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= 045757
(548 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 89.4 bits (220), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 58/200 (29%), Positives = 104/200 (52%), Gaps = 26/200 (13%)
Query: 81 DDNVTWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLV 140
++ T+K LG++D L A + G+ +P+ +Q ++ L G+D++ AETGSGKT ++ +
Sbjct: 40 EETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFAL 99
Query: 141 PLIEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRA 200
P++ L TP R +LVL P L Q+ AL + G V++
Sbjct: 100 PILNALLE--------------TPQRLFALVLTPTRELAFQISEQFEALGSSIG---VQS 142
Query: 201 VAVCGG-----QGWPIG-KPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLL 254
+ GG Q + KP +I++TP L+++++ + + R +KY+V DEAD +L
Sbjct: 143 AVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNL---RALKYLVMDEADRIL 199
Query: 255 CGSFQNQVIRLINMFRFDEK 274
F+ +V +++ + D K
Sbjct: 200 NMDFETEVDKILKVIPRDRK 219
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 82.4 bits (202), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 46/124 (37%), Positives = 64/124 (51%), Gaps = 5/124 (4%)
Query: 425 SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQE-KGGVFVCTDAA 483
S T+VF T ++ L G C H D S +R + L F+ K + V T A
Sbjct: 277 SLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVA 336
Query: 484 ARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSLYTESN----RDLVDTIR 539
ARG+DI NV HVI D + +++HR+GRT R G GL TS + E N +DL+D +
Sbjct: 337 ARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLV 396
Query: 540 RAAK 543
A +
Sbjct: 397 EAKQ 400
Score = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 51/196 (26%), Positives = 100/196 (51%), Gaps = 25/196 (12%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIE 144
++ + + + ++ +E + + RP+ VQ ++ + +D++ A+TGSGKT ++L+P++
Sbjct: 16 SFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILS 75
Query: 145 KLCT-ALGDS-----ENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLV 198
++ + G++ EN + P SLVL P L Q+ A S + V
Sbjct: 76 QIYSDGPGEALRAMKENGRYGRRKQYP--ISLVLAPTRELAVQIYEEARKFSYRS---RV 130
Query: 199 RAVAVCGGQGWPIGKP--------DVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEA 250
R V GG IG+ ++V+TP L++ ++ + + ++F KY+V DEA
Sbjct: 131 RPCVVYGGAD--IGQQIRDLERGCHLLVATPGRLVDMME-RGKIGLDF---CKYLVLDEA 184
Query: 251 DMLLCGSFQNQVIRLI 266
D +L F+ Q+ R++
Sbjct: 185 DRMLDMGFEPQIRRIV 200
>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 = 82.4 bits (202), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 46/124 (37%), Positives = 64/124 (51%), Gaps = 5/124 (4%)
Query: 425 SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQE-KGGVFVCTDAA 483
S T+VF T ++ L G C H D S +R + L F+ K + V T A
Sbjct: 47 SLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVA 106
Query: 484 ARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSLYTESN----RDLVDTIR 539
ARG+DI NV HVI D + +++HR+GRT R G GL TS + E N +DL+D +
Sbjct: 107 ARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLV 166
Query: 540 RAAK 543
A +
Sbjct: 167 EAKQ 170
>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 = 77.0 bits (188), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 46/120 (38%), Positives = 66/120 (55%), Gaps = 3/120 (2%)
Query: 423 ETSRTMVFANTVDAVYAVTKILKTAGIE-CYCYHKDLSLEERAKTLVNFQE-KGGVFVCT 480
E +R++VF + V+ + L+ AGI CY ++ +R + + E + V V T
Sbjct: 29 EATRSIVFVRKRERVHELANWLREAGINNCYL-EGEMVQGKRNEAIKRLTEGRVNVLVAT 87
Query: 481 DAAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSLYTESNRDLVDTIRR 540
D AARGIDIP+VSHV D S +LHR+GRTARAG+ G SL + L+ + R
Sbjct: 88 DVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVEAHDHLLLGKVGR 147
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 75.5 bits (184), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 49/153 (32%), Positives = 74/153 (48%), Gaps = 8/153 (5%)
Query: 388 HFHNPRLKEKWIEVTVD--TQVDALIEAVKE-----RLEFGAETSRTMVFANTVDAVYAV 440
H H P E+T+ TQ A +E ++ L + ++ ++F N+ + V +
Sbjct: 215 HLHKPYEINLMEELTLKGITQYYAFVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELL 274
Query: 441 TKILKTAGIECYCYHKDLSLEERAKTLVNF-QEKGGVFVCTDAAARGIDIPNVSHVIQAD 499
K + G CY H + +ER K F Q K VC+D RGIDI V+ VI D
Sbjct: 275 AKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFD 334
Query: 500 FATSAVDFLHRVGRTARAGQYGLVTSLYTESNR 532
F +A +LHR+GR+ R G GL +L ++R
Sbjct: 335 FPKTAETYLHRIGRSGRFGHLGLAINLINWNDR 367
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 45/209 (21%), Positives = 94/209 (44%), Gaps = 33/209 (15%)
Query: 73 GSSDTFFADDNV------TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVI 126
GS DT D+V T++ L L+ + +GF +PS +Q ++ ++G+D++
Sbjct: 4 GSKDTRPQTDDVLNTKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILA 63
Query: 127 AAETGSGKTHSYLVPLIEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMA 186
A+ G+GKT ++++P +EK+ +P + +L++ P L Q ++
Sbjct: 64 RAKNGTGKTAAFVIPTLEKV--------------KPKLNKIQALIMVPTRELALQTSQVV 109
Query: 187 NALSADNGEPLVRAVAVCGGQGW--PIGKPD----VIVSTPAALLNNIDPKRRRRMEFVR 240
L G + + GG I + + ++V TP +L+ R++ +
Sbjct: 110 RTLGKHCG---ISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLD----LASRKVADLS 162
Query: 241 GVKYVVFDEADMLLCGSFQNQVIRLINMF 269
+ DEAD +L F+ + ++++
Sbjct: 163 DCSLFIMDEADKMLSRDFKTIIEQILSFL 191
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 75.1 bits (183), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 61/223 (27%), Positives = 113/223 (50%), Gaps = 34/223 (15%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIE 144
T+ ++GL + L+R + GF +PS +Q ++ ++ G+DV+ +++G+GKT ++ V +++
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 145 KLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPL-VRAVAV 203
L + +++ +L+L P L QV + AL G+ + V++ A
Sbjct: 62 CLDIQVRETQ--------------ALILAPTRELAVQVQKGLLAL----GDYMNVQSHAC 103
Query: 204 CGGQ--GWPIGKPD----VIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGS 257
GG G I K D V+ TP + + I RRR R +K +V DEAD +L
Sbjct: 104 IGGTNVGEDIRKLDYGQHVVAGTPGRVFDMI----RRRSLRTRAIKMLVLDEADEMLNKG 159
Query: 258 FQNQVIRLINMFRF--DEKQLSRMNESGVEKPLEMDNSSLTQP 298
F+ Q+ +++R+ Q+ ++ + + LEM N +T P
Sbjct: 160 FKEQI---YDVYRYLPPATQVVLISATLPHEVLEMTNKFMTDP 199
Score = 60.5 bits (145), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 54/103 (52%), Gaps = 1/103 (0%)
Query: 425 SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQEKGG-VFVCTDAA 483
++ ++F NT V +T+ ++ A H D+ +ER + F+ V + TD
Sbjct: 241 TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVW 300
Query: 484 ARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSL 526
ARG+D+P VS +I D + ++HR+GR+ R G+ G+ +
Sbjct: 301 ARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNF 343
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 61/223 (27%), Positives = 112/223 (50%), Gaps = 34/223 (15%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIE 144
T+ ++GL + L+R + GF +PS +Q ++ ++ G+DV+ +++G+GKT ++ V +++
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 145 KLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPL-VRAVAV 203
L + +++ +L+L P L QV + AL G+ + V+ A
Sbjct: 62 CLDIQVRETQ--------------ALILAPTRELAVQVQKGLLAL----GDYMNVQCHAC 103
Query: 204 CGGQ--GWPIGKPD----VIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGS 257
GG G I K D V+ TP + + I RRR R +K +V DEAD +L
Sbjct: 104 IGGTNVGEDIRKLDYGQHVVAGTPGRVFDMI----RRRSLRTRAIKMLVLDEADEMLNKG 159
Query: 258 FQNQVIRLINMFRF--DEKQLSRMNESGVEKPLEMDNSSLTQP 298
F+ Q+ +++R+ Q+ ++ + + LEM N +T P
Sbjct: 160 FKEQI---YDVYRYLPPATQVVLISATLPHEILEMTNKFMTDP 199
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 54/103 (52%), Gaps = 1/103 (0%)
Query: 425 SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQEKGG-VFVCTDAA 483
++ ++F NT V +T+ ++ A H D+ +ER + F+ V + TD
Sbjct: 241 TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVW 300
Query: 484 ARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSL 526
ARG+D+P VS +I D + ++HR+GR+ R G+ G+ +
Sbjct: 301 ARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNF 343
>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 = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 59/223 (26%), Positives = 112/223 (50%), Gaps = 34/223 (15%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIE 144
T+ ++GL + L+R + GF +PS +Q ++ ++ G+DV+ +++G+GKT ++ + +++
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
Query: 145 KLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPL-VRAVAV 203
L + +++ +L+L P L Q+ + AL G+ + V+ A
Sbjct: 99 CLDIQVRETQ--------------ALILAPTRELAVQIQKGLLAL----GDYMNVQCHAC 140
Query: 204 CGGQ--GWPIGKPD----VIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGS 257
GG G I K D V+ TP + + I RRR R +K +V DEAD +L
Sbjct: 141 IGGTNVGEDIRKLDYGQHVVAGTPGRVFDMI----RRRSLRTRAIKMLVLDEADEMLNKG 196
Query: 258 FQNQVIRLINMFRF--DEKQLSRMNESGVEKPLEMDNSSLTQP 298
F+ Q+ +++R+ Q+ ++ + + LEM N +T P
Sbjct: 197 FKEQI---YDVYRYLPPATQVVLISATLPHEILEMTNKFMTDP 236
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 53/99 (53%), Gaps = 1/99 (1%)
Query: 425 SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQEKGG-VFVCTDAA 483
++ ++F NT V +T+ ++ A H D+ +ER + F+ V + TD
Sbjct: 278 TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVW 337
Query: 484 ARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGL 522
ARG+D+P VS +I D + ++HR+GR+ R G+ G+
Sbjct: 338 ARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGV 376
>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 = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 59/223 (26%), Positives = 112/223 (50%), Gaps = 34/223 (15%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIE 144
T+ ++GL + L+R + GF +PS +Q ++ ++ G+DV+ +++G+GKT ++ + +++
Sbjct: 38 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 97
Query: 145 KLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPL-VRAVAV 203
L + +++ +L+L P L Q+ + AL G+ + V+ A
Sbjct: 98 CLDIQVRETQ--------------ALILAPTRELAVQIQKGLLAL----GDYMNVQCHAC 139
Query: 204 CGGQ--GWPIGKPD----VIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGS 257
GG G I K D V+ TP + + I RRR R +K +V DEAD +L
Sbjct: 140 IGGTNVGEDIRKLDYGQHVVAGTPGRVFDMI----RRRSLRTRAIKMLVLDEADEMLNKG 195
Query: 258 FQNQVIRLINMFRF--DEKQLSRMNESGVEKPLEMDNSSLTQP 298
F+ Q+ +++R+ Q+ ++ + + LEM N +T P
Sbjct: 196 FKEQI---YDVYRYLPPATQVVLISATLPHEILEMTNKFMTDP 235
Score = 60.1 bits (144), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 53/99 (53%), Gaps = 1/99 (1%)
Query: 425 SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQEKGG-VFVCTDAA 483
++ ++F NT V +T+ ++ A H D+ +ER + F+ V + TD
Sbjct: 277 TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVW 336
Query: 484 ARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGL 522
ARG+D+P VS +I D + ++HR+GR+ R G+ G+
Sbjct: 337 ARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGV 375
>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 = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 59/223 (26%), Positives = 112/223 (50%), Gaps = 34/223 (15%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIE 144
T+ ++GL + L+R + GF +PS +Q ++ ++ G+DV+ +++G+GKT ++ + +++
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
Query: 145 KLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPL-VRAVAV 203
L + +++ +L+L P L Q+ + AL G+ + V+ A
Sbjct: 99 CLDIQVRETQ--------------ALILAPTRELAVQIQKGLLAL----GDYMNVQCHAC 140
Query: 204 CGGQ--GWPIGKPD----VIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGS 257
GG G I K D V+ TP + + I RRR R +K +V DEAD +L
Sbjct: 141 IGGTNVGEDIRKLDYGQHVVAGTPGRVFDMI----RRRSLRTRAIKMLVLDEADEMLNKG 196
Query: 258 FQNQVIRLINMFRF--DEKQLSRMNESGVEKPLEMDNSSLTQP 298
F+ Q+ +++R+ Q+ ++ + + LEM N +T P
Sbjct: 197 FKEQI---YDVYRYLPPATQVVLISATLPHEILEMTNKFMTDP 236
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 53/99 (53%), Gaps = 1/99 (1%)
Query: 425 SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQEKGG-VFVCTDAA 483
++ ++F NT V +T+ ++ A H D+ +ER + F+ V + TD
Sbjct: 278 TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVW 337
Query: 484 ARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGL 522
ARG+D+P VS +I D + ++HR+GR+ R G+ G+
Sbjct: 338 ARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGV 376
>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 = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 51/198 (25%), Positives = 95/198 (47%), Gaps = 34/198 (17%)
Query: 82 DNVTWK--SLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYL 139
D V +K + L + L+R + GF PS +Q ++ P++ G DV+ A++G+GKT ++
Sbjct: 18 DKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFS 77
Query: 140 VPLIEKLCTALGDSENSNSDKEPTPPRAP-SLVLCPNVVLCEQV--VRMANALSADNGEP 196
+ ++++ T++ +AP +L+L P L Q+ V MA A D
Sbjct: 78 IAALQRIDTSV---------------KAPQALMLAPTRELALQIQKVVMALAFHMD---- 118
Query: 197 LVRAVAVCGGQGWP-----IGKPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEAD 251
++ A GG + + ++V TP + +NI +R R +K + DEAD
Sbjct: 119 -IKVHACIGGTSFVEDAEGLRDAQIVVGTPGRVFDNIQRRRFR----TDKIKMFILDEAD 173
Query: 252 MLLCGSFQNQVIRLINMF 269
+L F+ Q+ ++ +
Sbjct: 174 EMLSSGFKEQIYQIFTLL 191
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 41/86 (47%), Gaps = 1/86 (1%)
Query: 425 SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQEKGG-VFVCTDAA 483
++ ++F NT V +T L+ + DL +ER + F+ + + TD
Sbjct: 261 TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLL 320
Query: 484 ARGIDIPNVSHVIQADFATSAVDFLH 509
ARGID+ VS VI D + +++H
Sbjct: 321 ARGIDVQQVSLVINYDLPANKENYIH 346
>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 = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 59/223 (26%), Positives = 112/223 (50%), Gaps = 34/223 (15%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIE 144
T+ ++GL + L+R + GF +PS +Q ++ ++ G+DV+ +++G+GKT ++ + +++
Sbjct: 17 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 76
Query: 145 KLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPL-VRAVAV 203
L + +++ +L+L P L Q+ + AL G+ + V+ A
Sbjct: 77 CLDIQVRETQ--------------ALILAPTRELAVQIQKGLLAL----GDYMNVQCHAC 118
Query: 204 CGGQ--GWPIGKPD----VIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGS 257
GG G I K D V+ TP + + I RRR R +K +V DEAD +L
Sbjct: 119 IGGTNVGEDIRKLDYGQHVVAGTPGRVFDMI----RRRSLRTRAIKMLVLDEADEMLNKG 174
Query: 258 FQNQVIRLINMFRF--DEKQLSRMNESGVEKPLEMDNSSLTQP 298
F+ Q+ +++R+ Q+ ++ + + LEM N +T P
Sbjct: 175 FKEQI---YDVYRYLPPATQVVLISATLPHEILEMTNKFMTDP 214
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 53/99 (53%), Gaps = 1/99 (1%)
Query: 425 SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQEKGG-VFVCTDAA 483
++ ++F NT V +T+ ++ A H D+ +ER + F+ V + TD
Sbjct: 256 TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVW 315
Query: 484 ARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGL 522
ARG+D+P VS +I D + ++HR+GR+ R G+ G+
Sbjct: 316 ARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGV 354
>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 = 72.8 bits (177), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 56/198 (28%), Positives = 99/198 (50%), Gaps = 28/198 (14%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGK-DVVIAAETGSGKTHSYLVPLI 143
+ L LSD ++ A+ N GF +P+ +Q + L+ + ++V A TGSGKT S+ +PLI
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 144 EKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAV 203
E + N N+ E +++L P L QV A+ + + G ++ +
Sbjct: 67 ELV--------NENNGIE-------AIILTPTRELAIQV---ADEIESLKGNKNLKIAKI 108
Query: 204 CGGQG-WP----IGKPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGSF 258
GG+ +P + +++V TP +L++I+ R ++ VKY + DEAD L F
Sbjct: 109 YGGKAIYPQIKALKNANIVVGTPGRILDHIN----RGTLNLKNVKYFILDEADEXLNXGF 164
Query: 259 QNQVIRLINMFRFDEKQL 276
V +++N D++ L
Sbjct: 165 IKDVEKILNACNKDKRIL 182
Score = 69.3 bits (168), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 51/205 (24%), Positives = 92/205 (44%), Gaps = 15/205 (7%)
Query: 338 KDWRRVRKNYQRSKQYIFVAATLPINGKKTAGAVLKQMFPDADWISGNYLHFHNPRLKEK 397
KD ++ + K+ + +AT P + + K+ D +I N +++
Sbjct: 166 KDVEKILNACNKDKRILLFSATXP----REILNLAKKYXGDYSFIKAKI----NANIEQS 217
Query: 398 WIEVTVDTQVDALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKTAGIECYCYHKD 457
++EV + + +AL +K + +G +VF T + L+ G + H D
Sbjct: 218 YVEVNENERFEALCRLLKNKEFYG------LVFCKTKRDTKELASXLRDIGFKAGAIHGD 271
Query: 458 LSLEERAKTLVNF-QEKGGVFVCTDAAARGIDIPNVSHVIQADFATSAVDFLHRVGRTAR 516
LS +R K + F Q+K + + TD +RGID+ +++ VI + + HR+GRT R
Sbjct: 272 LSQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGR 331
Query: 517 AGQYGLVTSLYTESNRDLVDTIRRA 541
AG+ G S+ + I RA
Sbjct: 332 AGKKGKAISIINRREYKKLRYIERA 356
>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 = 72.8 bits (177), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 51/198 (25%), Positives = 95/198 (47%), Gaps = 34/198 (17%)
Query: 82 DNVTWK--SLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYL 139
D V +K + L + L+R + GF PS +Q ++ P++ G DV+ A++G+GKT ++
Sbjct: 10 DKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFS 69
Query: 140 VPLIEKLCTALGDSENSNSDKEPTPPRAP-SLVLCPNVVLCEQV--VRMANALSADNGEP 196
+ ++++ T++ +AP +L+L P L Q+ V MA A D
Sbjct: 70 IAALQRIDTSV---------------KAPQALMLAPTRELALQIQKVVMALAFHMD---- 110
Query: 197 LVRAVAVCGGQGWP-----IGKPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEAD 251
++ A GG + + ++V TP + +NI +R R +K + DEAD
Sbjct: 111 -IKVHACIGGTSFVEDAEGLRDAQIVVGTPGRVFDNIQRRRFR----TDKIKMFILDEAD 165
Query: 252 MLLCGSFQNQVIRLINMF 269
+L F+ Q+ ++ +
Sbjct: 166 EMLSSGFKEQIYQIFTLL 183
>pdb|2GXQ|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 1
pdb|2GXS|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXS|B Chain B, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXU|A Chain A, Hera N-Terminal Domain In Complex With Orthophosphate,
Crystal Form 1
Length = 207
Score = 72.8 bits (177), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 60/190 (31%), Positives = 95/190 (50%), Gaps = 30/190 (15%)
Query: 86 WKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEK 145
+K L ++ AL G P+ +QAA++ L GKD++ A TG+GKT ++ +P+ E+
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 146 LCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVCG 205
L + S + PRA LVL P L QV A++ P ++ VAV G
Sbjct: 63 L---------APSQERGRKPRA--LVLTPTRELALQVASELTAVA-----PHLKVVAVYG 106
Query: 206 GQGWPIGK--------PDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGS 257
G G+ GK D +V+TP L+ + R+ ++ R V+ V DEAD +L
Sbjct: 107 GTGY--GKQKEALLRGADAVVATPGRALDYL---RQGVLDLSR-VEVAVLDEADEMLSMG 160
Query: 258 FQNQVIRLIN 267
F+ +V L++
Sbjct: 161 FEEEVEALLS 170
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 72.4 bits (176), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 47/186 (25%), Positives = 92/186 (49%), Gaps = 30/186 (16%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIE 144
++ + LS+ L+R + GF +PS +Q ++ P + G DV+ A++G+GKT ++ + +++
Sbjct: 41 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQ 100
Query: 145 KLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVC 204
++ L ++ +LVL P L +Q+ ++ AL G+ + + C
Sbjct: 101 QIELDLKATQ--------------ALVLAPTRELAQQIQKVVMAL----GDYMGASCHAC 142
Query: 205 GG--------QGWPIGKPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCG 256
G Q + P +IV TP + + ++ RR + +K V DEAD +L
Sbjct: 143 IGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLN----RRYLSPKYIKMFVLDEADEMLSR 198
Query: 257 SFQNQV 262
F++Q+
Sbjct: 199 GFKDQI 204
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/109 (30%), Positives = 57/109 (52%), Gaps = 1/109 (0%)
Query: 425 SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQEKGG-VFVCTDAA 483
++ ++F NT V +T+ + H D+ +ER + F+ V + TD
Sbjct: 281 TQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLL 340
Query: 484 ARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSLYTESNR 532
ARGID+ VS VI D T+ +++HR+GR R G+ G+ ++ TE ++
Sbjct: 341 ARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDK 389
>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 = 72.4 bits (176), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 47/186 (25%), Positives = 92/186 (49%), Gaps = 30/186 (16%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIE 144
++ + LS+ L+R + GF +PS +Q ++ P + G DV+ A++G+GKT ++ + +++
Sbjct: 15 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQ 74
Query: 145 KLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVC 204
++ L ++ +LVL P L +Q+ ++ AL G+ + + C
Sbjct: 75 QIELDLKATQ--------------ALVLAPTRELAQQIQKVVMAL----GDYMGASCHAC 116
Query: 205 GG--------QGWPIGKPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCG 256
G Q + P +IV TP + + ++ RR + +K V DEAD +L
Sbjct: 117 IGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLN----RRYLSPKYIKMFVLDEADEMLSR 172
Query: 257 SFQNQV 262
F++Q+
Sbjct: 173 GFKDQI 178
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 33/109 (30%), Positives = 57/109 (52%), Gaps = 1/109 (0%)
Query: 425 SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQEKGG-VFVCTDAA 483
++ ++F NT V +T+ + H D+ +ER + F+ V + TD
Sbjct: 255 TQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLL 314
Query: 484 ARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSLYTESNR 532
ARGID+ VS VI D T+ +++HR+GR R G+ G+ ++ TE ++
Sbjct: 315 ARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDK 363
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 72.0 bits (175), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 36/117 (30%), Positives = 65/117 (55%), Gaps = 4/117 (3%)
Query: 409 ALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKT---AGIECYCYHKDLSLEERAK 465
A +E +K++++ + ++FA TV + ILK + +H ++ +R
Sbjct: 273 AAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTS 332
Query: 466 TLVNFQ-EKGGVFVCTDAAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYG 521
+ F+ ++ G+ VCTD ARG+D PNV V+Q + +++HR+GRTAR+G+ G
Sbjct: 333 LVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEG 389
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 53/193 (27%), Positives = 91/193 (47%), Gaps = 27/193 (13%)
Query: 84 VTWKSL---GLSDRLI-RALENSGFGRPSIVQAASVGPVLSGKD--VVIAAETGSGKTHS 137
VT SL G+ D+ I +A+ F + VQ ++ P+LS +D V+ A+TG+GKT +
Sbjct: 17 VTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFA 76
Query: 138 YLVPLIEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADN-GEP 196
+L+P+ + L DS+ ++++ P L Q+ + N G
Sbjct: 77 FLIPIFQHLINTKFDSQY----------MVKAVIVAPTRDLALQIEAEVKKIHDMNYGLK 126
Query: 197 LVRAVAVCGGQGWPIG-------KPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDE 249
V++ GG + +P+++++TP L ID + +F R V Y V DE
Sbjct: 127 KYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRL---IDVLEKYSNKFFRFVDYKVLDE 183
Query: 250 ADMLLCGSFQNQV 262
AD LL F++ +
Sbjct: 184 ADRLLEIGFRDDL 196
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 48/192 (25%), Positives = 93/192 (48%), Gaps = 32/192 (16%)
Query: 86 WKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEK 145
+ + L ++L+R + GF PS +Q ++ P++ G DV+ A++G+GKT ++ + +++
Sbjct: 23 FDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 146 LCTALGDSENSNSDKEPTPPRAP-SLVLCPNVVLCEQV--VRMANALSADNGEPLVRAVA 202
+ T++ +AP +L+L P L Q+ V MA A D ++ A
Sbjct: 83 IDTSV---------------KAPQALMLAPTRELALQIQKVVMALAFHMD-----IKVHA 122
Query: 203 VCGGQGWP-----IGKPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGS 257
GG + + ++V TP + +NI +R R +K + DEAD +L
Sbjct: 123 CIGGTSFVEDAEGLRDAQIVVGTPGRVFDNIQRRRFR----TDKIKMFILDEADEMLSSG 178
Query: 258 FQNQVIRLINMF 269
F+ Q+ ++ +
Sbjct: 179 FKEQIYQIFTLL 190
>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 = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 36/117 (30%), Positives = 65/117 (55%), Gaps = 4/117 (3%)
Query: 409 ALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKT---AGIECYCYHKDLSLEERAK 465
A +E +K++++ + ++FA TV + ILK + +H ++ +R
Sbjct: 324 AAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTS 383
Query: 466 TLVNFQ-EKGGVFVCTDAAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYG 521
+ F+ ++ G+ VCTD ARG+D PNV V+Q + +++HR+GRTAR+G+ G
Sbjct: 384 LVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEG 440
Score = 60.5 bits (145), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 53/193 (27%), Positives = 91/193 (47%), Gaps = 27/193 (13%)
Query: 84 VTWKSL---GLSDRLI-RALENSGFGRPSIVQAASVGPVLSGKD--VVIAAETGSGKTHS 137
VT SL G+ D+ I +A+ F + VQ ++ P+LS +D V+ A+TG+GKT +
Sbjct: 68 VTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFA 127
Query: 138 YLVPLIEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADN-GEP 196
+L+P+ + L DS+ ++++ P L Q+ + N G
Sbjct: 128 FLIPIFQHLINTKFDSQYM----------VKAVIVAPTRDLALQIEAEVKKIHDMNYGLK 177
Query: 197 LVRAVAVCGGQGWPIG-------KPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDE 249
V++ GG + +P+++++TP L ID + +F R V Y V DE
Sbjct: 178 KYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRL---IDVLEKYSNKFFRFVDYKVLDE 234
Query: 250 ADMLLCGSFQNQV 262
AD LL F++ +
Sbjct: 235 ADRLLEIGFRDDL 247
>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 = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 59/190 (31%), Positives = 95/190 (50%), Gaps = 30/190 (15%)
Query: 86 WKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEK 145
+K L ++ AL G P+ ++AA++ L GKD++ A TG+GKT ++ +P+ E+
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 146 LCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVCG 205
L + S + PRA LVL P L QV A++ P ++ VAV G
Sbjct: 63 L---------APSQERGRKPRA--LVLTPTRELALQVASELTAVA-----PHLKVVAVYG 106
Query: 206 GQGWPIGK--------PDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGS 257
G G+ GK D +V+TP L+ + R+ ++ R V+ V DEAD +L
Sbjct: 107 GTGY--GKQKEALLRGADAVVATPGRALDYL---RQGVLDLSR-VEVAVLDEADEMLSMG 160
Query: 258 FQNQVIRLIN 267
F+ +V L++
Sbjct: 161 FEEEVEALLS 170
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 36/117 (30%), Positives = 65/117 (55%), Gaps = 4/117 (3%)
Query: 409 ALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKT---AGIECYCYHKDLSLEERAK 465
A +E +K++++ + ++FA TV + ILK + +H ++ +R
Sbjct: 273 AAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTS 332
Query: 466 TLVNFQ-EKGGVFVCTDAAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYG 521
+ F+ ++ G+ VCTD ARG+D PNV V+Q + +++HR+GRTAR+G+ G
Sbjct: 333 LVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEG 389
Score = 59.7 bits (143), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 53/193 (27%), Positives = 91/193 (47%), Gaps = 27/193 (13%)
Query: 84 VTWKSL---GLSDRLI-RALENSGFGRPSIVQAASVGPVLSGKD--VVIAAETGSGKTHS 137
VT SL G+ D+ I +A+ F + VQ ++ P+LS +D V+ A+TG+GKT +
Sbjct: 17 VTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFA 76
Query: 138 YLVPLIEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADN-GEP 196
+L+P+ + L DS+ ++++ P L Q+ + N G
Sbjct: 77 FLIPIFQHLINTKFDSQY----------MVKAVIVAPTRDLALQIEAEVKKIHDMNYGLK 126
Query: 197 LVRAVAVCGGQGWPIG-------KPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDE 249
V++ GG + +P+++++TP L ID + +F R V Y V DE
Sbjct: 127 KYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRL---IDVLEKYSNKFFRFVDYKVLDE 183
Query: 250 ADMLLCGSFQNQV 262
AD LL F++ +
Sbjct: 184 ADRLLEIGFRDDL 196
>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 = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 36/117 (30%), Positives = 65/117 (55%), Gaps = 4/117 (3%)
Query: 409 ALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKT---AGIECYCYHKDLSLEERAK 465
A +E +K++++ + ++FA TV + ILK + +H ++ +R
Sbjct: 18 AAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTS 77
Query: 466 TLVNFQ-EKGGVFVCTDAAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYG 521
+ F+ ++ G+ VCTD ARG+D PNV V+Q + +++HR+GRTAR+G+ G
Sbjct: 78 LVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEG 134
>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 = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 36/117 (30%), Positives = 65/117 (55%), Gaps = 4/117 (3%)
Query: 409 ALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKT---AGIECYCYHKDLSLEERAK 465
A +E +K++++ + ++FA TV + ILK + +H ++ +R
Sbjct: 18 AAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTS 77
Query: 466 TLVNFQ-EKGGVFVCTDAAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYG 521
+ F+ ++ G+ VCTD ARG+D PNV V+Q + +++HR+GRTAR+G+ G
Sbjct: 78 LVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEG 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 = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 36/117 (30%), Positives = 65/117 (55%), Gaps = 4/117 (3%)
Query: 409 ALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKT---AGIECYCYHKDLSLEERAK 465
A +E +K++++ + ++FA TV + ILK + +H ++ +R
Sbjct: 18 AAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTS 77
Query: 466 TLVNFQ-EKGGVFVCTDAAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYG 521
+ F+ ++ G+ VCTD ARG+D PNV V+Q + +++HR+GRTAR+G+ G
Sbjct: 78 LVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEG 134
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 70.9 bits (172), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 48/196 (24%), Positives = 92/196 (46%), Gaps = 30/196 (15%)
Query: 82 DNVTWK--SLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYL 139
D V +K L + L+R + GF PS +Q ++ P++ G DV+ A++G+GKT ++
Sbjct: 17 DKVVYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFS 76
Query: 140 VPLIEKLCTALGDSENSNSDKEPTPPRAP-SLVLCPNVVLCEQVVRMANALSADNGEPLV 198
+ ++++ T++ +AP +L L P L Q+ ++ AL+ +
Sbjct: 77 IAALQRIDTSV---------------KAPQALXLAPTRELALQIQKVVXALAFHXD---I 118
Query: 199 RAVAVCGGQGWP-----IGKPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADML 253
+ A GG + + ++V TP + +NI +R R +K + DEAD
Sbjct: 119 KVHACIGGTSFVEDAEGLRDAQIVVGTPGRVFDNIQRRRFR----TDKIKXFILDEADEX 174
Query: 254 LCGSFQNQVIRLINMF 269
L F+ Q+ ++ +
Sbjct: 175 LSSGFKEQIYQIFTLL 190
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 40/86 (46%), Gaps = 1/86 (1%)
Query: 425 SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQEKGG-VFVCTDAA 483
++ ++F NT V +T L+ + DL +ER F+ + + TD
Sbjct: 260 TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDLL 319
Query: 484 ARGIDIPNVSHVIQADFATSAVDFLH 509
ARGID+ VS VI D + +++H
Sbjct: 320 ARGIDVQQVSLVINYDLPANKENYIH 345
>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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 38/113 (33%), Positives = 59/113 (52%), Gaps = 5/113 (4%)
Query: 423 ETSRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQEKGGV---FVC 479
+ +++++F N+ V + K + G C+ H + E R + +F + G+ VC
Sbjct: 43 QINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFHDF--RNGLCRNLVC 100
Query: 480 TDAAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSLYTESNR 532
TD RGIDI V+ VI DF A +LHR+GR+ R G GL +L T +R
Sbjct: 101 TDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLITYDDR 153
>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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 60/216 (27%), Positives = 92/216 (42%), Gaps = 15/216 (6%)
Query: 338 KDWRRVRKN--YQRSKQYIFVAATLPINGKKTAGAVLKQMFPDADWISGNYLHFHNPRLK 395
+D RR+ + + Q + +AT P ++ AG LK A I G +K
Sbjct: 222 EDMRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACS----DVK 277
Query: 396 EKWIEVTVDTQVDALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKTAGIECYCYH 455
+ EV + LIE + E + T+VF T + L H
Sbjct: 278 QTIYEVNKYAKRSKLIEILSE------QADGTIVFVETKRGADFLASFLSEKEFPTTSIH 331
Query: 456 KDLSLEERAKTLVNFQEKG-GVFVCTDAAARGIDIPNVSHVIQADFATSAVDFLHRVGRT 514
D +R + L +F+ V + T A+RG+DI N+ HVI D + D++HR+GRT
Sbjct: 332 GDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRT 391
Query: 515 ARAGQYGLVTSLY-TESNRDL-VDTIRRAAKLGQPV 548
R G G TS + E +R + D ++ GQ V
Sbjct: 392 GRVGNNGRATSFFDPEKDRAIAADLVKILEGSGQTV 427
Score = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 51/188 (27%), Positives = 88/188 (46%), Gaps = 22/188 (11%)
Query: 86 WKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEK 145
+ S L D +I + SG+ P+ +Q S+ + SG+D++ A+TGSGKT ++L+P++ K
Sbjct: 58 FTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSK 117
Query: 146 LCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVCG 205
L + E R +++ P L Q+ A + E ++ V G
Sbjct: 118 LLEDPHELELG---------RPQVVIVSPTRELAIQIFNEARKFAF---ESYLKIGIVYG 165
Query: 206 G-----QGWPIGKP-DVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGSFQ 259
G Q I + V+++TP LL+ +D R ++VV DEAD +L F
Sbjct: 166 GTSFRHQNECITRGCHVVIATPGRLLDFVD----RTFITFEDTRFVVLDEADRMLDMGFS 221
Query: 260 NQVIRLIN 267
+ R++
Sbjct: 222 EDMRRIMT 229
>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 = 70.1 bits (170), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 53/199 (26%), Positives = 94/199 (47%), Gaps = 19/199 (9%)
Query: 342 RVRKNYQRSKQYIFVAATLPINGKKTAGAVLKQMFPDADWISGNYLHFHNPRLKEKWIEV 401
RV++ + Q + +AT ++ A K++ P+A+ + + +K+ +++
Sbjct: 169 RVKRFLPKDTQLVLFSATFADAVRQYA----KKIVPNANTLELQTNEVNVDAIKQLYMDC 224
Query: 402 TVDT-QVDALIEAVKERLEFGAET-SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLS 459
+ + D L E +G T +++F T + LK+ G E H DL
Sbjct: 225 KNEADKFDVLTEL------YGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQ 278
Query: 460 LEERAKTLVNFQE-KGGVFVCTDAAARGIDIPNVSHVIQADFATSA------VDFLHRVG 512
+ER + + +F+E + V + T+ ARGIDIP VS V+ D T A ++HR+G
Sbjct: 279 TQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIG 338
Query: 513 RTARAGQYGLVTSLYTESN 531
RT R G+ G+ S + N
Sbjct: 339 RTGRFGRKGVAISFVHDKN 357
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 43/184 (23%), Positives = 85/184 (46%), Gaps = 22/184 (11%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSG--KDVVIAAETGSGKTHSYLVPL 142
++ LGL+ L++ + F +PS +Q ++ +L ++++ +++G+GKT ++ + +
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 143 IEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVA 202
+ ++ + E P+A + L P+ L Q + + + V
Sbjct: 66 LTRV------------NPEDASPQA--ICLAPSRELARQTLEVVQEMGKFTKITSQLIVP 111
Query: 203 VCGGQGWPIGKPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEAD-MLLCGSFQNQ 261
+ I VIV TP +L D RR+ M+ ++ +K V DEAD ML +Q
Sbjct: 112 DSFEKNKQIN-AQVIVGTPGTVL---DLMRRKLMQ-LQKIKIFVLDEADNMLDQQGLGDQ 166
Query: 262 VIRL 265
IR+
Sbjct: 167 CIRV 170
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 69.7 bits (169), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 53/199 (26%), Positives = 94/199 (47%), Gaps = 19/199 (9%)
Query: 342 RVRKNYQRSKQYIFVAATLPINGKKTAGAVLKQMFPDADWISGNYLHFHNPRLKEKWIEV 401
RV++ + Q + +AT ++ A K++ P+A+ + + +K+ +++
Sbjct: 169 RVKRFLPKDTQLVLFSATFADAVRQYA----KKIVPNANTLELQTNEVNVDAIKQLYMDC 224
Query: 402 TVDT-QVDALIEAVKERLEFGAET-SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLS 459
+ + D L E +G T +++F T + LK+ G E H DL
Sbjct: 225 KNEADKFDVLTEL------YGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQ 278
Query: 460 LEERAKTLVNFQE-KGGVFVCTDAAARGIDIPNVSHVIQADFATSA------VDFLHRVG 512
+ER + + +F+E + V + T+ ARGIDIP VS V+ D T A ++HR+G
Sbjct: 279 TQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIG 338
Query: 513 RTARAGQYGLVTSLYTESN 531
RT R G+ G+ S + N
Sbjct: 339 RTGRFGRKGVAISFVHDKN 357
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 43/184 (23%), Positives = 85/184 (46%), Gaps = 22/184 (11%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSG--KDVVIAAETGSGKTHSYLVPL 142
++ LGL+ L++ + F +PS +Q ++ +L ++++ +++G+GKT ++ + +
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 143 IEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVA 202
+ ++ + E P+A + L P+ L Q + + + V
Sbjct: 66 LTRV------------NPEDASPQA--ICLAPSRELARQTLEVVQEMGKFTKITSQLIVP 111
Query: 203 VCGGQGWPIGKPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEAD-MLLCGSFQNQ 261
+ I VIV TP +L D RR+ M+ ++ +K V DEAD ML +Q
Sbjct: 112 DSFEKNKQIN-AQVIVGTPGTVL---DLMRRKLMQ-LQKIKIFVLDEADNMLDQQGLGDQ 166
Query: 262 VIRL 265
IR+
Sbjct: 167 CIRV 170
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 67.8 bits (164), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 45/185 (24%), Positives = 88/185 (47%), Gaps = 30/185 (16%)
Query: 89 LGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEKLCT 148
+ L + L+R + GF +PS +Q ++ P + G DV+ A++G+GKT ++ + ++++L
Sbjct: 35 MNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEI 94
Query: 149 ALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVCGG-- 206
+++ +LVL P L +Q+ ++ AL G+ + C G
Sbjct: 95 EFKETQ--------------ALVLAPTRELAQQIQKVILAL----GDYMGATCHACIGGT 136
Query: 207 ------QGWPIGKPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGSFQN 260
Q P ++V TP + + ++ RR + +K V DEAD +L F++
Sbjct: 137 NVRNEMQKLQAEAPHIVVGTPGRVFDMLN----RRYLSPKWIKMFVLDEADEMLSRGFKD 192
Query: 261 QVIRL 265
Q+ +
Sbjct: 193 QIYEI 197
>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 = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 35/105 (33%), Positives = 55/105 (52%), Gaps = 1/105 (0%)
Query: 427 TMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQE-KGGVFVCTDAAAR 485
++FA V A+ + L G+E H EER K + F+E K V V TD A++
Sbjct: 57 VLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASK 116
Query: 486 GIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSLYTES 530
G+D P + HVI D +++HR+GRT +G G+ T+ ++
Sbjct: 117 GLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFINKA 161
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 38/112 (33%), Positives = 58/112 (51%), Gaps = 7/112 (6%)
Query: 427 TMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQE-KGGVFVCTDAAAR 485
+++F T + LK+ G E H DL +ER + + +F+E + V + T+ AR
Sbjct: 38 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 97
Query: 486 GIDIPNVSHVIQADFATSA------VDFLHRVGRTARAGQYGLVTSLYTESN 531
GIDIP VS V+ D T A ++HR+GRT R G+ G+ S + N
Sbjct: 98 GIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 149
>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 = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 40/120 (33%), Positives = 61/120 (50%), Gaps = 8/120 (6%)
Query: 420 FGAET-SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQE-KGGVF 477
+G T +++F T + LK+ G E H DL +ER + + +F+E + V
Sbjct: 31 YGVXTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVL 90
Query: 478 VCTDAAARGIDIPNVSHVIQADFATSA------VDFLHRVGRTARAGQYGLVTSLYTESN 531
+ T+ ARGIDIP VS V+ D T A ++HR+GRT R G+ G+ S + N
Sbjct: 91 ITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 150
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 38/112 (33%), Positives = 58/112 (51%), Gaps = 7/112 (6%)
Query: 427 TMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQE-KGGVFVCTDAAAR 485
+++F T + LK+ G E H DL +ER + + +F+E + V + T+ AR
Sbjct: 40 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 99
Query: 486 GIDIPNVSHVIQADFATSA------VDFLHRVGRTARAGQYGLVTSLYTESN 531
GIDIP VS V+ D T A ++HR+GRT R G+ G+ S + N
Sbjct: 100 GIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 151
>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 = 66.2 bits (160), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 52/172 (30%), Positives = 89/172 (51%), Gaps = 20/172 (11%)
Query: 102 SGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEKL-CTALGDSENSNSDK 160
+ + RP+ +Q ++ +L +D++ A+TGSGKT ++L+P+I L C L S +
Sbjct: 41 ASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAY 100
Query: 161 EPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVCGGQGWPIGKPDV---- 216
P+ L+L P L Q++ + S + PL R+ V GG +V
Sbjct: 101 ----PKC--LILAPTRELAIQILSESQKFSLNT--PL-RSCVVYGGADTHSQIREVQMGC 151
Query: 217 --IVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGSFQNQVIRLI 266
+V+TP L++ I+ K + +EF KY+V DEAD +L F+ Q+ ++I
Sbjct: 152 HLLVATPGRLVDFIE-KNKISLEF---CKYIVLDEADRMLDMGFEPQIRKII 199
>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 = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 50/174 (28%), Positives = 86/174 (49%), Gaps = 26/174 (14%)
Query: 91 LSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEKLCTAL 150
L L+ + G+ +PS +Q S+ LSG+D++ A+ G+GK+ +YL+PL+E+L
Sbjct: 10 LKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERL---- 65
Query: 151 GDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVCGGQGW- 209
D + N ++V+ P L QV ++ +S G + +A GG
Sbjct: 66 -DLKKDN---------IQAMVIVPTRELALQVSQICIQVSKHMGG--AKVMATTGGTNLR 113
Query: 210 -PIGKPD----VIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGSF 258
I + D V+++TP +L+ I ++ + V V+ +V DEAD LL F
Sbjct: 114 DDIMRLDDTVHVVIATPGRILDLI----KKGVAKVDHVQMIVLDEADKLLSQDF 163
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 37/102 (36%), Positives = 49/102 (48%), Gaps = 1/102 (0%)
Query: 428 MVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQE-KGGVFVCTDAAARG 486
++F T + V +T L G C H + E+R + F+ + V TD AARG
Sbjct: 39 IIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARG 98
Query: 487 IDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSLYT 528
IDI N+S VI D ++HR GRT RAG G S T
Sbjct: 99 IDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVT 140
>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 = 60.5 bits (145), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 45/186 (24%), Positives = 86/186 (46%), Gaps = 30/186 (16%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIE 144
++ + LS+ L+R + GF PS +Q ++ P + G DV+ A++G+G T ++ + +++
Sbjct: 16 SFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQ 75
Query: 145 KLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVC 204
++ L ++ +LVL P L +Q+ + AL G+ + + C
Sbjct: 76 QIELDLXATQ--------------ALVLAPTRELAQQIQXVVMAL----GDYMGASCHAC 117
Query: 205 GG--------QGWPIGKPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCG 256
G Q + P +IV TP + + ++ RR + V DEAD +L
Sbjct: 118 IGGTNVRAEVQXLQMEAPHIIVGTPGRVFDMLN----RRYLSPXYIXMFVLDEADEMLSR 173
Query: 257 SFQNQV 262
F +Q+
Sbjct: 174 GFXDQI 179
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 58.9 bits (141), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 52/189 (27%), Positives = 84/189 (44%), Gaps = 32/189 (16%)
Query: 99 LENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEKLCTALGDSENSNS 158
+ F P+ +QA LSG D+V A+TGSGKT SYL+P I +
Sbjct: 58 IARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHI------------ 105
Query: 159 DKEPTPPRAP---SLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVCGGQGWPIGKP- 214
+ +P R LVL P L +QV ++A R + C G P G
Sbjct: 106 NHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCR-----ACRLKSTCIYGGAPKGPQI 160
Query: 215 -------DVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGSFQNQVIRLIN 267
++ ++TP L++ ++ + +R Y+V DEAD +L F+ Q+ ++++
Sbjct: 161 RDLERGVEICIATPGRLIDFLECGKTN----LRRTTYLVLDEADRMLDMGFEPQIRKIVD 216
Query: 268 MFRFDEKQL 276
R D + L
Sbjct: 217 QIRPDRQTL 225
>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 = 58.9 bits (141), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 52/189 (27%), Positives = 84/189 (44%), Gaps = 32/189 (16%)
Query: 99 LENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEKLCTALGDSENSNS 158
+ F P+ +QA LSG D+V A+TGSGKT SYL+P I +
Sbjct: 44 IARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHI------------ 91
Query: 159 DKEPTPPRAP---SLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVCGGQGWPIGKP- 214
+ +P R LVL P L +QV ++A R + C G P G
Sbjct: 92 NHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCR-----ACRLKSTCIYGGAPKGPQI 146
Query: 215 -------DVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGSFQNQVIRLIN 267
++ ++TP L++ ++ + +R Y+V DEAD +L F+ Q+ ++++
Sbjct: 147 RDLERGVEICIATPGRLIDFLECGKTN----LRRTTYLVLDEADRMLDMGFEPQIRKIVD 202
Query: 268 MFRFDEKQL 276
R D + L
Sbjct: 203 QIRPDRQTL 211
>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 = 58.5 bits (140), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 57/200 (28%), Positives = 90/200 (45%), Gaps = 31/200 (15%)
Query: 342 RVRKNYQRSKQYIFVAATLPINGKKTAGAVLKQMFPDADWISGNYLHFHNPRLKEKWIEV 401
R+++ R+ Q + +AT + K A V+ PD + I K K E
Sbjct: 229 RIQRMLPRNCQMLLFSATFEDSVWKFAQKVV----PDPNVI------------KLKREEE 272
Query: 402 TVDT--QVDALIEAVKERLE-----FGAET-SRTMVFANTVDAVYAVTKILKTAGIECYC 453
T+DT Q L + E+ + +GA T ++ M+F +T + L G +
Sbjct: 273 TLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVAL 332
Query: 454 YHKDLSLEERAKTLVNFQE-KGGVFVCTDAAARGIDIPNVSHVIQADFATSA------VD 506
++ +E+RA + F+E K V V T+ ARGID+ VS VI D
Sbjct: 333 LSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNET 392
Query: 507 FLHRVGRTARAGQYGLVTSL 526
+LHR+GRT R G+ GL ++
Sbjct: 393 YLHRIGRTGRFGKRGLAVNM 412
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 48/197 (24%), Positives = 91/197 (46%), Gaps = 37/197 (18%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSG--KDVVIAAETGSGKTHSYLVPL 142
+++ L L +L++ + GF RPS +Q ++ +L+ ++++ +++G+GKT ++++ +
Sbjct: 63 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 122
Query: 143 IEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVA 202
+ ++ EP L L P L Q ++ + E L A A
Sbjct: 123 LSQV--------------EPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE-LKLAYA 167
Query: 203 VCGGQ---GWPIGKPDVIVSTPAALLN------NIDPKRRRRMEFVRGVKYVVFDEAD-M 252
V G + G I + +++ TP +L+ IDPK+ +K V DEAD M
Sbjct: 168 VRGNKLERGQKISE-QIVIGTPGTVLDWCSKLKFIDPKK---------IKVFVLDEADVM 217
Query: 253 LLCGSFQNQVIRLINMF 269
+ Q+Q IR+ M
Sbjct: 218 IATQGHQDQSIRIQRML 234
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 58.5 bits (140), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 57/200 (28%), Positives = 90/200 (45%), Gaps = 31/200 (15%)
Query: 342 RVRKNYQRSKQYIFVAATLPINGKKTAGAVLKQMFPDADWISGNYLHFHNPRLKEKWIEV 401
R+++ R+ Q + +AT + K A V+ PD + I K K E
Sbjct: 208 RIQRMLPRNCQMLLFSATFEDSVWKFAQKVV----PDPNVI------------KLKREEE 251
Query: 402 TVDT--QVDALIEAVKERLE-----FGAET-SRTMVFANTVDAVYAVTKILKTAGIECYC 453
T+DT Q L + E+ + +GA T ++ M+F +T + L G +
Sbjct: 252 TLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVAL 311
Query: 454 YHKDLSLEERAKTLVNFQE-KGGVFVCTDAAARGIDIPNVSHVIQADFATSA------VD 506
++ +E+RA + F+E K V V T+ ARGID+ VS VI D
Sbjct: 312 LSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNET 371
Query: 507 FLHRVGRTARAGQYGLVTSL 526
+LHR+GRT R G+ GL ++
Sbjct: 372 YLHRIGRTGRFGKRGLAVNM 391
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 48/197 (24%), Positives = 91/197 (46%), Gaps = 37/197 (18%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSG--KDVVIAAETGSGKTHSYLVPL 142
+++ L L +L++ + GF RPS +Q ++ +L+ ++++ +++G+GKT ++++ +
Sbjct: 42 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 101
Query: 143 IEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVA 202
+ ++ EP L L P L Q ++ + E L A A
Sbjct: 102 LSQV--------------EPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE-LKLAYA 146
Query: 203 VCGGQ---GWPIGKPDVIVSTPAALLN------NIDPKRRRRMEFVRGVKYVVFDEAD-M 252
V G + G I + +++ TP +L+ IDPK+ +K V DEAD M
Sbjct: 147 VRGNKLERGQKISE-QIVIGTPGTVLDWCSKLKFIDPKK---------IKVFVLDEADVM 196
Query: 253 LLCGSFQNQVIRLINMF 269
+ Q+Q IR+ M
Sbjct: 197 IATQGHQDQSIRIQRML 213
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 57/200 (28%), Positives = 90/200 (45%), Gaps = 31/200 (15%)
Query: 342 RVRKNYQRSKQYIFVAATLPINGKKTAGAVLKQMFPDADWISGNYLHFHNPRLKEKWIEV 401
R+++ R+ Q + +AT + K A V+ PD + I K K E
Sbjct: 192 RIQRMLPRNCQMLLFSATFEDSVWKFAQKVV----PDPNVI------------KLKREEE 235
Query: 402 TVDT--QVDALIEAVKERLE-----FGAET-SRTMVFANTVDAVYAVTKILKTAGIECYC 453
T+DT Q L + E+ + +GA T ++ M+F +T + L G +
Sbjct: 236 TLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVAL 295
Query: 454 YHKDLSLEERAKTLVNFQE-KGGVFVCTDAAARGIDIPNVSHVIQADFATSA------VD 506
++ +E+RA + F+E K V V T+ ARGID+ VS VI D
Sbjct: 296 LSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNET 355
Query: 507 FLHRVGRTARAGQYGLVTSL 526
+LHR+GRT R G+ GL ++
Sbjct: 356 YLHRIGRTGRFGKRGLAVNM 375
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 48/197 (24%), Positives = 91/197 (46%), Gaps = 37/197 (18%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSG--KDVVIAAETGSGKTHSYLVPL 142
+++ L L +L++ + GF RPS +Q ++ +L+ ++++ +++G+GKT ++++ +
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 85
Query: 143 IEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVA 202
+ ++ EP L L P L Q ++ + E L A A
Sbjct: 86 LSQV--------------EPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE-LKLAYA 130
Query: 203 VCGGQ---GWPIGKPDVIVSTPAALLN------NIDPKRRRRMEFVRGVKYVVFDEAD-M 252
V G + G I + +++ TP +L+ IDPK+ +K V DEAD M
Sbjct: 131 VRGNKLERGQKISE-QIVIGTPGTVLDWCSKLKFIDPKK---------IKVFVLDEADVM 180
Query: 253 LLCGSFQNQVIRLINMF 269
+ Q+Q IR+ M
Sbjct: 181 IATQGHQDQSIRIQRML 197
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 57/200 (28%), Positives = 90/200 (45%), Gaps = 31/200 (15%)
Query: 342 RVRKNYQRSKQYIFVAATLPINGKKTAGAVLKQMFPDADWISGNYLHFHNPRLKEKWIEV 401
R+++ R+ Q + +AT + K A V+ PD + I K K E
Sbjct: 259 RIQRMLPRNCQMLLFSATFEDSVWKFAQKVV----PDPNVI------------KLKREEE 302
Query: 402 TVDT--QVDALIEAVKERLE-----FGAET-SRTMVFANTVDAVYAVTKILKTAGIECYC 453
T+DT Q L + E+ + +GA T ++ M+F +T + L G +
Sbjct: 303 TLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVAL 362
Query: 454 YHKDLSLEERAKTLVNFQE-KGGVFVCTDAAARGIDIPNVSHVIQADFATSA------VD 506
++ +E+RA + F+E K V V T+ ARGID+ VS VI D
Sbjct: 363 LSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNET 422
Query: 507 FLHRVGRTARAGQYGLVTSL 526
+LHR+GRT R G+ GL ++
Sbjct: 423 YLHRIGRTGRFGKRGLAVNM 442
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 48/197 (24%), Positives = 91/197 (46%), Gaps = 37/197 (18%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSG--KDVVIAAETGSGKTHSYLVPL 142
+++ L L +L++ + GF RPS +Q ++ +L+ ++++ +++G+GKT ++++ +
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 152
Query: 143 IEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVA 202
+ ++ EP L L P L Q ++ + E L A A
Sbjct: 153 LSQV--------------EPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE-LKLAYA 197
Query: 203 VCGGQ---GWPIGKPDVIVSTPAALLN------NIDPKRRRRMEFVRGVKYVVFDEAD-M 252
V G + G I + +++ TP +L+ IDPK+ +K V DEAD M
Sbjct: 198 VRGNKLERGQKISE-QIVIGTPGTVLDWCSKLKFIDPKK---------IKVFVLDEADVM 247
Query: 253 LLCGSFQNQVIRLINMF 269
+ Q+Q IR+ M
Sbjct: 248 IATQGHQDQSIRIQRML 264
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 46/179 (25%), Positives = 88/179 (49%), Gaps = 10/179 (5%)
Query: 91 LSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEKLCTAL 150
+++ ++A++ GF + +Q S+ P+L G+D++ AA+TGSGKT ++L+P +E +
Sbjct: 61 VNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLR 120
Query: 151 GDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVCGGQGWP 210
N +P R L + VL E + + G A A G G
Sbjct: 121 FMPRNGTGVLILSPTR--ELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGI- 177
Query: 211 IGKPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGSFQNQVIRLINMF 269
++IV+TP LL+++ + + ++ +V DEAD +L F+ ++ ++I +
Sbjct: 178 ----NIIVATPGRLLDHM---QNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLL 229
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 55.5 bits (132), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 46/174 (26%), Positives = 81/174 (46%), Gaps = 23/174 (13%)
Query: 91 LSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEKLCTAL 150
LS + ++ L+ + + + +Q ++G L GKDV+ AA+TGSGKT ++LVP++E L
Sbjct: 32 LSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQ 91
Query: 151 GDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVCGGQGWP 210
S + L++ P L Q + + ++ A + GG+
Sbjct: 92 WTSTDG----------LGVLIISPTRELAYQTFEVLRKVGKNHD---FSAGLIIGGKDLK 138
Query: 211 -----IGKPDVIVSTPAALLNNIDPKRRRRMEF-VRGVKYVVFDEADMLLCGSF 258
I +++V TP LL ++D + F ++ +V DEAD +L F
Sbjct: 139 HEAERINNINILVCTPGRLLQHMD----ETVSFHATDLQMLVLDEADRILDMGF 188
>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 = 55.1 bits (131), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 51/186 (27%), Positives = 92/186 (49%), Gaps = 22/186 (11%)
Query: 95 LIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEKLCTALGDSE 154
L++++ G +P+ +Q+ + +L G D+++ A+TG+GKT SYL+P L DS+
Sbjct: 31 LLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHL-----DSQ 85
Query: 155 NSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVCG-----GQGW 209
+ ++ P LVL P L V + S ++++ + G GQ
Sbjct: 86 PISREQRNGP---GMLVLTPTRELALHVEAECSKYSYKG----LKSICIYGGRNRNGQIE 138
Query: 210 PIGK-PDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLLCGSFQNQVIRLINM 268
I K D+I++TP LN++ + R + Y+V DEAD +L F+ Q+ +++
Sbjct: 139 DISKGVDIIIATPGR-LNDLQMNNSVNL---RSITYLVIDEADKMLDMEFEPQIRKILLD 194
Query: 269 FRFDEK 274
R D +
Sbjct: 195 VRPDRQ 200
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 43/170 (25%), Positives = 85/170 (50%), Gaps = 23/170 (13%)
Query: 91 LSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEKLCTAL 150
++ RL++ + ++GF P+ +Q ++ +L G++++ +A TGSGKT ++ +P++ +L
Sbjct: 36 INSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQL---- 91
Query: 151 GDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNG--EPLVRAVAVCGGQG 208
K+P +L++ P L Q+ R +S G ++ AV +
Sbjct: 92 ---------KQPANKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKF 142
Query: 209 WPIG--KPDVIVSTPAALLNNI--DPKRRRRMEFVRGVKYVVFDEADMLL 254
P K D++V+TP L+ + DP + V+++V DE+D L
Sbjct: 143 GPKSSKKFDILVTTPNRLIYLLKQDPPGID----LASVEWLVVDESDKLF 188
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 53.5 bits (127), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 48/178 (26%), Positives = 79/178 (44%), Gaps = 31/178 (17%)
Query: 86 WKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEK 145
++ L L+RA+ + GF PS VQ + + G DV+ A++G GKT +++ +++
Sbjct: 9 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 68
Query: 146 LCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVCG 205
L EP + LV+C L Q+ + S P V+ VAV
Sbjct: 69 L--------------EPVTGQVSVLVMCHTRELAFQISKEYERFS--KYMPNVK-VAVFF 111
Query: 206 GQGWPIGK---------PDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLL 254
G G I K P ++V TP +L R + ++ +K+ + DEAD +L
Sbjct: 112 G-GLSIKKDEEVLKKNCPHIVVGTPGRIL----ALARNKSLNLKHIKHFILDEADKML 164
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/110 (25%), Positives = 50/110 (45%), Gaps = 1/110 (0%)
Query: 423 ETSRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQE-KGGVFVCTD 481
E ++ ++F +V A+ ++L H+ + EER F++ + + V T+
Sbjct: 248 EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATN 307
Query: 482 AAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSLYTESN 531
RG+DI V+ D + +LHRV R R G GL + ++ N
Sbjct: 308 LFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 357
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 53.5 bits (127), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 50/184 (27%), Positives = 85/184 (46%), Gaps = 46/184 (25%)
Query: 91 LSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEKLCTAL 150
+++++ +A+ GF + VQ+ ++ +L GK+VV+ A+TGSGKT +Y +P++E L
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILE-----L 55
Query: 151 GDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVA-VCGGQGW 209
G SLV+ P L QV D G + VA V GG +
Sbjct: 56 G---------------MKSLVVTPTRELTRQVASHIR----DIGRYMDTKVAEVYGGMPY 96
Query: 210 P-----IGKPDVIVSTPAALLNNIDPKRRRRMEFVRGV------KYVVFDEADMLLCGSF 258
+ D++V+TP LL+ + +GV + V+ DEAD++ F
Sbjct: 97 KAQINRVRNADIVVATPGRLLD----------LWSKGVIDLSSFEIVIIDEADLMFEMGF 146
Query: 259 QNQV 262
+ +
Sbjct: 147 IDDI 150
Score = 48.9 bits (115), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 35/112 (31%), Positives = 57/112 (50%), Gaps = 10/112 (8%)
Query: 411 IEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNF 470
++A++E + G +VF T + V + ++ A IE DL R + + F
Sbjct: 212 VQALRENKDKGV-----IVFVRTRNRVAKLVRLFDNA-IEL---RGDLPQSVRNRNIDAF 262
Query: 471 QE-KGGVFVCTDAAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYG 521
+E + + + TD A+RG+DIP V VI D ++HR+GRT R G+ G
Sbjct: 263 REGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKG 314
>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 = 53.5 bits (127), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 53/146 (36%), Positives = 68/146 (46%), Gaps = 7/146 (4%)
Query: 403 VDTQVDALIEAVKERLE------FGAETSRTMVFANTVDAVYAVTKILKTAGIECYCYHK 456
V + +A+ V+ RLE + A R MVF T + + L G H
Sbjct: 4 VTYEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHG 63
Query: 457 DLSLEERAKTLVNF-QEKGGVFVCTDAAARGIDIPNVSHVIQADFATSAVDFLHRVGRTA 515
DLS ER + L F Q + V V TD AARG+DIP V V+ A + HR GRT
Sbjct: 64 DLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTG 123
Query: 516 RAGQYGLVTSLYTESNRDLVDTIRRA 541
RAG+ G V LY R V+ + RA
Sbjct: 124 RAGRGGRVVLLYGPRERRDVEALERA 149
>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 = 51/146 (34%), Positives = 68/146 (46%), Gaps = 7/146 (4%)
Query: 403 VDTQVDALIEAVKERLE------FGAETSRTMVFANTVDAVYAVTKILKTAGIECYCYHK 456
V + +A+ V+ RLE + A R MVF T + + L G H
Sbjct: 1 VTYEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHG 60
Query: 457 DLSLEERAKTLVNF-QEKGGVFVCTDAAARGIDIPNVSHVIQADFATSAVDFLHRVGRTA 515
D+S ER + + F Q + V V TD AARG+DIP V V+ A + HR GRT
Sbjct: 61 DMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTG 120
Query: 516 RAGQYGLVTSLYTESNRDLVDTIRRA 541
RAG+ G V LY R V+ + RA
Sbjct: 121 RAGRGGRVVLLYGPRERRDVEALERA 146
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 52.4 bits (124), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 47/178 (26%), Positives = 78/178 (43%), Gaps = 31/178 (17%)
Query: 86 WKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEK 145
++ L L+RA+ + GF PS VQ + + G DV+ A++G GKT +++ +++
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 146 LCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVCG 205
L EP + LV+C L Q+ + S P V+ VAV
Sbjct: 70 L--------------EPVTGQVSVLVMCHTRELAFQISKEYERFS--KYMPNVK-VAVFF 112
Query: 206 GQGWPIGK---------PDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLL 254
G G I K P ++V TP +L R + ++ +K+ + DE D +L
Sbjct: 113 G-GLSIKKDEEVLKKNCPHIVVGTPGRIL----ALARNKSLNLKHIKHFILDECDKML 165
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/110 (25%), Positives = 50/110 (45%), Gaps = 1/110 (0%)
Query: 423 ETSRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQE-KGGVFVCTD 481
E ++ ++F +V A+ ++L H+ + EER F++ + + V T+
Sbjct: 249 EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATN 308
Query: 482 AAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSLYTESN 531
RG+DI V+ D + +LHRV R R G GL + ++ N
Sbjct: 309 LFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 358
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 52.0 bits (123), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 47/178 (26%), Positives = 78/178 (43%), Gaps = 31/178 (17%)
Query: 86 WKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEK 145
++ L L+RA+ + GF PS VQ + + G DV+ A++G GKT +++ +++
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 146 LCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVAVCG 205
L EP + LV+C L Q+ + S P V+ VAV
Sbjct: 70 L--------------EPVTGQVSVLVMCHTRELAFQISKEYERFS--KYMPNVK-VAVFF 112
Query: 206 GQGWPIGK---------PDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEADMLL 254
G G I K P ++V TP +L R + ++ +K+ + DE D +L
Sbjct: 113 G-GLSIKKDEEVLKKNCPHIVVGTPGRIL----ALARNKSLNLKHIKHFILDECDKML 165
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/110 (25%), Positives = 50/110 (45%), Gaps = 1/110 (0%)
Query: 423 ETSRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQE-KGGVFVCTD 481
E ++ ++F +V A+ ++L H+ + EER F++ + + V T+
Sbjct: 249 EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATN 308
Query: 482 AAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSLYTESN 531
RG+DI V+ D + +LHRV R R G GL + ++ N
Sbjct: 309 LFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 358
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/110 (25%), Positives = 50/110 (45%), Gaps = 1/110 (0%)
Query: 423 ETSRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQE-KGGVFVCTD 481
E ++ ++F +V A+ ++L H+ + EER F++ + + V T+
Sbjct: 30 EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATN 89
Query: 482 AAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSLYTESN 531
RG+DI V+ D + +LHRV R R G GL + ++ N
Sbjct: 90 LFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 139
>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 = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 48/195 (24%), Positives = 82/195 (42%), Gaps = 34/195 (17%)
Query: 69 SDKNGSSDTFFADDNVTWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAA 128
SD GS + + + ++ L L+RA+ + GF PS VQ + + G DV+ A
Sbjct: 2 SDVKGS---YVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQA 58
Query: 129 ETGSGKTHSYLVPLIEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANA 188
++G GKT +++ +++L EP + LV+C L Q+ +
Sbjct: 59 KSGMGKTAVFVLATLQQL--------------EPVTGQVSVLVMCHTRELAFQISKEYER 104
Query: 189 LSADNGEPLVRAVAVCGGQGWPIGK---------PDVIVSTPAALLNNIDPKRRRRMEFV 239
S P V+ G G I K P ++V TP +L R + +
Sbjct: 105 FS--KYMPNVKVAVFFG--GLSIKKDEEVLKKNCPHIVVGTPGRIL----ALARNKSLNL 156
Query: 240 RGVKYVVFDEADMLL 254
+ +K+ + DE D +L
Sbjct: 157 KHIKHFILDECDKML 171
>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 = 49.3 bits (116), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 44/77 (57%), Gaps = 7/77 (9%)
Query: 457 DLSLEERAKTLVNFQE-KGGVFVCTDAAARGIDIPNVSHVIQADFATSAVD------FLH 509
+L++E+RA + F++ K V + T+ ARGID+ V+ V+ D + +LH
Sbjct: 67 ELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLH 126
Query: 510 RVGRTARAGQYGLVTSL 526
R+GRT R G+ GL ++
Sbjct: 127 RIGRTGRFGKKGLAFNM 143
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 46/150 (30%), Positives = 69/150 (46%), Gaps = 20/150 (13%)
Query: 384 GNYLHFHNPRLKEKWI------EVTVDT-----QVDALIEAVKERLEFGAETSRTMVFAN 432
G Y H+P + E+ I + T+D Q+D LI ++ER+E RT+V
Sbjct: 396 GPYELEHSPGVVEQIIRPTGLLDPTIDVRPTKGQIDDLIGEIRERVE---RNERTLVTTL 452
Query: 433 TVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQ-EKGGVFVCTDAAARGIDIPN 491
T +T LK AGI+ H ++ ER + + + + K V V + G+DIP
Sbjct: 453 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 512
Query: 492 VSHV--IQAD---FATSAVDFLHRVGRTAR 516
VS V + AD F S + +GR AR
Sbjct: 513 VSLVAILDADKEGFLRSERSLIQTIGRAAR 542
>pdb|1T5L|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
pdb|1T5L|B Chain B, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
Length = 658
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 46/150 (30%), Positives = 69/150 (46%), Gaps = 20/150 (13%)
Query: 384 GNYLHFHNPRLKEKWI------EVTVDT-----QVDALIEAVKERLEFGAETSRTMVFAN 432
G Y H+P + E+ I + T+D Q+D LI ++ER+E RT+V
Sbjct: 397 GPYELEHSPGVVEQIIRPTGLLDPTIDVRPTKGQIDDLIGEIRERVE---RNERTLVTTL 453
Query: 433 TVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQ-EKGGVFVCTDAAARGIDIPN 491
T +T LK AGI+ H ++ ER + + + + K V V + G+DIP
Sbjct: 454 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 513
Query: 492 VSHV--IQAD---FATSAVDFLHRVGRTAR 516
VS V + AD F S + +GR AR
Sbjct: 514 VSLVAILDADKEGFLRSERSLIQTIGRAAR 543
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 46/150 (30%), Positives = 69/150 (46%), Gaps = 20/150 (13%)
Query: 384 GNYLHFHNPRLKEKWI------EVTVDT-----QVDALIEAVKERLEFGAETSRTMVFAN 432
G Y H+P + E+ I + T+D Q+D LI ++ER+E RT+V
Sbjct: 397 GPYELEHSPGVVEQIIRPTGLLDPTIDVRPTKGQIDDLIGEIRERVE---RNERTLVTTL 453
Query: 433 TVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQ-EKGGVFVCTDAAARGIDIPN 491
T +T LK AGI+ H ++ ER + + + + K V V + G+DIP
Sbjct: 454 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 513
Query: 492 VSHV--IQAD---FATSAVDFLHRVGRTAR 516
VS V + AD F S + +GR AR
Sbjct: 514 VSLVAILDADKEGFLRSERSLIQTIGRAAR 543
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 46/150 (30%), Positives = 69/150 (46%), Gaps = 20/150 (13%)
Query: 384 GNYLHFHNPRLKEKWI------EVTVDT-----QVDALIEAVKERLEFGAETSRTMVFAN 432
G Y H+P + E+ I + T+D Q+D LI ++ER+E RT+V
Sbjct: 397 GPYELEHSPGVVEQIIRPTGLLDPTIDVRPTKGQIDDLIGEIRERVE---RNERTLVTTL 453
Query: 433 TVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQ-EKGGVFVCTDAAARGIDIPN 491
T +T LK AGI+ H ++ ER + + + + K V V + G+DIP
Sbjct: 454 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 513
Query: 492 VSHV--IQAD---FATSAVDFLHRVGRTAR 516
VS V + AD F S + +GR AR
Sbjct: 514 VSLVAILDADKEGFLRSERSLIQTIGRAAR 543
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 46/150 (30%), Positives = 68/150 (45%), Gaps = 20/150 (13%)
Query: 384 GNYLHFHNPRLKEKWI------EVTVDT-----QVDALIEAVKERLEFGAETSRTMVFAN 432
G Y H+P + E+ I + T+D Q+D LI + ER+E RT+V
Sbjct: 422 GPYELEHSPGVVEQIIRPTGLLDPTIDVRPTKGQIDDLIGEIHERVE---RNERTLVTTL 478
Query: 433 TVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQ-EKGGVFVCTDAAARGIDIPN 491
T +T LK AGI+ H ++ ER + + + + K V V + G+DIP
Sbjct: 479 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 538
Query: 492 VSHV--IQAD---FATSAVDFLHRVGRTAR 516
VS V + AD F S + +GR AR
Sbjct: 539 VSLVAILDADKEGFLRSERSLIQTIGRAAR 568
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 49/197 (24%), Positives = 90/197 (45%), Gaps = 37/197 (18%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLS--GKDVVIAAETGSGKTHSYLVPL 142
+++ L L +L++ + GF RPS +Q ++ +L+ ++++ +++G+GKT ++++ +
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 152
Query: 143 IEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVA 202
+ S EP L L P L Q ++ + E L A A
Sbjct: 153 L--------------SQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE-LKLAYA 197
Query: 203 VCGGQ---GWPIGKPDVIVSTPAALLN------NIDPKRRRRMEFVRGVKYVVFDEAD-M 252
V G + G I + +++ TP +L+ IDPK+ +K V DEAD M
Sbjct: 198 VRGNKLERGQKISE-QIVIGTPGTVLDWCSKLKFIDPKK---------IKVFVLDEADVM 247
Query: 253 LLCGSFQNQVIRLINMF 269
+ Q+Q IR+ M
Sbjct: 248 IATQGHQDQSIRIQRML 264
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 49/197 (24%), Positives = 90/197 (45%), Gaps = 37/197 (18%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLS--GKDVVIAAETGSGKTHSYLVPL 142
+++ L L +L++ + GF RPS +Q ++ +L+ ++++ +++G+GKT ++++ +
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 85
Query: 143 IEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVA 202
+ S EP L L P L Q ++ + E L A A
Sbjct: 86 L--------------SQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE-LKLAYA 130
Query: 203 VCGGQ---GWPIGKPDVIVSTPAALLN------NIDPKRRRRMEFVRGVKYVVFDEAD-M 252
V G + G I + +++ TP +L+ IDPK+ +K V DEAD M
Sbjct: 131 VRGNKLERGQKISE-QIVIGTPGTVLDWCSKLKFIDPKK---------IKVFVLDEADVM 180
Query: 253 LLCGSFQNQVIRLINMF 269
+ Q+Q IR+ M
Sbjct: 181 IATQGHQDQSIRIQRML 197
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 42/190 (22%), Positives = 83/190 (43%), Gaps = 19/190 (10%)
Query: 342 RVRKNYQRSKQYIFVAATLPINGKKTAGAVLKQMFPDADWISGNYLHFHNPRLKEKWIEV 401
R++ R+ Q + +AT +K A ++ P+A+ I +K+ +++
Sbjct: 283 RIKHLLPRNTQIVLFSATFSERVEKYA----ERFAPNANEIRLKTEELSVEGIKQLYMDC 338
Query: 402 -TVDTQVDALIEAVKERLEFGAET-SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLS 459
+ + + + L+E +G T ++++F D + + + G C +L
Sbjct: 339 QSEEHKYNVLVEL------YGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLE 392
Query: 460 LEERAKTLVNFQ-EKGGVFVCTDAAARGIDIPNVSHVIQADFATSAV------DFLHRVG 512
+R + +F+ V V T+ ARGID+ V+ V+ D +LHR+G
Sbjct: 393 GAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIG 452
Query: 513 RTARAGQYGL 522
RT R G+ G+
Sbjct: 453 RTGRFGRVGV 462
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/133 (18%), Positives = 62/133 (46%), Gaps = 19/133 (14%)
Query: 122 KDVVIAAETGSGKTHSYLVPLIEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQ 181
++++ +++G+GKT ++ + ++ ++ + + P+ ++ L P+ L Q
Sbjct: 159 RNMIGQSQSGTGKTAAFALTMLSRV--------------DASVPKPQAICLAPSRELARQ 204
Query: 182 VVRMANALSADNGEPLVRAVAVCGGQGWPIGKPDVIVSTPAALLNNIDPKRRRRMEFVRG 241
++ + + + +G I +++ TP ++ D +RR+++ R
Sbjct: 205 IMDVVTEMGKYTEVKTAFGIKDSVPKGAKI-DAQIVIGTPGTVM---DLMKRRQLD-ARD 259
Query: 242 VKYVVFDEADMLL 254
+K V DEAD +L
Sbjct: 260 IKVFVLDEADNML 272
>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 = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 34/52 (65%)
Query: 95 LIRALENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEKL 146
+I A++ F +P+ +Q + L G+ V ++TG+GKTH+YL+P+ EK+
Sbjct: 15 IIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKI 66
>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 = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 39/144 (27%), Positives = 65/144 (45%), Gaps = 12/144 (8%)
Query: 400 EVTVD-TQVDALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKTAGIECYCY---- 454
E+ +D ++D L E ++E+L+ + S+ +VF N + + L GI+ +
Sbjct: 337 EIGLDHPKMDKLKEIIREQLQ-RKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQA 395
Query: 455 --HKDLSLEERAKTLVNFQEKGG---VFVCTDAAARGIDIPNVSHVIQADFATSAVDFLH 509
D L +R + L+ + G V V T G+D+P V V+ + SA+ +
Sbjct: 396 SKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQ 455
Query: 510 RVGRTARAGQYGLVTSLYTESNRD 533
R GRT R G V L + RD
Sbjct: 456 RRGRTGR-HMPGRVIILMAKGTRD 478
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 42.4 bits (98), Expect = 7e-04, Method: Composition-based stats.
Identities = 24/86 (27%), Positives = 41/86 (47%), Gaps = 1/86 (1%)
Query: 425 SRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQEKGG-VFVCTDAA 483
++ ++F NT V +T L+ + DL +ER + F+ + + TD
Sbjct: 31 TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLL 90
Query: 484 ARGIDIPNVSHVIQADFATSAVDFLH 509
ARGID+ VS VI D + +++H
Sbjct: 91 ARGIDVQQVSLVINYDLPANKENYIH 116
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 37/92 (40%), Gaps = 1/92 (1%)
Query: 428 MVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQEKG-GVFVCTDAAARG 486
+++ N+ V L++ GI YH L RA FQ + V T A G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXG 299
Query: 487 IDIPNVSHVIQADFATSAVDFLHRVGRTARAG 518
I+ PNV V+ D + + GR R G
Sbjct: 300 INKPNVRFVVHFDIPRNIESYYQETGRAGRDG 331
Score = 29.6 bits (65), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 100 ENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLI 143
E G+ + Q + VLSG+D ++ TG GK+ Y +P +
Sbjct: 19 ETFGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPAL 62
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 45/113 (39%), Gaps = 6/113 (5%)
Query: 407 VDALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKT 466
+D L+ V+E+ +++ N+ V L++ GI YH L RA
Sbjct: 224 LDQLMRYVQEQ-----RGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADV 278
Query: 467 LVNFQEKG-GVFVCTDAAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAG 518
FQ + V T A GI+ PNV V+ D + + GR R G
Sbjct: 279 QEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDG 331
Score = 30.0 bits (66), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 100 ENSGFGRPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLI 143
E G+ + Q + VLSG+D ++ TG GK+ Y +P +
Sbjct: 19 ETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL 62
>pdb|2OXC|A Chain A, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|2OXC|B Chain B, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|3B7G|A Chain A, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
pdb|3B7G|B Chain B, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
Length = 230
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 48/207 (23%), Positives = 85/207 (41%), Gaps = 41/207 (19%)
Query: 69 SDKNGSSDTFFADDNVTWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSGKDVVIAA 128
S + + D A+ ++SL LS ++ L +GF RPS VQ ++ G D+++ A
Sbjct: 10 SPRTRTGDVLLAEP-ADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQA 68
Query: 129 ETGSGKTHSYLVPLIEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANA 188
++G+GKT + ++ L EN ++ L+L P + Q+ + A
Sbjct: 69 KSGTGKTCVFSTIALDSLVL-----ENLSTQ---------ILILAPTREIAVQIHSVITA 114
Query: 189 LSAD----------NGEPLVRAVAVCGGQGWPIGKPDVIVSTPAALLNNIDPKRRRRMEF 238
+ G PL + +G P I K+ +++
Sbjct: 115 IGIKMEGLECHVFIGGTPLSQDKTRLKKCHIAVGSPGRI-------------KQLIELDY 161
Query: 239 VR--GVKYVVFDEADMLL-CGSFQNQV 262
+ ++ + DEAD LL GSFQ Q+
Sbjct: 162 LNPGSIRLFILDEADKLLEEGSFQEQI 188
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 41/184 (22%), Positives = 85/184 (46%), Gaps = 22/184 (11%)
Query: 85 TWKSLGLSDRLIRALENSGFGRPSIVQAASVGPVLSG--KDVVIAAETGSGKTHSYLVPL 142
++ LGL+ L++ + F +PS +Q ++ +L ++++ +++G+GKT ++ + +
Sbjct: 23 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 82
Query: 143 IEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVVLCEQVVRMANALSADNGEPLVRAVA 202
+ ++ + E P+A + L P+ L Q + + + V
Sbjct: 83 LTRV------------NPEDASPQA--ICLAPSRELARQTLEVVQEMGKFTKITSQLIVP 128
Query: 203 VCGGQGWPIGKPDVIVSTPAALLNNIDPKRRRRMEFVRGVKYVVFDEAD-MLLCGSFQNQ 261
+ I VIV TP +L+ + RR++ ++ +K V DEAD ML +Q
Sbjct: 129 DSFEKNKQINA-QVIVGTPGTVLDLM----RRKLMQLQKIKIFVLDEADNMLDQQGLGDQ 183
Query: 262 VIRL 265
IR+
Sbjct: 184 CIRV 187
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 22/100 (22%), Positives = 42/100 (42%), Gaps = 4/100 (4%)
Query: 424 TSRTMVFANTVDAVYAVTKILKT-AGIECYCYHKDLSLEERAKTLVNFQEK---GGVFVC 479
+ + +V + ++L+ GI +H+ S+ ER + F E+ V +C
Sbjct: 503 SQKVLVICAKAATALQLEQVLREREGIRAAVFHEGXSIIERDRAAAWFAEEDTGAQVLLC 562
Query: 480 TDAAARGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQ 519
++ + G + SH + D + R+GR R GQ
Sbjct: 563 SEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIGQ 602
>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 = 34.7 bits (78), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 36/80 (45%), Gaps = 5/80 (6%)
Query: 440 VTKILKTAGIECYCYHKDLSLEERAKTLVNFQEKGG---VFVCTDAAARGIDIPNVSHVI 496
VT L+ GI YH +L E+ KT V+ + V V T A GID P+V VI
Sbjct: 283 VTVSLQNLGIHAGAYHANLEPED--KTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVI 340
Query: 497 QADFATSAVDFLHRVGRTAR 516
+ S ++ GR R
Sbjct: 341 HHSMSKSMENYYQESGRAGR 360
>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 = 33.1 bits (74), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 33/133 (24%), Positives = 53/133 (39%), Gaps = 30/133 (22%)
Query: 106 RPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEKLCTALGDSENSNSDKEPTPP 165
RP ++ A P L GK+++I TG GKT ++ + K P
Sbjct: 9 RPYQMEVAQ--PALEGKNIIICLPTGCGKT---------RVAVYIAKDHLDKKKKASEPG 57
Query: 166 RAPSLVLCPNVVLCEQVVRMANALSADNGEPLV----RAVAVCGGQGWPIGKP------D 215
+ +VL V+L EQ+ R +P + R + + G I P D
Sbjct: 58 KV--IVLVNKVLLVEQLFR-------KEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCD 108
Query: 216 VIVSTPAALLNNI 228
+I+ST L N++
Sbjct: 109 IIISTAQILENSL 121
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 33/154 (21%), Positives = 68/154 (44%), Gaps = 19/154 (12%)
Query: 404 DTQVDALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKIL----KTAGIECYCYH---- 455
+ ++ L + E+ E++R ++F T + YA+++ + K A + +H
Sbjct: 380 NEKLTKLRNTIMEQYTRTEESARGIIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGA 439
Query: 456 ------KDLSLEERAKTLVNFQE-KGGVFVCTDAAARGIDIPNVSHVIQADFATSAVDFL 508
K ++ E+ + + F+ K + + T A G+DI + VI+ T+ + +
Sbjct: 440 GHSSEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMV 499
Query: 509 HRVGRTARAGQYGLVTSLYTES---NRDLVDTIR 539
GR ARA + V ++ S R+ V+ R
Sbjct: 500 QARGR-ARADESTYVLVAHSGSGVIERETVNDFR 532
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 32.7 bits (73), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 30/118 (25%), Positives = 54/118 (45%), Gaps = 8/118 (6%)
Query: 426 RTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQE-KGGVFVCTDAAA 484
+ ++F + VY ++K+ I H+ S EER + L F+ + V +
Sbjct: 351 KIIIFTRHNELVYRISKVFLIPAIT----HRT-SREEREEILEGFRTGRFRAIVSSQVLD 405
Query: 485 RGIDIPNVSHVIQADFATSAVDFLHRVGRTARAGQYGLVTSLYTESNRDL--VDTIRR 540
GID+P+ + + + SA +++ R+GR R + LY +R V+T RR
Sbjct: 406 EGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSKGKKEAVLYELISRGTGEVNTARR 463
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 32.0 bits (71), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 34/133 (25%), Positives = 54/133 (40%), Gaps = 30/133 (22%)
Query: 106 RPSIVQAASVGPVLSGKDVVIAAETGSGKTHSYLVPLIEKLCTALGDSENSNSDKEPTPP 165
RP ++ A P L GK+++I TGSGKT ++ + K P
Sbjct: 35 RPYQMEVAQ--PALEGKNIIICLPTGSGKT---------RVAVYIAKDHLDKKKKASEPG 83
Query: 166 RAPSLVLCPNVVLCEQVVRMANALSADNGEPLV----RAVAVCGGQGWPIGKP------D 215
+ +VL V+L EQ+ R +P + R + + G I P D
Sbjct: 84 KV--IVLVNKVLLVEQLFR-------KEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCD 134
Query: 216 VIVSTPAALLNNI 228
+I+ST L N++
Sbjct: 135 IIISTAQILENSL 147
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 44/92 (47%), Gaps = 6/92 (6%)
Query: 426 RTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLEERAKTLVNFQE-KGGVFVCTDAAA 484
+ ++F + VY ++K+ I H+ S EER + L F+ + V +
Sbjct: 116 KIIIFTRHNELVYRISKVFLIPAIT----HRT-SREEREEILEGFRTGRFRAIVSSQVLD 170
Query: 485 RGIDIPNVSHVIQADFATSAVDFLHRVGRTAR 516
GID+P+ + + + SA +++ R+GR R
Sbjct: 171 EGIDVPDANVGVIMSGSGSAREYIQRLGRILR 202
>pdb|3LJK|A Chain A, Glucose-6-Phosphate Isomerase From Francisella Tularensis.
pdb|3M5P|A Chain A, Glucose-6-Phosphate Isomerase From Francisella Tularensis
Complexed With Fructose-6-Phosphate
Length = 543
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 28/60 (46%)
Query: 327 TEETKSGSIKKKDWRRVRKNYQRSKQYIFVAATLPINGKKTAGAVLKQMFPDADWISGNY 386
TEET SI ++W +++ FVA + ++ K G L+ + DW+ G Y
Sbjct: 206 TEETLLNSISAREWLLDHYEDEKAVANHFVAISSKLDKVKEFGIDLEHCYKXWDWVGGRY 265
>pdb|3Q88|A Chain A, Glucose-6-Phosphate Isomerase From Francisella Tularensis
Complexed With Ribose 1,5-Bisphosphate.
pdb|3Q7I|A Chain A, Glucose-6-Phosphate Isomerase From Francisella Tularensis
Complexed With 6-Phosphogluconic Acid
Length = 543
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 28/60 (46%)
Query: 327 TEETKSGSIKKKDWRRVRKNYQRSKQYIFVAATLPINGKKTAGAVLKQMFPDADWISGNY 386
TEET SI ++W +++ FVA + ++ K G L+ + DW+ G Y
Sbjct: 206 TEETLLNSISAREWLLDHYEDEKAVANHFVAISSKLDKVKEFGIDLEHCYKMWDWVGGRY 265
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 27/55 (49%), Gaps = 11/55 (20%)
Query: 90 GLSDRLIRALENSGFGRPSIV---------QAASVGPVLSGKDVVIAAETGSGKT 135
LS+ L A E G G+P V Q P ++GK+ +I A TGSGKT
Sbjct: 225 NLSENLGSAAE--GIGKPPPVYETKKARSYQIELAQPAINGKNALICAPTGSGKT 277
>pdb|3TEZ|A Chain A, Crystal Structure Of Anthrax Protective Antigen Mutant
S337c N664c And Dithiolacetone Modified To 1.8-A
Resolution
Length = 735
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 7/67 (10%)
Query: 215 DVIVSTPAALLNNIDPKRRR-------RMEFVRGVKYVVFDEADMLLCGSFQNQVIRLIN 267
+VI S+ LL NID R+ +E G+K V+ D DML S + I+
Sbjct: 618 EVINSSTEGLLLNIDKDIRKILSGYIVEIEDTEGLKEVINDRYDMLCISSLRQDGKTFID 677
Query: 268 MFRFDEK 274
++++K
Sbjct: 678 FKKYNDK 684
>pdb|3TEY|A Chain A, Crystal Structure Of Anthrax Protective Antigen (Membrane
Insertion Loop Deleted) Mutant S337c N664c To 2.06-A
Resolution
Length = 715
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 7/67 (10%)
Query: 215 DVIVSTPAALLNNIDPKRRR-------RMEFVRGVKYVVFDEADMLLCGSFQNQVIRLIN 267
+VI S+ LL NID R+ +E G+K V+ D DML S + I+
Sbjct: 598 EVINSSTEGLLLNIDKDIRKILSGYIVEIEDTEGLKEVINDRYDMLCISSLRQDGKTFID 657
Query: 268 MFRFDEK 274
++++K
Sbjct: 658 FKKYNDK 664
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 27/55 (49%), Gaps = 11/55 (20%)
Query: 90 GLSDRLIRALENSGFGRPSIV---------QAASVGPVLSGKDVVIAAETGSGKT 135
LS+ L A E G G+P V Q P ++GK+ +I A TGSGKT
Sbjct: 225 NLSENLGSAAE--GIGKPPPVYETKKARSYQIELAQPAINGKNALICAPTGSGKT 277
>pdb|3DIN|A Chain A, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
pdb|3DIN|B Chain B, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
Length = 871
Score = 29.6 bits (65), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 50/107 (46%), Gaps = 15/107 (14%)
Query: 390 HNPRLKEKWIEVTVDTQ---VDALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKT 446
H P +++ ++ TQ + ++E +++R + G +V +++ ++ +LK
Sbjct: 440 HKPMIRKDHDDLVFRTQKEKYEKIVEEIEKRYKKGQPV---LVGTTSIEKSELLSSMLKK 496
Query: 447 AGIECYC----YHKDLSLEERAKTLVNFQEKGGVFVCTDAAARGIDI 489
GI YH E+ A+ + +KG V + T+ A RG DI
Sbjct: 497 KGIPHQVLNAKYH-----EKEAEIVAKAGQKGMVTIATNMAGRGTDI 538
>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
Maritima
Length = 822
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 50/107 (46%), Gaps = 15/107 (14%)
Query: 390 HNPRLKEKWIEVTVDTQ---VDALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKT 446
H P +++ ++ TQ + ++E +++R + G +V +++ ++ +LK
Sbjct: 440 HKPMIRKDHDDLVFRTQKEKYEKIVEEIEKRYKKG---QPVLVGTTSIEKSELLSSMLKK 496
Query: 447 AGIECYC----YHKDLSLEERAKTLVNFQEKGGVFVCTDAAARGIDI 489
GI YH E+ A+ + +KG V + T+ A RG DI
Sbjct: 497 KGIPHQVLNAKYH-----EKEAEIVAKAGQKGMVTIATNMAGRGTDI 538
>pdb|2VT1|A Chain A, Crystal Structure Of The Cytoplasmic Domain Of Spa40, The
Specificity Switch For The Shigella Flexneri Type Iii
Secretion System
Length = 52
Score = 29.6 bits (65), Expect = 5.0, Method: Composition-based stats.
Identities = 15/38 (39%), Positives = 24/38 (63%), Gaps = 5/38 (13%)
Query: 300 LQDEENLQDEYISDEGNFEGDS-----DVEGLTEETKS 332
+ D++ ++ EYI EG+FE S +E L+E+TKS
Sbjct: 4 MMDKQEIKREYIEQEGHFETKSRRRELHIEILSEQTKS 41
>pdb|3U44|A Chain A, Crystal Structure Of Addab-Dna Complex
pdb|3U4Q|A Chain A, Structure Of Addab-Dna Complex At 2.8 Angstroms
Length = 1232
Score = 29.3 bits (64), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 34/75 (45%), Gaps = 10/75 (13%)
Query: 118 VLSGKDVVIAAETGSGKTHSYLVPLIEKLCTALGDSENSNSDKEPTPPRAPSLVLCPNVV 177
V +G+D+++AA GSGKT L+E++ + EN P +V N
Sbjct: 20 VSTGQDILVAAAAGSGKT----AVLVERMIRKITAEEN------PIDVDRLLVVTFTNAS 69
Query: 178 LCEQVVRMANALSAD 192
E R+A AL +
Sbjct: 70 AAEMKHRIAEALEKE 84
>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 = 29.3 bits (64), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 4/88 (4%)
Query: 402 TVDTQVDALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLE 461
T++ + A+ E V +R G +V V+ ++K+LK GI + + E
Sbjct: 413 TMEGKFKAVAEDVAQRYMTG---QPVLVGTVAVETSELISKLLKNKGIPHQVLNAK-NHE 468
Query: 462 ERAKTLVNFQEKGGVFVCTDAAARGIDI 489
A+ + +KG V + T+ A RG DI
Sbjct: 469 REAQIIEEAGQKGAVTIATNMAGRGTDI 496
>pdb|3IQM|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 802
Score = 29.3 bits (64), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 4/88 (4%)
Query: 402 TVDTQVDALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLE 461
T++ + A+ E V +R G +V V+ ++K+LK GI + + E
Sbjct: 410 TMEGKFKAVAEDVAQRYMTG---QPVLVGTVAVETSELISKLLKNKGIPHQVLNAK-NHE 465
Query: 462 ERAKTLVNFQEKGGVFVCTDAAARGIDI 489
A+ + +KG V + T+ A RG DI
Sbjct: 466 REAQIIEEAGQKGAVTIATNMAGRGTDI 493
>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 = 29.3 bits (64), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 4/88 (4%)
Query: 402 TVDTQVDALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLE 461
T++ + A+ E V +R G +V V+ ++K+LK GI + + E
Sbjct: 413 TMEGKFKAVAEDVAQRYMTG---QPVLVGTVAVETSELISKLLKNKGIPHQVLNAK-NHE 468
Query: 462 ERAKTLVNFQEKGGVFVCTDAAARGIDI 489
A+ + +KG V + T+ A RG DI
Sbjct: 469 REAQIIEEAGQKGAVTIATNMAGRGTDI 496
>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 = 29.3 bits (64), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 4/88 (4%)
Query: 402 TVDTQVDALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLE 461
T++ + A+ E V +R G +V V+ ++K+LK GI + + E
Sbjct: 410 TMEGKFKAVAEDVAQRYMTG---QPVLVGTVAVETSELISKLLKNKGIPHQVLNAK-NHE 465
Query: 462 ERAKTLVNFQEKGGVFVCTDAAARGIDI 489
A+ + +KG V + T+ A RG DI
Sbjct: 466 REAQIIEEAGQKGAVTIATNMAGRGTDI 493
>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 = 28.9 bits (63), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 4/88 (4%)
Query: 402 TVDTQVDALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLE 461
T++ + A+ E V +R G +V V+ ++K+LK GI + + E
Sbjct: 410 TMEGKFKAVAEDVAQRYMTG---QPVLVGTVAVETSELISKLLKNKGIPHQVLNAK-NHE 465
Query: 462 ERAKTLVNFQEKGGVFVCTDAAARGIDI 489
A+ + +KG V + T+ A RG DI
Sbjct: 466 REAQIIEEAGQKGAVTIATNMAGRGTDI 493
>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 = 28.9 bits (63), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 4/88 (4%)
Query: 402 TVDTQVDALIEAVKERLEFGAETSRTMVFANTVDAVYAVTKILKTAGIECYCYHKDLSLE 461
T++ + A+ E V +R G +V V+ ++K+LK GI + + E
Sbjct: 410 TMEGKFKAVAEDVAQRYMTG---QPVLVGTVAVETSELISKLLKNKGIPHQVLNAK-NHE 465
Query: 462 ERAKTLVNFQEKGGVFVCTDAAARGIDI 489
A+ + +KG V + T+ A RG DI
Sbjct: 466 REAQIIEEAGQKGAVTIATNMAGRGTDI 493
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
0.318 0.134 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,532,264
Number of Sequences: 62578
Number of extensions: 647348
Number of successful extensions: 1768
Number of sequences better than 100.0: 103
Number of HSP's better than 100.0 without gapping: 65
Number of HSP's successfully gapped in prelim test: 38
Number of HSP's that attempted gapping in prelim test: 1598
Number of HSP's gapped (non-prelim): 145
length of query: 548
length of database: 14,973,337
effective HSP length: 104
effective length of query: 444
effective length of database: 8,465,225
effective search space: 3758559900
effective search space used: 3758559900
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)