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= 011605
(481 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 131 bits (329), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 122/447 (27%), Positives = 199/447 (44%), Gaps = 86/447 (19%)
Query: 34 CLDPRLKVALQNMGISSLFPVQVAVWQETIGPGLF--ERDLCINSPTGSGKTLSYALPIV 91
LD + A+ M L PVQ Q+TI P L + D+ + TG+GKT ++ +PI
Sbjct: 27 VLDKEIHKAITRMEFPGLTPVQ----QKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIF 82
Query: 92 QTLSNRAVRC---LRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLA-------VGQSSI 141
Q L N ++A++V PTRDLALQ++ A + ++ GL VG +
Sbjct: 83 QHLINTKFDSQYMVKAVIVAPTRDLALQIE---AEVKKIHDMNYGLKKYACVSLVGGTDF 139
Query: 142 ADEISELIK-RPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHLCY 200
++++ K RP +I++ATPGRL+D + + Y
Sbjct: 140 RAAMNKMNKLRP---------------------NIVIATPGRLIDVLEKYSNKFFRFVDY 178
Query: 201 LVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVERGFK 260
V+DE DRLL ++ L T+ + N + T L
Sbjct: 179 KVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLL-------------------- 218
Query: 261 DKPYPRLVKMVLSATLTQDPNKLAQ--LDLHHPLFL-TTGETRYKLPERLESYKLICESK 317
SATL KLA ++ LFL T + + ER++ +I E
Sbjct: 219 -----------FSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 267
Query: 318 LKPLYLVALLQSLGEE--------KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQ 369
++ A ++ + ++ K I+F +V+ T LC++L + + + I E+ G
Sbjct: 268 ANSIF--AAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKI 325
Query: 370 RQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARA 429
Q+ R+ +K F++ + +LV +D RGMD V+ V+ P+ + YIHR GRTAR+
Sbjct: 326 TQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARS 385
Query: 430 GQLGRCFTLLHKDEVKRFKKLLQKADN 456
G+ G + KDE+ F + L+ A N
Sbjct: 386 GKEGSSVLFICKDELP-FVRELEDAKN 411
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 130 bits (328), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 113/428 (26%), Positives = 194/428 (45%), Gaps = 70/428 (16%)
Query: 46 MGI-SSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRA 104
MGI + F + +E I + RD+ + G+GKT ++ +P ++ + + + ++A
Sbjct: 34 MGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKVKPKLNK-IQA 92
Query: 105 LVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPED 164
L+++PTR+LALQ V + G+S + G +++ D D
Sbjct: 93 LIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRD--------------------D 132
Query: 165 VLQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQL 224
+L+ L V ILV TPGR++D + + + L ++DE D++L ++ + +L
Sbjct: 133 ILR-LNETVHILVGTPGRVLD-LASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQIL-- 188
Query: 225 TRSDNENRFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLA 284
+FLP SL +P VK + L +K
Sbjct: 189 -------------SFLPPTHQSL-----------LFSATFPLTVKEFMVKHL----HKPY 220
Query: 285 QLDLHHPLFLTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVES 344
+++L L L Y E E KL C L L L + I+F + S
Sbjct: 221 EINLMEELTLKGITQYYAFVE--ERQKLHC--------LNTLFSKLQINQAIIFCN---S 267
Query: 345 THRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGV 404
T+R+ L +L +Q R+K FR+GK++ LV SD +TRG+D++ V
Sbjct: 268 TNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAV 327
Query: 405 NNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQKADNDSCPIHSI 464
N V+N+D P +TY+HR GR+ R G LG L++ ++ K+ Q+ + I +I
Sbjct: 328 NVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQELGTE---IAAI 384
Query: 465 PSSLIESL 472
P+++ +SL
Sbjct: 385 PATIDKSL 392
>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 = 130 bits (327), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 122/447 (27%), Positives = 199/447 (44%), Gaps = 86/447 (19%)
Query: 34 CLDPRLKVALQNMGISSLFPVQVAVWQETIGPGLF--ERDLCINSPTGSGKTLSYALPIV 91
LD + A+ M L PVQ Q+TI P L + D+ + TG+GKT ++ +PI
Sbjct: 78 VLDKEIHKAITRMEFPGLTPVQ----QKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIF 133
Query: 92 QTLSNRAVRC---LRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLA-------VGQSSI 141
Q L N ++A++V PTRDLALQ++ A + ++ GL VG +
Sbjct: 134 QHLINTKFDSQYMVKAVIVAPTRDLALQIE---AEVKKIHDMNYGLKKYACVSLVGGTDF 190
Query: 142 ADEISELIK-RPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHLCY 200
++++ K RP +I++ATPGRL+D + + Y
Sbjct: 191 RAAMNKMNKLRP---------------------NIVIATPGRLIDVLEKYSNKFFRFVDY 229
Query: 201 LVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVERGFK 260
V+DE DRLL ++ L T+ + N + T L
Sbjct: 230 KVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLL-------------------- 269
Query: 261 DKPYPRLVKMVLSATLTQDPNKLAQ--LDLHHPLFL-TTGETRYKLPERLESYKLICESK 317
SATL KLA ++ LFL T + + ER++ +I E
Sbjct: 270 -----------FSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 318
Query: 318 LKPLYLVALLQSLGEE--------KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQ 369
++ A ++ + ++ K I+F +V+ T LC++L + + + I E+ G
Sbjct: 319 ANSIF--AAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKI 376
Query: 370 RQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARA 429
Q+ R+ +K F++ + +LV +D RGMD V+ V+ P+ + YIHR GRTAR+
Sbjct: 377 TQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARS 436
Query: 430 GQLGRCFTLLHKDEVKRFKKLLQKADN 456
G+ G + KDE+ F + L+ A N
Sbjct: 437 GKEGSSVLFICKDELP-FVRELEDAKN 462
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 130 bits (326), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 122/445 (27%), Positives = 197/445 (44%), Gaps = 82/445 (18%)
Query: 34 CLDPRLKVALQNMGISSLFPVQVAVWQETIGPGLF--ERDLCINSPTGSGKTLSYALPIV 91
LD + A+ M L PVQ Q+TI P L + D+ + TG+GKT ++ +PI
Sbjct: 27 VLDKEIHKAITRMEFPGLTPVQ----QKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIF 82
Query: 92 QTLSNRAVRC---LRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLA-------VGQSSI 141
Q L N ++A++V PTRDLALQ++ A + ++ GL VG +
Sbjct: 83 QHLINTKFDSQYMVKAVIVAPTRDLALQIE---AEVKKIHDMNYGLKKYACVSLVGGTDF 139
Query: 142 ADEISELIK-RPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHLCY 200
++++ K RP +I++ATPGRL+D + + Y
Sbjct: 140 RAAMNKMNKLRP---------------------NIVIATPGRLIDVLEKYSNKFFRFVDY 178
Query: 201 LVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVERGFK 260
V+DE DRLL ++ L T+ + N + T L
Sbjct: 179 KVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLL-------------------- 218
Query: 261 DKPYPRLVKMVLSATLTQDPNKLAQ--LDLHHPLFL-TTGETRYKLPERLESYKLICESK 317
SATL KLA ++ LFL T + + ER++ +I E
Sbjct: 219 -----------FSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 267
Query: 318 LKPLYLVA--LLQSLGEE----KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQ 371
++ + + + E K I+F +V+ T LC++L + + + I E+ G Q
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 327
Query: 372 SVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQ 431
+ R+ +K F++ + +LV +D RGMD V+ V+ P+ + YIHR GRTAR+G+
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 387
Query: 432 LGRCFTLLHKDEVKRFKKLLQKADN 456
G + KDE+ F + L+ A N
Sbjct: 388 EGSSVLFICKDELP-FVRELEDAKN 411
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 120 bits (301), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 112/404 (27%), Positives = 174/404 (43%), Gaps = 84/404 (20%)
Query: 69 ERDLCINSPTGSGKTLSYALPIV-QTLSNRAVRCLRA----------------LVVLPTR 111
+RDL + TGSGKT ++ LPI+ Q S+ LRA LV+ PTR
Sbjct: 52 KRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTR 111
Query: 112 DLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQE--- 168
+LA+Q I +E + R ++ + Y D+ Q+
Sbjct: 112 ELAVQ------------------------IYEEARKFSYRSRVRPCVVYGGADIGQQIRD 147
Query: 169 LQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSD 228
L+ +LVATPGRL+D + + L+ YLV+DE DR+L ++ P + ++ D
Sbjct: 148 LERGCHLLVATPGRLVDMMERGK-IGLDFCKYLVLDEADRMLDMGFE---PQIRRIVEQD 203
Query: 229 NENRFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDL 288
T P K +R M+ SAT ++ LA+ L
Sbjct: 204 ---------TMPP------KGVRHT----------------MMFSATFPKEIQMLARDFL 232
Query: 289 HHPLFLTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEK-CIVFTSSVESTHR 347
+FL G E + + E K +L+ LL + G++ +VF + +
Sbjct: 233 DEYIFLAVGRVG-STSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADS 291
Query: 348 LCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNV 407
L L H G I G + Q R + L FR GK +LV++ RG+D+ V +V
Sbjct: 292 LEDFLYHEGYACTSIH---GDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHV 348
Query: 408 VNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLL 451
+N+D P+ I+ Y+HR GRT R G LG + ++ + K LL
Sbjct: 349 INFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKDLL 392
>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 = 119 bits (299), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 100/381 (26%), Positives = 176/381 (46%), Gaps = 74/381 (19%)
Query: 69 ERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAV 128
E ++ + TGSGKT S+A+P+++ ++ + A+++ PTR+LA+QV D ++
Sbjct: 44 EYNIVAQARTGSGKTASFAIPLIELVNEN--NGIEAIILTPTRELAIQVADEIESLKGNK 101
Query: 129 GLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHIN 188
L + G +I P+++A L++A +I+V TPGR++DHIN
Sbjct: 102 NLKIAKIYGGKAIY---------PQIKA------------LKNA-NIVVGTPGRILDHIN 139
Query: 189 ATRG-FTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSL 247
RG L+++ Y ++DE D L + + +L D R S P L
Sbjct: 140 --RGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDK--RILLFSATXPREI--L 193
Query: 248 KTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERL 307
++ + F +K ++A + Q ++ E ER
Sbjct: 194 NLAKKYXGDYSF--------IKAKINANIEQS-------------YVEVNEN-----ERF 227
Query: 308 ESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSG 367
E+ L LL++ E +VF + T L + L G K G
Sbjct: 228 EA-------------LCRLLKN-KEFYGLVFCKTKRDTKELASXLRDIG---FKAGAIHG 270
Query: 368 LQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTA 427
QS R K ++ F++ KI++L+++D +RG+DV +N V+NY P ++Y HR GRT
Sbjct: 271 DLSQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTG 330
Query: 428 RAGQLGRCFTLLHKDEVKRFK 448
RAG+ G+ +++++ E K+ +
Sbjct: 331 RAGKKGKAISIINRREYKKLR 351
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 110 bits (275), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 108/430 (25%), Positives = 190/430 (44%), Gaps = 103/430 (23%)
Query: 35 LDPRLKVALQNMGISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTL 94
++ +++ A++ MG + VQ +TI L +++ + + TGSGKT +YA+PI++
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQ----SKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL- 55
Query: 95 SNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKL 154
+++LVV PTR+L QV I + V G
Sbjct: 56 ------GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYG----------------- 92
Query: 155 EAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRG-FTLEHLCYLVVDETDRLLREA 213
G+ Y + + +++A DI+VATPGRL+D ++G L +++DE D +
Sbjct: 93 --GMPYKAQ--INRVRNA-DIVVATPGRLLDL--WSKGVIDLSSFEIVIIDEADLMFEMG 145
Query: 214 YQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLS 273
+ + +L T + R + + S
Sbjct: 146 FIDDIKIILAQTSN--------------------------------------RKITGLFS 167
Query: 274 ATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESKLKPLYL-------VAL 326
AT+ ++ K+ + F+T E +E+ + + K +++ V
Sbjct: 168 ATIPEEIRKVVK------DFITN-------YEEIEACIGLANVEHKFVHVKDDWRSKVQA 214
Query: 327 LQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKI 386
L+ ++ IVF + +L L ++ ELR G QSVR++ + AFREG+
Sbjct: 215 LRENKDKGVIVFVRTRNRVAKLVRLFDNAIELR-------GDLPQSVRNRNIDAFREGEY 267
Query: 387 QVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEV-- 444
+L+++D +RG+D+ V V+N+D P ++TYIHR GRT R G+ G T + +
Sbjct: 268 DMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILNEYWLE 327
Query: 445 KRFKKLLQKA 454
K KK+ QKA
Sbjct: 328 KEVKKVSQKA 337
>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 = 108 bits (270), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 96/375 (25%), Positives = 166/375 (44%), Gaps = 69/375 (18%)
Query: 70 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVL--PTRDLALQVKDVFAAIA 125
RDL + TGSGKT ++ LPI+ L + R VV+ PTR+LA+Q+ + A
Sbjct: 94 RDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFA 153
Query: 126 PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMD 185
L +G+ G +S + +E I R C+ +++ATPGRL+D
Sbjct: 154 FESYLKIGIVYGGTSFRHQ-NECITRG------CH--------------VVIATPGRLLD 192
Query: 186 HINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFG 245
++ T T E ++V+DE DR+L + + ++
Sbjct: 193 FVDRTF-ITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHV-------------------- 231
Query: 246 SLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPE 305
T+R P ++ SAT ++ ++A L + +F+ G +
Sbjct: 232 ---TMR-------------PEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSD 275
Query: 306 RLES-YKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKE 364
++ Y++ +K L + Q+ G IVF + L + L+ E
Sbjct: 276 VKQTIYEVNKYAKRSKLIEILSEQADG---TIVFVETKRGADFLASFLS---EKEFPTTS 329
Query: 365 YSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAG 424
G + QS R + L+ F+ G ++VL+++ +RG+D++ + +V+NYD P+ I Y+HR G
Sbjct: 330 IHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIG 389
Query: 425 RTARAGQLGRCFTLL 439
RT R G GR +
Sbjct: 390 RTGRVGNNGRATSFF 404
>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 = 105 bits (261), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 87/396 (21%), Positives = 167/396 (42%), Gaps = 64/396 (16%)
Query: 57 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 116
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+Q
Sbjct: 41 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-DIQVRETQALILAPTRELAVQ 99
Query: 117 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 176
++ A+ + + +G +++ ++I ++L ++
Sbjct: 100 IQKGLLALGDYMNVQCHACIGGTNVGEDI---------------------RKLDYGQHVV 138
Query: 177 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 236
TPGR+ D I R + LV+DE D +L + ++ + D
Sbjct: 139 AGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFK---------------EQIYDV 182
Query: 237 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 296
+LP P +++SATL + ++ + P+ +
Sbjct: 183 YRYLP-----------------------PATQVVLISATLPHEILEMTNKFMTDPIRILV 219
Query: 297 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFG 356
L + + + + K L L +L + ++F ++ ++ L
Sbjct: 220 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMR 276
Query: 357 ELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI 416
E + G Q R +K FR G +VL+S+D RG+DV V+ ++NYD P
Sbjct: 277 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 336
Query: 417 KTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQ 452
+ YIHR GR+ R G+ G + D+++ + + Q
Sbjct: 337 ELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQ 372
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 105 bits (261), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 88/396 (22%), Positives = 167/396 (42%), Gaps = 64/396 (16%)
Query: 57 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 116
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+Q
Sbjct: 26 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQ-VRETQALILAPTRELAVQ 84
Query: 117 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 176
V+ A+ + + +G +++ ++I ++L ++
Sbjct: 85 VQKGLLALGDYMNVQCHACIGGTNVGEDI---------------------RKLDYGQHVV 123
Query: 177 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 236
TPGR+ D I R + LV+DE D +L + ++ + D
Sbjct: 124 AGTPGRVFDMIR-RRSLRTRAIKMLVLDEADEMLNKGFK---------------EQIYDV 167
Query: 237 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 296
+LP P +++SATL + ++ + P+ +
Sbjct: 168 YRYLP-----------------------PATQVVLISATLPHEILEMTNKFMTDPIRILV 204
Query: 297 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFG 356
L + + + + K L L +L + ++F ++ ++ L
Sbjct: 205 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMR 261
Query: 357 ELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI 416
E + G Q R +K FR G +VL+S+D RG+DV V+ ++NYD P
Sbjct: 262 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 321
Query: 417 KTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQ 452
+ YIHR GR+ R G+ G + D+++ + + Q
Sbjct: 322 ELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQ 357
>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 = 104 bits (260), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 88/396 (22%), Positives = 169/396 (42%), Gaps = 64/396 (16%)
Query: 57 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 116
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+Q
Sbjct: 62 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-DIQVRETQALILAPTRELAVQ 120
Query: 117 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 176
++ A+ + + +G +++ ++I ++L ++
Sbjct: 121 IQKGLLALGDYMNVQCHACIGGTNVGEDI---------------------RKLDYGQHVV 159
Query: 177 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 236
TPGR+ D I R + LV+DE D +L + ++ + D
Sbjct: 160 AGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFK---------------EQIYDV 203
Query: 237 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 296
+LP P ++V ++SATL + ++ + P+ +
Sbjct: 204 YRYLP---------------------PATQVV--LISATLPHEILEMTNKFMTDPIRILV 240
Query: 297 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFG 356
L + + + + K L L +L + ++F ++ ++ L
Sbjct: 241 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMR 297
Query: 357 ELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI 416
E + G Q R +K FR G +VL+S+D RG+DV V+ ++NYD P
Sbjct: 298 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 357
Query: 417 KTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQ 452
+ YIHR GR+ R G+ G + D+++ + + Q
Sbjct: 358 ELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQ 393
>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 = 104 bits (260), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 88/396 (22%), Positives = 169/396 (42%), Gaps = 64/396 (16%)
Query: 57 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 116
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+Q
Sbjct: 63 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-DIQVRETQALILAPTRELAVQ 121
Query: 117 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 176
++ A+ + + +G +++ ++I ++L ++
Sbjct: 122 IQKGLLALGDYMNVQCHACIGGTNVGEDI---------------------RKLDYGQHVV 160
Query: 177 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 236
TPGR+ D I R + LV+DE D +L + ++ + D
Sbjct: 161 AGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFK---------------EQIYDV 204
Query: 237 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 296
+LP P ++V ++SATL + ++ + P+ +
Sbjct: 205 YRYLP---------------------PATQVV--LISATLPHEILEMTNKFMTDPIRILV 241
Query: 297 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFG 356
L + + + + K L L +L + ++F ++ ++ L
Sbjct: 242 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMR 298
Query: 357 ELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI 416
E + G Q R +K FR G +VL+S+D RG+DV V+ ++NYD P
Sbjct: 299 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 358
Query: 417 KTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQ 452
+ YIHR GR+ R G+ G + D+++ + + Q
Sbjct: 359 ELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQ 394
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 104 bits (260), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 88/396 (22%), Positives = 167/396 (42%), Gaps = 64/396 (16%)
Query: 57 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 116
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+Q
Sbjct: 26 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQ-VRETQALILAPTRELAVQ 84
Query: 117 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 176
V+ A+ + + +G +++ ++I ++L ++
Sbjct: 85 VQKGLLALGDYMNVQSHACIGGTNVGEDI---------------------RKLDYGQHVV 123
Query: 177 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 236
TPGR+ D I R + LV+DE D +L + ++ + D
Sbjct: 124 AGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFK---------------EQIYDV 167
Query: 237 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 296
+LP P +++SATL + ++ + P+ +
Sbjct: 168 YRYLP-----------------------PATQVVLISATLPHEVLEMTNKFMTDPIRILV 204
Query: 297 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFG 356
L + + + + K L L +L + ++F ++ ++ L
Sbjct: 205 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMR 261
Query: 357 ELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI 416
E + G Q R +K FR G +VL+S+D RG+DV V+ ++NYD P
Sbjct: 262 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 321
Query: 417 KTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQ 452
+ YIHR GR+ R G+ G + D+++ + + Q
Sbjct: 322 ELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQ 357
>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 = 104 bits (260), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 88/396 (22%), Positives = 169/396 (42%), Gaps = 64/396 (16%)
Query: 57 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 116
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+Q
Sbjct: 63 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-DIQVRETQALILAPTRELAVQ 121
Query: 117 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 176
++ A+ + + +G +++ ++I ++L ++
Sbjct: 122 IQKGLLALGDYMNVQCHACIGGTNVGEDI---------------------RKLDYGQHVV 160
Query: 177 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 236
TPGR+ D I R + LV+DE D +L + ++ + D
Sbjct: 161 AGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFK---------------EQIYDV 204
Query: 237 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 296
+LP P ++V ++SATL + ++ + P+ +
Sbjct: 205 YRYLP---------------------PATQVV--LISATLPHEILEMTNKFMTDPIRILV 241
Query: 297 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFG 356
L + + + + K L L +L + ++F ++ ++ L
Sbjct: 242 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMR 298
Query: 357 ELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI 416
E + G Q R +K FR G +VL+S+D RG+DV V+ ++NYD P
Sbjct: 299 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 358
Query: 417 KTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQ 452
+ YIHR GR+ R G+ G + D+++ + + Q
Sbjct: 359 ELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQ 394
>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 = 102 bits (253), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 90/367 (24%), Positives = 162/367 (44%), Gaps = 69/367 (18%)
Query: 57 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 116
A+ Q I P + D+ + +G+GKT ++++ +Q + + +V+ +AL++ PTR+LALQ
Sbjct: 47 AIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-DTSVKAPQALMLAPTRELALQ 105
Query: 117 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 176
++ V A+A + + V +G +S ++ L I+
Sbjct: 106 IQKVVMALAFHMDIKVHACIGGTSFVEDAEGL----------------------RDAQIV 143
Query: 177 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 236
V TPGR+ D+I R F + + ++DE D +L ++ + +
Sbjct: 144 VGTPGRVFDNIQRRR-FRTDKIKMFILDEADEMLSSGFKEQIYQIF-------------- 188
Query: 237 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 296
T LP P ++LSAT+ D ++ + +P+ +
Sbjct: 189 -TLLP-----------------------PTTQVVLLSATMPNDVLEVTTKFMRNPVRILV 224
Query: 297 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL--NH 354
+ L + Y + E + K L L S+ + ++F ++ L T L +
Sbjct: 225 KKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDK 284
Query: 355 FGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPA 414
F I YS L +Q R +K FR G ++L+S+D + RG+DV+ V+ V+NYD PA
Sbjct: 285 FTVSAI----YSDLPQQE-RDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPA 339
Query: 415 YIKTYIH 421
+ YIH
Sbjct: 340 NKENYIH 346
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 96.7 bits (239), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 89/374 (23%), Positives = 162/374 (43%), Gaps = 77/374 (20%)
Query: 57 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 116
A+ Q I P + D+ + +G+GKT ++A+ I+Q + ++ +ALV+ PTR+LA Q
Sbjct: 65 AIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIE-LDLKATQALVLAPTRELAQQ 123
Query: 117 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 176
++ V A+ +G S +G +++ E+ +L ++EA P I+
Sbjct: 124 IQKVVMALGDYMGASCHACIGGTNVRAEVQKL----QMEA-----PH-----------II 163
Query: 177 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 236
V TPGR+ D +N R + +++ V+DE D +L
Sbjct: 164 VGTPGRVFDMLN-RRYLSPKYIKMFVLDEADEML-------------------------- 196
Query: 237 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKM-------VLSATLTQDPNKLAQLDLH 289
RGFKD+ Y K+ +LSAT+ D ++ + +
Sbjct: 197 -------------------SRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMR 237
Query: 290 HPLFLTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLC 349
P+ + + L + Y + + K L L ++L + ++F + + ++
Sbjct: 238 DPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIF---INTRRKVD 294
Query: 350 TLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVN 409
L + G Q R ++ FR G +VL+++D + RG+DV+ V+ V+N
Sbjct: 295 WLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVIN 354
Query: 410 YDKPAYIKTYIHRA 423
YD P + YIHR
Sbjct: 355 YDLPTNRENYIHRI 368
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 95.9 bits (237), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 90/367 (24%), Positives = 156/367 (42%), Gaps = 69/367 (18%)
Query: 57 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 116
A+ Q I P + D+ + +G+GKT ++++ +Q + + +V+ +AL + PTR+LALQ
Sbjct: 46 AIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-DTSVKAPQALXLAPTRELALQ 104
Query: 117 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 176
++ V A+A + V +G +S ++ L I+
Sbjct: 105 IQKVVXALAFHXDIKVHACIGGTSFVEDAEGL----------------------RDAQIV 142
Query: 177 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 236
V TPGR+ D+I R F + + ++DE D L ++ + +
Sbjct: 143 VGTPGRVFDNIQRRR-FRTDKIKXFILDEADEXLSSGFKEQIYQIF-------------- 187
Query: 237 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 296
T LP P ++LSAT D ++ +P+ +
Sbjct: 188 -TLLP-----------------------PTTQVVLLSATXPNDVLEVTTKFXRNPVRILV 223
Query: 297 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL--NH 354
+ L + Y + E + K L L S+ + ++F ++ L T L +
Sbjct: 224 KKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDK 283
Query: 355 FGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPA 414
F I YS L +Q R K FR G ++L+S+D + RG+DV+ V+ V+NYD PA
Sbjct: 284 FTVSAI----YSDLPQQE-RDTIXKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPA 338
Query: 415 YIKTYIH 421
+ YIH
Sbjct: 339 NKENYIH 345
>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 = 95.9 bits (237), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 89/374 (23%), Positives = 162/374 (43%), Gaps = 77/374 (20%)
Query: 57 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 116
A+ Q I P + D+ + +G+GKT ++A+ I+Q + ++ +ALV+ PTR+LA Q
Sbjct: 39 AIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIE-LDLKATQALVLAPTRELAQQ 97
Query: 117 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 176
++ V A+ +G S +G +++ E+ +L ++EA P I+
Sbjct: 98 IQKVVMALGDYMGASCHACIGGTNVRAEVQKL----QMEA-----PH-----------II 137
Query: 177 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 236
V TPGR+ D +N R + +++ V+DE D +L
Sbjct: 138 VGTPGRVFDMLNR-RYLSPKYIKMFVLDEADEML-------------------------- 170
Query: 237 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKM-------VLSATLTQDPNKLAQLDLH 289
RGFKD+ Y K+ +LSAT+ D ++ + +
Sbjct: 171 -------------------SRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMR 211
Query: 290 HPLFLTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLC 349
P+ + + L + Y + + K L L ++L + ++F + + ++
Sbjct: 212 DPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIF---INTRRKVD 268
Query: 350 TLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVN 409
L + G Q R ++ FR G +VL+++D + RG+DV+ V+ V+N
Sbjct: 269 WLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVIN 328
Query: 410 YDKPAYIKTYIHRA 423
YD P + YIHR
Sbjct: 329 YDLPTNRENYIHRI 342
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 95.5 bits (236), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 65/191 (34%), Positives = 98/191 (51%), Gaps = 31/191 (16%)
Query: 53 PVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRD 112
P ++ + E I L RD+ + TGSGKT ++ALPI+ L R L ALV+ PTR+
Sbjct: 66 PTKIQI--EAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQR-LFALVLTPTRE 122
Query: 113 LALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSA 172
LA Q+ + F A+ ++G+ + VG + L K+P
Sbjct: 123 LAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPH------------------- 163
Query: 173 VDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENR 232
I++ATPGRL+DH+ T+GF L L YLV+DE DR+L ++ + +L++ D +
Sbjct: 164 --IIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRK-- 219
Query: 233 FSDASTFLPSA 243
TFL SA
Sbjct: 220 -----TFLFSA 225
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 89.0 bits (219), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 107/429 (24%), Positives = 178/429 (41%), Gaps = 83/429 (19%)
Query: 17 SPVDVSLFEDCPLDHLPCLDPRLKVALQNMGISSLFPVQVAVWQETIGPGLFERDLCINS 76
SP +S F D L P L A+ + G VQ E I + D+ +
Sbjct: 2 SPGHMSGFRDF------LLKPELLRAIVDCGFEHPSEVQ----HECIPQAILGMDVLCQA 51
Query: 77 PTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVK---DVFAAIAPAVGLSVG 133
+G GKT + L +Q L + LV+ TR+LA Q+ + F+ P V ++V
Sbjct: 52 KSGMGKTAVFVLATLQQLEP-VTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVF 110
Query: 134 LAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGF 193
G S DE E++K+ + I+V TPGR++ + +
Sbjct: 111 FG-GLSIKKDE--EVLKK-------------------NCPHIVVGTPGRIL-ALARNKSL 147
Query: 194 TLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRC 253
L+H+ + ++DE D++L + L + R
Sbjct: 148 NLKHIKHFILDEADKMLEQ---------LDMRRD-------------------------- 172
Query: 254 GVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPL-FLTTGETRYKLPERLESYKL 312
V+ F+ P+ + V M+ SATL+++ + + + P+ ET+ L L+ Y +
Sbjct: 173 -VQEIFRMTPHEKQV-MMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTL-HGLQQYYV 229
Query: 313 ICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL--NHFGELRIKIKEYSGLQR 370
+ K L LL L + ++F SV+ L LL +F + I + G+
Sbjct: 230 KLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI----HRGMP- 284
Query: 371 QSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAG 430
Q R + F++ + ++LV+++ RGMD+E VN NYD P TY+HR R R G
Sbjct: 285 QEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFG 344
Query: 431 QLGRCFTLL 439
G T +
Sbjct: 345 TKGLAITFV 353
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 88.2 bits (217), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 96/388 (24%), Positives = 165/388 (42%), Gaps = 73/388 (18%)
Query: 58 VWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQV 117
V E I + D+ + +G GKT + L +Q L + + LV+ TR+LA Q+
Sbjct: 34 VQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQ-VSVLVMCHTRELAFQI 92
Query: 118 K---DVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVD 174
+ F+ P V ++V G S DE E++K+ +
Sbjct: 93 SKEYERFSKYMPNVKVAVFFG-GLSIKKDE--EVLKK-------------------NCPH 130
Query: 175 ILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFS 234
I+V TPGR++ + + L+H+ + ++DE D++L + L + R
Sbjct: 131 IVVGTPGRIL-ALARNKSLNLKHIKHFILDECDKMLEQ---------LDMRRD------- 173
Query: 235 DASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPL-F 293
V+ F+ P+ + V M+ SATL+++ + + + P+
Sbjct: 174 --------------------VQEIFRMTPHEKQV-MMFSATLSKEIRPVCRKFMQDPMEI 212
Query: 294 LTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL- 352
ET+ L L+ Y + + K L LL L + ++F SV+ L LL
Sbjct: 213 FVDDETKLTL-HGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLV 271
Query: 353 -NHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYD 411
+F + I + G+ Q R + F++ + ++LV+++ RGMD+E VN NYD
Sbjct: 272 EQNFPAIAI----HRGMP-QEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYD 326
Query: 412 KPAYIKTYIHRAGRTARAGQLGRCFTLL 439
P TY+HR R R G G T +
Sbjct: 327 MPEDSDTYLHRVARAGRFGTKGLAITFV 354
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 88.2 bits (217), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 96/388 (24%), Positives = 165/388 (42%), Gaps = 73/388 (18%)
Query: 58 VWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQV 117
V E I + D+ + +G GKT + L +Q L + + LV+ TR+LA Q+
Sbjct: 34 VQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQ-VSVLVMCHTRELAFQI 92
Query: 118 K---DVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVD 174
+ F+ P V ++V G S DE E++K+ +
Sbjct: 93 SKEYERFSKYMPNVKVAVFFG-GLSIKKDE--EVLKK-------------------NCPH 130
Query: 175 ILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFS 234
I+V TPGR++ + + L+H+ + ++DE D++L + L + R
Sbjct: 131 IVVGTPGRIL-ALARNKSLNLKHIKHFILDECDKMLEQ---------LDMRRD------- 173
Query: 235 DASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPL-F 293
V+ F+ P+ + V M+ SATL+++ + + + P+
Sbjct: 174 --------------------VQEIFRMTPHEKQV-MMFSATLSKEIRPVCRKFMQDPMEI 212
Query: 294 LTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL- 352
ET+ L L+ Y + + K L LL L + ++F SV+ L LL
Sbjct: 213 FVDDETKLTL-HGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLV 271
Query: 353 -NHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYD 411
+F + I + G+ Q R + F++ + ++LV+++ RGMD+E VN NYD
Sbjct: 272 EQNFPAIAI----HRGMP-QEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYD 326
Query: 412 KPAYIKTYIHRAGRTARAGQLGRCFTLL 439
P TY+HR R R G G T +
Sbjct: 327 MPEDSDTYLHRVARAGRFGTKGLAITFV 354
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 85.9 bits (211), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 64/206 (31%), Positives = 104/206 (50%), Gaps = 31/206 (15%)
Query: 24 FEDCPLDHLPCL--DPRLKVALQNMGISSLFPVQVAVWQETIGPGLFERDLCINSPTGSG 81
FED L L + LK A++ MG +++ +Q ++I P L RDL + TGSG
Sbjct: 49 FEDTSFASLCNLVNENTLK-AIKEMGFTNMTEIQ----HKSIRPLLEGRDLLAAAKTGSG 103
Query: 82 KTLSYALPIVQTLSNRAV---RCLRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQ 138
KTL++ +P V+ + L++ PTR+LA+Q V + + GL +G
Sbjct: 104 KTLAFLIPAVELIVKLRFMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGG 163
Query: 139 SSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHL 198
S+ + E Q+L + ++I+VATPGRL+DH+ T GF ++L
Sbjct: 164 SNRSAEA---------------------QKLGNGINIIVATPGRLLDHMQNTPGFMYKNL 202
Query: 199 CYLVVDETDRLLREAYQAWLPTVLQL 224
LV+DE DR+L ++ L +++L
Sbjct: 203 QCLVIDEADRILDVGFEEELKQIIKL 228
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 79.7 bits (195), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 101/427 (23%), Positives = 173/427 (40%), Gaps = 97/427 (22%)
Query: 70 RDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVG 129
R++ S +G+GKT ++AL ++ + + +V +A+ + P+R+LA Q+ DV +
Sbjct: 159 RNMIGQSQSGTGKTAAFALTMLSRV-DASVPKPQAICLAPSRELARQIMDVVTEMGKYTE 217
Query: 130 LSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINA 189
+ + S + K K++A I++ TPG +MD +
Sbjct: 218 VKTAFGIKDS--------VPKGAKIDA-----------------QIVIGTPGTVMD-LMK 251
Query: 190 TRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKT 249
R + V+DE D +L ++ D S +
Sbjct: 252 RRQLDARDIKVFVLDEADNML------------------DQQGLGDQSMRIKHLL----- 288
Query: 250 IRRCGVERGFKDKPYPRLVKMVL-SATLTQDPNKLAQLDLHHPLFLTTGETRYKLPE-RL 307
PR ++VL SAT ++ K A+ E R K E +
Sbjct: 289 ---------------PRNTQIVLFSATFSERVEKYAER-----FAPNANEIRLKTEELSV 328
Query: 308 ESYKLI---CESK-LKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGE-LRIKI 362
E K + C+S+ K LV L L + I+F ++ + + G +
Sbjct: 329 EGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLT 388
Query: 363 KEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI------ 416
G QR ++ + +FR G +VLV+++ + RG+DV VN VVNYD P
Sbjct: 389 GNLEGAQRDAI----MDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDP 444
Query: 417 KTYIHRAGRTARAGQLGRCFTLLHK----DEVKRFKKLLQKADNDSCPIHSIPSSLIESL 472
+TY+HR GRT R G++G +H +E+ ++ Q+ PI +P+ E L
Sbjct: 445 QTYLHRIGRTGRFGRVGVSINFVHDKKSWEEMNAIQEYFQR------PITRVPTDDYEEL 498
Query: 473 RPVYKSG 479
V K+
Sbjct: 499 EKVVKNA 505
>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 = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 45/121 (37%), Positives = 63/121 (52%), Gaps = 3/121 (2%)
Query: 319 KPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTL 378
K LV LL+ + IVF E H L L G I G Q R++ +
Sbjct: 17 KTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAG---INNCYLEGEMVQGKRNEAI 73
Query: 379 KAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTL 438
K EG++ VLV++D RG+D+ V++V N+D P TY+HR GRTARAG+ G +L
Sbjct: 74 KRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISL 133
Query: 439 L 439
+
Sbjct: 134 V 134
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 76.3 bits (186), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 48/169 (28%), Positives = 81/169 (47%), Gaps = 25/169 (14%)
Query: 58 VWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSN---RAVRCLRALVVLPTRDLA 114
+ ++TIG L +D+ + TGSGKTL++ +P+++ L + L L++ PTR+LA
Sbjct: 51 IQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLIISPTRELA 110
Query: 115 LQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVD 174
Q +V + S GL +G + E + + ++
Sbjct: 111 YQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERI----------------------NNIN 148
Query: 175 ILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQ 223
ILV TPGRL+ H++ T F L LV+DE DR+L + + V++
Sbjct: 149 ILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIE 197
>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 = 75.9 bits (185), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 70/123 (56%), Gaps = 1/123 (0%)
Query: 334 KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSD 393
K I+F +V+ T LC++L + + + I E+ G Q+ R+ +K F++ + +LV +D
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 394 AMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQK 453
RGMD V+ V+ P+ + YIHR GRTAR+G+ G + KDE+ F + L+
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP-FVRELED 153
Query: 454 ADN 456
A N
Sbjct: 154 AKN 156
>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 = 75.9 bits (185), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 70/123 (56%), Gaps = 1/123 (0%)
Query: 334 KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSD 393
K I+F +V+ T LC++L + + + I E+ G Q+ R+ +K F++ + +LV +D
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 394 AMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQK 453
RGMD V+ V+ P+ + YIHR GRTAR+G+ G + KDE+ F + L+
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP-FVRELED 153
Query: 454 ADN 456
A N
Sbjct: 154 AKN 156
>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 = 75.9 bits (185), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 70/123 (56%), Gaps = 1/123 (0%)
Query: 334 KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSD 393
K I+F +V+ T LC++L + + + I E+ G Q+ R+ +K F++ + +LV +D
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 394 AMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQK 453
RGMD V+ V+ P+ + YIHR GRTAR+G+ G + KDE+ F + L+
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP-FVRELED 153
Query: 454 ADN 456
A N
Sbjct: 154 AKN 156
>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 = 75.5 bits (184), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 47/150 (31%), Positives = 74/150 (49%), Gaps = 6/150 (4%)
Query: 323 LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFR 382
L L L + I+F +S + L ++ G I RQ R++ FR
Sbjct: 35 LNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIH---AKMRQEHRNRVFHDFR 91
Query: 383 EGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKD 442
G + LV +D TRG+D++ VN V+N+D P +TY+HR GR+ R G LG L+ D
Sbjct: 92 NGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLITYD 151
Query: 443 EVKRFKKLLQKADNDSCPIHSIPSSLIESL 472
+ K + ++ + P IPS++ +SL
Sbjct: 152 DRFNLKSIEEQLGTEIKP---IPSNIDKSL 178
>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 = 75.1 bits (183), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 32/75 (42%), Positives = 49/75 (65%)
Query: 367 GLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRT 426
G + Q R+K ++AFREGK VLV++D ++G+D + +V+NYD P I+ Y+HR GRT
Sbjct: 86 GGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRT 145
Query: 427 ARAGQLGRCFTLLHK 441
+G G T ++K
Sbjct: 146 GCSGNTGIATTFINK 160
>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 = 74.7 bits (182), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 91/408 (22%), Positives = 169/408 (41%), Gaps = 90/408 (22%)
Query: 70 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVLPTRDLALQVKDVFAAIA-- 125
++L S +G+GKT ++ L ++ + +N+ +CL + PT +LALQ V +
Sbjct: 65 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCL---CLSPTYELALQTGKVIEQMGKF 121
Query: 126 -PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLM 184
P + L+ + + +ISE I++ TPG ++
Sbjct: 122 YPELKLAYAVRGNKLERGQKISE--------------------------QIVIGTPGTVL 155
Query: 185 DHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAF 244
D + + + + V+DE D ++ A Q +++ R LP
Sbjct: 156 DWCSKLKFIDPKKIKVFVLDEADVMI--ATQGHQDQSIRIQR------------MLP--- 198
Query: 245 GSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLP 304
R C + ++ SAT K AQ + P + L
Sbjct: 199 ------RNCQM--------------LLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL- 237
Query: 305 ERLESYKLICESKLKPLY-LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIK 363
+ ++ Y ++C S+ + L L ++ + ++F + ++ L L+ G ++
Sbjct: 238 DTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGH---QVA 294
Query: 364 EYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI------K 417
SG R+ ++ FREGK +VLV+++ RG+DVE V+ V+N+D P +
Sbjct: 295 LLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNE 354
Query: 418 TYIHRAGRTARAGQLGRCFTLL---HKDEV-----KRFKKLLQKADND 457
TY+HR GRT R G+ G ++ H + + F K +++ D D
Sbjct: 355 TYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTD 402
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 89/381 (23%), Positives = 160/381 (41%), Gaps = 81/381 (21%)
Query: 70 RDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVG 129
R++ S +G+GKT +++L ++ T N +A+ + P+R+LA Q +V
Sbjct: 45 RNMIAQSQSGTGKTAAFSLTML-TRVNPEDASPQAICLAPSRELARQTLEV--------- 94
Query: 130 LSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINA 189
+ E+ K K+ + + P+ + Q ++V TPG ++D +
Sbjct: 95 ---------------VQEMGKFTKITSQLIV-PDSFEKNKQINAQVIVGTPGTVLDLMR- 137
Query: 190 TRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKT 249
+ L+ + V+DE D +L + Q +++ R FLP K
Sbjct: 138 RKLMQLQKIKIFVLDEADNMLDQ--QGLGDQCIRVKR------------FLP------KD 177
Query: 250 IRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLES 309
+ F D K+V +A + +D L++ K E
Sbjct: 178 TQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTEL 237
Query: 310 YKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYS--- 366
Y L+ ++G I+F ++ ++ + L +G+L+ + E S
Sbjct: 238 YGLM---------------TIGS--SIIFVATKKTANVL------YGKLKSEGHEVSILH 274
Query: 367 -GLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIK------TY 419
LQ Q R + + FREG+ +VL++++ + RG+D+ V+ VVNYD P TY
Sbjct: 275 GDLQTQE-RDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATY 333
Query: 420 IHRAGRTARAGQLGRCFTLLH 440
IHR GRT R G+ G + +H
Sbjct: 334 IHRIGRTGRFGRKGVAISFVH 354
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 91/408 (22%), Positives = 169/408 (41%), Gaps = 90/408 (22%)
Query: 70 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVLPTRDLALQVKDVFAAIA-- 125
++L S +G+GKT ++ L ++ + +N+ +CL + PT +LALQ V +
Sbjct: 81 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCL---CLSPTYELALQTGKVIEQMGKF 137
Query: 126 -PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLM 184
P + L+ + + +ISE I++ TPG ++
Sbjct: 138 YPELKLAYAVRGNKLERGQKISE--------------------------QIVIGTPGTVL 171
Query: 185 DHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAF 244
D + + + + V+DE D ++ A Q +++ R LP
Sbjct: 172 DWCSKLKFIDPKKIKVFVLDEADVMI--ATQGHQDQSIRIQR------------MLP--- 214
Query: 245 GSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLP 304
R C + ++ SAT K AQ + P + L
Sbjct: 215 ------RNCQM--------------LLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL- 253
Query: 305 ERLESYKLICESKLKPLY-LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIK 363
+ ++ Y ++C S+ + L L ++ + ++F + ++ L L+ G ++
Sbjct: 254 DTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGH---QVA 310
Query: 364 EYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI------K 417
SG R+ ++ FREGK +VLV+++ RG+DVE V+ V+N+D P +
Sbjct: 311 LLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNE 370
Query: 418 TYIHRAGRTARAGQLGRCFTLL---HKDEV-----KRFKKLLQKADND 457
TY+HR GRT R G+ G ++ H + + F K +++ D D
Sbjct: 371 TYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTD 418
>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 = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 89/381 (23%), Positives = 162/381 (42%), Gaps = 81/381 (21%)
Query: 70 RDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVG 129
R++ S +G+GKT +++L ++ T N +A+ + P+R+LA Q +V
Sbjct: 45 RNMIAQSQSGTGKTAAFSLTML-TRVNPEDASPQAICLAPSRELARQTLEV--------- 94
Query: 130 LSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINA 189
+ E+ K K+ + + P+ + Q ++V TPG ++D +
Sbjct: 95 ---------------VQEMGKFTKITSQLIV-PDSFEKNKQINAQVIVGTPGTVLDLMR- 137
Query: 190 TRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKT 249
+ L+ + V+DE D +L + Q +++ R FLP K
Sbjct: 138 RKLMQLQKIKIFVLDEADNMLDQ--QGLGDQCIRVKR------------FLP------KD 177
Query: 250 IRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLES 309
+ F D K+V +A + +D L++ +
Sbjct: 178 TQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYM-------DCKNEADK 230
Query: 310 YKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYS--- 366
+ ++ E LY V + S I+F ++ ++ + L +G+L+ + E S
Sbjct: 231 FDVLTE-----LYGVMTIGS-----SIIFVATKKTANVL------YGKLKSEGHEVSILH 274
Query: 367 -GLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIK------TY 419
LQ Q R + + FREG+ +VL++++ + RG+D+ V+ VVNYD P TY
Sbjct: 275 GDLQTQE-RDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATY 333
Query: 420 IHRAGRTARAGQLGRCFTLLH 440
IHR GRT R G+ G + +H
Sbjct: 334 IHRIGRTGRFGRKGVAISFVH 354
>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 = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 45/139 (32%), Positives = 70/139 (50%), Gaps = 4/139 (2%)
Query: 314 CESKLKPLYLVALLQSLGEEK-CIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQS 372
E K +L+ LL + G++ +VF + + L L H G I G + Q
Sbjct: 27 VEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIH---GDRSQR 83
Query: 373 VRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQL 432
R + L FR GK +LV++ RG+D+ V +V+N+D P+ I+ Y+HR GRT R G L
Sbjct: 84 DREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNL 143
Query: 433 GRCFTLLHKDEVKRFKKLL 451
G + ++ + K LL
Sbjct: 144 GLATSFFNERNINITKDLL 162
>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 = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 91/408 (22%), Positives = 169/408 (41%), Gaps = 90/408 (22%)
Query: 70 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVLPTRDLALQVKDVFAAIA-- 125
++L S +G+GKT ++ L ++ + +N+ +CL + PT +LALQ V +
Sbjct: 102 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCL---CLSPTYELALQTGKVIEQMGKF 158
Query: 126 -PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLM 184
P + L+ + + +ISE I++ TPG ++
Sbjct: 159 YPELKLAYAVRGNKLERGQKISE--------------------------QIVIGTPGTVL 192
Query: 185 DHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAF 244
D + + + + V+DE D ++ A Q +++ R LP
Sbjct: 193 DWCSKLKFIDPKKIKVFVLDEADVMI--ATQGHQDQSIRIQR------------MLP--- 235
Query: 245 GSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLP 304
R C + ++ SAT K AQ + P + L
Sbjct: 236 ------RNCQM--------------LLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL- 274
Query: 305 ERLESYKLICESKLKPLY-LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIK 363
+ ++ Y ++C S+ + L L ++ + ++F + ++ L L+ G ++
Sbjct: 275 DTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGH---QVA 331
Query: 364 EYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI------K 417
SG R+ ++ FREGK +VLV+++ RG+DVE V+ V+N+D P +
Sbjct: 332 LLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNE 391
Query: 418 TYIHRAGRTARAGQLGRCFTLL---HKDEV-----KRFKKLLQKADND 457
TY+HR GRT R G+ G ++ H + + F K +++ D D
Sbjct: 392 TYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTD 439
>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 = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 91/408 (22%), Positives = 169/408 (41%), Gaps = 90/408 (22%)
Query: 70 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVLPTRDLALQVKDVFAAIA-- 125
++L S +G+GKT ++ L ++ + +N+ +CL + PT +LALQ V +
Sbjct: 132 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCL---CLSPTYELALQTGKVIEQMGKF 188
Query: 126 -PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLM 184
P + L+ + + +ISE I++ TPG ++
Sbjct: 189 YPELKLAYAVRGNKLERGQKISE--------------------------QIVIGTPGTVL 222
Query: 185 DHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAF 244
D + + + + V+DE D ++ A Q +++ R LP
Sbjct: 223 DWCSKLKFIDPKKIKVFVLDEADVMI--ATQGHQDQSIRIQR------------MLP--- 265
Query: 245 GSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLP 304
R C + ++ SAT K AQ + P + L
Sbjct: 266 ------RNCQM--------------LLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL- 304
Query: 305 ERLESYKLICESKLKPLY-LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIK 363
+ ++ Y ++C S+ + L L ++ + ++F + ++ L L+ G ++
Sbjct: 305 DTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGH---QVA 361
Query: 364 EYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI------K 417
SG R+ ++ FREGK +VLV+++ RG+DVE V+ V+N+D P +
Sbjct: 362 LLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNE 421
Query: 418 TYIHRAGRTARAGQLGRCFTLL---HKDEV-----KRFKKLLQKADND 457
TY+HR GRT R G+ G ++ H + + F K +++ D D
Sbjct: 422 TYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTD 469
>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 = 72.0 bits (175), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 67/222 (30%), Positives = 101/222 (45%), Gaps = 40/222 (18%)
Query: 24 FEDCPLDHLPCLDPRLKVALQNMGISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKT 83
F+D PL P + AL G+++ P+Q A + L +DL + TG+GKT
Sbjct: 3 FKDFPLK------PEILEALHGRGLTTPTPIQAAA----LPLALEGKDLIGQARTGTGKT 52
Query: 84 LSYALPIVQTL--SNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSI 141
L++ALPI + L S R RALV+ PTR+LALQV A+AP L V G +
Sbjct: 53 LAFALPIAERLAPSQERGRKPRALVLTPTRELALQVASELTAVAPH--LKVVAVYGGTGY 110
Query: 142 ADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRG-FTLEHLCY 200
+ L++ D +VATPGR +D++ +G L +
Sbjct: 111 GKQKEALLR---------------------GADAVVATPGRALDYLR--QGVLDLSRVEV 147
Query: 201 LVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPS 242
V+DE D +L ++ + +L T + A+ LPS
Sbjct: 148 AVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSAT--LPS 187
>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 = 72.0 bits (175), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 42/125 (33%), Positives = 67/125 (53%), Gaps = 4/125 (3%)
Query: 323 LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFR 382
L +L + + CI+F + E ++L L+ G KI G Q R + F+
Sbjct: 26 LKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKI---HGGMIQEDRFDVMNEFK 82
Query: 383 EGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKD 442
G+ + LV++D RG+D+E ++ V+NYD P ++Y+HR GRT RAG G+ + +
Sbjct: 83 RGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAF 142
Query: 443 EVKRF 447
E KRF
Sbjct: 143 E-KRF 146
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 54/190 (28%), Positives = 93/190 (48%), Gaps = 25/190 (13%)
Query: 28 PLDHLPCLDPRLKVA---LQNMGISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTL 84
P+ LD K+ LQN+ + + F + + + I L R+L ++PTGSGKTL
Sbjct: 23 PIATFQQLDQEYKINSRLLQNI-LDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTL 81
Query: 85 SYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADE 144
++++PI+ L A + RAL++ PTR+LA Q+ I+ G + + + ++++A +
Sbjct: 82 AFSIPILMQLKQPANKGFRALIISPTRELASQIHRELIKISEGTGFRIHM-IHKAAVAAK 140
Query: 145 ISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINAT-RGFTLEHLCYLVV 203
+ P+ DILV TP RL+ + G L + +LVV
Sbjct: 141 --------------KFGPKS-----SKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVV 181
Query: 204 DETDRLLREA 213
DE+D+L +
Sbjct: 182 DESDKLFEDG 191
>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 = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 58/218 (26%), Positives = 108/218 (49%), Gaps = 37/218 (16%)
Query: 24 FEDCPLDHLPCLDPRLKVALQNMGISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKT 83
FED CL L + + MG P+Q +E+I L RD+ + G+GK+
Sbjct: 5 FEDY------CLKRELLMGIFEMGWEKPSPIQ----EESIPIALSGRDILARAKNGTGKS 54
Query: 84 LSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLA-VGQSSIA 142
+Y +P+++ L + ++A+V++PTR+LALQV + ++ +G + +A G +++
Sbjct: 55 GAYLIPLLERLDLKK-DNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLR 113
Query: 143 DEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFT-LEHLCYL 201
D+I L V +++ATPGR++D I +G ++H+ +
Sbjct: 114 DDI---------------------MRLDDTVHVVIATPGRILDLIK--KGVAKVDHVQMI 150
Query: 202 VVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTF 239
V+DE D+LL + + + ++ LT N ++TF
Sbjct: 151 VLDEADKLLSQDFVQIMEDII-LTLPKNRQILLYSATF 187
>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 = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 66/222 (29%), Positives = 101/222 (45%), Gaps = 40/222 (18%)
Query: 24 FEDCPLDHLPCLDPRLKVALQNMGISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKT 83
F+D PL P + AL G+++ P++ A + L +DL + TG+GKT
Sbjct: 3 FKDFPLK------PEILEALHGRGLTTPTPIEAAA----LPLALEGKDLIGQARTGTGKT 52
Query: 84 LSYALPIVQTL--SNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSI 141
L++ALPI + L S R RALV+ PTR+LALQV A+AP L V G +
Sbjct: 53 LAFALPIAERLAPSQERGRKPRALVLTPTRELALQVASELTAVAPH--LKVVAVYGGTGY 110
Query: 142 ADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRG-FTLEHLCY 200
+ L++ D +VATPGR +D++ +G L +
Sbjct: 111 GKQKEALLR---------------------GADAVVATPGRALDYLR--QGVLDLSRVEV 147
Query: 201 LVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPS 242
V+DE D +L ++ + +L T + A+ LPS
Sbjct: 148 AVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSAT--LPS 187
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 65.5 bits (158), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 46/168 (27%), Positives = 85/168 (50%), Gaps = 24/168 (14%)
Query: 57 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 116
A+ Q I P + D+ + +G+GKT ++A+ I+Q L + +ALV+ PTR+LA Q
Sbjct: 55 AIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEIE-FKETQALVLAPTRELAQQ 113
Query: 117 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQS-AVDI 175
++ V A+ +G + +G +++ +E +Q+LQ+ A I
Sbjct: 114 IQKVILALGDYMGATCHACIGGTNVRNE---------------------MQKLQAEAPHI 152
Query: 176 LVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQ 223
+V TPGR+ D +N R + + + V+DE D +L ++ + + Q
Sbjct: 153 VVGTPGRVFDMLN-RRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQ 199
>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 = 65.1 bits (157), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 44/133 (33%), Positives = 70/133 (52%), Gaps = 22/133 (16%)
Query: 318 LKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYS----GLQRQSV 373
L LY V + S I+F ++ ++ + L +G+L+ + E S LQ Q
Sbjct: 27 LTELYGVXTIGS-----SIIFVATKKTANVL------YGKLKSEGHEVSILHGDLQTQE- 74
Query: 374 RSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIK------TYIHRAGRTA 427
R + + FREG+ +VL++++ + RG+D+ V+ VVNYD P TYIHR GRT
Sbjct: 75 RDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTG 134
Query: 428 RAGQLGRCFTLLH 440
R G+ G + +H
Sbjct: 135 RFGRKGVAISFVH 147
>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 = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/168 (25%), Positives = 82/168 (48%), Gaps = 24/168 (14%)
Query: 57 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 116
A+ Q I P + D+ + +G+GKT ++++ +Q + + +V+ +AL++ PTR+LALQ
Sbjct: 39 AIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-DTSVKAPQALMLAPTRELALQ 97
Query: 117 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 176
++ V A+A + + V +G +S ++ L I+
Sbjct: 98 IQKVVMALAFHMDIKVHACIGGTSFVEDAEGL----------------------RDAQIV 135
Query: 177 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQL 224
V TPGR+ D+I R F + + ++DE D +L ++ + + L
Sbjct: 136 VGTPGRVFDNIQRRR-FRTDKIKMFILDEADEMLSSGFKEQIYQIFTL 182
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 64/116 (55%), Gaps = 17/116 (14%)
Query: 335 CIVFTSSVESTHRLCTLLNHFGELRIKIKEYS----GLQRQSVRSKTLKAFREGKIQVLV 390
I+F ++ ++ + L +G+L+ + E S LQ Q R + + FREG+ +VL+
Sbjct: 40 SIIFVATKKTANVL------YGKLKSEGHEVSILHGDLQTQE-RDRLIDDFREGRSKVLI 92
Query: 391 SSDAMTRGMDVEGVNNVVNYDKPAYIK------TYIHRAGRTARAGQLGRCFTLLH 440
+++ + RG+D+ V+ VVNYD P TYIHR GRT R G+ G + +H
Sbjct: 93 TTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVH 148
>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 = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 45/152 (29%), Positives = 77/152 (50%), Gaps = 12/152 (7%)
Query: 307 LESYKLICES-KLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEY 365
+ Y ++CE K K L + S+ + I+F + + L + G ++
Sbjct: 8 IRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGH---QVSLL 64
Query: 366 SGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYD-------KPAYIKT 418
SG R+ ++ FR+GK +VL++++ RG+DV+ V VVN+D +P Y +T
Sbjct: 65 SGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDY-ET 123
Query: 419 YIHRAGRTARAGQLGRCFTLLHKDEVKRFKKL 450
Y+HR GRT R G+ G F ++ DE+ K+
Sbjct: 124 YLHRIGRTGRFGKKGLAFNMIEVDELPSLMKI 155
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 64/116 (55%), Gaps = 17/116 (14%)
Query: 335 CIVFTSSVESTHRLCTLLNHFGELRIKIKEYS----GLQRQSVRSKTLKAFREGKIQVLV 390
I+F ++ ++ + L +G+L+ + E S LQ Q R + + FREG+ +VL+
Sbjct: 38 SIIFVATKKTANVL------YGKLKSEGHEVSILHGDLQTQE-RDRLIDDFREGRSKVLI 90
Query: 391 SSDAMTRGMDVEGVNNVVNYDKPAYIK------TYIHRAGRTARAGQLGRCFTLLH 440
+++ + RG+D+ V+ VVNYD P TYIHR GRT R G+ G + +H
Sbjct: 91 TTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVH 146
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/168 (25%), Positives = 82/168 (48%), Gaps = 24/168 (14%)
Query: 57 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 116
A+ Q I P + D+ + +G+GKT ++++ +Q + + +V+ +AL++ PTR+LALQ
Sbjct: 46 AIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-DTSVKAPQALMLAPTRELALQ 104
Query: 117 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 176
++ V A+A + + V +G +S ++ L I+
Sbjct: 105 IQKVVMALAFHMDIKVHACIGGTSFVEDAEGL----------------------RDAQIV 142
Query: 177 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQL 224
V TPGR+ D+I R F + + ++DE D +L ++ + + L
Sbjct: 143 VGTPGRVFDNIQRRR-FRTDKIKMFILDEADEMLSSGFKEQIYQIFTL 189
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 64/250 (25%), Positives = 106/250 (42%), Gaps = 71/250 (28%)
Query: 60 QETIGPGLFE-RDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLR--------ALVVLPT 110
Q+ P + E RD+ + TGSGKT ++ +PI+ L + + R L++ PT
Sbjct: 50 QKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPT 109
Query: 111 RDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICY---DPEDVLQ 167
R+LA+Q I E + L + + Y D ++
Sbjct: 110 RELAIQ------------------------ILSESQKFSLNTPLRSCVVYGGADTHSQIR 145
Query: 168 ELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRS 227
E+Q +LVATPGRL+D I + +LE Y+V+DE DR+L ++ P + ++
Sbjct: 146 EVQMGCHLLVATPGRLVDFIEKNK-ISLEFCKYIVLDEADRMLDMGFE---PQIRKIIEE 201
Query: 228 DNENRFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLD 287
N +PS G+ R ++ SAT ++ KLA
Sbjct: 202 SN----------MPS-----------GINRQ----------TLMFSATFPKEIQKLAADF 230
Query: 288 LHHPLFLTTG 297
L++ +F+T G
Sbjct: 231 LYNYIFMTVG 240
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 55/206 (26%), Positives = 92/206 (44%), Gaps = 32/206 (15%)
Query: 37 PRLKVALQNMGISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIV----- 91
P L ++ +GI P+Q W I G+ DL + + TG+GKTLSY +P
Sbjct: 29 PDLLKSIIRVGILKPTPIQSQAW-PIILQGI---DLIVVAQTGTGKTLSYLMPGFIHLDS 84
Query: 92 QTLSNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKR 151
Q +S LV+ PTR+LAL V+ + + S+ + G++
Sbjct: 85 QPISREQRNGPGMLVLTPTRELALHVEAECSKYSYKGLKSICIYGGRNRNGQ-------- 136
Query: 152 PKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLR 211
++++ VDI++ATPGRL D + L + YLV+DE D++L
Sbjct: 137 --------------IEDISKGVDIIIATPGRLND-LQMNNSVNLRSITYLVIDEADKMLD 181
Query: 212 EAYQAWLPTVLQLTRSDNENRFSDAS 237
++ + +L R D + + A+
Sbjct: 182 MEFEPQIRKILLDVRPDRQTVMTSAT 207
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 46/174 (26%), Positives = 85/174 (48%), Gaps = 22/174 (12%)
Query: 57 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 116
A+ Q I P + D+ + +G+G T ++A+ I+Q + + +ALV+ PTR+LA Q
Sbjct: 40 AIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQI-ELDLXATQALVLAPTRELAQQ 98
Query: 117 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 176
++ V A+ +G S +G +++ E+ L ++EA P I+
Sbjct: 99 IQXVVMALGDYMGASCHACIGGTNVRAEVQXL----QMEA-----PH-----------II 138
Query: 177 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNE 230
V TPGR+ D +N R + ++ V+DE D +L + + + Q S+ +
Sbjct: 139 VGTPGRVFDMLN-RRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQ 191
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 62.8 bits (151), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 50/174 (28%), Positives = 79/174 (45%), Gaps = 32/174 (18%)
Query: 71 DLCINSPTGSGKTLSYALPIVQTLSNRAVR-------CLRALVVLPTRDLALQVKDVFAA 123
D+ + TGSGKTLSY LP + ++++ CL V+ PTR+LA QV+ V A
Sbjct: 82 DMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICL---VLAPTRELAQQVQQVAAE 138
Query: 124 IAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRL 183
A L G + +I ++L+ V+I +ATPGRL
Sbjct: 139 YCRACRLKSTCIYGGAPKGPQI---------------------RDLERGVEICIATPGRL 177
Query: 184 MDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDAS 237
+D + + L YLV+DE DR+L ++ + ++ R D + A+
Sbjct: 178 IDFLECGKT-NLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSAT 230
>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 = 62.0 bits (149), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 50/174 (28%), Positives = 79/174 (45%), Gaps = 32/174 (18%)
Query: 71 DLCINSPTGSGKTLSYALPIVQTLSNRAVR-------CLRALVVLPTRDLALQVKDVFAA 123
D+ + TGSGKTLSY LP + ++++ CL V+ PTR+LA QV+ V A
Sbjct: 68 DMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICL---VLAPTRELAQQVQQVAAE 124
Query: 124 IAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRL 183
A L G + +I ++L+ V+I +ATPGRL
Sbjct: 125 YCRACRLKSTCIYGGAPKGPQI---------------------RDLERGVEICIATPGRL 163
Query: 184 MDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDAS 237
+D + + L YLV+DE DR+L ++ + ++ R D + A+
Sbjct: 164 IDFLECGKT-NLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSAT 216
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 58.9 bits (141), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 50/174 (28%), Positives = 77/174 (44%), Gaps = 14/174 (8%)
Query: 307 LESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL--NHFGELRIKIKE 364
L+ Y + + K L LL L + ++F SV+ L LL +F + I
Sbjct: 6 LQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI---- 61
Query: 365 YSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAG 424
+ G+ Q R + F++ + ++LV+++ RGMD+E VN NYD P TY+HR
Sbjct: 62 HRGMP-QEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVA 120
Query: 425 RTARAGQLGRCFTLLHKDEVKRFKKLLQKADNDSCPIHSIP-----SSLIESLR 473
R R G G T + + + +Q D I +P SS IE R
Sbjct: 121 RAGRFGTKGLAITFVSDENDAKILNDVQ--DRFEVNISELPDEIDISSYIEQTR 172
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 55.8 bits (133), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 58/116 (50%), Gaps = 15/116 (12%)
Query: 308 ESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL--NHFGELRIKIKEY 365
E YK C L L S+ + ++F ++ L T L + F I Y
Sbjct: 14 EEYKYEC--------LTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI----Y 61
Query: 366 SGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIH 421
S L +Q R +K FR G ++L+S+D + RG+DV+ V+ V+NYD PA + YIH
Sbjct: 62 SDLPQQE-RDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 116
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 48/96 (50%), Gaps = 3/96 (3%)
Query: 326 LLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGK 385
LL ++ +VFT + T + L G + G Q R + + AFR+G+
Sbjct: 22 LLYVASPDRAMVFTRTKAETEEIAQGLLRLGH---PAQALHGDMSQGERERVMGAFRQGE 78
Query: 386 IQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIH 421
++VLV++D RG+D+ V+ VV+Y P + Y H
Sbjct: 79 VRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQH 114
>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 = 52.0 bits (123), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 48/96 (50%), Gaps = 3/96 (3%)
Query: 326 LLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGK 385
LL ++ +VFT + T + L G + G Q R + L AFR+G+
Sbjct: 25 LLYVASPDRAMVFTRTKAETEEIAQGLLRLGH---PAQALHGDLSQGERERVLGAFRQGE 81
Query: 386 IQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIH 421
++VLV++D RG+D+ V+ VV+Y P + Y H
Sbjct: 82 VRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>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 = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 46/181 (25%), Positives = 80/181 (44%), Gaps = 31/181 (17%)
Query: 35 LDPRLKVALQNMGISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTL 94
L P L A+ + G VQ E I + D+ + +G GKT + L +Q L
Sbjct: 21 LKPELLRAIVDCGFEHPSEVQ----HECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL 76
Query: 95 SNRAVRCLRALVVLPTRDLALQVK---DVFAAIAPAVGLSVGLAVGQSSIADEISELIKR 151
+ + LV+ TR+LA Q+ + F+ P V ++V G S DE E++K+
Sbjct: 77 EPVTGQ-VSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFG-GLSIKKDE--EVLKK 132
Query: 152 PKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLR 211
+ I+V TPGR++ + + L+H+ + ++DE D++L
Sbjct: 133 -------------------NCPHIVVGTPGRILA-LARNKSLNLKHIKHFILDECDKMLE 172
Query: 212 E 212
+
Sbjct: 173 Q 173
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/111 (29%), Positives = 54/111 (48%), Gaps = 9/111 (8%)
Query: 35 LDPRLKVALQNMGISSLFPVQVAVWQETIGPGLFE-RDLCINSPTGSGKTLSYALPIVQT 93
+D R+K L+ GI S +P Q E + G+ E ++ I+ PT SGKTL + +V
Sbjct: 8 VDERIKSTLKERGIESFYPPQA----EALKSGILEGKNALISIPTASGKTLIAEIAMVHR 63
Query: 94 LSNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADE 144
+ + +A+ ++P + LA + F +GL V +A G DE
Sbjct: 64 ILTQGG---KAVYIVPLKALAEEKFQEFQD-WEKIGLRVAMATGDYDSKDE 110
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 41/160 (25%), Positives = 67/160 (41%), Gaps = 28/160 (17%)
Query: 60 QETIGPGLFERDLCI-NSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVK 118
QE I PG + + S TG+GKT +Y LPI + + ++A++ PTR+LA Q+
Sbjct: 31 QERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKIKPERAE-VQAVITAPTRELATQI- 88
Query: 119 DVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICY----DPEDVLQELQSAVD 174
+I++ + + C D + L++L
Sbjct: 89 --------------------YHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLNVQPH 128
Query: 175 ILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAY 214
I++ TPGR+ D I + + LVVDE D L +
Sbjct: 129 IVIGTPGRINDFIRE-QALDVHTAHILVVDEADLXLDXGF 167
>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 = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 53/121 (43%), Gaps = 8/121 (6%)
Query: 308 ESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSG 367
E+ ++ SK K L +L+ ++K I+FT E +R+ + I +
Sbjct: 325 EARRIAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVF--------LIPAITH 376
Query: 368 LQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTA 427
+ R + L+ FR G+ + +VSS + G+DV N V + YI R GR
Sbjct: 377 RTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRIL 436
Query: 428 R 428
R
Sbjct: 437 R 437
Score = 28.9 bits (63), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 28/53 (52%), Gaps = 7/53 (13%)
Query: 67 LFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKD 119
L ++ CI PTGSGKT A+ + LS L+V+PT LA Q K+
Sbjct: 106 LVDKRGCIVLPTGSGKT-HVAMAAINELST------PTLIVVPTLALAEQWKE 151
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 40/124 (32%), Positives = 56/124 (45%), Gaps = 14/124 (11%)
Query: 327 LQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQR--------QSVRSKTL 378
LQ K IVFT+ E+ ++ L G IK K + G Q + L
Sbjct: 356 LQRKQNSKIIVFTNYRETAKKIVNELVKDG---IKAKRFVGQASKENDRGLSQREQKLIL 412
Query: 379 KAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDK-PAYIKTYIHRAGRTARAGQLGRCFT 437
F G+ VLV++ G+DV V+ VV Y+ P+ I++ I R GRT R GR
Sbjct: 413 DEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRS-IQRRGRTGRH-MPGRVII 470
Query: 438 LLHK 441
L+ K
Sbjct: 471 LMAK 474
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 48/184 (26%), Positives = 74/184 (40%), Gaps = 36/184 (19%)
Query: 54 VQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDL 113
+Q ++QE I E + I PTG GKTL + L+ + L++ PT+ L
Sbjct: 8 IQPRIYQEVIYAKCKETNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKV---LMLAPTKPL 64
Query: 114 ALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAV 173
LQ + F + + G+ S +E S+ R K
Sbjct: 65 VLQHAESFRRLFNLPPEKIVALTGEKS-PEERSKAWARAK-------------------- 103
Query: 174 DILVATPGRLMDHINATRGFTLEHLCYLVVDETDR---------LLRE-AYQAWLPTVLQ 223
++VATP + + + A R +LE + +V DE R + RE QA P V+
Sbjct: 104 -VIVATPQTIENDLLAGR-ISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIG 161
Query: 224 LTRS 227
LT S
Sbjct: 162 LTAS 165
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 53/121 (43%), Gaps = 8/121 (6%)
Query: 308 ESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSG 367
E+ ++ SK K L +L+ ++K I+FT E +R+ + I +
Sbjct: 90 EARRIAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVF--------LIPAITH 141
Query: 368 LQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTA 427
+ R + L+ FR G+ + +VSS + G+DV N V + YI R GR
Sbjct: 142 RTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRIL 201
Query: 428 R 428
R
Sbjct: 202 R 202
>pdb|2IBM|A Chain A, A Novel Dimer Interface And Conformational Changes
Revealed By An X- Ray Structure Of B. Subtilis Seca
pdb|2IBM|B Chain B, A Novel Dimer Interface And Conformational Changes
Revealed By An X- Ray Structure Of B. Subtilis Seca
Length = 780
Score = 37.0 bits (84), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 48 ISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPI-VQTLSNRAVRCLRALV 106
++ +FP +V + G L + ++ TG GKTL+ LP+ + L+ + V +
Sbjct: 76 VTGMFPFKVQLMG---GVALHDGNIA-EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE 131
Query: 107 VLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVL 166
L +RD A Q+ +F + GL+VGL + S DE KR A I Y + L
Sbjct: 132 YLASRD-AEQMGKIFEFL----GLTVGLNLNSMS-KDE-----KREAYAADITYSTNNEL 180
>pdb|3DL8|A Chain A, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
pdb|3DL8|B Chain B, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
Length = 779
Score = 37.0 bits (84), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 48 ISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPI-VQTLSNRAVRCLRALV 106
++ +FP +V + G L + ++ TG GKTL+ LP+ + L+ + V +
Sbjct: 76 VTGMFPFKVQLMG---GVALHDGNIA-EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE 131
Query: 107 VLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVL 166
L +RD A Q+ +F + GL+VGL + S DE KR A I Y + L
Sbjct: 132 YLASRD-AEQMGKIFEFL----GLTVGLNLNSMS-KDE-----KREAYAADITYSTNNEL 180
>pdb|3JV2|A Chain A, Crystal Structure Of B. Subtilis Seca With Bound Peptide
pdb|3JV2|B Chain B, Crystal Structure Of B. Subtilis Seca With Bound Peptide
Length = 783
Score = 37.0 bits (84), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 48 ISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPI-VQTLSNRAVRCLRALV 106
++ +FP +V + G L + ++ TG GKTL+ LP+ + L+ + V +
Sbjct: 79 VTGMFPFKVQLMG---GVALHDGNIA-EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE 134
Query: 107 VLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVL 166
L +RD A Q+ +F + GL+VGL + S DE KR A I Y + L
Sbjct: 135 YLASRD-AEQMGKIFEFL----GLTVGLNLNSMS-KDE-----KREAYAADITYSTNNEL 183
>pdb|1M6N|A Chain A, Crystal Structure Of The Seca Translocation Atpase From
Bacillus Subtilis
pdb|1M74|A Chain A, Crystal Structure Of Mg-Adp-Bound Seca From Bacillus
Subtilis
Length = 802
Score = 37.0 bits (84), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 48 ISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPI-VQTLSNRAVRCLRALV 106
++ +FP +V + G L + ++ TG GKTL+ LP+ + L+ + V +
Sbjct: 76 VTGMFPFKVQLMG---GVALHDGNIA-EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE 131
Query: 107 VLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVL 166
L +RD A Q+ +F + GL+VGL + S DE KR A I Y + L
Sbjct: 132 YLASRD-AEQMGKIFEFL----GLTVGLNLNSMS-KDE-----KREAYAADITYSTNNEL 180
>pdb|3IQM|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 802
Score = 36.6 bits (83), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 48 ISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPI-VQTLSNRAVRCLRALV 106
++ +FP +V + G L + ++ TG GKTL+ LP+ + L+ + V +
Sbjct: 76 VTGMFPFKVQLMG---GVALHDGNIA-EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE 131
Query: 107 VLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVL 166
L +RD A Q+ +F + GL+VGL + S DE KR A I Y + L
Sbjct: 132 YLASRD-AEQMGKIFEFL----GLTVGLNLNSMS-KDE-----KREAYAADITYSTNNEL 180
>pdb|3IQY|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 841
Score = 36.6 bits (83), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 48 ISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPI-VQTLSNRAVRCLRALV 106
++ +FP +V + G L + ++ TG GKTL+ LP+ + L+ + V +
Sbjct: 76 VTGMFPFKVQLMG---GVALHDGNIA-EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE 131
Query: 107 VLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVL 166
L +RD A Q+ +F + GL+VGL + S DE KR A I Y + L
Sbjct: 132 YLASRD-AEQMGKIFEFL----GLTVGLNLNSMS-KDE-----KREAYAADITYSTNNEL 180
>pdb|1TF2|A Chain A, Crystal Structure Of Seca:adp In An Open Conformation From
Bacillus Subtilis
pdb|1TF5|A Chain A, Crystal Structure Of Seca In An Open Conformation From
Bacillus Subtilis
Length = 844
Score = 36.6 bits (83), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 48 ISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPI-VQTLSNRAVRCLRALV 106
++ +FP +V + G L + ++ TG GKTL+ LP+ + L+ + V +
Sbjct: 79 VTGMFPFKVQLMG---GVALHDGNIA-EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE 134
Query: 107 VLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVL 166
L +RD A Q+ +F + GL+VGL + S DE KR A I Y + L
Sbjct: 135 YLASRD-AEQMGKIFEFL----GLTVGLNLNSMS-KDE-----KREAYAADITYSTNNEL 183
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 36.6 bits (83), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 35/70 (50%), Gaps = 1/70 (1%)
Query: 371 QSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHR-AGRTARA 429
Q + + + F EG+ +LVS+ + G+DV N +V + + +H+ GR R
Sbjct: 625 QEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLAQLHQLRGRVGRG 684
Query: 430 GQLGRCFTLL 439
GQ CF ++
Sbjct: 685 GQEAYCFLVV 694
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 35.0 bits (79), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 48/182 (26%), Positives = 71/182 (39%), Gaps = 38/182 (20%)
Query: 29 LDHLPCLDPRLKVA----LQNMGISSLFPVQVAVWQETIGPGLFERD-LCINSPTGSGKT 83
L+ +P D +L ++ GI L P Q E + GL E + L + SPTGSGKT
Sbjct: 5 LEWMPIEDLKLPSNVIEIIKKRGIKKLNPPQT----EAVKKGLLEGNRLLLTSPTGSGKT 60
Query: 84 LSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIAD 143
L + I+ L +A+ V P R L + F +G V + G
Sbjct: 61 LIAEMGIISFLLKNGG---KAIYVTPLRALTNEKYLTFKD-WELIGFKVAMTSGD----- 111
Query: 144 EISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVV 203
YD +D + DI++ T +L D + R L + Y V+
Sbjct: 112 ----------------YDTDDAWLK---NYDIIITTYEKL-DSLWRHRPEWLNEVNYFVL 151
Query: 204 DE 205
DE
Sbjct: 152 DE 153
>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 = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 40/86 (46%), Gaps = 11/86 (12%)
Query: 336 IVFTSSVESTHRLCTLLNH---FGELRIKIKEYSGLQR--------QSVRSKTLKAFREG 384
I+FT + +S + L + F E+ +K G Q+ + + + FR G
Sbjct: 404 IIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTG 463
Query: 385 KIQVLVSSDAMTRGMDVEGVNNVVNY 410
KI +L+++ G+D++ N V+ Y
Sbjct: 464 KINLLIATTVAEEGLDIKECNIVIRY 489
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 33.9 bits (76), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 42/181 (23%), Positives = 75/181 (41%), Gaps = 30/181 (16%)
Query: 243 AFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYK 302
A+ LKT E+ F+ VLS + + D + + LFL + K
Sbjct: 76 AYNHLKTFYNDEKEKKFE----------VLSGSGSLDESDI----FLXTLFLRNKKILKK 121
Query: 303 LPER--LESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL---NHFGE 357
L E E+ KL +KL+ ++ + I+FT + +S + L + F E
Sbjct: 122 LAENPEYENEKL---TKLRNTIXEHFTRTEESARGIIFTKTRQSAYALSQWITDNKKFAE 178
Query: 358 LRIKIKEYSGLQR--------QSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVN 409
+ +K G Q+ + + + FR GKI +L+++ G+D++ N V+
Sbjct: 179 VGVKAHHLIGAGHSSEFKPXTQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIR 238
Query: 410 Y 410
Y
Sbjct: 239 Y 239
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 31/146 (21%), Positives = 62/146 (42%), Gaps = 34/146 (23%)
Query: 70 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVLPTRDLALQVKDVFAAIA-- 125
++L S +G+GKT ++ L ++ + +N+ +CL + PT +LALQ V +
Sbjct: 65 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCL---CLSPTYELALQTGKVIEQMGKF 121
Query: 126 -PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLM 184
P + L+ + + +ISE I++ TPG ++
Sbjct: 122 YPELKLAYAVRGNKLERGQKISE--------------------------QIVIGTPGTVL 155
Query: 185 DHINATRGFTLEHLCYLVVDETDRLL 210
D + + + + V+DE D ++
Sbjct: 156 DWCSKLKFIDPKKIKVFVLDEADVMI 181
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 33.1 bits (74), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 31/146 (21%), Positives = 62/146 (42%), Gaps = 34/146 (23%)
Query: 70 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVLPTRDLALQVKDVFAAIA-- 125
++L S +G+GKT ++ L ++ + +N+ +CL + PT +LALQ V +
Sbjct: 132 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCL---CLSPTYELALQTGKVIEQMGKF 188
Query: 126 -PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLM 184
P + L+ + + +ISE I++ TPG ++
Sbjct: 189 YPELKLAYAVRGNKLERGQKISE--------------------------QIVIGTPGTVL 222
Query: 185 DHINATRGFTLEHLCYLVVDETDRLL 210
D + + + + V+DE D ++
Sbjct: 223 DWCSKLKFIDPKKIKVFVLDEADVMI 248
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 32.0 bits (71), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 50/116 (43%), Gaps = 16/116 (13%)
Query: 35 LDPRLKVALQNMGISSLF--------PVQVAVWQETIGPGLFERDLCINSPTGSGKTLSY 86
L P AL+N SL+ P+Q V+ + ++ + +PTGSGKT+
Sbjct: 903 LQPLPVSALRNSAFESLYQDKFPFFNPIQTQVFNTVYNS---DDNVFVGAPTGSGKTICA 959
Query: 87 ALPIVQT-LSNRAVRCLRALVVLPTRDLALQV-KDVFAAIAPAVGLSVGLAVGQSS 140
I++ L + RC + + P LA QV D + + V L G++S
Sbjct: 960 EFAILRMLLQSSEGRC---VYITPMEALAEQVYMDWYEKFQDRLNKKVVLLTGETS 1012
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 31.6 bits (70), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 50/116 (43%), Gaps = 16/116 (13%)
Query: 35 LDPRLKVALQNMGISSLF--------PVQVAVWQETIGPGLFERDLCINSPTGSGKTLSY 86
L P AL+N SL+ P+Q V+ + ++ + +PTGSGKT+
Sbjct: 903 LQPLPVSALRNSAFESLYQDKFPFFNPIQTQVFNTVYNS---DDNVFVGAPTGSGKTICA 959
Query: 87 ALPIVQT-LSNRAVRCLRALVVLPTRDLALQV-KDVFAAIAPAVGLSVGLAVGQSS 140
I++ L + RC + + P LA QV D + + V L G++S
Sbjct: 960 EFAILRMLLQSSEGRC---VYITPMEALAEQVYMDWYEKFQDRLNKKVVLLTGETS 1012
>pdb|3MCA|B Chain B, Structure Of The Dom34-Hbs1 Complex And Implications For
Its Role In No-Go Decay
Length = 390
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 49/121 (40%), Gaps = 30/121 (24%)
Query: 332 EEKCIVFTSSVESTHRLCTLLN------------HFGELRIKIKEYSGLQRQSVRS---- 375
+ K ++ SS H L +L + E+R+ K Y + ++
Sbjct: 237 KNKFVILHSSTGHIHSLNEILKDPAVESKLADTKYVQEIRVLNKFYDVMNEDDRKAWYGP 296
Query: 376 -KTLKAFREGKIQVLVSSDAMTRGMD----------VEGVNNVVNYDKPAYIKTYIHRAG 424
LKAF G I L+ SD++ R D VEGV + + P YI + +H +G
Sbjct: 297 NHVLKAFELGAIGELLISDSLFRSSDIATRKKWVSLVEGVKEI---NCPVYIFSSLHESG 353
Query: 425 R 425
+
Sbjct: 354 K 354
>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 = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 32/143 (22%), Positives = 66/143 (46%), Gaps = 20/143 (13%)
Query: 351 LLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVN--NVV 408
L ++ E+ IK+ + R + ++ R GK VLV + + G+D+ V+ ++
Sbjct: 467 LTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAIL 526
Query: 409 NYDKPAYI---KTYIHRAGRTARAGQLGRCFTLLHK---------DEVKRFKKLLQKADN 456
+ DK ++ ++ I GR AR + GR K +E KR ++ ++ +
Sbjct: 527 DADKEGFLRSERSLIQTIGRAARNAE-GRVIMYADKITKSMEIAINETKRRREQQERFNE 585
Query: 457 DSCPIHSI-PSSLIESLRPVYKS 478
+ H I P ++ + +R V ++
Sbjct: 586 E----HGITPKTINKEIRDVIRA 604
>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 = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 32/143 (22%), Positives = 66/143 (46%), Gaps = 20/143 (13%)
Query: 351 LLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVN--NVV 408
L ++ E+ IK+ + R + ++ R GK VLV + + G+D+ V+ ++
Sbjct: 461 LTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAIL 520
Query: 409 NYDKPAYI---KTYIHRAGRTARAGQLGRCFTLLHK---------DEVKRFKKLLQKADN 456
+ DK ++ ++ I GR AR + GR K +E KR ++ ++ +
Sbjct: 521 DADKEGFLRSERSLIQTIGRAARNAE-GRVIMYADKITKSMEIAINETKRRREQQERFNE 579
Query: 457 DSCPIHSI-PSSLIESLRPVYKS 478
+ H I P ++ + +R V ++
Sbjct: 580 E----HGITPKTINKEIRDVIRA 598
>pdb|3P8C|A Chain A, Structure And Control Of The Actin Regulatory Wave Complex
Length = 1253
Score = 29.6 bits (65), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 305 ERLESYKLICESKLKPLYLVALLQSLG--EEKCIVFTSSVESTHRLCTLLNHFGELRIKI 362
ERL++ ESK PL+LV L++ LG ++ I + + RLC L+ F + +I
Sbjct: 1041 ERLDAKMKRLESKYAPLHLVPLIERLGTPQQIAIAREGDLLTKERLCCGLSMFEVILTRI 1100
Query: 363 KEY 365
+ +
Sbjct: 1101 RSF 1103
>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 = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 20/100 (20%), Positives = 42/100 (42%), Gaps = 3/100 (3%)
Query: 336 IVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAM 395
I++ S + + ++ L + G I Y ++ + + +IQV+V++ A
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLG---IHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAF 327
Query: 396 TRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRC 435
G+D V V+++ ++ Y +GR R C
Sbjct: 328 GMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADC 367
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 30/53 (56%), Gaps = 5/53 (9%)
Query: 38 RLKVALQNM-GISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALP 89
++K LQN+ + P+Q+ ETI + +++ + PTG GK+L Y LP
Sbjct: 31 KVKDILQNVFKLEKFRPLQL----ETINVTMAGKEVFLVMPTGGGKSLCYQLP 79
>pdb|3BXJ|A Chain A, Crystal Structure Of The C2-Gap Fragment Of Syngap
pdb|3BXJ|B Chain B, Crystal Structure Of The C2-Gap Fragment Of Syngap
Length = 483
Score = 29.6 bits (65), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 32/124 (25%), Positives = 47/124 (37%), Gaps = 23/124 (18%)
Query: 136 VGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTL 195
+GQ + D I E I+ Y+ E+ VD + T L +H R
Sbjct: 250 IGQKYLKDAIGEFIR-------ALYESEE-----NCEVDPIKCTASSLAEHQANLRMCCE 297
Query: 196 EHLCYLVVDET--DRLLREAYQAWLPTVLQLTRSDNENRFSDASTFL---------PSAF 244
LC +V R L+E + +W + R D +R AS FL PS F
Sbjct: 298 LALCKVVNSHCVFPRELKEVFASWRLRCAERGREDIADRLISASLFLRFLCPAIMSPSLF 357
Query: 245 GSLK 248
G ++
Sbjct: 358 GLMQ 361
>pdb|4E08|A Chain A, Crystal Structure Of Drosophila Melanogaster Dj-1beta
pdb|4E08|B Chain B, Crystal Structure Of Drosophila Melanogaster Dj-1beta
Length = 190
Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 1/69 (1%)
Query: 95 SNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSS-IADEISELIKRPK 153
AV+C R + +LP LA D F + GL A+G+SS + D +
Sbjct: 42 GGEAVKCSRDVQILPDTSLAQVASDKFDVVVLPGGLGGSNAMGESSLVGDLLRSQESGGG 101
Query: 154 LEAGICYDP 162
L A IC P
Sbjct: 102 LIAAICAAP 110
>pdb|2FZ4|A Chain A, Crystal Structure Of The N-Terminal Half Of Archaeoglobus
Fulgidus Xpb
Length = 237
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 28/53 (52%), Gaps = 7/53 (13%)
Query: 67 LFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKD 119
L ++ CI PTGSGKT A+ + LS L+V+PT LA Q K+
Sbjct: 106 LVDKRGCIVLPTGSGKT-HVAMAAINELST------PTLIVVPTLALAEQWKE 151
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
0.320 0.136 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,536,487
Number of Sequences: 62578
Number of extensions: 540471
Number of successful extensions: 1566
Number of sequences better than 100.0: 93
Number of HSP's better than 100.0 without gapping: 64
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 1393
Number of HSP's gapped (non-prelim): 133
length of query: 481
length of database: 14,973,337
effective HSP length: 103
effective length of query: 378
effective length of database: 8,527,803
effective search space: 3223509534
effective search space used: 3223509534
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)