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= 011884
(475 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 117 bits (292), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 120/458 (26%), Positives = 188/458 (41%), Gaps = 101/458 (22%)
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 VLPTRDLALQVNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPA 121
V PTRDLALQ+ + K I +M +SL D AA+
Sbjct: 101 VAPTRDLALQIEAEVKK--------------IHDMNYGLKKYACVSLVGGTDFRAAMNKM 146
Query: 122 VGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHI 181
L RP +I++ATPGRL+D +
Sbjct: 147 NKL--------------------RP---------------------NIVIATPGRLIDVL 165
Query: 182 NATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSL 241
+ Y V+DE DRLL ++ L T+ + N + T L
Sbjct: 166 EKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLL------- 218
Query: 242 KTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQ--LDLHHPLFL-TTGETRYKLP 298
SATL KLA ++ LFL T + +
Sbjct: 219 ------------------------FSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAH 254
Query: 299 ERLESYKLICESKLKPLYLVA--LLQSLGEE----KCIVFTSSVESTHRLCTLLNHFGEL 352
ER++ +I E ++ + + + E K I+F +V+ T LC++L + +
Sbjct: 255 ERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKK 314
Query: 353 RIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKT 412
+ I E+ G Q+ R+ +K F++ + +LV +D RGMD V+ V+ P+ +
Sbjct: 315 DLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELAN 374
Query: 413 YIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQKADN 450
YIHR GRTAR+G+ G + KDE+ F + L+ A N
Sbjct: 375 YIHRIGRTARSGKEGSSVLFICKDELP-FVRELEDAKN 411
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 112 bits (279), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 113/467 (24%), Positives = 195/467 (41%), Gaps = 109/467 (23%)
Query: 1 MGI-SSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRA 59
MGI + F + +E I + RD+ + G+GKT ++ +P ++ + + + ++A
Sbjct: 34 MGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKVKPKLNK-IQA 92
Query: 60 LVVLPTRDLALQVNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIA 119
L+++PTR+LALQ + V +
Sbjct: 93 LIMVPTRELALQTSQ---------------------------------------VVRTLG 113
Query: 120 PAVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMD 179
G+S + G +++ D D+L+ L V ILV TPGR++D
Sbjct: 114 KHCGISCMVTTGGTNLRD--------------------DILR-LNETVHILVGTPGRVLD 152
Query: 180 HINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFG 239
+ + + L ++DE D++L ++ + +L +FLP
Sbjct: 153 -LASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQIL---------------SFLPPTHQ 196
Query: 240 SLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPE 299
SL +P VK + L +K +++L L L Y E
Sbjct: 197 SL-----------LFSATFPLTVKEFMVKHL----HKPYEINLMEELTLKGITQYYAFVE 241
Query: 300 RLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEY 359
E KL C L L L + I+F + ST+R+ L +L
Sbjct: 242 --ERQKLHC--------LNTLFSKLQINQAIIFCN---STNRVELLAKKITDLGYSCYYS 288
Query: 360 SGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGR 419
+Q R+K FR+GK++ LV SD +TRG+D++ VN V+N+D P +TY+HR GR
Sbjct: 289 HARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGR 348
Query: 420 TARAGQLGRCFTLLHKDEVKRFKKLLQKADNDSCPIHSIPSSLIESL 466
+ R G LG L++ ++ K+ Q+ + I +IP+++ +SL
Sbjct: 349 SGRFGHLGLAINLINWNDRFNLYKIEQELGTE---IAAIPATIDKSL 392
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 106 bits (264), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 111/427 (25%), Positives = 178/427 (41%), Gaps = 91/427 (21%)
Query: 24 ERDLCINSPTGSGKTLSYALPIV-QTLSNRAVRCLRALVVLPTRDLALQVNSARCKYCCK 82
+RDL + TGSGKT ++ LPI+ Q S+ LRA+ +Y +
Sbjct: 52 KRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAM-------------KENGRYGRR 98
Query: 83 NIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVGQSSIADEISEL 142
+ ISL +AP L+V I +E +
Sbjct: 99 KQYP-------------------ISL--------VLAPTRELAV-------QIYEEARKF 124
Query: 143 IKRPKLEAGICYDPEDV---LQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDE 199
R ++ + Y D+ +++L+ +LVATPGRL+D + + L+ YLV+DE
Sbjct: 125 SYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGK-IGLDFCKYLVLDE 183
Query: 200 TDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYP 259
DR+L ++ P + ++ D T P K +R
Sbjct: 184 ADRMLDMGFE---PQIRRIVEQD---------TMPP------KGVRHT------------ 213
Query: 260 RLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESKLKPLYLVA 319
M+ SAT ++ LA+ L +FL G E + + E K +L+
Sbjct: 214 ----MMFSATFPKEIQMLARDFLDEYIFLAVGRVG-STSENITQKVVWVEESDKRSFLLD 268
Query: 320 LLQSLGEEK-CIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREG 378
LL + G++ +VF + + L L H G I G + Q R + L FR G
Sbjct: 269 LLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIH---GDRSQRDREEALHQFRSG 325
Query: 379 KIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEV 438
K +LV++ RG+D+ V +V+N+D P+ I+ Y+HR GRT R G LG + ++ +
Sbjct: 326 KSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNI 385
Query: 439 KRFKKLL 445
K LL
Sbjct: 386 NITKDLL 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 = 96.3 bits (238), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 81/311 (26%), Positives = 140/311 (45%), Gaps = 52/311 (16%)
Query: 135 IADEISELIKRPKLEAGICYDPEDVLQELQS--AVDILVATPGRLMDHINATRG-FTLEH 191
+ADEI L L+ Y + + ++++ +I+V TPGR++DHIN RG L++
Sbjct: 90 VADEIESLKGNKNLKIAKIYGGKAIYPQIKALKNANIVVGTPGRILDHIN--RGTLNLKN 147
Query: 192 LCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVER 251
+ Y ++DE D L + + +L D R S P L ++ +
Sbjct: 148 VKYFILDEADEXLNXGFIKDVEKILNACNKDK--RILLFSATXPREI--LNLAKKYXGDY 203
Query: 252 GFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESK 311
F +K ++A + Q ++ E ER E+
Sbjct: 204 SF--------IKAKINANIEQS-------------YVEVNEN-----ERFEA-------- 229
Query: 312 LKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKT 371
L LL++ E +VF + T L + L G K G QS R K
Sbjct: 230 -----LCRLLKN-KEFYGLVFCKTKRDTKELASXLRDIG---FKAGAIHGDLSQSQREKV 280
Query: 372 LKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFT 431
++ F++ KI++L+++D +RG+DV +N V+NY P ++Y HR GRT RAG+ G+ +
Sbjct: 281 IRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAIS 340
Query: 432 LLHKDEVKRFK 442
++++ E K+ +
Sbjct: 341 IINRREYKKLR 351
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 34/49 (69%), Gaps = 2/49 (4%)
Query: 24 ERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQV 72
E ++ + TGSGKT S+A+P+++ ++ + A+++ PTR+LA+QV
Sbjct: 44 EYNIVAQARTGSGKTASFAIPLIELVNEN--NGIEAIILTPTRELAIQV 90
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 95.9 bits (237), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 80/294 (27%), Positives = 133/294 (45%), Gaps = 45/294 (15%)
Query: 168 DILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRF 227
+I++ATPGRL+D + + Y V+DE DRLL ++ L T+ + N
Sbjct: 152 NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSA 211
Query: 228 SDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQ--LDLHHP 285
+ T L SATL KLA ++
Sbjct: 212 DNIKTLL-------------------------------FSATLDDKVQKLANNIMNKKEC 240
Query: 286 LFL-TTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEE--------KCIVFTSSV 336
LFL T + + ER++ +I E ++ A ++ + ++ K I+F +V
Sbjct: 241 LFLDTVDKNEPEAHERIDQSVVISEKFANSIF--AAVEHIKKQIKERDSNYKAIIFAPTV 298
Query: 337 ESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVE 396
+ T LC++L + + + I E+ G Q+ R+ +K F++ + +LV +D RGMD
Sbjct: 299 KFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFP 358
Query: 397 GVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQKADN 450
V+ V+ P+ + YIHR GRTAR+G+ G + KDE+ F + L+ A N
Sbjct: 359 NVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP-FVRELEDAKN 411
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 34/95 (35%), Positives = 49/95 (51%), Gaps = 15/95 (15%)
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 VLPTRDLALQV----------NSARCKYCCKNIFG 86
V PTRDLALQ+ N KY C ++ G
Sbjct: 101 VAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVG 135
>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 = 95.1 bits (235), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 98/414 (23%), Positives = 170/414 (41%), Gaps = 108/414 (26%)
Query: 25 RDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRALVVL--PTRDLALQVNSARCKYC 80
RDL + TGSGKT ++ LPI+ L + R VV+ PTR+LA+Q+ + K+
Sbjct: 94 RDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFA 153
Query: 81 CKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVGQSSIADEIS 140
F+S L +G+ G +S + +
Sbjct: 154 -------------------FESYL--------------------KIGIVYGGTSFRHQ-N 173
Query: 141 ELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDET 200
E I R C+ +++ATPGRL+D ++ T T E ++V+DE
Sbjct: 174 ECITRG------CH--------------VVIATPGRLLDFVDRTF-ITFEDTRFVVLDEA 212
Query: 201 DRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYPR 260
DR+L + + ++ T+R P
Sbjct: 213 DRMLDMGFSEDMRRIMTHV-----------------------TMR-------------PE 236
Query: 261 LVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLES-YKLICESKLKPLYLVA 319
++ SAT ++ ++A L + +F+ G + ++ Y++ +K L +
Sbjct: 237 HQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEIL 296
Query: 320 LLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGK 379
Q+ G IVF + L + L+ E G + QS R + L+ F+ G
Sbjct: 297 SEQADG---TIVFVETKRGADFLASFLS---EKEFPTTSIHGDRLQSQREQALRDFKNGS 350
Query: 380 IQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLL 433
++VL+++ +RG+D++ + +V+NYD P+ I Y+HR GRT R G GR +
Sbjct: 351 MKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFF 404
>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 = 95.1 bits (235), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 80/292 (27%), Positives = 131/292 (44%), Gaps = 41/292 (14%)
Query: 168 DILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRF 227
+I++ATPGRL+D + + Y V+DE DRLL ++ L T+ + N
Sbjct: 203 NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSA 262
Query: 228 SDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQ--LDLHHP 285
+ T L SATL KLA ++
Sbjct: 263 DNIKTLL-------------------------------FSATLDDKVQKLANNIMNKKEC 291
Query: 286 LFL-TTGETRYKLPERLESYKLICESKLKPLYLVA--LLQSLGEE----KCIVFTSSVES 338
LFL T + + ER++ +I E ++ + + + E K I+F +V+
Sbjct: 292 LFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKF 351
Query: 339 THRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGV 398
T LC++L + + + I E+ G Q+ R+ +K F++ + +LV +D RGMD V
Sbjct: 352 TSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNV 411
Query: 399 NNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQKADN 450
+ V+ P+ + YIHR GRTAR+G+ G + KDE+ F + L+ A N
Sbjct: 412 HEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP-FVRELEDAKN 462
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 34/95 (35%), Positives = 49/95 (51%), Gaps = 15/95 (15%)
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 VLPTRDLALQV----------NSARCKYCCKNIFG 86
V PTRDLALQ+ N KY C ++ G
Sbjct: 152 VAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVG 186
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 85.9 bits (211), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 88/435 (20%), Positives = 167/435 (38%), Gaps = 103/435 (23%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+
Sbjct: 26 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQ-VRETQALILAPTRELAV- 83
Query: 72 VNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVG 131
QV+ A+ + + +G
Sbjct: 84 --------------------------------------QVQKGLLALGDYMNVQCHACIG 105
Query: 132 QSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEH 191
+++ ++I ++L ++ TPGR+ D I R
Sbjct: 106 GTNVGEDI---------------------RKLDYGQHVVAGTPGRVFDMIRR-RSLRTRA 143
Query: 192 LCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVER 251
+ LV+DE D +L + ++ + D +LP
Sbjct: 144 IKMLVLDEADEMLNKGFK---------------EQIYDVYRYLP---------------- 172
Query: 252 GFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESK 311
P +++SATL + ++ + P+ + L + + + +
Sbjct: 173 -------PATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREE 225
Query: 312 LKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKT 371
K L L +L + ++F ++ ++ L E + G Q R
Sbjct: 226 WKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMREANFTVSSMHGDMPQKERESI 282
Query: 372 LKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFT 431
+K FR G +VL+S+D RG+DV V+ ++NYD P + YIHR GR+ R G+ G
Sbjct: 283 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVN 342
Query: 432 LLHKDEVKRFKKLLQ 446
+ D+++ + + Q
Sbjct: 343 FVKNDDIRVLRDIEQ 357
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 85.5 bits (210), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 88/435 (20%), Positives = 167/435 (38%), Gaps = 103/435 (23%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+
Sbjct: 26 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCL-DIQVRETQALILAPTRELAV- 83
Query: 72 VNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVG 131
QV+ A+ + + +G
Sbjct: 84 --------------------------------------QVQKGLLALGDYMNVQSHACIG 105
Query: 132 QSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEH 191
+++ ++I ++L ++ TPGR+ D I R
Sbjct: 106 GTNVGEDI---------------------RKLDYGQHVVAGTPGRVFDMIR-RRSLRTRA 143
Query: 192 LCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVER 251
+ LV+DE D +L + ++ + D +LP
Sbjct: 144 IKMLVLDEADEMLNKGFK---------------EQIYDVYRYLP---------------- 172
Query: 252 GFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESK 311
P +++SATL + ++ + P+ + L + + + +
Sbjct: 173 -------PATQVVLISATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREE 225
Query: 312 LKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKT 371
K L L +L + ++F ++ ++ L E + G Q R
Sbjct: 226 WKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMREANFTVSSMHGDMPQKERESI 282
Query: 372 LKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFT 431
+K FR G +VL+S+D RG+DV V+ ++NYD P + YIHR GR+ R G+ G
Sbjct: 283 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVN 342
Query: 432 LLHKDEVKRFKKLLQ 446
+ D+++ + + Q
Sbjct: 343 FVKNDDIRVLRDIEQ 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 = 85.5 bits (210), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 87/435 (20%), Positives = 167/435 (38%), Gaps = 103/435 (23%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+
Sbjct: 41 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-DIQVRETQALILAPTRELAV- 98
Query: 72 VNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVG 131
Q++ A+ + + +G
Sbjct: 99 --------------------------------------QIQKGLLALGDYMNVQCHACIG 120
Query: 132 QSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEH 191
+++ ++I ++L ++ TPGR+ D I R
Sbjct: 121 GTNVGEDI---------------------RKLDYGQHVVAGTPGRVFDMIRR-RSLRTRA 158
Query: 192 LCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVER 251
+ LV+DE D +L + ++ + D +LP
Sbjct: 159 IKMLVLDEADEMLNKGFK---------------EQIYDVYRYLP---------------- 187
Query: 252 GFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESK 311
P +++SATL + ++ + P+ + L + + + +
Sbjct: 188 -------PATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREE 240
Query: 312 LKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKT 371
K L L +L + ++F ++ ++ L E + G Q R
Sbjct: 241 WKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMREANFTVSSMHGDMPQKERESI 297
Query: 372 LKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFT 431
+K FR G +VL+S+D RG+DV V+ ++NYD P + YIHR GR+ R G+ G
Sbjct: 298 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAIN 357
Query: 432 LLHKDEVKRFKKLLQ 446
+ D+++ + + Q
Sbjct: 358 FVKNDDIRILRDIEQ 372
>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 = 85.5 bits (210), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 88/435 (20%), Positives = 169/435 (38%), Gaps = 103/435 (23%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+
Sbjct: 63 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQ-VRETQALILAPTRELAV- 120
Query: 72 VNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVG 131
Q++ A+ + + +G
Sbjct: 121 --------------------------------------QIQKGLLALGDYMNVQCHACIG 142
Query: 132 QSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEH 191
+++ ++I ++L ++ TPGR+ D I R
Sbjct: 143 GTNVGEDI---------------------RKLDYGQHVVAGTPGRVFDMIRR-RSLRTRA 180
Query: 192 LCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVER 251
+ LV+DE D +L + ++ + D +LP
Sbjct: 181 IKMLVLDEADEMLNKGFK---------------EQIYDVYRYLP---------------- 209
Query: 252 GFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESK 311
P ++V ++SATL + ++ + P+ + L + + + +
Sbjct: 210 -----PATQVV--LISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREE 262
Query: 312 LKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKT 371
K L L +L + ++F ++ ++ L E + G Q R
Sbjct: 263 WKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMREANFTVSSMHGDMPQKERESI 319
Query: 372 LKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFT 431
+K FR G +VL+S+D RG+DV V+ ++NYD P + YIHR GR+ R G+ G
Sbjct: 320 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAIN 379
Query: 432 LLHKDEVKRFKKLLQ 446
+ D+++ + + Q
Sbjct: 380 FVKNDDIRILRDIEQ 394
>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 = 85.1 bits (209), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 87/435 (20%), Positives = 167/435 (38%), Gaps = 103/435 (23%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+
Sbjct: 62 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-DIQVRETQALILAPTRELAV- 119
Query: 72 VNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVG 131
Q++ A+ + + +G
Sbjct: 120 --------------------------------------QIQKGLLALGDYMNVQCHACIG 141
Query: 132 QSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEH 191
+++ ++I ++L ++ TPGR+ D I R
Sbjct: 142 GTNVGEDI---------------------RKLDYGQHVVAGTPGRVFDMIRR-RSLRTRA 179
Query: 192 LCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVER 251
+ LV+DE D +L + ++ + D +LP
Sbjct: 180 IKMLVLDEADEMLNKGFK---------------EQIYDVYRYLP---------------- 208
Query: 252 GFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESK 311
P +++SATL + ++ + P+ + L + + + +
Sbjct: 209 -------PATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREE 261
Query: 312 LKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKT 371
K L L +L + ++F ++ ++ L E + G Q R
Sbjct: 262 WKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMREANFTVSSMHGDMPQKERESI 318
Query: 372 LKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFT 431
+K FR G +VL+S+D RG+DV V+ ++NYD P + YIHR GR+ R G+ G
Sbjct: 319 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAIN 378
Query: 432 LLHKDEVKRFKKLLQ 446
+ D+++ + + Q
Sbjct: 379 FVKNDDIRILRDIEQ 393
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 85.1 bits (209), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 87/435 (20%), Positives = 167/435 (38%), Gaps = 103/435 (23%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I + RD+ S +G+GKT ++++ ++Q L + VR +AL++ PTR+LA+
Sbjct: 63 AIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-DIQVRETQALILAPTRELAV- 120
Query: 72 VNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVG 131
Q++ A+ + + +G
Sbjct: 121 --------------------------------------QIQKGLLALGDYMNVQCHACIG 142
Query: 132 QSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEH 191
+++ ++I ++L ++ TPGR+ D I R
Sbjct: 143 GTNVGEDI---------------------RKLDYGQHVVAGTPGRVFDMIRR-RSLRTRA 180
Query: 192 LCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVER 251
+ LV+DE D +L + ++ + D +LP
Sbjct: 181 IKMLVLDEADEMLNKGFK---------------EQIYDVYRYLP---------------- 209
Query: 252 GFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESK 311
P +++SATL + ++ + P+ + L + + + +
Sbjct: 210 -------PATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREE 262
Query: 312 LKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKT 371
K L L +L + ++F ++ ++ L E + G Q R
Sbjct: 263 WKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMREANFTVSSMHGDMPQKERESI 319
Query: 372 LKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFT 431
+K FR G +VL+S+D RG+DV V+ ++NYD P + YIHR GR+ R G+ G
Sbjct: 320 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAIN 379
Query: 432 LLHKDEVKRFKKLLQ 446
+ D+++ + + Q
Sbjct: 380 FVKNDDIRILRDIEQ 394
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 85.1 bits (209), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 50/133 (37%), Positives = 75/133 (56%), Gaps = 12/133 (9%)
Query: 321 LQSLGEEK---CIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFRE 377
+Q+L E K IVF + +L L ++ ELR G QSVR++ + AFRE
Sbjct: 212 VQALRENKDKGVIVFVRTRNRVAKLVRLFDNAIELR-------GDLPQSVRNRNIDAFRE 264
Query: 378 GKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDE 437
G+ +L+++D +RG+D+ V V+N+D P ++TYIHR GRT R G+ G T + +
Sbjct: 265 GEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILNEY 324
Query: 438 V--KRFKKLLQKA 448
K KK+ QKA
Sbjct: 325 WLEKEVKKVSQKA 337
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 11/74 (14%)
Query: 1 MGISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRAL 60
MG + VQ +TI L +++ + + TGSGKT +YA+PI++ +++L
Sbjct: 12 MGFKNFTEVQ----SKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL-------GMKSL 60
Query: 61 VVLPTRDLALQVNS 74
VV PTR+L QV S
Sbjct: 61 VVTPTRELTRQVAS 74
>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 = 82.8 bits (203), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 90/406 (22%), Positives = 162/406 (39%), Gaps = 108/406 (26%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I P + D+ + +G+GKT ++++ +Q + + +V+ +AL++ PTR+LALQ
Sbjct: 47 AIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-DTSVKAPQALMLAPTRELALQ 105
Query: 72 VNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVG 131
+ + V A+A + + V +G
Sbjct: 106 I---------------------------------------QKVVMALAFHMDIKVHACIG 126
Query: 132 QSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEH 191
+S ++ L I+V TPGR+ D+I R F +
Sbjct: 127 GTSFVEDAEGL----------------------RDAQIVVGTPGRVFDNIQRRR-FRTDK 163
Query: 192 LCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVER 251
+ ++DE D +L ++ + + T LP
Sbjct: 164 IKMFILDEADEMLSSGFKEQIYQIF---------------TLLP---------------- 192
Query: 252 GFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESK 311
P ++LSAT+ D ++ + +P+ + + L + Y + E +
Sbjct: 193 -------PTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEE 245
Query: 312 LKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL--NHFGELRIKIKEYSGLQRQSVRS 369
K L L S+ + ++F ++ L T L + F I YS L +Q R
Sbjct: 246 YKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI----YSDLPQQE-RD 300
Query: 370 KTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIH 415
+K FR G ++L+S+D + RG+DV+ V+ V+NYD PA + YIH
Sbjct: 301 TIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 346
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 89/413 (21%), Positives = 162/413 (39%), Gaps = 116/413 (28%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I P + D+ + +G+GKT ++A+ I+Q + ++ +ALV+ PTR+LA
Sbjct: 65 AIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIE-LDLKATQALVLAPTRELA-- 121
Query: 72 VNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVG 131
Q++ V A+ +G S +G
Sbjct: 122 -------------------------------------QQIQKVVMALGDYMGASCHACIG 144
Query: 132 QSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEH 191
+++ E+ +L ++EA P I+V TPGR+ D +N R + ++
Sbjct: 145 GTNVRAEVQKL----QMEA-----PH-----------IIVGTPGRVFDMLN-RRYLSPKY 183
Query: 192 LCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVER 251
+ V+DE D +L R
Sbjct: 184 IKMFVLDEADEML---------------------------------------------SR 198
Query: 252 GFKDKPYPRLVKM-------VLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESY 304
GFKD+ Y K+ +LSAT+ D ++ + + P+ + + L + Y
Sbjct: 199 GFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFY 258
Query: 305 KLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQR 364
+ + K L L ++L + ++F + + ++ L + G
Sbjct: 259 INVEREEWKLDTLCDLYETLTITQAVIF---INTRRKVDWLTEKMHARDFTVSAMHGDMD 315
Query: 365 QSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRA 417
Q R ++ FR G +VL+++D + RG+DV+ V+ V+NYD P + YIHR
Sbjct: 316 QKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRI 368
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 45/121 (37%), Positives = 63/121 (52%), Gaps = 3/121 (2%)
Query: 313 KPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTL 372
K LV LL+ + IVF E H L L G I G Q R++ +
Sbjct: 17 KTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAG---INNCYLEGEMVQGKRNEAI 73
Query: 373 KAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTL 432
K EG++ VLV++D RG+D+ V++V N+D P TY+HR GRTARAG+ G +L
Sbjct: 74 KRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISL 133
Query: 433 L 433
+
Sbjct: 134 V 134
>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 = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 89/413 (21%), Positives = 162/413 (39%), Gaps = 116/413 (28%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I P + D+ + +G+GKT ++A+ I+Q + ++ +ALV+ PTR+LA
Sbjct: 39 AIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIE-LDLKATQALVLAPTRELA-- 95
Query: 72 VNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVG 131
Q++ V A+ +G S +G
Sbjct: 96 -------------------------------------QQIQKVVMALGDYMGASCHACIG 118
Query: 132 QSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEH 191
+++ E+ +L ++EA P I+V TPGR+ D +N R + ++
Sbjct: 119 GTNVRAEVQKL----QMEA-----PH-----------IIVGTPGRVFDMLNR-RYLSPKY 157
Query: 192 LCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVER 251
+ V+DE D +L R
Sbjct: 158 IKMFVLDEADEML---------------------------------------------SR 172
Query: 252 GFKDKPYPRLVKM-------VLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESY 304
GFKD+ Y K+ +LSAT+ D ++ + + P+ + + L + Y
Sbjct: 173 GFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFY 232
Query: 305 KLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQR 364
+ + K L L ++L + ++F + + ++ L + G
Sbjct: 233 INVEREEWKLDTLCDLYETLTITQAVIF---INTRRKVDWLTEKMHARDFTVSAMHGDMD 289
Query: 365 QSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRA 417
Q R ++ FR G +VL+++D + RG+DV+ V+ V+NYD P + YIHR
Sbjct: 290 QKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRI 342
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 76.6 bits (187), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 90/406 (22%), Positives = 156/406 (38%), Gaps = 108/406 (26%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I P + D+ + +G+GKT ++++ +Q + + +V+ +AL + PTR+LALQ
Sbjct: 46 AIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-DTSVKAPQALXLAPTRELALQ 104
Query: 72 VNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVG 131
++ V A+A + V +G
Sbjct: 105 ---------------------------------------IQKVVXALAFHXDIKVHACIG 125
Query: 132 QSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEH 191
+S ++ L I+V TPGR+ D+I R F +
Sbjct: 126 GTSFVEDAEGL----------------------RDAQIVVGTPGRVFDNIQRRR-FRTDK 162
Query: 192 LCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVER 251
+ ++DE D L ++ + + T LP
Sbjct: 163 IKXFILDEADEXLSSGFKEQIYQIF---------------TLLP---------------- 191
Query: 252 GFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESK 311
P ++LSAT D ++ +P+ + + L + Y + E +
Sbjct: 192 -------PTTQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEE 244
Query: 312 LKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL--NHFGELRIKIKEYSGLQRQSVRS 369
K L L S+ + ++F ++ L T L + F I YS L +Q R
Sbjct: 245 YKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI----YSDLPQQE-RD 299
Query: 370 KTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIH 415
K FR G ++L+S+D + RG+DV+ V+ V+NYD PA + YIH
Sbjct: 300 TIXKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 345
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 76.6 bits (187), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 65/230 (28%), Positives = 99/230 (43%), Gaps = 70/230 (30%)
Query: 8 PVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRD 67
P ++ + E I L RD+ + TGSGKT ++ALPI+ L R L ALV+ PTR+
Sbjct: 66 PTKIQI--EAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQR-LFALVLTPTRE 122
Query: 68 LALQVNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVG 127
LA Q++ + F A+ ++G+
Sbjct: 123 LAFQIS---------------------------------------EQFEALGSSIGVQSA 143
Query: 128 LAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGF 187
+ VG + L K+P I++ATPGRL+DH+ T+GF
Sbjct: 144 VIVGGIDSMSQSLALAKKPH---------------------IIIATPGRLIDHLENTKGF 182
Query: 188 TLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTFLPSA 237
L L YLV+DE DR+L ++ + +L++ D + TFL SA
Sbjct: 183 NLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRK-------TFLFSA 225
>pdb|4DB4|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
pdb|4DB4|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
Length = 256
Score = 75.9 bits (185), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 70/123 (56%), Gaps = 1/123 (0%)
Query: 328 KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSD 387
K I+F +V+ T LC++L + + + I E+ G Q+ R+ +K F++ + +LV +D
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 388 AMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQK 447
RGMD V+ V+ P+ + YIHR GRTAR+G+ G + KDE+ F + L+
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP-FVRELED 153
Query: 448 ADN 450
A N
Sbjct: 154 AKN 156
>pdb|4DB2|C Chain C, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|D Chain D, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 75.9 bits (185), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 70/123 (56%), Gaps = 1/123 (0%)
Query: 328 KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSD 387
K I+F +V+ T LC++L + + + I E+ G Q+ R+ +K F++ + +LV +D
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 388 AMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQK 447
RGMD V+ V+ P+ + YIHR GRTAR+G+ G + KDE+ F + L+
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP-FVRELED 153
Query: 448 ADN 450
A N
Sbjct: 154 AKN 156
>pdb|4DB2|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 75.9 bits (185), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 70/123 (56%), Gaps = 1/123 (0%)
Query: 328 KCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSD 387
K I+F +V+ T LC++L + + + I E+ G Q+ R+ +K F++ + +LV +D
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 388 AMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKDEVKRFKKLLQK 447
RGMD V+ V+ P+ + YIHR GRTAR+G+ G + KDE+ F + L+
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP-FVRELED 153
Query: 448 ADN 450
A N
Sbjct: 154 AKN 156
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 75.9 bits (185), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 68/268 (25%), Positives = 118/268 (44%), Gaps = 47/268 (17%)
Query: 169 ILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFS 228
I+V TPGR++ + + L+H+ + ++DE D++L + L + R
Sbjct: 130 IVVGTPGRIL-ALARNKSLNLKHIKHFILDEADKMLEQ---------LDMRRD------- 172
Query: 229 DASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPL-F 287
V+ F+ P+ + V M+ SATL+++ + + + P+
Sbjct: 173 --------------------VQEIFRMTPHEKQV-MMFSATLSKEIRPVCRKFMQDPMEI 211
Query: 288 LTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL- 346
ET+ L L+ Y + + K L LL L + ++F SV+ L LL
Sbjct: 212 FVDDETKLTL-HGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLV 270
Query: 347 -NHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYD 405
+F + I + G+ Q R + F++ + ++LV+++ RGMD+E VN NYD
Sbjct: 271 EQNFPAIAI----HRGMP-QEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYD 325
Query: 406 KPAYIKTYIHRAGRTARAGQLGRCFTLL 433
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 = 75.5 bits (184), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 68/268 (25%), Positives = 118/268 (44%), Gaps = 47/268 (17%)
Query: 169 ILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFS 228
I+V TPGR++ + + L+H+ + ++DE D++L + L + R
Sbjct: 131 IVVGTPGRIL-ALARNKSLNLKHIKHFILDECDKMLEQ---------LDMRRD------- 173
Query: 229 DASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPL-F 287
V+ F+ P+ + V M+ SATL+++ + + + P+
Sbjct: 174 --------------------VQEIFRMTPHEKQV-MMFSATLSKEIRPVCRKFMQDPMEI 212
Query: 288 LTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL- 346
ET+ L L+ Y + + K L LL L + ++F SV+ L LL
Sbjct: 213 FVDDETKLTL-HGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLV 271
Query: 347 -NHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYD 405
+F + I + G+ Q R + F++ + ++LV+++ RGMD+E VN NYD
Sbjct: 272 EQNFPAIAI----HRGMP-QEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYD 326
Query: 406 KPAYIKTYIHRAGRTARAGQLGRCFTLL 433
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 = 75.5 bits (184), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 68/268 (25%), Positives = 118/268 (44%), Gaps = 47/268 (17%)
Query: 169 ILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFS 228
I+V TPGR++ + + L+H+ + ++DE D++L + L + R
Sbjct: 131 IVVGTPGRIL-ALARNKSLNLKHIKHFILDECDKMLEQ---------LDMRRD------- 173
Query: 229 DASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPL-F 287
V+ F+ P+ + V M+ SATL+++ + + + P+
Sbjct: 174 --------------------VQEIFRMTPHEKQV-MMFSATLSKEIRPVCRKFMQDPMEI 212
Query: 288 LTTGETRYKLPERLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL- 346
ET+ L L+ Y + + K L LL L + ++F SV+ L LL
Sbjct: 213 FVDDETKLTL-HGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLV 271
Query: 347 -NHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYD 405
+F + I + G+ Q R + F++ + ++LV+++ RGMD+E VN NYD
Sbjct: 272 EQNFPAIAI----HRGMP-QEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYD 326
Query: 406 KPAYIKTYIHRAGRTARAGQLGRCFTLL 433
P TY+HR R R G G T +
Sbjct: 327 MPEDSDTYLHRVARAGRFGTKGLAITFV 354
>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 = 7e-14, Method: Compositional matrix adjust.
Identities = 39/99 (39%), Positives = 59/99 (59%), Gaps = 4/99 (4%)
Query: 361 GLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRT 420
G + Q R+K ++AFREGK VLV++D ++G+D + +V+NYD P I+ Y+HR GRT
Sbjct: 86 GGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRT 145
Query: 421 ARAGQLGRCFTLLHK--DE--VKRFKKLLQKADNDSCPI 455
+G G T ++K DE + K LL +A P+
Sbjct: 146 GCSGNTGIATTFINKACDESVLMDLKALLLEAKQKVPPV 184
>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 = 75.1 bits (183), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 47/150 (31%), Positives = 74/150 (49%), Gaps = 6/150 (4%)
Query: 317 LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFR 376
L L L + I+F +S + L ++ G I RQ R++ FR
Sbjct: 35 LNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIH---AKMRQEHRNRVFHDFR 91
Query: 377 EGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKD 436
G + LV +D TRG+D++ VN V+N+D P +TY+HR GR+ R G LG L+ D
Sbjct: 92 NGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLITYD 151
Query: 437 EVKRFKKLLQKADNDSCPIHSIPSSLIESL 466
+ K + ++ + P IPS++ +SL
Sbjct: 152 DRFNLKSIEEQLGTEIKP---IPSNIDKSL 178
>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: 308 CESKLKPLYLVALLQSLGEEK-CIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQS 366
E K +L+ LL + G++ +VF + + L L H G I G + Q
Sbjct: 27 VEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIH---GDRSQR 83
Query: 367 VRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQL 426
R + L FR GK +LV++ RG+D+ V +V+N+D P+ I+ Y+HR GRT R G L
Sbjct: 84 DREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNL 143
Query: 427 GRCFTLLHKDEVKRFKKLL 445
G + ++ + K LL
Sbjct: 144 GLATSFFNERNINITKDLL 162
>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 = 5e-13, Method: Compositional matrix adjust.
Identities = 42/125 (33%), Positives = 67/125 (53%), Gaps = 4/125 (3%)
Query: 317 LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFR 376
L +L + + CI+F + E ++L L+ G KI G Q R + F+
Sbjct: 26 LKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKI---HGGMIQEDRFDVMNEFK 82
Query: 377 EGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRCFTLLHKD 436
G+ + LV++D RG+D+E ++ V+NYD P ++Y+HR GRT RAG G+ + +
Sbjct: 83 RGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAF 142
Query: 437 EVKRF 441
E KRF
Sbjct: 143 E-KRF 146
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 66.2 bits (160), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 41/123 (33%), Positives = 64/123 (52%), Gaps = 20/123 (16%)
Query: 361 GLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKP------AYIKTYI 414
G QR ++ + +FR G +VLV+++ + RG+DV VN VVNYD P +TY+
Sbjct: 393 GAQRDAI----MDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYL 448
Query: 415 HRAGRTARAGQLGRCFTLLHK----DEVKRFKKLLQKADNDSCPIHSIPSSLIESLRPVY 470
HR GRT R G++G +H +E+ ++ Q+ PI +P+ E L V
Sbjct: 449 HRIGRTGRFGRVGVSINFVHDKKSWEEMNAIQEYFQR------PITRVPTDDYEELEKVV 502
Query: 471 KSG 473
K+
Sbjct: 503 KNA 505
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 39/67 (58%), Gaps = 5/67 (7%)
Query: 25 RDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ---VNSARCKYC- 80
R++ S +G+GKT ++AL ++ + + +V +A+ + P+R+LA Q V + KY
Sbjct: 159 RNMIGQSQSGTGKTAAFALTMLSRV-DASVPKPQAICLAPSRELARQIMDVVTEMGKYTE 217
Query: 81 CKNIFGL 87
K FG+
Sbjct: 218 VKTAFGI 224
>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 = 65.5 bits (158), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 57/209 (27%), Positives = 100/209 (47%), Gaps = 20/209 (9%)
Query: 259 PRLVKMVL-SATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESKLKPLY- 316
PR +M+L SAT K AQ + P + L + ++ Y ++C S+ +
Sbjct: 198 PRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL-DTIKQYYVLCSSRDEKFQA 256
Query: 317 LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFR 376
L L ++ + ++F + ++ L L+ G ++ SG R+ ++ FR
Sbjct: 257 LCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGH---QVALLSGEMMVEQRAAVIERFR 313
Query: 377 EGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI------KTYIHRAGRTARAGQLGRCF 430
EGK +VLV+++ RG+DVE V+ V+N+D P +TY+HR GRT R G+ G
Sbjct: 314 EGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAV 373
Query: 431 TLL---HKDEV-----KRFKKLLQKADND 451
++ H + + F K +++ D D
Sbjct: 374 NMVDSKHSMNILNRIQEHFNKKIERLDTD 402
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 65.5 bits (158), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 57/209 (27%), Positives = 100/209 (47%), Gaps = 20/209 (9%)
Query: 259 PRLVKMVL-SATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESKLKPLY- 316
PR +M+L SAT K AQ + P + L + ++ Y ++C S+ +
Sbjct: 214 PRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL-DTIKQYYVLCSSRDEKFQA 272
Query: 317 LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFR 376
L L ++ + ++F + ++ L L+ G ++ SG R+ ++ FR
Sbjct: 273 LCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGH---QVALLSGEMMVEQRAAVIERFR 329
Query: 377 EGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI------KTYIHRAGRTARAGQLGRCF 430
EGK +VLV+++ RG+DVE V+ V+N+D P +TY+HR GRT R G+ G
Sbjct: 330 EGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAV 389
Query: 431 TLL---HKDEV-----KRFKKLLQKADND 451
++ H + + F K +++ D D
Sbjct: 390 NMVDSKHSMNILNRIQEHFNKKIERLDTD 418
>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 = 65.5 bits (158), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 57/209 (27%), Positives = 100/209 (47%), Gaps = 20/209 (9%)
Query: 259 PRLVKMVL-SATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESKLKPLY- 316
PR +M+L SAT K AQ + P + L + ++ Y ++C S+ +
Sbjct: 235 PRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL-DTIKQYYVLCSSRDEKFQA 293
Query: 317 LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFR 376
L L ++ + ++F + ++ L L+ G ++ SG R+ ++ FR
Sbjct: 294 LCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGH---QVALLSGEMMVEQRAAVIERFR 350
Query: 377 EGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI------KTYIHRAGRTARAGQLGRCF 430
EGK +VLV+++ RG+DVE V+ V+N+D P +TY+HR GRT R G+ G
Sbjct: 351 EGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAV 410
Query: 431 TLL---HKDEV-----KRFKKLLQKADND 451
++ H + + F K +++ D D
Sbjct: 411 NMVDSKHSMNILNRIQEHFNKKIERLDTD 439
>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
pdb|3FMP|D Chain D, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 479
Score = 65.5 bits (158), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 57/209 (27%), Positives = 100/209 (47%), Gaps = 20/209 (9%)
Query: 259 PRLVKMVL-SATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERLESYKLICESKLKPLY- 316
PR +M+L SAT K AQ + P + L + ++ Y ++C S+ +
Sbjct: 265 PRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL-DTIKQYYVLCSSRDEKFQA 323
Query: 317 LVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFR 376
L L ++ + ++F + ++ L L+ G ++ SG R+ ++ FR
Sbjct: 324 LCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGH---QVALLSGEMMVEQRAAVIERFR 380
Query: 377 EGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYI------KTYIHRAGRTARAGQLGRCF 430
EGK +VLV+++ RG+DVE V+ V+N+D P +TY+HR GRT R G+ G
Sbjct: 381 EGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAV 440
Query: 431 TLL---HKDEV-----KRFKKLLQKADND 451
++ H + + F K +++ D D
Sbjct: 441 NMVDSKHSMNILNRIQEHFNKKIERLDTD 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 = 65.1 bits (157), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 64/116 (55%), Gaps = 17/116 (14%)
Query: 329 CIVFTSSVESTHRLCTLLNHFGELRIKIKEYS----GLQRQSVRSKTLKAFREGKIQVLV 384
I+F ++ ++ + L +G+L+ + E S LQ Q R + + FREG+ +VL+
Sbjct: 246 SIIFVATKKTANVL------YGKLKSEGHEVSILHGDLQTQE-RDRLIDDFREGRSKVLI 298
Query: 385 SSDAMTRGMDVEGVNNVVNYDKPAYIK------TYIHRAGRTARAGQLGRCFTLLH 434
+++ + RG+D+ V+ VVNYD P TYIHR GRT R G+ G + +H
Sbjct: 299 TTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVH 354
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 65.1 bits (157), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 64/116 (55%), Gaps = 17/116 (14%)
Query: 329 CIVFTSSVESTHRLCTLLNHFGELRIKIKEYS----GLQRQSVRSKTLKAFREGKIQVLV 384
I+F ++ ++ + L +G+L+ + E S LQ Q R + + FREG+ +VL+
Sbjct: 246 SIIFVATKKTANVL------YGKLKSEGHEVSILHGDLQTQE-RDRLIDDFREGRSKVLI 298
Query: 385 SSDAMTRGMDVEGVNNVVNYDKPAYIK------TYIHRAGRTARAGQLGRCFTLLH 434
+++ + RG+D+ V+ VVNYD P TYIHR GRT R G+ G + +H
Sbjct: 299 TTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVH 354
>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
H337r And Ip6
pdb|3PEV|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
And Ip6
Length = 188
Score = 65.1 bits (157), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 44/133 (33%), Positives = 70/133 (52%), Gaps = 22/133 (16%)
Query: 312 LKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYS----GLQRQSV 367
L LY V + S I+F ++ ++ + L +G+L+ + E S LQ Q
Sbjct: 27 LTELYGVXTIGS-----SIIFVATKKTANVL------YGKLKSEGHEVSILHGDLQTQE- 74
Query: 368 RSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIK------TYIHRAGRTA 421
R + + FREG+ +VL++++ + RG+D+ V+ VVNYD P TYIHR GRT
Sbjct: 75 RDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTG 134
Query: 422 RAGQLGRCFTLLH 434
R G+ G + +H
Sbjct: 135 RFGRKGVAISFVH 147
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 56/218 (25%), Positives = 98/218 (44%), Gaps = 61/218 (27%)
Query: 1 MGISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRAL 60
MG +++ +Q ++I P L RDL + TGSGKTL++ +P V+ L
Sbjct: 72 MGFTNMTEIQ----HKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVE------------L 115
Query: 61 VVLPTRDLALQVNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAP 120
+V + ++ +N G++ E+ +Q +L K++
Sbjct: 116 IV-------------KLRFMPRNGTGVLILSPTRELAMQTFGVL-------KELMTHHVH 155
Query: 121 AVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDH 180
GL +G G + A+ Q+L + ++I+VATPGRL+DH
Sbjct: 156 TYGLIMG---GSNRSAEA----------------------QKLGNGINIIVATPGRLLDH 190
Query: 181 INATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQL 218
+ T GF ++L LV+DE DR+L ++ L +++L
Sbjct: 191 MQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKL 228
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 64/116 (55%), Gaps = 17/116 (14%)
Query: 329 CIVFTSSVESTHRLCTLLNHFGELRIKIKEYS----GLQRQSVRSKTLKAFREGKIQVLV 384
I+F ++ ++ + L +G+L+ + E S LQ Q R + + FREG+ +VL+
Sbjct: 40 SIIFVATKKTANVL------YGKLKSEGHEVSILHGDLQTQE-RDRLIDDFREGRSKVLI 92
Query: 385 SSDAMTRGMDVEGVNNVVNYDKPAYIK------TYIHRAGRTARAGQLGRCFTLLH 434
+++ + RG+D+ V+ VVNYD P TYIHR GRT R G+ G + +H
Sbjct: 93 TTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVH 148
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 64/116 (55%), Gaps = 17/116 (14%)
Query: 329 CIVFTSSVESTHRLCTLLNHFGELRIKIKEYS----GLQRQSVRSKTLKAFREGKIQVLV 384
I+F ++ ++ + L +G+L+ + E S LQ Q R + + FREG+ +VL+
Sbjct: 38 SIIFVATKKTANVL------YGKLKSEGHEVSILHGDLQTQE-RDRLIDDFREGRSKVLI 90
Query: 385 SSDAMTRGMDVEGVNNVVNYDKPAYIK------TYIHRAGRTARAGQLGRCFTLLH 434
+++ + RG+D+ V+ VVNYD P TYIHR GRT R G+ G + +H
Sbjct: 91 TTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVH 146
>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 = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 45/152 (29%), Positives = 77/152 (50%), Gaps = 12/152 (7%)
Query: 301 LESYKLICES-KLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEY 359
+ Y ++CE K K L + S+ + I+F + + L + G ++
Sbjct: 8 IRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGH---QVSLL 64
Query: 360 SGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYD-------KPAYIKT 412
SG R+ ++ FR+GK +VL++++ RG+DV+ V VVN+D +P Y +T
Sbjct: 65 SGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDY-ET 123
Query: 413 YIHRAGRTARAGQLGRCFTLLHKDEVKRFKKL 444
Y+HR GRT R G+ G F ++ DE+ K+
Sbjct: 124 YLHRIGRTGRFGKKGLAFNMIEVDELPSLMKI 155
>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: 301 LESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL--NHFGELRIKIKE 358
L+ Y + + K L LL L + ++F SV+ L LL +F + I
Sbjct: 6 LQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI---- 61
Query: 359 YSGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAG 418
+ G+ Q R + F++ + ++LV+++ RGMD+E VN NYD P TY+HR
Sbjct: 62 HRGMP-QEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVA 120
Query: 419 RTARAGQLGRCFTLLHKDEVKRFKKLLQKADNDSCPIHSIP-----SSLIESLR 467
R R G G T + + + +Q D I +P SS IE R
Sbjct: 121 RAGRFGTKGLAITFVSDENDAKILNDVQ--DRFEVNISELPDEIDISSYIEQTR 172
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 56.2 bits (134), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 48/208 (23%), Positives = 81/208 (38%), Gaps = 64/208 (30%)
Query: 13 VWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSN---RAVRCLRALVVLPTRDLA 69
+ ++TIG L +D+ + TGSGKTL++ +P+++ L + L L++ PTR+LA
Sbjct: 51 IQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLIISPTRELA 110
Query: 70 LQVNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLA 129
Q +V + S GL
Sbjct: 111 Y---------------------------------------QTFEVLRKVGKNHDFSAGLI 131
Query: 130 VGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTL 189
+G + E + + ++ILV TPGRL+ H++ T F
Sbjct: 132 IGGKDLKHEAERI----------------------NNINILVCTPGRLLQHMDETVSFHA 169
Query: 190 EHLCYLVVDETDRLLREAYQAWLPTVLQ 217
L LV+DE DR+L + + V++
Sbjct: 170 TDLQMLVLDEADRILDMGFADTMNAVIE 197
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 58/116 (50%), Gaps = 15/116 (12%)
Query: 302 ESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL--NHFGELRIKIKEY 359
E YK C L L S+ + ++F ++ L T L + F I Y
Sbjct: 14 EEYKYEC--------LTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI----Y 61
Query: 360 SGLQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIH 415
S L +Q R +K FR G ++L+S+D + RG+DV+ V+ V+NYD PA + YIH
Sbjct: 62 SDLPQQE-RDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 116
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 55.8 bits (133), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 50/94 (53%)
Query: 7 FPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTR 66
F + + + I L R+L ++PTGSGKTL++++PI+ L A + RAL++ PTR
Sbjct: 49 FQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPANKGFRALIISPTR 108
Query: 67 DLALQVNSARCKYCCKNIFGLIADHSIAEMCVQF 100
+LA Q++ K F + H A +F
Sbjct: 109 ELASQIHRELIKISEGTGFRIHMIHKAAVAAKKF 142
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 168 DILVATPGRLMDHINATR-GFTLEHLCYLVVDETDRLLREA 207
DILV TP RL+ + G L + +LVVDE+D+L +
Sbjct: 151 DILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDG 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 = 55.8 bits (133), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 54/234 (23%), Positives = 101/234 (43%), Gaps = 68/234 (29%)
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 VVLPTRDLALQVNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAP 120
V++PTR+LALQV +++C+Q +
Sbjct: 76 VIVPTRELALQV---------------------SQICIQVSKHMG--------------- 99
Query: 121 AVGLSVGLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDH 180
G V G +++ D+I L V +++ATPGR++D
Sbjct: 100 --GAKVMATTGGTNLRDDI---------------------MRLDDTVHVVIATPGRILDL 136
Query: 181 INATRGFT-LEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNENRFSDASTF 233
I +G ++H+ +V+DE D+LL + + + ++ LT N ++TF
Sbjct: 137 IK--KGVAKVDHVQMIVLDEADKLLSQDFVQIMEDII-LTLPKNRQILLYSATF 187
>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 = 4e-07, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 48/96 (50%), Gaps = 3/96 (3%)
Query: 320 LLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGK 379
LL ++ +VFT + T + L G + G Q R + + AFR+G+
Sbjct: 22 LLYVASPDRAMVFTRTKAETEEIAQGLLRLGH---PAQALHGDMSQGERERVMGAFRQGE 78
Query: 380 IQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIH 415
++VLV++D RG+D+ V+ VV+Y P + Y H
Sbjct: 79 VRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQH 114
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 48/96 (50%), Gaps = 3/96 (3%)
Query: 320 LLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGK 379
LL ++ +VFT + T + L G + G Q R + L AFR+G+
Sbjct: 25 LLYVASPDRAMVFTRTKAETEEIAQGLLRLGH---PAQALHGDLSQGERERVLGAFRQGE 81
Query: 380 IQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIH 415
++VLV++D RG+D+ V+ VV+Y P + Y H
Sbjct: 82 VRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>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 = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 33/75 (44%), Positives = 46/75 (61%), Gaps = 6/75 (8%)
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 LVVLPTRDLALQVNS 74
LV+ PTR+LALQV S
Sbjct: 76 LVLTPTRELALQVAS 90
>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 = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 32/75 (42%), Positives = 46/75 (61%), Gaps = 6/75 (8%)
Query: 2 GISSLFPVQVAVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTL--SNRAVRCLRA 59
G+++ P++ A + L +DL + TG+GKTL++ALPI + L S R RA
Sbjct: 20 GLTTPTPIEAAA----LPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRA 75
Query: 60 LVVLPTRDLALQVNS 74
LV+ PTR+LALQV S
Sbjct: 76 LVLTPTRELALQVAS 90
>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 = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 38/137 (27%), Positives = 63/137 (45%), Gaps = 35/137 (25%)
Query: 155 DPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPT 214
D ++E+Q +LVATPGRL+D I + +LE Y+V+DE DR+L ++ P
Sbjct: 139 DTHSQIREVQMGCHLLVATPGRLVDFIEKNK-ISLEFCKYIVLDEADRMLDMGFE---PQ 194
Query: 215 VLQLTRSDNENRFSDASTFLPSAFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDP 274
+ ++ N +PS G+ R ++ SAT ++
Sbjct: 195 IRKIIEESN----------MPS-----------GINRQ----------TLMFSATFPKEI 223
Query: 275 NKLAQLDLHHPLFLTTG 291
KLA L++ +F+T G
Sbjct: 224 QKLAADFLYNYIFMTVG 240
Score = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 9/74 (12%)
Query: 15 QETIGPGLFE-RDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLR--------ALVVLPT 65
Q+ P + E RD+ + TGSGKT ++ +PI+ L + + R L++ PT
Sbjct: 50 QKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPT 109
Query: 66 RDLALQVNSARCKY 79
R+LA+Q+ S K+
Sbjct: 110 RELAIQILSESQKF 123
>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 = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 160 LQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLT 219
++++ VDI++ATPGRL D + L + YLV+DE D++L ++ + +L
Sbjct: 137 IEDISKGVDIIIATPGRLND-LQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDV 195
Query: 220 RSDNENRFSDAS 231
R D + + A+
Sbjct: 196 RPDRQTVMTSAT 207
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/89 (35%), Positives = 44/89 (49%), Gaps = 9/89 (10%)
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 CLRALVVLPTRDLALQVNSARCKYCCKNI 84
LV+ PTR+LAL V + KY K +
Sbjct: 94 GPGMLVLTPTRELALHVEAECSKYSYKGL 122
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 46/207 (22%), Positives = 85/207 (41%), Gaps = 63/207 (30%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I P + D+ + +G+GKT ++A+ I+Q L + +ALV+ PTR+LA
Sbjct: 55 AIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEIE-FKETQALVLAPTRELA-- 111
Query: 72 VNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVG 131
Q++ V A+ +G + +G
Sbjct: 112 -------------------------------------QQIQKVILALGDYMGATCHACIG 134
Query: 132 QSSIADEISELIKRPKLEAGICYDPEDVLQELQS-AVDILVATPGRLMDHINATRGFTLE 190
+++ +E +Q+LQ+ A I+V TPGR+ D +N R + +
Sbjct: 135 GTNVRNE---------------------MQKLQAEAPHIVVGTPGRVFDMLN-RRYLSPK 172
Query: 191 HLCYLVVDETDRLLREAYQAWLPTVLQ 217
+ V+DE D +L ++ + + Q
Sbjct: 173 WIKMFVLDEADEMLSRGFKDQIYEIFQ 199
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 160 LQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLT 219
+++L+ V+I +ATPGRL+D + + L YLV+DE DR+L ++ + ++
Sbjct: 160 IRDLERGVEICIATPGRLIDFLECGKT-NLRRTTYLVLDEADRMLDMGFEPQIRKIVDQI 218
Query: 220 RSDNENRFSDAS 231
R D + A+
Sbjct: 219 RPDRQTLMWSAT 230
Score = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 6/60 (10%)
Query: 26 DLCINSPTGSGKTLSYALPIV-----QTLSNRAVRCLRALVVLPTRDLALQVNSARCKYC 80
D+ + TGSGKTLSY LP + Q R + LV+ PTR+LA QV +YC
Sbjct: 82 DMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPI-CLVLAPTRELAQQVQQVAAEYC 140
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 160 LQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAYQAWLPTVLQLT 219
+++L+ V+I +ATPGRL+D + + L YLV+DE DR+L ++ + ++
Sbjct: 146 IRDLERGVEICIATPGRLIDFLECGKT-NLRRTTYLVLDEADRMLDMGFEPQIRKIVDQI 204
Query: 220 RSDNENRFSDAS 231
R D + A+
Sbjct: 205 RPDRQTLMWSAT 216
Score = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 6/60 (10%)
Query: 26 DLCINSPTGSGKTLSYALPIV-----QTLSNRAVRCLRALVVLPTRDLALQVNSARCKYC 80
D+ + TGSGKTLSY LP + Q R + LV+ PTR+LA QV +YC
Sbjct: 68 DMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPI-CLVLAPTRELAQQVQQVAAEYC 126
>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 = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 47/218 (21%), Positives = 86/218 (39%), Gaps = 61/218 (27%)
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 DLALQVNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSV 126
+LA Q++ V A+ +G S
Sbjct: 94 ELA---------------------------------------QQIQXVVMALGDYMGASC 114
Query: 127 GLAVGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRG 186
+G +++ E+ L ++EA P I+V TPGR+ D +N R
Sbjct: 115 HACIGGTNVRAEVQXL----QMEA-----PH-----------IIVGTPGRVFDMLN-RRY 153
Query: 187 FTLEHLCYLVVDETDRLLREAYQAWLPTVLQLTRSDNE 224
+ ++ V+DE D +L + + + Q S+ +
Sbjct: 154 LSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQ 191
>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: 302 ESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSG 361
E+ ++ SK K L +L+ ++K I+FT E +R+ + I +
Sbjct: 325 EARRIAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVF--------LIPAITH 376
Query: 362 LQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTA 421
+ R + L+ FR G+ + +VSS + G+DV N V + YI R GR
Sbjct: 377 RTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRIL 436
Query: 422 R 422
R
Sbjct: 437 R 437
>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 = 41.6 bits (96), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 41/207 (19%), Positives = 84/207 (40%), Gaps = 63/207 (30%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I P + D+ + +G+GKT ++++ +Q + + +V+ +AL++ PTR+LALQ
Sbjct: 39 AIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-DTSVKAPQALMLAPTRELALQ 97
Query: 72 VNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVG 131
+ V A+A + + V +G
Sbjct: 98 IQK---------------------------------------VVMALAFHMDIKVHACIG 118
Query: 132 QSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEH 191
+S ++ +E ++ ++ G TPGR+ D+I R F +
Sbjct: 119 GTSFVED-AEGLRDAQIVVG---------------------TPGRVFDNIQRRR-FRTDK 155
Query: 192 LCYLVVDETDRLLREAYQAWLPTVLQL 218
+ ++DE D +L ++ + + L
Sbjct: 156 IKMFILDEADEMLSSGFKEQIYQIFTL 182
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 41/207 (19%), Positives = 85/207 (41%), Gaps = 63/207 (30%)
Query: 12 AVWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQ 71
A+ Q I P + D+ + +G+GKT ++++ +Q + + +V+ +AL++ PTR+LAL
Sbjct: 46 AIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-DTSVKAPQALMLAPTRELAL- 103
Query: 72 VNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVG 131
Q++ V A+A + + V +G
Sbjct: 104 --------------------------------------QIQKVVMALAFHMDIKVHACIG 125
Query: 132 QSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEH 191
+S ++ +E ++ ++ G TPGR+ D+I R F +
Sbjct: 126 GTSFVED-AEGLRDAQIVVG---------------------TPGRVFDNIQRRR-FRTDK 162
Query: 192 LCYLVVDETDRLLREAYQAWLPTVLQL 218
+ ++DE D +L ++ + + L
Sbjct: 163 IKMFILDEADEMLSSGFKEQIYQIFTL 189
>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: 321 LQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQR--------QSVRSKTL 372
LQ K IVFT+ E+ ++ L G IK K + G Q + L
Sbjct: 356 LQRKQNSKIIVFTNYRETAKKIVNELVKDG---IKAKRFVGQASKENDRGLSQREQKLIL 412
Query: 373 KAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDK-PAYIKTYIHRAGRTARAGQLGRCFT 431
F G+ VLV++ G+DV V+ VV Y+ P+ I++ I R GRT R GR
Sbjct: 413 DEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRS-IQRRGRTGRH-MPGRVII 470
Query: 432 LLHK 435
L+ K
Sbjct: 471 LMAK 474
>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: 302 ESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSG 361
E+ ++ SK K L +L+ ++K I+FT E +R+ + I +
Sbjct: 90 EARRIAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVF--------LIPAITH 141
Query: 362 LQRQSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTA 421
+ R + L+ FR G+ + +VSS + G+DV N V + YI R GR
Sbjct: 142 RTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRIL 201
Query: 422 R 422
R
Sbjct: 202 R 202
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 39/73 (53%), Gaps = 5/73 (6%)
Query: 15 QETIGPGLFERDLCI-NSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQVN 73
QE I PG + + S TG+GKT +Y LPI + + ++A++ PTR+LA Q+
Sbjct: 31 QERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKIKPERAE-VQAVITAPTRELATQIY 89
Query: 74 SAR---CKYCCKN 83
K+C K+
Sbjct: 90 HETLKITKFCPKD 102
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 155 DPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHLCYLVVDETDRLLREAY 208
D + L++L I++ TPGR+ D I + + LVVDE D L +
Sbjct: 115 DKQKALEKLNVQPHIVIGTPGRINDFIRE-QALDVHTAHILVVDEADLXLDXGF 167
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 36.6 bits (83), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 365 QSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNYDKPAYIKTYIHR-AGRTARA 423
Q + + + F EG+ +LVS+ + G+DV N +V + + +H+ GR R
Sbjct: 625 QEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLAQLHQLRGRVGRG 684
Query: 424 GQLGRCF 430
GQ CF
Sbjct: 685 GQEAYCF 691
>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 = 35.8 bits (81), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 39/138 (28%), Positives = 61/138 (44%), Gaps = 23/138 (16%)
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 VVLPTRDLA--------------LQVNSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFI 106
++P + LA L+V A Y K+ + D IA +FDSLL
Sbjct: 73 YIVPLKALAEEKFQEFQDWEKIGLRVAMATGDYDSKDEWLGKYDIIIA-TAEKFDSLLRH 131
Query: 107 SLPQVKDVFAAIAPAVGL 124
+KDV +A + L
Sbjct: 132 GSSWIKDVKILVADEIHL 149
>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 = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 35/154 (22%), Positives = 66/154 (42%), Gaps = 20/154 (12%)
Query: 268 ATLTQDPNKLAQLDLHHPLFLTTGETRYKLPERL------ESYKLICESKLKPLYLVALL 321
A + D K +LD +T K+ +RL E+ KL +KL+ +
Sbjct: 339 AVIEDDLKKPLKLDETDRFLMTLFFENNKMLKRLAENPEYENEKL---TKLRNTIMEQYT 395
Query: 322 QSLGEEKCIVFTSSVESTHRLCTLLNH---FGELRIKIKEYSGLQR--------QSVRSK 370
++ + I+FT + +S + L + F E+ +K G Q+ + +
Sbjct: 396 RTEESARGIIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKE 455
Query: 371 TLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVNY 404
+ FR GKI +L+++ G+D++ N V+ Y
Sbjct: 456 VISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 489
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 33/68 (48%), Gaps = 8/68 (11%)
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 VVLPTRDL 68
V P R L
Sbjct: 80 YVTPLRAL 87
>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: 237 AFGSLKTIRRCGVERGFKDKPYPRLVKMVLSATLTQDPNKLAQLDLHHPLFLTTGETRYK 296
A+ LKT E+ F+ VLS + + D + + LFL + K
Sbjct: 76 AYNHLKTFYNDEKEKKFE----------VLSGSGSLDESDI----FLXTLFLRNKKILKK 121
Query: 297 LPE--RLESYKLICESKLKPLYLVALLQSLGEEKCIVFTSSVESTHRLCTLL---NHFGE 351
L E E+ KL +KL+ ++ + I+FT + +S + L + F E
Sbjct: 122 LAENPEYENEKL---TKLRNTIXEHFTRTEESARGIIFTKTRQSAYALSQWITDNKKFAE 178
Query: 352 LRIKIKEYSGLQR--------QSVRSKTLKAFREGKIQVLVSSDAMTRGMDVEGVNNVVN 403
+ +K G Q+ + + + FR GKI +L+++ G+D++ N V+
Sbjct: 179 VGVKAHHLIGAGHSSEFKPXTQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIR 238
Query: 404 Y 404
Y
Sbjct: 239 Y 239
>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 = 32.0 bits (71), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 40/194 (20%), Positives = 73/194 (37%), Gaps = 60/194 (30%)
Query: 13 VWQETIGPGLFERDLCINSPTGSGKTLSYALPIVQTLSNRAVRCLRALVVLPTRDLALQV 72
V E I + D+ + +G GKT + L +Q L + + LV+ TR+LA Q+
Sbjct: 40 VQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQ-VSVLVMCHTRELAFQI 98
Query: 73 NSARCKYCCKNIFGLIADHSIAEMCVQFDSLLFISLPQVKDVFAAIAPAVGLSVGLAVGQ 132
+ + F+ P V ++V G
Sbjct: 99 SKEY------------------------------------ERFSKYMPNVKVAVFFG-GL 121
Query: 133 SSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTLEHL 192
S DE E++K+ + I+V TPGR++ + + L+H+
Sbjct: 122 SIKKDE--EVLKK-------------------NCPHIVVGTPGRILA-LARNKSLNLKHI 159
Query: 193 CYLVVDETDRLLRE 206
+ ++DE D++L +
Sbjct: 160 KHFILDECDKMLEQ 173
>pdb|3P8C|A Chain A, Structure And Control Of The Actin Regulatory Wave Complex
Length = 1253
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 299 ERLESYKLICESKLKPLYLVALLQSLG--EEKCIVFTSSVESTHRLCTLLNHFGELRIKI 356
ERL++ ESK PL+LV L++ LG ++ I + + RLC L+ F + +I
Sbjct: 1041 ERLDAKMKRLESKYAPLHLVPLIERLGTPQQIAIAREGDLLTKERLCCGLSMFEVILTRI 1100
Query: 357 KEY 359
+ +
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 = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/100 (20%), Positives = 42/100 (42%), Gaps = 3/100 (3%)
Query: 330 IVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSSDAM 389
I++ S + + ++ L + G I Y ++ + + +IQV+V++ A
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLG---IHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAF 327
Query: 390 TRGMDVEGVNNVVNYDKPAYIKTYIHRAGRTARAGQLGRC 429
G+D V V+++ ++ Y +GR R C
Sbjct: 328 GMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADC 367
>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 = 3.3, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 49/121 (40%), Gaps = 30/121 (24%)
Query: 326 EEKCIVFTSSVESTHRLCTLLN------------HFGELRIKIKEYSGLQRQSVRS---- 369
+ K ++ SS H L +L + E+R+ K Y + ++
Sbjct: 237 KNKFVILHSSTGHIHSLNEILKDPAVESKLADTKYVQEIRVLNKFYDVMNEDDRKAWYGP 296
Query: 370 -KTLKAFREGKIQVLVSSDAMTRGMD----------VEGVNNVVNYDKPAYIKTYIHRAG 418
LKAF G I L+ SD++ R D VEGV + + P YI + +H +G
Sbjct: 297 NHVLKAFELGAIGELLISDSLFRSSDIATRKKWVSLVEGVKEI---NCPVYIFSSLHESG 353
Query: 419 R 419
+
Sbjct: 354 K 354
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 36/161 (22%), Positives = 72/161 (44%), Gaps = 23/161 (14%)
Query: 327 EKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSS 386
E+ +V T + + + L L G IK+ + R + ++ R GK VLV
Sbjct: 452 ERVLVTTLTKKMSEDLTDYLKEIG---IKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGI 508
Query: 387 DAMTRGMDVEGVN--NVVNYDKPAYI---KTYIHRAGRTARAGQLGRCFTLLHK------ 435
+ + G+D+ V+ +++ DK ++ ++ I GR AR + GR K
Sbjct: 509 NLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAE-GRVIMYADKITKSME 567
Query: 436 ---DEVKRFKKLLQKADNDSCPIHSI-PSSLIESLRPVYKS 472
+E KR ++ ++ + + H I P ++ + +R V ++
Sbjct: 568 IAINETKRRREQQERFNEE----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 = 36/161 (22%), Positives = 72/161 (44%), Gaps = 23/161 (14%)
Query: 327 EKCIVFTSSVESTHRLCTLLNHFGELRIKIKEYSGLQRQSVRSKTLKAFREGKIQVLVSS 386
E+ +V T + + + L L G IK+ + R + ++ R GK VLV
Sbjct: 446 ERVLVTTLTKKMSEDLTDYLKEIG---IKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGI 502
Query: 387 DAMTRGMDVEGVN--NVVNYDKPAYI---KTYIHRAGRTARAGQLGRCFTLLHK------ 435
+ + G+D+ V+ +++ DK ++ ++ I GR AR + GR K
Sbjct: 503 NLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAE-GRVIMYADKITKSME 561
Query: 436 ---DEVKRFKKLLQKADNDSCPIHSI-PSSLIESLRPVYKS 472
+E KR ++ ++ + + H I P ++ + +R V ++
Sbjct: 562 IAINETKRRREQQERFNEE----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 = 28.9 bits (63), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 32/124 (25%), Positives = 47/124 (37%), Gaps = 23/124 (18%)
Query: 130 VGQSSIADEISELIKRPKLEAGICYDPEDVLQELQSAVDILVATPGRLMDHINATRGFTL 189
+GQ + D I E I+ Y+ E+ VD + T L +H R
Sbjct: 250 IGQKYLKDAIGEFIR-------ALYESEE-----NCEVDPIKCTASSLAEHQANLRMCCE 297
Query: 190 EHLCYLVVDET--DRLLREAYQAWLPTVLQLTRSDNENRFSDASTFL---------PSAF 238
LC +V R L+E + +W + R D +R AS FL PS F
Sbjct: 298 LALCKVVNSHCVFPRELKEVFASWRLRCAERGREDIADRLISASLFLRFLCPAIMSPSLF 357
Query: 239 GSLK 242
G ++
Sbjct: 358 GLMQ 361
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
0.321 0.137 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,201,873
Number of Sequences: 62578
Number of extensions: 520401
Number of successful extensions: 1574
Number of sequences better than 100.0: 80
Number of HSP's better than 100.0 without gapping: 58
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 1414
Number of HSP's gapped (non-prelim): 140
length of query: 475
length of database: 14,973,337
effective HSP length: 102
effective length of query: 373
effective length of database: 8,590,381
effective search space: 3204212113
effective search space used: 3204212113
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)