A +K A LH + +R+E + R D L+ ++
Sbjct: 444 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 503
Query: 430 AARGLDIIGVQTVI-----NYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 484
GLDI V V R S + +GR AR G+ + + +S+ A
Sbjct: 504 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA-NGHVIMYADTITKSMEIA 562
Query: 485 I 485
I
Sbjct: 563 I 563
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 6/121 (4%)
Query: 370 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 429
+ ++ + TK+ A L A +K A LH + +R+E + R D L+ ++
Sbjct: 445 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 504
Query: 430 AARGLDIIGVQTVI-----NYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 484
GLDI V V R S + +GR AR G+ + + +S+ A
Sbjct: 505 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA-NGHVIMYADTITKSMEIA 563
Query: 485 I 485
I
Sbjct: 564 I 564
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 33.5 bits (75), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 29/121 (23%), Positives = 49/121 (40%), Gaps = 6/121 (4%)
Query: 370 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 429
+V++ + TK+ + L +K LH + +R+E + R D L+ ++
Sbjct: 451 NERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 510
Query: 430 AARGLDIIGVQTVI-----NYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 484
GLDI V V R S + +GR AR EG + + +S+ A
Sbjct: 511 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA-EGRVIMYADKITKSMEIA 569
Query: 485 I 485
I
Sbjct: 570 I 570
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 33.5 bits (75), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 29/121 (23%), Positives = 49/121 (40%), Gaps = 6/121 (4%)
Query: 370 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 429
+V++ + TK+ + L +K LH + +R+E + R D L+ ++
Sbjct: 445 NERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 504
Query: 430 AARGLDIIGVQTVI-----NYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 484
GLDI V V R S + +GR AR EG + + +S+ A
Sbjct: 505 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA-EGRVIMYADKITKSMEIA 563
Query: 485 I 485
I
Sbjct: 564 I 564
>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 = 33.1 bits (74), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 41/89 (46%), Gaps = 11/89 (12%)
Query: 423 FLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTF---VTDNDR 479
LIAT VA G+DI+ V+ Y ++T + GR AG + VT V +N++
Sbjct: 697 LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTEVVENEK 756
Query: 480 SLLKAIAKRAGSKLKSRIVAEQSITKWSK 508
R ++ ++ V + I KW +
Sbjct: 757 ------CNRYKEEMMNKAV--EKIQKWDE 777
>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 = 33.1 bits (74), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%)
Query: 423 FLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTD 476
LIAT VA G+DI+ V+ Y ++T + GR AG + VT T+
Sbjct: 697 LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTE 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 = 33.1 bits (74), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 11/87 (12%)
Query: 423 FLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTF---VTDNDR 479
LIAT VA G+DI+ V+ Y ++T + GR AG + VT V +N++
Sbjct: 456 LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTEVVENEK 515
Query: 480 SLLKAIAKRAGSKLKSRIVAEQSITKW 506
R ++ ++ V + I KW
Sbjct: 516 ------CNRYKEEMMNKAV--EKIQKW 534
>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 = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 42/92 (45%), Gaps = 5/92 (5%)
Query: 372 KVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAA 431
K+IIF+ + +R+ +F + A+ ++ +R E LE FR ++++ V
Sbjct: 351 KIIIFTRHNELVYRISKVFLIPAITH-----RTSREEREEILEGFRTGRFRAIVSSQVLD 405
Query: 432 RGLDIIGVQTVINYACPRDLTSYVHRVGRTAR 463
G+D+ + + Y+ R+GR R
Sbjct: 406 EGIDVPDANVGVIMSGSGSAREYIQRLGRILR 437
>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 = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/94 (24%), Positives = 41/94 (43%), Gaps = 9/94 (9%)
Query: 397 AAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVI-------NYACPR 449
AA H L QR + FR+ ++ ++AT A G+++ + ++ Y+
Sbjct: 299 AAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRI 358
Query: 450 DLTSYVHRVGRTARAGRE--GYAVTFVTDNDRSL 481
++ Y GR R G + G A+ V DR +
Sbjct: 359 KVSEYKQMAGRAGRPGMDERGEAIIIVGKRDREI 392
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/103 (21%), Positives = 45/103 (43%), Gaps = 5/103 (4%)
Query: 361 LLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQH 420
L + + K+IIF+ + +R+ +F + A+ ++ +R E LE FR
Sbjct: 105 LREILERHRKDKIIIFTRHNELVYRISKVFLIPAITH-----RTSREEREEILEGFRTGR 159
Query: 421 VDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTAR 463
++++ V G+D+ + + Y+ R+GR R
Sbjct: 160 FRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 202
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/125 (18%), Positives = 57/125 (45%), Gaps = 3/125 (2%)
Query: 372 KVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVD---FLIATD 428
+V+IFS + L + + L G + AQR +++ F + FL++T
Sbjct: 574 RVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTR 633
Query: 429 VAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAIAKR 488
G++++ TV+ + + + + + R R G++ + + + + ++ + + +R
Sbjct: 634 AGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEVLER 693
Query: 489 AGSKL 493
A K+
Sbjct: 694 ARKKM 698
>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 = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 24/140 (17%), Positives = 57/140 (40%), Gaps = 3/140 (2%)
Query: 374 IIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARG 433
II+ +++ + ++ + + A H NL + + + ++AT G
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMG 330
Query: 434 LDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDND---RSLLKAIAKRAG 490
+D V+ VI+++ + + +Y GR R + + + D S + +
Sbjct: 331 IDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILYYGFGDIFRISSMVVMENVGQ 390
Query: 491 SKLKSRIVAEQSITKWSKII 510
KL + Q+I+K +++
Sbjct: 391 QKLYEMVSYCQNISKCRRVL 410
>pdb|3U44|A Chain A, Crystal Structure Of Addab-Dna Complex
pdb|3U4Q|A Chain A, Structure Of Addab-Dna Complex At 2.8 Angstroms
Length = 1232
Score = 30.4 bits (67), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 38/83 (45%), Gaps = 3/83 (3%)
Query: 161 TGRDICGSAITGSGKTAAFALPTLERLLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIA 220
TG+DI +A GSGKTA + ++ I R+L++T T A + M +IA
Sbjct: 22 TGQDILVAAAAGSGKTAVLVERMIRKITAEENPIDVDRLLVVTFTNASAAE---MKHRIA 78
Query: 221 QFTDIRCCLVVGGLSTKMQETAL 243
+ + G L + Q + L
Sbjct: 79 EALEKELVQRPGSLHIRRQLSLL 101
>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 = 29.6 bits (65), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 41/92 (44%), Gaps = 3/92 (3%)
Query: 380 KQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGV 439
++AA RL L A + HG + + + + F Q + L+ T + G+DI
Sbjct: 826 QKAAERLAELVPEARIAIG--HGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTA 883
Query: 440 QTVINYACPRDLTSYVHRV-GRTARAGREGYA 470
T+I + +H++ GR R+ + YA
Sbjct: 884 NTIIIERADHFGLAQLHQLRGRVGRSHHQAYA 915
>pdb|1DBT|A Chain A, Crystal Structure Of Orotidine 5'-Monophosphate
Decarboxylase From Bacillus Subtilis Complexed With Ump
pdb|1DBT|B Chain B, Crystal Structure Of Orotidine 5'-Monophosphate
Decarboxylase From Bacillus Subtilis Complexed With Ump
pdb|1DBT|C Chain C, Crystal Structure Of Orotidine 5'-Monophosphate
Decarboxylase From Bacillus Subtilis Complexed With Ump
Length = 239
Score = 29.6 bits (65), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 38/128 (29%), Positives = 51/128 (39%), Gaps = 12/128 (9%)
Query: 103 DFSNAGDTKSFFAPADGASFHANSFMELNLSR-PLL------RACEAL----GYSKPTPI 151
DF++A +T +F AP MEL P + R CE + PT +
Sbjct: 11 DFASAEETLAFLAPFQQEPLFVKVGMELFYQEGPSIVKQLKERNCELFLDLKLHDIPTTV 70
Query: 152 QAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRPKRIPA-IRVLILTPTRELAV 210
A LA G D+ G K AL LE K+ P+ I V LT T E +
Sbjct: 71 NKAMKRLASLGVDLVNVHAAGGKKMMQAALEGLEEGTPAGKKRPSLIAVTQLTSTSEQIM 130
Query: 211 QVHSMIEK 218
+ +IEK
Sbjct: 131 KDELLIEK 138
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
0.317 0.130 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,412,652
Number of Sequences: 62578
Number of extensions: 560476
Number of successful extensions: 1548
Number of sequences better than 100.0: 103
Number of HSP's better than 100.0 without gapping: 84
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 1292
Number of HSP's gapped (non-prelim): 113
length of query: 729
length of database: 14,973,337
effective HSP length: 106
effective length of query: 623
effective length of database: 8,340,069
effective search space: 5195862987
effective search space used: 5195862987
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)