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= 013826
(436 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 131 bits (329), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 113/428 (26%), Positives = 194/428 (45%), Gaps = 70/428 (16%)
Query: 1 MGI-SSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRA 59
MGI + F + +E I + RD+ + G+GKT ++ +P ++ + + + ++A
Sbjct: 34 MGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKVKPKLNK-IQA 92
Query: 60 LVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPED 119
L+++PTR+LALQ V + G+S + G +++ D D
Sbjct: 93 LIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRD--------------------D 132
Query: 120 VLQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQL 179
+L+ L V ILV TPGR++D + + + L ++DE D++L ++ + +L
Sbjct: 133 ILR-LNETVHILVGTPGRVLD-LASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQIL-- 188
Query: 180 TRSDNENRFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLA 239
+FLP SL +P VK + L +K
Sbjct: 189 -------------SFLPPTHQSL-----------LFSATFPLTVKEFMVKHL----HKPY 220
Query: 240 QLDLHHPLFLTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVES 299
+++L L L Y E E KL C L L L + I+F + S
Sbjct: 221 EINLMEELTLKGITQYYAFVE--ERQKLHC--------LNTLFSKLQINQAIIFCN---S 267
Query: 300 THRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGV 359
T+R+ L +L +Q R+K FR+GK++ LV SD +TRG+D++ V
Sbjct: 268 TNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAV 327
Query: 360 NNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQKADNDSCPIHSI 419
N V+N+D P +TY+HR GR+ R G LG L++ ++ K+ Q+ + I +I
Sbjct: 328 NVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQELGTE---IAAI 384
Query: 420 PSSLIESL 427
P+++ +SL
Sbjct: 385 PATIDKSL 392
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 128 bits (321), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 117/429 (27%), Positives = 192/429 (44%), Gaps = 82/429 (19%)
Query: 7 FPVQVAVWQETIGPGLF--ERDLCINSPTGSGKTLSYALPIVQTLSNRAVRC---LRALV 61
FP V Q+TI P L + D+ + TG+GKT ++ +PI Q L N ++A++
Sbjct: 41 FPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVI 100
Query: 62 VLPTRDLALQVKDVFAAIAPAVGLSVGLA-------VGQSSIADEISELIK-RPKLEAGI 113
V PTRDLALQ++ A + ++ GL VG + ++++ K RP
Sbjct: 101 VAPTRDLALQIE---AEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRP------ 151
Query: 114 CYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWL 173
+I++ATPGRL+D + + Y V+DE DRLL ++ L
Sbjct: 152 ---------------NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDL 196
Query: 174 PTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQ 233
T+ + N + T L SATL
Sbjct: 197 ETISGILNEKNSKSADNIKTLL-------------------------------FSATLDD 225
Query: 234 DPNKLAQ--LDLHHPLFL-TTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEE-- 288
KLA ++ LFL T + + ER++ +I E ++ A ++ + ++
Sbjct: 226 KVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIF--AAVEHIKKQIK 283
Query: 289 ------KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQ 342
K I+F +V+ T LC++L + + + I E+ G Q+ R+ +K F++ +
Sbjct: 284 ERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESG 343
Query: 343 VLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRF 402
+LV +D RGMD V+ V+ P+ + YIHR GRTAR+G+ G + KDE+ F
Sbjct: 344 ILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP-F 402
Query: 403 KKLLQKADN 411
+ L+ A N
Sbjct: 403 VRELEDAKN 411
>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 = 128 bits (321), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 117/429 (27%), Positives = 192/429 (44%), Gaps = 82/429 (19%)
Query: 7 FPVQVAVWQETIGPGLF--ERDLCINSPTGSGKTLSYALPIVQTLSNRAVRC---LRALV 61
FP V Q+TI P L + D+ + TG+GKT ++ +PI Q L N ++A++
Sbjct: 92 FPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVI 151
Query: 62 VLPTRDLALQVKDVFAAIAPAVGLSVGLA-------VGQSSIADEISELIK-RPKLEAGI 113
V PTRDLALQ++ A + ++ GL VG + ++++ K RP
Sbjct: 152 VAPTRDLALQIE---AEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRP------ 202
Query: 114 CYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWL 173
+I++ATPGRL+D + + Y V+DE DRLL ++ L
Sbjct: 203 ---------------NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDL 247
Query: 174 PTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQ 233
T+ + N + T L SATL
Sbjct: 248 ETISGILNEKNSKSADNIKTLL-------------------------------FSATLDD 276
Query: 234 DPNKLAQ--LDLHHPLFL-TTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEE-- 288
KLA ++ LFL T + + ER++ +I E ++ A ++ + ++
Sbjct: 277 KVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIF--AAVEHIKKQIK 334
Query: 289 ------KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQ 342
K I+F +V+ T LC++L + + + I E+ G Q+ R+ +K F++ +
Sbjct: 335 ERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESG 394
Query: 343 VLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRF 402
+LV +D RGMD V+ V+ P+ + YIHR GRTAR+G+ G + KDE+ F
Sbjct: 395 ILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP-F 453
Query: 403 KKLLQKADN 411
+ L+ A N
Sbjct: 454 VRELEDAKN 462
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 127 bits (319), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 117/427 (27%), Positives = 190/427 (44%), Gaps = 78/427 (18%)
Query: 7 FPVQVAVWQETIGPGLF--ERDLCINSPTGSGKTLSYALPIVQTLSNRAVRC---LRALV 61
FP V Q+TI P L + D+ + TG+GKT ++ +PI Q L N ++A++
Sbjct: 41 FPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVI 100
Query: 62 VLPTRDLALQVKDVFAAIAPAVGLSVGLA-------VGQSSIADEISELIK-RPKLEAGI 113
V PTRDLALQ++ A + ++ GL VG + ++++ K RP
Sbjct: 101 VAPTRDLALQIE---AEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRP------ 151
Query: 114 CYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWL 173
+I++ATPGRL+D + + Y V+DE DRLL ++ L
Sbjct: 152 ---------------NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDL 196
Query: 174 PTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQ 233
T+ + N + T L SATL
Sbjct: 197 ETISGILNEKNSKSADNIKTLL-------------------------------FSATLDD 225
Query: 234 DPNKLAQ--LDLHHPLFL-TTGETRYKLPERLESYKLICESKLKPLYLVA--LLQSLGEE 288
KLA ++ LFL T + + ER++ +I E ++ + + + E
Sbjct: 226 KVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKER 285
Query: 289 ----KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVL 344
K I+F +V+ T LC++L + + + I E+ G Q+ R+ +K F++ + +L
Sbjct: 286 DSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGIL 345
Query: 345 VSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKK 404
V +D RGMD V+ V+ P+ + YIHR GRTAR+G+ G + KDE+ F +
Sbjct: 346 VCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP-FVR 404
Query: 405 LLQKADN 411
L+ A N
Sbjct: 405 ELEDAKN 411
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 120 bits (300), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 111/404 (27%), Positives = 175/404 (43%), Gaps = 84/404 (20%)
Query: 24 ERDLCINSPTGSGKTLSYALPIV-QTLSNRAVRCLRA----------------LVVLPTR 66
+RDL + TGSGKT ++ LPI+ Q S+ LRA LV+ PTR
Sbjct: 52 KRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTR 111
Query: 67 DLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDV---LQE 123
+LA+Q I +E + R ++ + Y D+ +++
Sbjct: 112 ELAVQ------------------------IYEEARKFSYRSRVRPCVVYGGADIGQQIRD 147
Query: 124 LQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSD 183
L+ +LVATPGRL+D + + L+ YLV+DE DR+L ++ P + ++ D
Sbjct: 148 LERGCHLLVATPGRLVDMMERGK-IGLDFCKYLVLDEADRMLDMGFE---PQIRRIVEQD 203
Query: 184 NENRFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDL 243
T P K +R M+ SAT ++ LA+ L
Sbjct: 204 ---------TMPP------KGVRHT----------------MMFSATFPKEIQMLARDFL 232
Query: 244 HHPLFLTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEK-CIVFTSSVESTHR 302
+FL G E + + E K +L+ LL + G++ +VF + +
Sbjct: 233 DEYIFLAVGRVG-STSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADS 291
Query: 303 LCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNV 362
L L H G I G + Q R + L FR GK +LV++ RG+D+ V +V
Sbjct: 292 LEDFLYHEGYACTSIH---GDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHV 348
Query: 363 VNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLL 406
+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 = 120 bits (300), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 100/381 (26%), Positives = 176/381 (46%), Gaps = 74/381 (19%)
Query: 24 ERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAV 83
E ++ + TGSGKT S+A+P+++ ++ + A+++ PTR+LA+QV D ++
Sbjct: 44 EYNIVAQARTGSGKTASFAIPLIELVNEN--NGIEAIILTPTRELAIQVADEIESLKGNK 101
Query: 84 GLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHIN 143
L + G +I P+++A L++A +I+V TPGR++DHIN
Sbjct: 102 NLKIAKIYGGKAIY---------PQIKA------------LKNA-NIVVGTPGRILDHIN 139
Query: 144 ATRG-FTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSL 202
RG L+++ Y ++DE D L + + +L D R S P L
Sbjct: 140 --RGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDK--RILLFSATXPREI--L 193
Query: 203 KTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERL 262
++ + F +K ++A + Q ++ E ER
Sbjct: 194 NLAKKYXGDYSF--------IKAKINANIEQS-------------YVEVNEN-----ERF 227
Query: 263 ESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSG 322
E+ L LL++ E +VF + T L + L G K G
Sbjct: 228 EA-------------LCRLLKN-KEFYGLVFCKTKRDTKELASXLRDIG---FKAGAIHG 270
Query: 323 LQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTA 382
QS R K ++ F++ KI++L+++D +RG+DV +N V+NY P ++Y HR GRT
Sbjct: 271 DLSQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTG 330
Query: 383 RAGQLGRCFTLLHKDEVKRFK 403
RAG+ G+ +++++ E K+ +
Sbjct: 331 RAGKKGKAISIINRREYKKLR 351
>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 (269), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 96/375 (25%), Positives = 166/375 (44%), Gaps = 69/375 (18%)
Query: 25 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVL--PTRDLALQVKDVFAAIA 80
RDL + TGSGKT ++ LPI+ L + R VV+ PTR+LA+Q+ + A
Sbjct: 94 RDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFA 153
Query: 81 PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMD 140
L +G+ G +S + +E I R C+ +++ATPGRL+D
Sbjct: 154 FESYLKIGIVYGGTSFRHQ-NECITRG------CH--------------VVIATPGRLLD 192
Query: 141 HINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFG 200
++ T T E ++V+DE DR+L + + ++
Sbjct: 193 FVDRTF-ITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHV-------------------- 231
Query: 201 SLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPE 260
T+R P ++ SAT ++ ++A L + +F+ G +
Sbjct: 232 ---TMR-------------PEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSD 275
Query: 261 RLES-YKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKE 319
++ Y++ +K L + Q+ G IVF + L + L+ E
Sbjct: 276 VKQTIYEVNKYAKRSKLIEILSEQADG---TIVFVETKRGADFLASFLS---EKEFPTTS 329
Query: 320 YSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAG 379
G + QS R + L+ F+ G ++VL+++ +RG+D++ + +V+NYD P+ I Y+HR G
Sbjct: 330 IHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIG 389
Query: 380 RTARAGQLGRCFTLL 394
RT R G GR +
Sbjct: 390 RTGRVGNNGRATSFF 404
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 105 bits (263), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 107/419 (25%), Positives = 182/419 (43%), Gaps = 103/419 (24%)
Query: 1 MGISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRAL 60
MG + VQ +TI L +++ + + TGSGKT +YA+PI++ +++L
Sbjct: 12 MGFKNFTEVQ----SKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL-------GMKSL 60
Query: 61 VVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDV 120
VV PTR+L QV I + V G G+ Y +
Sbjct: 61 VVTPTRELTRQVASHIRDIGRYMDTKVAEVYG-------------------GMPYKAQ-- 99
Query: 121 LQELQSAVDILVATPGRLMDHINATRG-FTLEHLCYLVVDETDRLLREAYQAWLPTVLQL 179
+ +++A DI+VATPGRL+D ++G L +++DE D + + + +L
Sbjct: 100 INRVRNA-DIVVATPGRLLDL--WSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQ 156
Query: 180 TRSDNENRFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLA 239
T + R + + SAT+ ++ K+
Sbjct: 157 TSN--------------------------------------RKITGLFSATIPEEIRKVV 178
Query: 240 QLDLHHPLFLTTGETRYKLPERLESYKLICESKLKPLYL-------VALLQSLGEEKCIV 292
+ F+T E +E+ + + K +++ V L+ ++ IV
Sbjct: 179 K------DFITN-------YEEIEACIGLANVEHKFVHVKDDWRSKVQALRENKDKGVIV 225
Query: 293 FTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTR 352
F + +L L ++ ELR G QSVR++ + AFREG+ +L+++D +R
Sbjct: 226 FVRTRNRVAKLVRLFDNAIELR-------GDLPQSVRNRNIDAFREGEYDMLITTDVASR 278
Query: 353 GMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEV--KRFKKLLQKA 409
G+D+ V V+N+D P ++TYIHR GRT R G+ G T + + K KK+ QKA
Sbjct: 279 GLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILNEYWLEKEVKKVSQKA 337
>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 = 105 bits (261), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 87/396 (21%), Positives = 167/396 (42%), Gaps = 64/396 (16%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+Q
Sbjct: 63 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-DIQVRETQALILAPTRELAVQ 121
Query: 72 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 131
++ A+ + + +G +++ ++I ++L ++
Sbjct: 122 IQKGLLALGDYMNVQCHACIGGTNVGEDI---------------------RKLDYGQHVV 160
Query: 132 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 191
TPGR+ D I R + LV+DE D +L + ++ + D
Sbjct: 161 AGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFK---------------EQIYDV 204
Query: 192 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 251
+LP P +++SATL + ++ + P+ +
Sbjct: 205 YRYLP-----------------------PATQVVLISATLPHEILEMTNKFMTDPIRILV 241
Query: 252 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFG 311
L + + + + K L L +L + ++F ++ ++ L
Sbjct: 242 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMR 298
Query: 312 ELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI 371
E + G Q R +K FR G +VL+S+D RG+DV V+ ++NYD P
Sbjct: 299 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 358
Query: 372 KTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQ 407
+ 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 = 105 bits (261), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 88/396 (22%), Positives = 167/396 (42%), Gaps = 64/396 (16%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+Q
Sbjct: 26 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCL-DIQVRETQALILAPTRELAVQ 84
Query: 72 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 131
V+ A+ + + +G +++ ++I ++L ++
Sbjct: 85 VQKGLLALGDYMNVQSHACIGGTNVGEDI---------------------RKLDYGQHVV 123
Query: 132 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 191
TPGR+ D I R + LV+DE D +L + ++ + D
Sbjct: 124 AGTPGRVFDMIR-RRSLRTRAIKMLVLDEADEMLNKGFK---------------EQIYDV 167
Query: 192 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 251
+LP P +++SATL + ++ + P+ +
Sbjct: 168 YRYLP-----------------------PATQVVLISATLPHEVLEMTNKFMTDPIRILV 204
Query: 252 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFG 311
L + + + + K L L +L + ++F ++ ++ L
Sbjct: 205 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMR 261
Query: 312 ELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI 371
E + G Q R +K FR G +VL+S+D RG+DV V+ ++NYD P
Sbjct: 262 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 321
Query: 372 KTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQ 407
+ 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 = 105 bits (261), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 88/396 (22%), Positives = 169/396 (42%), Gaps = 64/396 (16%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+Q
Sbjct: 63 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-DIQVRETQALILAPTRELAVQ 121
Query: 72 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 131
++ A+ + + +G +++ ++I ++L ++
Sbjct: 122 IQKGLLALGDYMNVQCHACIGGTNVGEDI---------------------RKLDYGQHVV 160
Query: 132 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 191
TPGR+ D I R + LV+DE D +L + ++ + D
Sbjct: 161 AGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFK---------------EQIYDV 204
Query: 192 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 251
+LP P ++V ++SATL + ++ + P+ +
Sbjct: 205 YRYLP---------------------PATQVV--LISATLPHEILEMTNKFMTDPIRILV 241
Query: 252 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFG 311
L + + + + K L L +L + ++F ++ ++ L
Sbjct: 242 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMR 298
Query: 312 ELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI 371
E + G Q R +K FR G +VL+S+D RG+DV V+ ++NYD P
Sbjct: 299 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 358
Query: 372 KTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQ 407
+ YIHR GR+ R G+ G + D+++ + + Q
Sbjct: 359 ELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQ 394
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 105 bits (261), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 88/396 (22%), Positives = 167/396 (42%), Gaps = 64/396 (16%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+Q
Sbjct: 26 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCL-DIQVRETQALILAPTRELAVQ 84
Query: 72 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 131
V+ A+ + + +G +++ ++I ++L ++
Sbjct: 85 VQKGLLALGDYMNVQCHACIGGTNVGEDI---------------------RKLDYGQHVV 123
Query: 132 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 191
TPGR+ D I R + LV+DE D +L + ++ + D
Sbjct: 124 AGTPGRVFDMIR-RRSLRTRAIKMLVLDEADEMLNKGFK---------------EQIYDV 167
Query: 192 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 251
+LP P +++SATL + ++ + P+ +
Sbjct: 168 YRYLP-----------------------PATQVVLISATLPHEILEMTNKFMTDPIRILV 204
Query: 252 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFG 311
L + + + + K L L +L + ++F ++ ++ L
Sbjct: 205 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMR 261
Query: 312 ELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI 371
E + G Q R +K FR G +VL+S+D RG+DV V+ ++NYD P
Sbjct: 262 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 321
Query: 372 KTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQ 407
+ YIHR GR+ R G+ G + D+++ + + Q
Sbjct: 322 ELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQ 357
>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 = 104 bits (260), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 87/396 (21%), Positives = 167/396 (42%), Gaps = 64/396 (16%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+Q
Sbjct: 41 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-DIQVRETQALILAPTRELAVQ 99
Query: 72 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 131
++ A+ + + +G +++ ++I ++L ++
Sbjct: 100 IQKGLLALGDYMNVQCHACIGGTNVGEDI---------------------RKLDYGQHVV 138
Query: 132 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 191
TPGR+ D I R + LV+DE D +L + ++ + D
Sbjct: 139 AGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFK---------------EQIYDV 182
Query: 192 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 251
+LP P +++SATL + ++ + P+ +
Sbjct: 183 YRYLP-----------------------PATQVVLISATLPHEILEMTNKFMTDPIRILV 219
Query: 252 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFG 311
L + + + + K L L +L + ++F ++ ++ L
Sbjct: 220 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMR 276
Query: 312 ELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI 371
E + G Q R +K FR G +VL+S+D RG+DV V+ ++NYD P
Sbjct: 277 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 336
Query: 372 KTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQ 407
+ YIHR GR+ R G+ G + D+++ + + Q
Sbjct: 337 ELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQ 372
>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 = 7e-23, Method: Compositional matrix adjust.
Identities = 87/396 (21%), Positives = 167/396 (42%), Gaps = 64/396 (16%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+Q
Sbjct: 62 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-DIQVRETQALILAPTRELAVQ 120
Query: 72 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 131
++ A+ + + +G +++ ++I ++L ++
Sbjct: 121 IQKGLLALGDYMNVQCHACIGGTNVGEDI---------------------RKLDYGQHVV 159
Query: 132 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 191
TPGR+ D I R + LV+DE D +L + ++ + D
Sbjct: 160 AGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFK---------------EQIYDV 203
Query: 192 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 251
+LP P +++SATL + ++ + P+ +
Sbjct: 204 YRYLP-----------------------PATQVVLISATLPHEILEMTNKFMTDPIRILV 240
Query: 252 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFG 311
L + + + + K L L +L + ++F ++ ++ L
Sbjct: 241 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMR 297
Query: 312 ELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI 371
E + G Q R +K FR G +VL+S+D RG+DV V+ ++NYD P
Sbjct: 298 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 357
Query: 372 KTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQ 407
+ YIHR GR+ R G+ G + D+++ + + Q
Sbjct: 358 ELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQ 393
>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 (254), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 90/367 (24%), Positives = 162/367 (44%), Gaps = 69/367 (18%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I P + D+ + +G+GKT ++++ +Q + + +V+ +AL++ PTR+LALQ
Sbjct: 47 AIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-DTSVKAPQALMLAPTRELALQ 105
Query: 72 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 131
++ V A+A + + V +G +S ++ L I+
Sbjct: 106 IQKVVMALAFHMDIKVHACIGGTSFVEDAEGL----------------------RDAQIV 143
Query: 132 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 191
V TPGR+ D+I R F + + ++DE D +L ++ + +
Sbjct: 144 VGTPGRVFDNIQRRR-FRTDKIKMFILDEADEMLSSGFKEQIYQIF-------------- 188
Query: 192 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 251
T LP P ++LSAT+ D ++ + +P+ +
Sbjct: 189 -TLLP-----------------------PTTQVVLLSATMPNDVLEVTTKFMRNPVRILV 224
Query: 252 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL--NH 309
+ L + Y + E + K L L S+ + ++F ++ L T L +
Sbjct: 225 KKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDK 284
Query: 310 FGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPA 369
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: 370 YIKTYIH 376
+ 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 = 96.3 bits (238), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 89/374 (23%), Positives = 162/374 (43%), Gaps = 77/374 (20%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I P + D+ + +G+GKT ++A+ I+Q + ++ +ALV+ PTR+LA Q
Sbjct: 65 AIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIE-LDLKATQALVLAPTRELAQQ 123
Query: 72 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 131
++ V A+ +G S +G +++ E+ +L ++EA P I+
Sbjct: 124 IQKVVMALGDYMGASCHACIGGTNVRAEVQKL----QMEA-----PH-----------II 163
Query: 132 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 191
V TPGR+ D +N R + +++ V+DE D +L
Sbjct: 164 VGTPGRVFDMLN-RRYLSPKYIKMFVLDEADEML-------------------------- 196
Query: 192 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKM-------VLSATLTQDPNKLAQLDLH 244
RGFKD+ Y K+ +LSAT+ D ++ + +
Sbjct: 197 -------------------SRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMR 237
Query: 245 HPLFLTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLC 304
P+ + + L + Y + + K L L ++L + ++F + + ++
Sbjct: 238 DPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIF---INTRRKVD 294
Query: 305 TLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVN 364
L + G Q R ++ FR G +VL+++D + RG+DV+ V+ V+N
Sbjct: 295 WLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVIN 354
Query: 365 YDKPAYIKTYIHRA 378
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 = 96.3 bits (238), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 90/367 (24%), Positives = 156/367 (42%), Gaps = 69/367 (18%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I P + D+ + +G+GKT ++++ +Q + + +V+ +AL + PTR+LALQ
Sbjct: 46 AIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-DTSVKAPQALXLAPTRELALQ 104
Query: 72 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 131
++ V A+A + V +G +S ++ L I+
Sbjct: 105 IQKVVXALAFHXDIKVHACIGGTSFVEDAEGL----------------------RDAQIV 142
Query: 132 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 191
V TPGR+ D+I R F + + ++DE D L ++ + +
Sbjct: 143 VGTPGRVFDNIQRRR-FRTDKIKXFILDEADEXLSSGFKEQIYQIF-------------- 187
Query: 192 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTT 251
T LP P ++LSAT D ++ +P+ +
Sbjct: 188 -TLLP-----------------------PTTQVVLLSATXPNDVLEVTTKFXRNPVRILV 223
Query: 252 GETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL--NH 309
+ L + Y + E + K L L S+ + ++F ++ L T L +
Sbjct: 224 KKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDK 283
Query: 310 FGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPA 369
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: 370 YIKTYIH 376
+ 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 = 4e-20, Method: Compositional matrix adjust.
Identities = 89/374 (23%), Positives = 162/374 (43%), Gaps = 77/374 (20%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I P + D+ + +G+GKT ++A+ I+Q + ++ +ALV+ PTR+LA Q
Sbjct: 39 AIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIE-LDLKATQALVLAPTRELAQQ 97
Query: 72 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 131
++ V A+ +G S +G +++ E+ +L ++EA P I+
Sbjct: 98 IQKVVMALGDYMGASCHACIGGTNVRAEVQKL----QMEA-----PH-----------II 137
Query: 132 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDA 191
V TPGR+ D +N R + +++ V+DE D +L
Sbjct: 138 VGTPGRVFDMLNR-RYLSPKYIKMFVLDEADEML-------------------------- 170
Query: 192 STFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKM-------VLSATLTQDPNKLAQLDLH 244
RGFKD+ Y K+ +LSAT+ D ++ + +
Sbjct: 171 -------------------SRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMR 211
Query: 245 HPLFLTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLC 304
P+ + + L + Y + + K L L ++L + ++F + + ++
Sbjct: 212 DPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIF---INTRRKVD 268
Query: 305 TLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVN 364
L + G Q R ++ FR G +VL+++D + RG+DV+ V+ V+N
Sbjct: 269 WLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVIN 328
Query: 365 YDKPAYIKTYIHRA 378
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 = 95.1 bits (235), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 65/191 (34%), Positives = 98/191 (51%), Gaps = 31/191 (16%)
Query: 8 PVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRD 67
P ++ + E I L RD+ + TGSGKT ++ALPI+ L R L ALV+ PTR+
Sbjct: 66 PTKIQI--EAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQR-LFALVLTPTRE 122
Query: 68 LALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSA 127
LA Q+ + F A+ ++G+ + VG + L K+P
Sbjct: 123 LAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPH------------------- 163
Query: 128 VDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENR 187
I++ATPGRL+DH+ T+GF L L YLV+DE DR+L ++ + +L++ D +
Sbjct: 164 --IIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRK-- 219
Query: 188 FSDASTFLPSA 198
TFL SA
Sbjct: 220 -----TFLFSA 225
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 88.6 bits (218), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 96/388 (24%), Positives = 164/388 (42%), Gaps = 73/388 (18%)
Query: 13 VWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQV 72
V E I + D+ + +G GKT + L +Q L + LV+ TR+LA Q+
Sbjct: 33 VQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEP-VTGQVSVLVMCHTRELAFQI 91
Query: 73 K---DVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVD 129
+ F+ P V ++V G S DE E++K+ +
Sbjct: 92 SKEYERFSKYMPNVKVAVFFG-GLSIKKDE--EVLKK-------------------NCPH 129
Query: 130 ILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFS 189
I+V TPGR++ + + L+H+ + ++DE D++L + L + R
Sbjct: 130 IVVGTPGRIL-ALARNKSLNLKHIKHFILDEADKMLEQ---------LDMRRD------- 172
Query: 190 DASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPL-F 248
V+ F+ P+ + V M+ SATL+++ + + + P+
Sbjct: 173 --------------------VQEIFRMTPHEKQV-MMFSATLSKEIRPVCRKFMQDPMEI 211
Query: 249 LTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL- 307
ET+ L L+ Y + + K L LL L + ++F SV+ L LL
Sbjct: 212 FVDDETKLTL-HGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLV 270
Query: 308 -NHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYD 366
+F + I + G+ Q R + F++ + ++LV+++ RGMD+E VN NYD
Sbjct: 271 EQNFPAIAI----HRGMP-QEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYD 325
Query: 367 KPAYIKTYIHRAGRTARAGQLGRCFTLL 394
P TY+HR R R G G T +
Sbjct: 326 MPEDSDTYLHRVARAGRFGTKGLAITFV 353
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 88.2 bits (217), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 96/388 (24%), Positives = 165/388 (42%), Gaps = 73/388 (18%)
Query: 13 VWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQV 72
V E I + D+ + +G GKT + L +Q L + + LV+ TR+LA Q+
Sbjct: 34 VQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQ-VSVLVMCHTRELAFQI 92
Query: 73 K---DVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVD 129
+ F+ P V ++V G S DE E++K+ +
Sbjct: 93 SKEYERFSKYMPNVKVAVFFG-GLSIKKDE--EVLKK-------------------NCPH 130
Query: 130 ILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFS 189
I+V TPGR++ + + L+H+ + ++DE D++L + L + R
Sbjct: 131 IVVGTPGRIL-ALARNKSLNLKHIKHFILDECDKMLEQ---------LDMRRD------- 173
Query: 190 DASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPL-F 248
V+ F+ P+ + V M+ SATL+++ + + + P+
Sbjct: 174 --------------------VQEIFRMTPHEKQV-MMFSATLSKEIRPVCRKFMQDPMEI 212
Query: 249 LTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL- 307
ET+ L L+ Y + + K L LL L + ++F SV+ L LL
Sbjct: 213 FVDDETKLTL-HGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLV 271
Query: 308 -NHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYD 366
+F + I + G+ Q R + F++ + ++LV+++ RGMD+E VN NYD
Sbjct: 272 EQNFPAIAI----HRGMP-QEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYD 326
Query: 367 KPAYIKTYIHRAGRTARAGQLGRCFTLL 394
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 = 8e-18, Method: Compositional matrix adjust.
Identities = 96/388 (24%), Positives = 165/388 (42%), Gaps = 73/388 (18%)
Query: 13 VWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQV 72
V E I + D+ + +G GKT + L +Q L + + LV+ TR+LA Q+
Sbjct: 34 VQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQ-VSVLVMCHTRELAFQI 92
Query: 73 K---DVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVD 129
+ F+ P V ++V G S DE E++K+ +
Sbjct: 93 SKEYERFSKYMPNVKVAVFFG-GLSIKKDE--EVLKK-------------------NCPH 130
Query: 130 ILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFS 189
I+V TPGR++ + + L+H+ + ++DE D++L + L + R
Sbjct: 131 IVVGTPGRIL-ALARNKSLNLKHIKHFILDECDKMLEQ---------LDMRRD------- 173
Query: 190 DASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPL-F 248
V+ F+ P+ + V M+ SATL+++ + + + P+
Sbjct: 174 --------------------VQEIFRMTPHEKQV-MMFSATLSKEIRPVCRKFMQDPMEI 212
Query: 249 LTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL- 307
ET+ L L+ Y + + K L LL L + ++F SV+ L LL
Sbjct: 213 FVDDETKLTL-HGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLV 271
Query: 308 -NHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYD 366
+F + I + G+ Q R + F++ + ++LV+++ RGMD+E VN NYD
Sbjct: 272 EQNFPAIAI----HRGMP-QEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYD 326
Query: 367 KPAYIKTYIHRAGRTARAGQLGRCFTLL 394
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 = 82.8 bits (203), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 57/182 (31%), Positives = 93/182 (51%), Gaps = 28/182 (15%)
Query: 1 MGISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQ---TLSNRAVRCL 57
MG +++ +Q ++I P L RDL + TGSGKTL++ +P V+ L
Sbjct: 72 MGFTNMTEIQ----HKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNGT 127
Query: 58 RALVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDP 117
L++ PTR+LA+Q V + + GL +G S+ + E
Sbjct: 128 GVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEA----------------- 170
Query: 118 EDVLQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVL 177
Q+L + ++I+VATPGRL+DH+ T GF ++L LV+DE DR+L ++ L ++
Sbjct: 171 ----QKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQII 226
Query: 178 QL 179
+L
Sbjct: 227 KL 228
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 79.3 bits (194), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 101/427 (23%), Positives = 173/427 (40%), Gaps = 97/427 (22%)
Query: 25 RDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVG 84
R++ S +G+GKT ++AL ++ + + +V +A+ + P+R+LA Q+ DV +
Sbjct: 159 RNMIGQSQSGTGKTAAFALTMLSRV-DASVPKPQAICLAPSRELARQIMDVVTEMGKYTE 217
Query: 85 LSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINA 144
+ + S + K K++A I++ TPG +MD +
Sbjct: 218 VKTAFGIKDS--------VPKGAKIDA-----------------QIVIGTPGTVMD-LMK 251
Query: 145 TRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKT 204
R + V+DE D +L ++ D S +
Sbjct: 252 RRQLDARDIKVFVLDEADNML------------------DQQGLGDQSMRIKHLL----- 288
Query: 205 IRRCGVERGFKDKPYPRLVKMVL-SATLTQDPNKLAQLDLHHPLFLTTGETRYKLPE-RL 262
PR ++VL SAT ++ K A+ E R K E +
Sbjct: 289 ---------------PRNTQIVLFSATFSERVEKYAER-----FAPNANEIRLKTEELSV 328
Query: 263 ESYK---LICESK-LKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGE-LRIKI 317
E K + C+S+ K LV L L + I+F ++ + + G +
Sbjct: 329 EGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLT 388
Query: 318 KEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKP------AYI 371
G QR ++ + +FR G +VLV+++ + RG+DV VN VVNYD P
Sbjct: 389 GNLEGAQRDAI----MDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDP 444
Query: 372 KTYIHRAGRTARAGQLGRCFTLLHK----DEVKRFKKLLQKADNDSCPIHSIPSSLIESL 427
+TY+HR GRT R G++G +H +E+ ++ Q+ PI +P+ E L
Sbjct: 445 QTYLHRIGRTGRFGRVGVSINFVHDKKSWEEMNAIQEYFQR------PITRVPTDDYEEL 498
Query: 428 RPVYKSG 434
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 = 1e-14, Method: Compositional matrix adjust.
Identities = 45/121 (37%), Positives = 63/121 (52%), Gaps = 3/121 (2%)
Query: 274 KPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTL 333
K LV LL+ + IVF E H L L G I G Q R++ +
Sbjct: 17 KTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAG---INNCYLEGEMVQGKRNEAI 73
Query: 334 KAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTL 393
K EG++ VLV++D RG+D+ V++V N+D P TY+HR GRTARAG+ G +L
Sbjct: 74 KRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISL 133
Query: 394 L 394
+
Sbjct: 134 V 134
>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 = 76.3 bits (186), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 70/123 (56%), Gaps = 1/123 (0%)
Query: 289 KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSD 348
K I+F +V+ T LC++L + + + I E+ G Q+ R+ +K F++ + +LV +D
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 349 AMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQK 408
RGMD V+ V+ P+ + YIHR GRTAR+G+ G + KDE+ F + L+
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP-FVRELED 153
Query: 409 ADN 411
A N
Sbjct: 154 AKN 156
>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 = 76.3 bits (186), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 70/123 (56%), Gaps = 1/123 (0%)
Query: 289 KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSD 348
K I+F +V+ T LC++L + + + I E+ G Q+ R+ +K F++ + +LV +D
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 349 AMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQK 408
RGMD V+ V+ P+ + YIHR GRTAR+G+ G + KDE+ F + L+
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP-FVRELED 153
Query: 409 ADN 411
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 = 76.3 bits (186), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 70/123 (56%), Gaps = 1/123 (0%)
Query: 289 KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSD 348
K I+F +V+ T LC++L + + + I E+ G Q+ R+ +K F++ + +LV +D
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 349 AMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQK 408
RGMD V+ V+ P+ + YIHR GRTAR+G+ G + KDE+ F + L+
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP-FVRELED 153
Query: 409 ADN 411
A N
Sbjct: 154 AKN 156
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 75.5 bits (184), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 48/169 (28%), Positives = 81/169 (47%), Gaps = 25/169 (14%)
Query: 13 VWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSN---RAVRCLRALVVLPTRDLA 69
+ ++TIG L +D+ + TGSGKTL++ +P+++ L + L L++ PTR+LA
Sbjct: 51 IQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLIISPTRELA 110
Query: 70 LQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVD 129
Q +V + S GL +G + E + + ++
Sbjct: 111 YQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERI----------------------NNIN 148
Query: 130 ILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQ 178
ILV TPGRL+ H++ T F L LV+DE DR+L + + V++
Sbjct: 149 ILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIE 197
>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: 278 LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFR 337
L L L + I+F +S + L ++ G I RQ R++ FR
Sbjct: 35 LNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIH---AKMRQEHRNRVFHDFR 91
Query: 338 EGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKD 397
G + LV +D TRG+D++ VN V+N+D P +TY+HR GR+ R G LG L+ D
Sbjct: 92 NGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLITYD 151
Query: 398 EVKRFKKLLQKADNDSCPIHSIPSSLIESL 427
+ 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 = 8e-14, Method: Compositional matrix adjust.
Identities = 39/99 (39%), Positives = 59/99 (59%), Gaps = 4/99 (4%)
Query: 322 GLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRT 381
G + Q R+K ++AFREGK VLV++D ++G+D + +V+NYD P I+ Y+HR GRT
Sbjct: 86 GGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRT 145
Query: 382 ARAGQLGRCFTLLHK--DE--VKRFKKLLQKADNDSCPI 416
+G G T ++K DE + K LL +A P+
Sbjct: 146 GCSGNTGIATTFINKACDESVLMDLKALLLEAKQKVPPV 184
>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 = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 45/139 (32%), Positives = 70/139 (50%), Gaps = 4/139 (2%)
Query: 269 CESKLKPLYLVALLQSLGEEK-CIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQS 327
E K +L+ LL + G++ +VF + + L L H G I G + Q
Sbjct: 27 VEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIH---GDRSQR 83
Query: 328 VRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQL 387
R + L FR GK +LV++ RG+D+ V +V+N+D P+ I+ Y+HR GRT R G L
Sbjct: 84 DREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNL 143
Query: 388 GRCFTLLHKDEVKRFKKLL 406
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: 25 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVLPTRDLALQVKDVFAAIA-- 80
++L S +G+GKT ++ L ++ + +N+ +CL + PT +LALQ V +
Sbjct: 102 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCL---CLSPTYELALQTGKVIEQMGKF 158
Query: 81 -PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLM 139
P + L+ + + +ISE I++ TPG ++
Sbjct: 159 YPELKLAYAVRGNKLERGQKISE--------------------------QIVIGTPGTVL 192
Query: 140 DHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAF 199
D + + + + V+DE D ++ A Q +++ R LP
Sbjct: 193 DWCSKLKFIDPKKIKVFVLDEADVMI--ATQGHQDQSIRIQR------------MLP--- 235
Query: 200 GSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLP 259
R C + ++ SAT K AQ + P + L
Sbjct: 236 ------RNCQM--------------LLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL- 274
Query: 260 ERLESYKLICESKLKPLY-LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIK 318
+ ++ Y ++C S+ + L L ++ + ++F + ++ L L+ G ++
Sbjct: 275 DTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGH---QVA 331
Query: 319 EYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI------K 372
SG R+ ++ FREGK +VLV+++ RG+DVE V+ V+N+D P +
Sbjct: 332 LLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNE 391
Query: 373 TYIHRAGRTARAGQLGRCFTLL---HKDEV-----KRFKKLLQKADND 412
TY+HR GRT R G+ G ++ H + + F K +++ D D
Sbjct: 392 TYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTD 439
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 89/381 (23%), Positives = 160/381 (41%), Gaps = 81/381 (21%)
Query: 25 RDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVG 84
R++ S +G+GKT +++L ++ T N +A+ + P+R+LA Q +V
Sbjct: 45 RNMIAQSQSGTGKTAAFSLTML-TRVNPEDASPQAICLAPSRELARQTLEV--------- 94
Query: 85 LSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINA 144
+ E+ K K+ + + P+ + Q ++V TPG ++D +
Sbjct: 95 ---------------VQEMGKFTKITSQLIV-PDSFEKNKQINAQVIVGTPGTVLDLMR- 137
Query: 145 TRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKT 204
+ L+ + V+DE D +L + Q +++ R FLP K
Sbjct: 138 RKLMQLQKIKIFVLDEADNMLDQ--QGLGDQCIRVKR------------FLP------KD 177
Query: 205 IRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLES 264
+ F D K+V +A + +D L++ K E
Sbjct: 178 TQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTEL 237
Query: 265 YKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYS--- 321
Y L+ ++G I+F ++ ++ + L +G+L+ + E S
Sbjct: 238 YGLM---------------TIGS--SIIFVATKKTANVL------YGKLKSEGHEVSILH 274
Query: 322 -GLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIK------TY 374
LQ Q R + + FREG+ +VL++++ + RG+D+ V+ VVNYD P TY
Sbjct: 275 GDLQTQE-RDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATY 333
Query: 375 IHRAGRTARAGQLGRCFTLLH 395
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 = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 91/408 (22%), Positives = 169/408 (41%), Gaps = 90/408 (22%)
Query: 25 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVLPTRDLALQVKDVFAAIA-- 80
++L S +G+GKT ++ L ++ + +N+ +CL + PT +LALQ V +
Sbjct: 81 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCL---CLSPTYELALQTGKVIEQMGKF 137
Query: 81 -PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLM 139
P + L+ + + +ISE I++ TPG ++
Sbjct: 138 YPELKLAYAVRGNKLERGQKISE--------------------------QIVIGTPGTVL 171
Query: 140 DHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAF 199
D + + + + V+DE D ++ A Q +++ R LP
Sbjct: 172 DWCSKLKFIDPKKIKVFVLDEADVMI--ATQGHQDQSIRIQR------------MLP--- 214
Query: 200 GSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLP 259
R C + ++ SAT K AQ + P + L
Sbjct: 215 ------RNCQM--------------LLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL- 253
Query: 260 ERLESYKLICESKLKPLY-LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIK 318
+ ++ Y ++C S+ + L L ++ + ++F + ++ L L+ G ++
Sbjct: 254 DTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGH---QVA 310
Query: 319 EYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI------K 372
SG R+ ++ FREGK +VLV+++ RG+DVE V+ V+N+D P +
Sbjct: 311 LLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNE 370
Query: 373 TYIHRAGRTARAGQLGRCFTLL---HKDEV-----KRFKKLLQKADND 412
TY+HR GRT R G+ G ++ H + + F K +++ D D
Sbjct: 371 TYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTD 418
>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 = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 91/408 (22%), Positives = 169/408 (41%), Gaps = 90/408 (22%)
Query: 25 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVLPTRDLALQVKDVFAAIA-- 80
++L S +G+GKT ++ L ++ + +N+ +CL + PT +LALQ V +
Sbjct: 65 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCL---CLSPTYELALQTGKVIEQMGKF 121
Query: 81 -PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLM 139
P + L+ + + +ISE I++ TPG ++
Sbjct: 122 YPELKLAYAVRGNKLERGQKISE--------------------------QIVIGTPGTVL 155
Query: 140 DHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAF 199
D + + + + V+DE D ++ A Q +++ R LP
Sbjct: 156 DWCSKLKFIDPKKIKVFVLDEADVMI--ATQGHQDQSIRIQR------------MLP--- 198
Query: 200 GSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLP 259
R C + ++ SAT K AQ + P + L
Sbjct: 199 ------RNCQM--------------LLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL- 237
Query: 260 ERLESYKLICESKLKPLY-LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIK 318
+ ++ Y ++C S+ + L L ++ + ++F + ++ L L+ G ++
Sbjct: 238 DTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGH---QVA 294
Query: 319 EYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI------K 372
SG R+ ++ FREGK +VLV+++ RG+DVE V+ V+N+D P +
Sbjct: 295 LLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNE 354
Query: 373 TYIHRAGRTARAGQLGRCFTLL---HKDEV-----KRFKKLLQKADND 412
TY+HR GRT R G+ G ++ H + + F K +++ D D
Sbjct: 355 TYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTD 402
>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 = 1e-13, Method: Compositional matrix adjust.
Identities = 91/408 (22%), Positives = 169/408 (41%), Gaps = 90/408 (22%)
Query: 25 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVLPTRDLALQVKDVFAAIA-- 80
++L S +G+GKT ++ L ++ + +N+ +CL + PT +LALQ V +
Sbjct: 132 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCL---CLSPTYELALQTGKVIEQMGKF 188
Query: 81 -PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLM 139
P + L+ + + +ISE I++ TPG ++
Sbjct: 189 YPELKLAYAVRGNKLERGQKISE--------------------------QIVIGTPGTVL 222
Query: 140 DHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAF 199
D + + + + V+DE D ++ A Q +++ R LP
Sbjct: 223 DWCSKLKFIDPKKIKVFVLDEADVMI--ATQGHQDQSIRIQR------------MLP--- 265
Query: 200 GSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLP 259
R C + ++ SAT K AQ + P + L
Sbjct: 266 ------RNCQM--------------LLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL- 304
Query: 260 ERLESYKLICESKLKPLY-LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIK 318
+ ++ Y ++C S+ + L L ++ + ++F + ++ L L+ G ++
Sbjct: 305 DTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGH---QVA 361
Query: 319 EYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI------K 372
SG R+ ++ FREGK +VLV+++ RG+DVE V+ V+N+D P +
Sbjct: 362 LLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNE 421
Query: 373 TYIHRAGRTARAGQLGRCFTLL---HKDEV-----KRFKKLLQKADND 412
TY+HR GRT R G+ G ++ H + + F K +++ D D
Sbjct: 422 TYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTD 469
>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 = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 89/381 (23%), Positives = 162/381 (42%), Gaps = 81/381 (21%)
Query: 25 RDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVG 84
R++ S +G+GKT +++L ++ T N +A+ + P+R+LA Q +V
Sbjct: 45 RNMIAQSQSGTGKTAAFSLTML-TRVNPEDASPQAICLAPSRELARQTLEV--------- 94
Query: 85 LSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINA 144
+ E+ K K+ + + P+ + Q ++V TPG ++D +
Sbjct: 95 ---------------VQEMGKFTKITSQLIV-PDSFEKNKQINAQVIVGTPGTVLDLMR- 137
Query: 145 TRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKT 204
+ L+ + V+DE D +L + Q +++ R FLP K
Sbjct: 138 RKLMQLQKIKIFVLDEADNMLDQ--QGLGDQCIRVKR------------FLP------KD 177
Query: 205 IRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLES 264
+ F D K+V +A + +D L++ +
Sbjct: 178 TQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDC-------KNEADK 230
Query: 265 YKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYS--- 321
+ ++ E LY V + S I+F ++ ++ + L +G+L+ + E S
Sbjct: 231 FDVLTE-----LYGVMTIGS-----SIIFVATKKTANVL------YGKLKSEGHEVSILH 274
Query: 322 -GLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIK------TY 374
LQ Q R + + FREG+ +VL++++ + RG+D+ V+ VVNYD P TY
Sbjct: 275 GDLQTQE-RDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATY 333
Query: 375 IHRAGRTARAGQLGRCFTLLH 395
IHR GRT R G+ G + +H
Sbjct: 334 IHRIGRTGRFGRKGVAISFVH 354
>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 = 72.4 bits (176), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 42/125 (33%), Positives = 67/125 (53%), Gaps = 4/125 (3%)
Query: 278 LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFR 337
L +L + + CI+F + E ++L L+ G KI G Q R + F+
Sbjct: 26 LKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKI---HGGMIQEDRFDVMNEFK 82
Query: 338 EGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKD 397
G+ + LV++D RG+D+E ++ V+NYD P ++Y+HR GRT RAG G+ + +
Sbjct: 83 RGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAF 142
Query: 398 EVKRF 402
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 = 69.3 bits (168), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 47/163 (28%), Positives = 81/163 (49%), Gaps = 21/163 (12%)
Query: 7 FPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTR 66
F + + + I L R+L ++PTGSGKTL++++PI+ L A + RAL++ PTR
Sbjct: 49 FQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPANKGFRALIISPTR 108
Query: 67 DLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQS 126
+LA Q+ I+ G + + + ++++A + + P+
Sbjct: 109 ELASQIHRELIKISEGTGFRIHM-IHKAAVAAK--------------KFGPKS-----SK 148
Query: 127 AVDILVATPGRLMDHINAT-RGFTLEHLCYLVVDETDRLLREA 168
DILV TP RL+ + G L + +LVVDE+D+L +
Sbjct: 149 KFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDG 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 = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 52/196 (26%), Positives = 100/196 (51%), Gaps = 31/196 (15%)
Query: 1 MGISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRAL 60
MG P+Q +E+I L RD+ + G+GK+ +Y +P+++ L + ++A+
Sbjct: 21 MGWEKPSPIQ----EESIPIALSGRDILARAKNGTGKSGAYLIPLLERLDLKK-DNIQAM 75
Query: 61 VVLPTRDLALQVKDVFAAIAPAVGLSVGLA-VGQSSIADEISELIKRPKLEAGICYDPED 119
V++PTR+LALQV + ++ +G + +A G +++ D+I
Sbjct: 76 VIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDI------------------- 116
Query: 120 VLQELQSAVDILVATPGRLMDHINATRGFT-LEHLCYLVVDETDRLLREAYQAWLPTVLQ 178
L V +++ATPGR++D I +G ++H+ +V+DE D+LL + + + ++
Sbjct: 117 --MRLDDTVHVVIATPGRILDLIK--KGVAKVDHVQMIVLDEADKLLSQDFVQIMEDII- 171
Query: 179 LTRSDNENRFSDASTF 194
LT N ++TF
Sbjct: 172 LTLPKNRQILLYSATF 187
>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 = 65.5 bits (158), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 60/199 (30%), Positives = 92/199 (46%), Gaps = 34/199 (17%)
Query: 2 GISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRA 59
G+++ P+Q A + L +DL + TG+GKTL++ALPI + L S R RA
Sbjct: 20 GLTTPTPIQAAA----LPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRA 75
Query: 60 LVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPED 119
LV+ PTR+LALQV A+AP L V G + + L++
Sbjct: 76 LVLTPTRELALQVASELTAVAPH--LKVVAVYGGTGYGKQKEALLR-------------- 119
Query: 120 VLQELQSAVDILVATPGRLMDHINATRG-FTLEHLCYLVVDETDRLLREAYQAWLPTVLQ 178
D +VATPGR +D++ +G L + V+DE D +L ++ + +L
Sbjct: 120 -------GADAVVATPGRALDYLR--QGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLS 170
Query: 179 LTRSDNENRFSDASTFLPS 197
T + A+ LPS
Sbjct: 171 ATPPSRQTLLFSAT--LPS 187
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 65.1 bits (157), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 46/168 (27%), Positives = 85/168 (50%), Gaps = 24/168 (14%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I P + D+ + +G+GKT ++A+ I+Q L + +ALV+ PTR+LA Q
Sbjct: 55 AIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEIE-FKETQALVLAPTRELAQQ 113
Query: 72 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQS-AVDI 130
++ V A+ +G + +G +++ +E +Q+LQ+ A I
Sbjct: 114 IQKVILALGDYMGATCHACIGGTNVRNE---------------------MQKLQAEAPHI 152
Query: 131 LVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQ 178
+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 = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 44/133 (33%), Positives = 70/133 (52%), Gaps = 22/133 (16%)
Query: 273 LKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYS----GLQRQSV 328
L LY V + S I+F ++ ++ + L +G+L+ + E S LQ Q
Sbjct: 27 LTELYGVXTIGS-----SIIFVATKKTANVL------YGKLKSEGHEVSILHGDLQTQE- 74
Query: 329 RSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIK------TYIHRAGRTA 382
R + + FREG+ +VL++++ + RG+D+ V+ VVNYD P TYIHR GRT
Sbjct: 75 RDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTG 134
Query: 383 RAGQLGRCFTLLH 395
R G+ G + +H
Sbjct: 135 RFGRKGVAISFVH 147
>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 = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 59/199 (29%), Positives = 92/199 (46%), Gaps = 34/199 (17%)
Query: 2 GISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRA 59
G+++ P++ A + L +DL + TG+GKTL++ALPI + L S R RA
Sbjct: 20 GLTTPTPIEAAA----LPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRA 75
Query: 60 LVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPED 119
LV+ PTR+LALQV A+AP L V G + + L++
Sbjct: 76 LVLTPTRELALQVASELTAVAPH--LKVVAVYGGTGYGKQKEALLR-------------- 119
Query: 120 VLQELQSAVDILVATPGRLMDHINATRG-FTLEHLCYLVVDETDRLLREAYQAWLPTVLQ 178
D +VATPGR +D++ +G L + V+DE D +L ++ + +L
Sbjct: 120 -------GADAVVATPGRALDYLR--QGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLS 170
Query: 179 LTRSDNENRFSDASTFLPS 197
T + A+ LPS
Sbjct: 171 ATPPSRQTLLFSAT--LPS 187
>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: 262 LESYKLICES-KLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEY 320
+ Y ++CE K K L + S+ + I+F + + L + G ++
Sbjct: 8 IRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGH---QVSLL 64
Query: 321 SGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYD-------KPAYIKT 373
SG R+ ++ FR+GK +VL++++ RG+DV+ V VVN+D +P Y +T
Sbjct: 65 SGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDY-ET 123
Query: 374 YIHRAGRTARAGQLGRCFTLLHKDEVKRFKKL 405
Y+HR GRT R G+ G F ++ DE+ K+
Sbjct: 124 YLHRIGRTGRFGKKGLAFNMIEVDELPSLMKI 155
>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: 290 CIVFTSSVESTHRLCTLLNHFGELRIKIKEYS----GLQRQSVRSKTLKAFREGKIQVLV 345
I+F ++ ++ + L +G+L+ + E S LQ Q R + + FREG+ +VL+
Sbjct: 40 SIIFVATKKTANVL------YGKLKSEGHEVSILHGDLQTQE-RDRLIDDFREGRSKVLI 92
Query: 346 SSDAMTRGMDVEGVNNVVNYDKPAYIK------TYIHRAGRTARAGQLGRCFTLLH 395
+++ + RG+D+ V+ VVNYD P TYIHR GRT R G+ G + +H
Sbjct: 93 TTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVH 148
>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 = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/168 (25%), Positives = 82/168 (48%), Gaps = 24/168 (14%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I P + D+ + +G+GKT ++++ +Q + + +V+ +AL++ PTR+LALQ
Sbjct: 39 AIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-DTSVKAPQALMLAPTRELALQ 97
Query: 72 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 131
++ V A+A + + V +G +S ++ L I+
Sbjct: 98 IQKVVMALAFHMDIKVHACIGGTSFVEDAEGL----------------------RDAQIV 135
Query: 132 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQL 179
V TPGR+ D+I R F + + ++DE D +L ++ + + L
Sbjct: 136 VGTPGRVFDNIQRRR-FRTDKIKMFILDEADEMLSSGFKEQIYQIFTL 182
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 64/116 (55%), Gaps = 17/116 (14%)
Query: 290 CIVFTSSVESTHRLCTLLNHFGELRIKIKEYS----GLQRQSVRSKTLKAFREGKIQVLV 345
I+F ++ ++ + L +G+L+ + E S LQ Q R + + FREG+ +VL+
Sbjct: 38 SIIFVATKKTANVL------YGKLKSEGHEVSILHGDLQTQE-RDRLIDDFREGRSKVLI 90
Query: 346 SSDAMTRGMDVEGVNNVVNYDKPAYIK------TYIHRAGRTARAGQLGRCFTLLH 395
+++ + RG+D+ V+ VVNYD P TYIHR GRT R G+ G + +H
Sbjct: 91 TTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVH 146
>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 = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 64/250 (25%), Positives = 106/250 (42%), Gaps = 71/250 (28%)
Query: 15 QETIGPGLFE-RDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLR--------ALVVLPT 65
Q+ P + E RD+ + TGSGKT ++ +PI+ L + + R L++ PT
Sbjct: 50 QKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPT 109
Query: 66 RDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICY---DPEDVLQ 122
R+LA+Q I E + L + + Y D ++
Sbjct: 110 RELAIQ------------------------ILSESQKFSLNTPLRSCVVYGGADTHSQIR 145
Query: 123 ELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRS 182
E+Q +LVATPGRL+D I + +LE Y+V+DE DR+L ++ P + ++
Sbjct: 146 EVQMGCHLLVATPGRLVDFIEKNK-ISLEFCKYIVLDEADRMLDMGFE---PQIRKIIEE 201
Query: 183 DNENRFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLD 242
N +PS G+ R ++ SAT ++ KLA
Sbjct: 202 SN----------MPS-----------GINRQ----------TLMFSATFPKEIQKLAADF 230
Query: 243 LHHPLFLTTG 252
L++ +F+T G
Sbjct: 231 LYNYIFMTVG 240
>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: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I P + D+ + +G+GKT ++++ +Q + + +V+ +AL++ PTR+LALQ
Sbjct: 46 AIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-DTSVKAPQALMLAPTRELALQ 104
Query: 72 VKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDIL 131
++ V A+A + + V +G +S ++ L I+
Sbjct: 105 IQKVVMALAFHMDIKVHACIGGTSFVEDAEGL----------------------RDAQIV 142
Query: 132 VATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQL 179
V TPGR+ D+I R F + + ++DE D +L ++ + + L
Sbjct: 143 VGTPGRVFDNIQRRR-FRTDKIKMFILDEADEMLSSGFKEQIYQIFTL 189
>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 = 4e-10, Method: Compositional matrix adjust.
Identities = 49/171 (28%), Positives = 78/171 (45%), Gaps = 26/171 (15%)
Query: 26 DLCINSPTGSGKTLSYALPIVQTLSNRAV----RCLRALVVLPTRDLALQVKDVFAAIAP 81
D+ + TGSGKTLSY LP + ++++ LV+ PTR+LA QV+ V A
Sbjct: 82 DMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCR 141
Query: 82 AVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDH 141
A L G + +I ++L+ V+I +ATPGRL+D
Sbjct: 142 ACRLKSTCIYGGAPKGPQI---------------------RDLERGVEICIATPGRLIDF 180
Query: 142 INATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDAS 192
+ + L YLV+DE DR+L ++ + ++ R D + A+
Sbjct: 181 LECGKT-NLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSAT 230
>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 = 62.8 bits (151), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 47/179 (26%), Positives = 86/179 (48%), Gaps = 22/179 (12%)
Query: 7 FPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTR 66
F A+ Q I P + D+ + +G+G T ++A+ I+Q + + +ALV+ PTR
Sbjct: 35 FEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQI-ELDLXATQALVLAPTR 93
Query: 67 DLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQS 126
+LA Q++ V A+ +G S +G +++ E+ L ++EA P
Sbjct: 94 ELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQXL----QMEA-----PH-------- 136
Query: 127 AVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNE 185
I+V TPGR+ D +N R + ++ V+DE D +L + + + Q S+ +
Sbjct: 137 ---IIVGTPGRVFDMLN-RRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQ 191
>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 = 6e-10, Method: Compositional matrix adjust.
Identities = 50/174 (28%), Positives = 79/174 (45%), Gaps = 32/174 (18%)
Query: 26 DLCINSPTGSGKTLSYALPIVQTLSNRAVR-------CLRALVVLPTRDLALQVKDVFAA 78
D+ + TGSGKTLSY LP + ++++ CL V+ PTR+LA QV+ V A
Sbjct: 68 DMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICL---VLAPTRELAQQVQQVAAE 124
Query: 79 IAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRL 138
A L G + +I ++L+ V+I +ATPGRL
Sbjct: 125 YCRACRLKSTCIYGGAPKGPQI---------------------RDLERGVEICIATPGRL 163
Query: 139 MDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDAS 192
+D + + L YLV+DE DR+L ++ + ++ R D + A+
Sbjct: 164 IDFLECGKT-NLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSAT 216
>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 = 61.6 bits (148), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 53/197 (26%), Positives = 88/197 (44%), Gaps = 32/197 (16%)
Query: 1 MGISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIV-----QTLSNRAVR 55
+GI P+Q W I G+ DL + + TG+GKTLSY +P Q +S
Sbjct: 38 VGILKPTPIQSQAW-PIILQGI---DLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQRN 93
Query: 56 CLRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICY 115
LV+ PTR+LAL V+ + + S+ + G++
Sbjct: 94 GPGMLVLTPTRELALHVEAECSKYSYKGLKSICIYGGRNRNGQ----------------- 136
Query: 116 DPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPT 175
++++ VDI++ATPGRL D + L + YLV+DE D++L ++ +
Sbjct: 137 -----IEDISKGVDIIIATPGRLND-LQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRK 190
Query: 176 VLQLTRSDNENRFSDAS 192
+L R D + + A+
Sbjct: 191 ILLDVRPDRQTVMTSAT 207
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 58.9 bits (141), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 50/174 (28%), Positives = 77/174 (44%), Gaps = 14/174 (8%)
Query: 262 LESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL--NHFGELRIKIKE 319
L+ Y + + K L LL L + ++F SV+ L LL +F + I
Sbjct: 6 LQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI---- 61
Query: 320 YSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAG 379
+ G+ Q R + F++ + ++LV+++ RGMD+E VN NYD P TY+HR
Sbjct: 62 HRGMP-QEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVA 120
Query: 380 RTARAGQLGRCFTLLHKDEVKRFKKLLQKADNDSCPIHSIP-----SSLIESLR 428
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 = 56.2 bits (134), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 58/116 (50%), Gaps = 15/116 (12%)
Query: 263 ESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL--NHFGELRIKIKEY 320
E YK C L L S+ + ++F ++ L T L + F I Y
Sbjct: 14 EEYKYEC--------LTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI----Y 61
Query: 321 SGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIH 376
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: 281 LLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGK 340
LL ++ +VFT + T + L G + G Q R + + AFR+G+
Sbjct: 22 LLYVASPDRAMVFTRTKAETEEIAQGLLRLGH---PAQALHGDMSQGERERVMGAFRQGE 78
Query: 341 IQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIH 376
++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 = 52.4 bits (124), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 48/96 (50%), Gaps = 3/96 (3%)
Query: 281 LLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGK 340
LL ++ +VFT + T + L G + G Q R + L AFR+G+
Sbjct: 25 LLYVASPDRAMVFTRTKAETEEIAQGLLRLGH---PAQALHGDLSQGERERVLGAFRQGE 81
Query: 341 IQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIH 376
++VLV++D RG+D+ V+ VV+Y P + Y H
Sbjct: 82 VRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 86/386 (22%), Positives = 145/386 (37%), Gaps = 100/386 (25%)
Query: 15 QETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKD 74
+E I L RD + PTG GK+L Y +P AL +
Sbjct: 31 EEIIDTVLSGRDCLVVMPTGGGKSLCYQIP------------------------ALLLNG 66
Query: 75 VFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQ-------SA 127
+ ++P + L + D++ +L + + A + Q+L+
Sbjct: 67 LTVVVSPLISL----------MKDQVDQL-QANGVAAACLNSTQTREQQLEVMTGCRTGQ 115
Query: 128 VDILVATPGRLM-DHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNEN 186
+ +L P RLM D+ LEHL + W P +L + + +
Sbjct: 116 IRLLYIAPERLMLDNF-------LEHLAH----------------WNPVLLAVDEAHCIS 152
Query: 187 RFSDASTFLP--SAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLT----QDPNKLAQ 240
++ F P +A G L+ + +P L M L+AT QD +L
Sbjct: 153 QW--GHDFRPEYAALGQLR-------------QRFPTLPFMALTATADDTTRQDIVRL-- 195
Query: 241 LDLHHPLFLTTGETRYKLPERLESYKLICESKLKPL-YLVALLQSLGEEKCIVFTSSVES 299
L L+ PL + R + Y L+ K KPL L+ +Q + I++ +S
Sbjct: 196 LGLNDPLIQISSFDRPNI-----RYMLM--EKFKPLDQLMRYVQEQRGKSGIIYCNSRAK 248
Query: 300 THRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGV 359
L G I Y +VR+ + F+ +Q++V++ A G++ V
Sbjct: 249 VEDTAARLQSKG---ISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNV 305
Query: 360 NNVVNYDKPAYIKTYIHRAGRTARAG 385
VV++D P I++Y GR R G
Sbjct: 306 RFVVHFDIPRNIESYYQETGRAGRDG 331
>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 = 7e-05, Method: Compositional matrix adjust.
Identities = 40/158 (25%), Positives = 72/158 (45%), Gaps = 27/158 (17%)
Query: 13 VWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQV 72
V E I + D+ + +G GKT + L +Q L + + LV+ TR+LA Q+
Sbjct: 40 VQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQ-VSVLVMCHTRELAFQI 98
Query: 73 K---DVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVD 129
+ F+ P V ++V G S DE E++K+ +
Sbjct: 99 SKEYERFSKYMPNVKVAVFFG-GLSIKKDE--EVLKK-------------------NCPH 136
Query: 130 ILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLRE 167
I+V TPGR++ + + L+H+ + ++DE D++L +
Sbjct: 137 IVVGTPGRILA-LARNKSLNLKHIKHFILDECDKMLEQ 173
>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: 15 QETIGPGLFERDLCI-NSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVK 73
QE I PG + + S TG+GKT +Y LPI + + ++A++ PTR+LA Q+
Sbjct: 31 QERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKIKPERAE-VQAVITAPTRELATQI- 88
Query: 74 DVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICY----DPEDVLQELQSAVD 129
+I++ + + C D + L++L
Sbjct: 89 --------------------YHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLNVQPH 128
Query: 130 ILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAY 169
I++ TPGR+ D I + + LVVDE D L +
Sbjct: 129 IVIGTPGRINDFIRE-QALDVHTAHILVVDEADLXLDXGF 167
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 84/388 (21%), Positives = 141/388 (36%), Gaps = 104/388 (26%)
Query: 15 QETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKD 74
+E I L RD + PTG GK+L Y +P AL +
Sbjct: 31 EEIIDTVLSGRDCLVVXPTGGGKSLCYQIP------------------------ALLLNG 66
Query: 75 VFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQ-------SA 127
+ ++P + L D++ +L + + A + Q+L+
Sbjct: 67 LTVVVSPLISLX----------KDQVDQL-QANGVAAACLNSTQTREQQLEVXTGCRTGQ 115
Query: 128 VDILVATPGRL-MDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNEN 186
+ +L P RL +D+ LEHL + W P +L + + +
Sbjct: 116 IRLLYIAPERLXLDNF-------LEHLAH----------------WNPVLLAVDEAHCIS 152
Query: 187 RFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLT----QDPNKLAQLD 242
++ F P + +L +R + +P L L+AT QD +L L
Sbjct: 153 QW--GHDFRPE-YAALGQLR----------QRFPTLPFXALTATADDTTRQDIVRL--LG 197
Query: 243 LHHPLFLTTG----ETRYKLPERLESYKLICESKLKPL-YLVALLQSLGEEKCIVFTSSV 297
L+ PL + RY L E K KPL L +Q + I++ +S
Sbjct: 198 LNDPLIQISSFDRPNIRYXLXE-----------KFKPLDQLXRYVQEQRGKSGIIYCNSR 246
Query: 298 ESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVE 357
L G I Y +VR+ + F+ +Q++V++ A G++
Sbjct: 247 AKVEDTAARLQSKG---ISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXGINKP 303
Query: 358 GVNNVVNYDKPAYIKTYIHRAGRTARAG 385
V VV++D P I++Y GR R G
Sbjct: 304 NVRFVVHFDIPRNIESYYQETGRAGRDG 331
>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: 263 ESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSG 322
E+ ++ SK K L +L+ ++K I+FT E +R+ + I +
Sbjct: 325 EARRIAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVF--------LIPAITH 376
Query: 323 LQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTA 382
+ R + L+ FR G+ + +VSS + G+DV N V + YI R GR
Sbjct: 377 RTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRIL 436
Query: 383 R 383
R
Sbjct: 437 R 437
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 28/53 (52%), Gaps = 7/53 (13%)
Query: 22 LFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKD 74
L ++ CI PTGSGKT A+ + LS L+V+PT LA Q K+
Sbjct: 106 LVDKRGCIVLPTGSGKT-HVAMAAINELST------PTLIVVPTLALAEQWKE 151
>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: 263 ESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSG 322
E+ ++ SK K L +L+ ++K I+FT E +R+ + I +
Sbjct: 90 EARRIAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVF--------LIPAITH 141
Query: 323 LQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTA 382
+ R + L+ FR G+ + +VSS + G+DV N V + YI R GR
Sbjct: 142 RTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRIL 201
Query: 383 R 383
R
Sbjct: 202 R 202
>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: 282 LQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQR--------QSVRSKTL 333
LQ K IVFT+ E+ ++ L G IK K + G Q + L
Sbjct: 356 LQRKQNSKIIVFTNYRETAKKIVNELVKDG---IKAKRFVGQASKENDRGLSQREQKLIL 412
Query: 334 KAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDK-PAYIKTYIHRAGRTARAGQLGRCFT 392
F G+ VLV++ G+DV V+ VV Y+ P+ I++ I R GRT R GR
Sbjct: 413 DEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRS-IQRRGRTGRH-MPGRVII 470
Query: 393 LLHK 396
L+ K
Sbjct: 471 LMAK 474
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 48/184 (26%), Positives = 74/184 (40%), Gaps = 36/184 (19%)
Query: 9 VQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDL 68
+Q ++QE I E + I PTG GKTL + L+ + L++ PT+ L
Sbjct: 8 IQPRIYQEVIYAKCKETNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKV---LMLAPTKPL 64
Query: 69 ALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAV 128
LQ + F + + G+ S +E S+ R K
Sbjct: 65 VLQHAESFRRLFNLPPEKIVALTGEKS-PEERSKAWARAK-------------------- 103
Query: 129 DILVATPGRLMDHINATRGFTLEHLCYLVVDETDR---------LLRE-AYQAWLPTVLQ 178
++VATP + + + A R +LE + +V DE R + RE QA P V+
Sbjct: 104 -VIVATPQTIENDLLAGR-ISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIG 161
Query: 179 LTRS 182
LT S
Sbjct: 162 LTAS 165
>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 = 37.0 bits (84), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 29/99 (29%), Positives = 47/99 (47%), Gaps = 9/99 (9%)
Query: 2 GISSLFPVQVAVWQETIGPGLFE-RDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRAL 60
GI S +P Q E + G+ E ++ I+ PT SGKTL + +V + + +A+
Sbjct: 20 GIESFYPPQA----EALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQGG---KAV 72
Query: 61 VVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADE 99
++P + LA + F +GL V +A G DE
Sbjct: 73 YIVPLKALAEEKFQEFQD-WEKIGLRVAMATGDYDSKDE 110
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 36.6 bits (83), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 35/70 (50%), Gaps = 1/70 (1%)
Query: 326 QSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHR-AGRTARA 384
Q + + + F EG+ +LVS+ + G+DV N +V + + +H+ GR R
Sbjct: 625 QEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLAQLHQLRGRVGRG 684
Query: 385 GQLGRCFTLL 394
GQ CF ++
Sbjct: 685 GQEAYCFLVV 694
>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 = 36.6 bits (83), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 3 ISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPI-VQTLSNRAVRCLRALV 61
++ +FP +V + G L + ++ TG GKTL+ LP+ + L+ + V +
Sbjct: 76 VTGMFPFKVQLMG---GVALHDGNIA-EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE 131
Query: 62 VLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVL 121
L +RD A Q+ +F + GL+VGL + S DE KR A I Y + L
Sbjct: 132 YLASRD-AEQMGKIFEFL----GLTVGLNLNSMS-KDE-----KREAYAADITYSTNNEL 180
>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 = 36.6 bits (83), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 3 ISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPI-VQTLSNRAVRCLRALV 61
++ +FP +V + G L + ++ TG GKTL+ LP+ + L+ + V +
Sbjct: 76 VTGMFPFKVQLMG---GVALHDGNIA-EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE 131
Query: 62 VLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVL 121
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 = 36.2 bits (82), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 3 ISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPI-VQTLSNRAVRCLRALV 61
++ +FP +V + G L + ++ TG GKTL+ LP+ + L+ + V +
Sbjct: 76 VTGMFPFKVQLMG---GVALHDGNIA-EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE 131
Query: 62 VLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVL 121
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 = 36.2 bits (82), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 3 ISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPI-VQTLSNRAVRCLRALV 61
++ +FP +V + G L + ++ TG GKTL+ LP+ + L+ + V +
Sbjct: 76 VTGMFPFKVQLMG---GVALHDGNIA-EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE 131
Query: 62 VLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVL 121
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 = 36.2 bits (82), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 3 ISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPI-VQTLSNRAVRCLRALV 61
++ +FP +V + G L + ++ TG GKTL+ LP+ + L+ + V +
Sbjct: 79 VTGMFPFKVQLMG---GVALHDGNIA-EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE 134
Query: 62 VLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVL 121
L +RD A Q+ +F + GL+VGL + S DE KR A I Y + L
Sbjct: 135 YLASRD-AEQMGKIFEFL----GLTVGLNLNSMS-KDE-----KREAYAADITYSTNNEL 183
>pdb|3IQY|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 841
Score = 36.2 bits (82), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 3 ISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPI-VQTLSNRAVRCLRALV 61
++ +FP +V + G L + ++ TG GKTL+ LP+ + L+ + V +
Sbjct: 76 VTGMFPFKVQLMG---GVALHDGNIA-EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE 131
Query: 62 VLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVL 121
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 = 36.2 bits (82), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 56/120 (46%), Gaps = 16/120 (13%)
Query: 3 ISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPI-VQTLSNRAVRCLRALV 61
++ +FP +V + G L + ++ TG GKTL+ LP+ + L+ + V +
Sbjct: 79 VTGMFPFKVQLMG---GVALHDGNIA-EMKTGEGKTLTSTLPVYLNALTGKGVHVVTVNE 134
Query: 62 VLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVL 121
L +RD A Q+ +F + GL+VGL + S DE KR A I Y + L
Sbjct: 135 YLASRD-AEQMGKIFEFL----GLTVGLNLNSMS-KDE-----KREAYAADITYSTNNEL 183
>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 = 0.081, Method: Compositional matrix adjust.
Identities = 44/160 (27%), Positives = 62/160 (38%), Gaps = 34/160 (21%)
Query: 2 GISSLFPVQVAVWQETIGPGLFERD-LCINSPTGSGKTLSYALPIVQTLSNRAVRCLRAL 60
GI L P Q E + GL E + L + SPTGSGKTL + I+ L +A+
Sbjct: 27 GIKKLNPPQT----EAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLKNGG---KAI 79
Query: 61 VVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDV 120
V P R L + F +G V + G YD +D
Sbjct: 80 YVTPLRALTNEKYLTFKD-WELIGFKVAMTSGD---------------------YDTDDA 117
Query: 121 LQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDE 160
+ DI++ T +L D + R L + Y V+DE
Sbjct: 118 WLK---NYDIIITTYEKL-DSLWRHRPEWLNEVNYFVLDE 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 = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 40/86 (46%), Gaps = 11/86 (12%)
Query: 291 IVFTSSVESTHRLCTLLNH---FGELRIKIKEYSGLQR--------QSVRSKTLKAFREG 339
I+FT + +S + L + F E+ +K G Q+ + + + FR G
Sbjct: 404 IIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTG 463
Query: 340 KIQVLVSSDAMTRGMDVEGVNNVVNY 365
KI +L+++ G+D++ N V+ Y
Sbjct: 464 KINLLIATTVAEEGLDIKECNIVIRY 489
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 31/146 (21%), Positives = 62/146 (42%), Gaps = 34/146 (23%)
Query: 25 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVLPTRDLALQVKDVFAAIA-- 80
++L S +G+GKT ++ L ++ + +N+ +CL + PT +LALQ V +
Sbjct: 65 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCL---CLSPTYELALQTGKVIEQMGKF 121
Query: 81 -PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLM 139
P + L+ + + +ISE I++ TPG ++
Sbjct: 122 YPELKLAYAVRGNKLERGQKISE--------------------------QIVIGTPGTVL 155
Query: 140 DHINATRGFTLEHLCYLVVDETDRLL 165
D + + + + V+DE D ++
Sbjct: 156 DWCSKLKFIDPKKIKVFVLDEADVMI 181
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 33.5 bits (75), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 42/181 (23%), Positives = 75/181 (41%), Gaps = 30/181 (16%)
Query: 198 AFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYK 257
A+ LKT E+ F+ VLS + + D + + LFL + K
Sbjct: 76 AYNHLKTFYNDEKEKKFE----------VLSGSGSLDESDI----FLXTLFLRNKKILKK 121
Query: 258 LPER--LESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL---NHFGE 312
L E E+ KL +KL+ ++ + I+FT + +S + L + F E
Sbjct: 122 LAENPEYENEKL---TKLRNTIXEHFTRTEESARGIIFTKTRQSAYALSQWITDNKKFAE 178
Query: 313 LRIKIKEYSGLQR--------QSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVN 364
+ +K G Q+ + + + FR GKI +L+++ G+D++ N V+
Sbjct: 179 VGVKAHHLIGAGHSSEFKPXTQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIR 238
Query: 365 Y 365
Y
Sbjct: 239 Y 239
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 31/146 (21%), Positives = 62/146 (42%), Gaps = 34/146 (23%)
Query: 25 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVLPTRDLALQVKDVFAAIA-- 80
++L S +G+GKT ++ L ++ + +N+ +CL + PT +LALQ V +
Sbjct: 132 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCL---CLSPTYELALQTGKVIEQMGKF 188
Query: 81 -PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLM 139
P + L+ + + +ISE I++ TPG ++
Sbjct: 189 YPELKLAYAVRGNKLERGQKISE--------------------------QIVIGTPGTVL 222
Query: 140 DHINATRGFTLEHLCYLVVDETDRLL 165
D + + + + V+DE D ++
Sbjct: 223 DWCSKLKFIDPKKIKVFVLDEADVMI 248
>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: 287 EEKCIVFTSSVESTHRLCTLLN------------HFGELRIKIKEYSGLQRQSVRS---- 330
+ K ++ SS H L +L + E+R+ K Y + ++
Sbjct: 237 KNKFVILHSSTGHIHSLNEILKDPAVESKLADTKYVQEIRVLNKFYDVMNEDDRKAWYGP 296
Query: 331 -KTLKAFREGKIQVLVSSDAMTRGMD----------VEGVNNVVNYDKPAYIKTYIHRAG 379
LKAF G I L+ SD++ R D VEGV + + P YI + +H +G
Sbjct: 297 NHVLKAFELGAIGELLISDSLFRSSDIATRKKWVSLVEGVKEI---NCPVYIFSSLHESG 353
Query: 380 R 380
+
Sbjct: 354 K 354
>pdb|3P8C|A Chain A, Structure And Control Of The Actin Regulatory Wave Complex
Length = 1253
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 260 ERLESYKLICESKLKPLYLVALLQSLG--EEKCIVFTSSVESTHRLCTLLNHFGELRIKI 317
ERL++ ESK PL+LV L++ LG ++ I + + RLC L+ F + +I
Sbjct: 1041 ERLDAKMKRLESKYAPLHLVPLIERLGTPQQIAIAREGDLLTKERLCCGLSMFEVILTRI 1100
Query: 318 KEY 320
+ +
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 = 3.3, Method: Compositional matrix adjust.
Identities = 20/100 (20%), Positives = 42/100 (42%), Gaps = 3/100 (3%)
Query: 291 IVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAM 350
I++ S + + ++ L + G I Y ++ + + +IQV+V++ A
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLG---IHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAF 327
Query: 351 TRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRC 390
G+D V V+++ ++ Y +GR R C
Sbjct: 328 GMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADC 367
>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 = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 32/143 (22%), Positives = 66/143 (46%), Gaps = 20/143 (13%)
Query: 306 LLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVN--NVV 363
L ++ E+ IK+ + R + ++ R GK VLV + + G+D+ V+ ++
Sbjct: 467 LTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAIL 526
Query: 364 NYDKPAYI---KTYIHRAGRTARAGQLGRCFTLLHK---------DEVKRFKKLLQKADN 411
+ DK ++ ++ I GR AR + GR K +E KR ++ ++ +
Sbjct: 527 DADKEGFLRSERSLIQTIGRAARNAE-GRVIMYADKITKSMEIAINETKRRREQQERFNE 585
Query: 412 DSCPIHSI-PSSLIESLRPVYKS 433
+ 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 = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 32/143 (22%), Positives = 66/143 (46%), Gaps = 20/143 (13%)
Query: 306 LLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVN--NVV 363
L ++ E+ IK+ + R + ++ R GK VLV + + G+D+ V+ ++
Sbjct: 461 LTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAIL 520
Query: 364 NYDKPAYI---KTYIHRAGRTARAGQLGRCFTLLHK---------DEVKRFKKLLQKADN 411
+ DK ++ ++ I GR AR + GR K +E KR ++ ++ +
Sbjct: 521 DADKEGFLRSERSLIQTIGRAARNAE-GRVIMYADKITKSMEIAINETKRRREQQERFNE 579
Query: 412 DSCPIHSI-PSSLIESLRPVYKS 433
+ H I P ++ + +R V ++
Sbjct: 580 E----HGITPKTINKEIRDVIRA 598
>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 = 3.7, Method: Compositional matrix adjust.
Identities = 32/124 (25%), Positives = 47/124 (37%), Gaps = 23/124 (18%)
Query: 91 VGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTL 150
+GQ + D I E I+ Y+ E+ VD + T L +H R
Sbjct: 250 IGQKYLKDAIGEFIR-------ALYESEE-----NCEVDPIKCTASSLAEHQANLRMCCE 297
Query: 151 EHLCYLVVDET--DRLLREAYQAWLPTVLQLTRSDNENRFSDASTFL---------PSAF 199
LC +V R L+E + +W + R D +R AS FL PS F
Sbjct: 298 LALCKVVNSHCVFPRELKEVFASWRLRCAERGREDIADRLISASLFLRFLCPAIMSPSLF 357
Query: 200 GSLK 203
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 = 3.8, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 1/69 (1%)
Query: 50 SNRAVRCLRALVVLPTRDLALQVKDVFAAIAPAVGLSVGLAVGQSS-IADEISELIKRPK 108
AV+C R + +LP LA D F + GL A+G+SS + D +
Sbjct: 42 GGEAVKCSRDVQILPDTSLAQVASDKFDVVVLPGGLGGSNAMGESSLVGDLLRSQESGGG 101
Query: 109 LEAGICYDP 117
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 = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 28/53 (52%), Gaps = 7/53 (13%)
Query: 22 LFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVKD 74
L ++ CI PTGSGKT A+ + LS L+V+PT LA Q K+
Sbjct: 106 LVDKRGCIVLPTGSGKT-HVAMAAINELST------PTLIVVPTLALAEQWKE 151
>pdb|1Z14|A Chain A, Structural Determinants Of Tissue Tropism And In Vivo
Pathogenicity For The Parvovirus Minute Virus Of Mice
Length = 549
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 161 TDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTI 205
T R A W P V Q++ DN N + + +LP+A G+++++
Sbjct: 494 TMRAKLRANTTWNP-VYQVSAEDNGNSYMSVTKWLPTATGNMQSV 537
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 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,212,613
Number of Sequences: 62578
Number of extensions: 482897
Number of successful extensions: 1477
Number of sequences better than 100.0: 95
Number of HSP's better than 100.0 without gapping: 68
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 1306
Number of HSP's gapped (non-prelim): 128
length of query: 436
length of database: 14,973,337
effective HSP length: 102
effective length of query: 334
effective length of database: 8,590,381
effective search space: 2869187254
effective search space used: 2869187254
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)