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= 038133
(671 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 304 bits (778), Expect = 1e-82, Method: Compositional matrix adjust.
Identities = 169/415 (40%), Positives = 250/415 (60%), Gaps = 28/415 (6%)
Query: 243 GSKIPRPMRNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKT 302
G+ P + ++++ ++ ++ +E Y P+P+Q AIP+ ++RD++ A+TGSGKT
Sbjct: 7 GNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKT 66
Query: 303 AAFVLPMLTYISRLPP-----ISEENEAEG-----PYAVVMAPTRELAQQIEEETVKFAH 352
AAF+LP+L+ I P +EN G P ++V+APTRELA QI EE KF++
Sbjct: 67 AAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSY 126
Query: 353 YLGIKVVSIVGGQSIEEQGFRIRQGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADR 412
++ + GG I +Q + +GC +++ATPGRL+D +ER L+ C Y+VLDEADR
Sbjct: 127 RSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADR 186
Query: 413 MIDMGFEPQVVGVL--DAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKY 470
M+DMGFEPQ+ ++ D MP + R T MFSAT P ++ LAR +
Sbjct: 187 MLDMGFEPQIRRIVEQDTMPPKGV---------------RHTMMFSATFPKEIQMLARDF 231
Query: 471 LRNPVVVTIGTAGKATELISQHVVMMKESEKFSRLQRLLDELG-DKTAIVFVNTKKNADM 529
L + + +G G +E I+Q VV ++ES+K S L LL+ G D +VFV TKK AD
Sbjct: 232 LDEYIFLAVGRVGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADS 291
Query: 530 VAKNLDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINY 589
+ L GY T++HG +SQ RE +L FR+ + +LVAT VA RG+DI +V HVIN+
Sbjct: 292 LEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINF 351
Query: 590 DMPGNIEMYTHRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPEL 644
D+P +IE Y HRIGRTGR G G+AT+F + ++ DL +L+++ VP L
Sbjct: 352 DLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWL 406
>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 = 292 bits (747), Expect = 5e-79, Method: Compositional matrix adjust.
Identities = 166/404 (41%), Positives = 235/404 (58%), Gaps = 20/404 (4%)
Query: 239 ISYKGSKIPRPMRNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETG 298
+ GS +P+P++++ L ++ V + GYK P+PIQ +IP+ RD++ A+TG
Sbjct: 44 VKVTGSDVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTG 103
Query: 299 SGKTAAFVLPMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKV 358
SGKTAAF+LP+L+ + P E E P V+++PTRELA QI E KFA +K+
Sbjct: 104 SGKTAAFLLPILSKLLEDP---HELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKI 160
Query: 359 VSIVGGQSIEEQGFRIRQGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGF 418
+ GG S Q I +GC VVIATPGRL+D ++R + +VVLDEADRM+DMGF
Sbjct: 161 GIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGF 220
Query: 419 EPQVVGVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVT 478
+ + M ++PE++ T MFSAT P ++R+A ++L+N V V
Sbjct: 221 SEDMRRI---MTHVTMRPEHQ------------TLMFSATFPEEIQRMAGEFLKNYVFVA 265
Query: 479 IGTAGKATELISQHVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLG 538
IG G A + Q + + + K S+L +L E D T IVFV TK+ AD +A L +
Sbjct: 266 IGIVGGACSDVKQTIYEVNKYAKRSKLIEILSEQADGT-IVFVETKRGADFLASFLSEKE 324
Query: 539 YRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMY 598
+ T++HG + Q QRE +L F+ VL+AT VA RG+DI ++ HVINYDMP I+ Y
Sbjct: 325 FPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDY 384
Query: 599 THRIGRTGRAGKTGVATTFLTFH-DTDVFYDLKQMLIQSNSPVP 641
HRIGRTGR G G AT+F D + DL ++L S VP
Sbjct: 385 VHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVKILEGSGQTVP 428
>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 = 221 bits (563), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 124/389 (31%), Positives = 207/389 (53%), Gaps = 26/389 (6%)
Query: 258 LTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLP 317
L +LLR + G++ PS IQ AI ++ RDVI +++G+GKTA F + +L +
Sbjct: 45 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL---- 100
Query: 318 PISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQG 377
+ + A+++APTRELA QI++ + Y+ ++ + +GG ++ E ++ G
Sbjct: 101 ----DIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYG 156
Query: 378 CEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLKPE 437
VV TPGR+ D + RR +VLDEAD M++ GF+ Q+ V +P +
Sbjct: 157 QHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT---- 212
Query: 438 NEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGKATELISQHVVMMK 497
+ SAT+P + + K++ +P+ + + E I Q V ++
Sbjct: 213 -------------QVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVE 259
Query: 498 ESE-KFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREIS 556
E KF L L D L A++F NTK+ D + + + + + V+++HG Q++RE
Sbjct: 260 REEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESI 319
Query: 557 LEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVATT 616
++ FR+ VL++TDV RG+D+P V+ +INYD+P N E+Y HRIGR+GR G+ GVA
Sbjct: 320 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAIN 379
Query: 617 FLTFHDTDVFYDLKQMLIQSNSPVPPELA 645
F+ D + D++Q +P +A
Sbjct: 380 FVKNDDIRILRDIEQYYSTQIDEMPMNVA 408
>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 = 221 bits (563), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 124/389 (31%), Positives = 207/389 (53%), Gaps = 26/389 (6%)
Query: 258 LTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLP 317
L +LLR + G++ PS IQ AI ++ RDVI +++G+GKTA F + +L +
Sbjct: 45 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL---- 100
Query: 318 PISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQG 377
+ + A+++APTRELA QI++ + Y+ ++ + +GG ++ E ++ G
Sbjct: 101 ----DIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYG 156
Query: 378 CEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLKPE 437
VV TPGR+ D + RR +VLDEAD M++ GF+ Q+ V +P +
Sbjct: 157 QHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT---- 212
Query: 438 NEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGKATELISQHVVMMK 497
+ SAT+P + + K++ +P+ + + E I Q V ++
Sbjct: 213 -------------QVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVE 259
Query: 498 ESE-KFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREIS 556
E KF L L D L A++F NTK+ D + + + + + V+++HG Q++RE
Sbjct: 260 REEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESI 319
Query: 557 LEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVATT 616
++ FR+ VL++TDV RG+D+P V+ +INYD+P N E+Y HRIGR+GR G+ GVA
Sbjct: 320 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAIN 379
Query: 617 FLTFHDTDVFYDLKQMLIQSNSPVPPELA 645
F+ D + D++Q +P +A
Sbjct: 380 FVKNDDIRILRDIEQYYSTQIDEMPMNVA 408
>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 = 221 bits (563), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 124/389 (31%), Positives = 207/389 (53%), Gaps = 26/389 (6%)
Query: 258 LTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLP 317
L +LLR + G++ PS IQ AI ++ RDVI +++G+GKTA F + +L +
Sbjct: 44 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL---- 99
Query: 318 PISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQG 377
+ + A+++APTRELA QI++ + Y+ ++ + +GG ++ E ++ G
Sbjct: 100 ----DIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYG 155
Query: 378 CEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLKPE 437
VV TPGR+ D + RR +VLDEAD M++ GF+ Q+ V +P +
Sbjct: 156 QHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT---- 211
Query: 438 NEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGKATELISQHVVMMK 497
+ SAT+P + + K++ +P+ + + E I Q V ++
Sbjct: 212 -------------QVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVE 258
Query: 498 ESE-KFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREIS 556
E KF L L D L A++F NTK+ D + + + + + V+++HG Q++RE
Sbjct: 259 REEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESI 318
Query: 557 LEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVATT 616
++ FR+ VL++TDV RG+D+P V+ +INYD+P N E+Y HRIGR+GR G+ GVA
Sbjct: 319 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAIN 378
Query: 617 FLTFHDTDVFYDLKQMLIQSNSPVPPELA 645
F+ D + D++Q +P +A
Sbjct: 379 FVKNDDIRILRDIEQYYSTQIDEMPMNVA 407
>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 = 220 bits (561), Expect = 2e-57, Method: Compositional matrix adjust.
Identities = 124/389 (31%), Positives = 207/389 (53%), Gaps = 26/389 (6%)
Query: 258 LTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLP 317
L +LLR + G++ PS IQ AI ++ RDVI +++G+GKTA F + +L +
Sbjct: 23 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL---- 78
Query: 318 PISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQG 377
+ + A+++APTRELA QI++ + Y+ ++ + +GG ++ E ++ G
Sbjct: 79 ----DIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYG 134
Query: 378 CEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLKPE 437
VV TPGR+ D + RR +VLDEAD M++ GF+ Q+ V +P +
Sbjct: 135 QHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT---- 190
Query: 438 NEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGKATELISQHVVMMK 497
+ SAT+P + + K++ +P+ + + E I Q V ++
Sbjct: 191 -------------QVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVE 237
Query: 498 ESE-KFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREIS 556
E KF L L D L A++F NTK+ D + + + + + V+++HG Q++RE
Sbjct: 238 REEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESI 297
Query: 557 LEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVATT 616
++ FR+ VL++TDV RG+D+P V+ +INYD+P N E+Y HRIGR+GR G+ GVA
Sbjct: 298 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAIN 357
Query: 617 FLTFHDTDVFYDLKQMLIQSNSPVPPELA 645
F+ D + D++Q +P +A
Sbjct: 358 FVKNDDIRILRDIEQYYSTQIDEMPMNVA 386
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 220 bits (561), Expect = 2e-57, Method: Compositional matrix adjust.
Identities = 124/389 (31%), Positives = 207/389 (53%), Gaps = 26/389 (6%)
Query: 258 LTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLP 317
L +LLR + G++ PS IQ AI ++ RDVI +++G+GKTA F + +L +
Sbjct: 8 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCL---- 63
Query: 318 PISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQG 377
+ + A+++APTRELA Q+++ + Y+ ++ + +GG ++ E ++ G
Sbjct: 64 ----DIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYG 119
Query: 378 CEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLKPE 437
VV TPGR+ D + RR +VLDEAD M++ GF+ Q+ V +P +
Sbjct: 120 QHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT---- 175
Query: 438 NEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGKATELISQHVVMMK 497
+ SAT+P + + K++ +P+ + + E I Q V ++
Sbjct: 176 -------------QVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVE 222
Query: 498 ESE-KFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREIS 556
E KF L L D L A++F NTK+ D + + + + + V+++HG Q++RE
Sbjct: 223 REEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESI 282
Query: 557 LEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVATT 616
++ FR+ VL++TDV RG+D+P V+ +INYD+P N E+Y HRIGR+GR G+ GVA
Sbjct: 283 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVN 342
Query: 617 FLTFHDTDVFYDLKQMLIQSNSPVPPELA 645
F+ D V D++Q +P +A
Sbjct: 343 FVKNDDIRVLRDIEQYYSTQIDEMPMNVA 371
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 220 bits (560), Expect = 2e-57, Method: Compositional matrix adjust.
Identities = 125/389 (32%), Positives = 207/389 (53%), Gaps = 26/389 (6%)
Query: 258 LTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLP 317
L +LLR + G++ PS IQ AI ++ RDVI +++G+GKTA F + +L +
Sbjct: 8 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCL---- 63
Query: 318 PISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQG 377
+ + A+++APTRELA Q+++ + Y+ ++ + +GG ++ E ++ G
Sbjct: 64 ----DIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYG 119
Query: 378 CEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLKPE 437
VV TPGR+ D + RR +VLDEAD M++ GF+ Q+ V +P +
Sbjct: 120 QHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT---- 175
Query: 438 NEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGKATELISQHVVMMK 497
+ SAT+P V + K++ +P+ + + E I Q V ++
Sbjct: 176 -------------QVVLISATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVE 222
Query: 498 ESE-KFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREIS 556
E KF L L D L A++F NTK+ D + + + + + V+++HG Q++RE
Sbjct: 223 REEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESI 282
Query: 557 LEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVATT 616
++ FR+ VL++TDV RG+D+P V+ +INYD+P N E+Y HRIGR+GR G+ GVA
Sbjct: 283 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVN 342
Query: 617 FLTFHDTDVFYDLKQMLIQSNSPVPPELA 645
F+ D V D++Q +P +A
Sbjct: 343 FVKNDDIRVLRDIEQYYSTQIDEMPMNVA 371
>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 = 216 bits (550), Expect = 3e-56, Method: Compositional matrix adjust.
Identities = 132/369 (35%), Positives = 197/369 (53%), Gaps = 33/369 (8%)
Query: 252 NWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQ-QRDVIGIAETGSGKTAAFVLPML 310
N+ E L+ +L A+ G++ P+ IQ IPL L + +++ A TGSGKTA+F +P++
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 311 TYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQ 370
+ NE G A+++ PTRELA Q+ +E +K+ I GG++I Q
Sbjct: 67 ELV---------NENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQ 117
Query: 371 GFRIRQGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMP 430
+ + +V+ TPGR++D + R L Y +LDEAD ++ GF V +L+A
Sbjct: 118 -IKALKNANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNAC- 175
Query: 431 SSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGKATELIS 490
N+D KRI +FSAT P + LA+KY + + K I
Sbjct: 176 -------NKD-----KRIL----LFSATXPREILNLAKKYXGDYSFIK----AKINANIE 215
Query: 491 QHVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQ 550
Q V + E+E+F L RLL + +VF TK++ +A L +G++ +HG SQ
Sbjct: 216 QSYVEVNENERFEALCRLLKN-KEFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQ 274
Query: 551 EQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGK 610
QRE + F+ K+ +L+ATDV RGID+ D+ VINY +P N E Y HRIGRTGRAGK
Sbjct: 275 SQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGK 334
Query: 611 TGVATTFLT 619
G A + +
Sbjct: 335 KGKAISIIN 343
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 213 bits (541), Expect = 4e-55, Method: Compositional matrix adjust.
Identities = 125/413 (30%), Positives = 205/413 (49%), Gaps = 35/413 (8%)
Query: 243 GSKIPRPMRN---------WAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIG 293
GSK RP + + + L ELL + G++ PSPIQ AIP+ + RD++
Sbjct: 4 GSKDTRPQTDDVLNTKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILA 63
Query: 294 IAETGSGKTAAFVLPMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHY 353
A+ G+GKTAAFV+P L + P +++ A++M PTRELA Q + +
Sbjct: 64 RAKNGTGKTAAFVIPTLEKVK--PKLNKIQ------ALIMVPTRELALQTSQVVRTLGKH 115
Query: 354 LGIKVVSIVGGQSIEEQGFRIRQGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRM 413
GI + GG ++ + R+ + +++ TPGR++D R+ A L+ C+ ++DEAD+M
Sbjct: 116 CGISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKM 175
Query: 414 IDMGFEPQVVGVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRN 473
+ F+ + +L +P ++ + +FSAT P V+ K+L
Sbjct: 176 LSRDFKTIIEQILSFLPPTH-----------------QSLLFSATFPLTVKEFMVKHLHK 218
Query: 474 PVVVTIGTAGKATELISQHVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKN 533
P + + + I+Q+ ++E +K L L +L AI+F N+ +++AK
Sbjct: 219 PYEINL-MEELTLKGITQYYAFVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKK 277
Query: 534 LDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPG 593
+ LGY H Q++R FR + LV +D+ RGIDI V VIN+D P
Sbjct: 278 ITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPK 337
Query: 594 NIEMYTHRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELAK 646
E Y HRIGR+GR G G+A + ++D Y ++Q L + +P + K
Sbjct: 338 TAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQELGTEIAAIPATIDK 390
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 194 bits (494), Expect = 9e-50, Method: Compositional matrix adjust.
Identities = 127/403 (31%), Positives = 207/403 (51%), Gaps = 34/403 (8%)
Query: 252 NWAE-------GKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAA 304
NW E L+ LLR + G++ PS IQ AI ++ DVI A++G+GKTA
Sbjct: 34 NWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTAT 93
Query: 305 FVLPMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGG 364
F + +L I E + + A+V+APTRELAQQI++ + Y+G + +GG
Sbjct: 94 FAISILQQI--------ELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGG 145
Query: 365 QSIEEQGFRIR-QGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVV 423
++ + +++ + +++ TPGR+ D L RRY VLDEAD M+ GF+ Q+
Sbjct: 146 TNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIY 205
Query: 424 GVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAG 483
+ + S+ + SATMP V + +K++R+P+ + +
Sbjct: 206 DIFQKLNSNT-----------------QVVLLSATMPSDVLEVTKKFMRDPIRILVKKEE 248
Query: 484 KATELISQ-HVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVT 542
E I Q ++ + +E K L L + L A++F+NT++ D + + + + V+
Sbjct: 249 LTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVS 308
Query: 543 TLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRI 602
+HG Q++R++ + FR+ VL+ TD+ RGID+ V+ VINYD+P N E Y HRI
Sbjct: 309 AMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRI 368
Query: 603 GRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 645
GR GR G+ GVA +T D D++ S +P +A
Sbjct: 369 GRGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEMPLNVA 411
>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 = 194 bits (493), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 127/403 (31%), Positives = 207/403 (51%), Gaps = 34/403 (8%)
Query: 252 NWAE-------GKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAA 304
NW E L+ LLR + G++ PS IQ AI ++ DVI A++G+GKTA
Sbjct: 8 NWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTAT 67
Query: 305 FVLPMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGG 364
F + +L I E + + A+V+APTRELAQQI++ + Y+G + +GG
Sbjct: 68 FAISILQQI--------ELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGG 119
Query: 365 QSIEEQGFRIR-QGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVV 423
++ + +++ + +++ TPGR+ D L RRY VLDEAD M+ GF+ Q+
Sbjct: 120 TNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIY 179
Query: 424 GVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAG 483
+ + S+ + SATMP V + +K++R+P+ + +
Sbjct: 180 DIFQKLNSNT-----------------QVVLLSATMPSDVLEVTKKFMRDPIRILVKKEE 222
Query: 484 KATELISQ-HVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVT 542
E I Q ++ + +E K L L + L A++F+NT++ D + + + + V+
Sbjct: 223 LTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVS 282
Query: 543 TLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRI 602
+HG Q++R++ + FR+ VL+ TD+ RGID+ V+ VINYD+P N E Y HRI
Sbjct: 283 AMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRI 342
Query: 603 GRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 645
GR GR G+ GVA +T D D++ S +P +A
Sbjct: 343 GRGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEMPLNVA 385
>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 = 192 bits (488), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 134/386 (34%), Positives = 205/386 (53%), Gaps = 41/386 (10%)
Query: 251 RNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQ--RDVIGIAETGSGKTAAFVLP 308
+++ E L PELL+ + + ++ PS IQ A+PL L R++I +++G+GKTAAF L
Sbjct: 5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 309 MLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIE 368
MLT R+ P E P A+ +AP+RELA+Q E + + I IV S E
Sbjct: 65 MLT---RVNP-----EDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVP-DSFE 115
Query: 369 EQGFRIRQGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDM-GFEPQVVGVLD 427
+ + +V++ TPG ++D + R+ L + VLDEAD M+D G Q + V
Sbjct: 116 KNK---QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKR 172
Query: 428 AMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGKATE 487
+P +D +L +FSAT AV + A+K + N + + T +
Sbjct: 173 FLP--------KDTQL---------VLFSATFADAVRQYAKKIVPNANTLELQTNEVNVD 215
Query: 488 LISQHVVMMK-ESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHG 546
I Q + K E++KF L L + ++I+FV TKK A+++ L G+ V+ LHG
Sbjct: 216 AIKQLYMDCKNEADKFDVLTELYGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHG 275
Query: 547 GKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP------GNIEMYTH 600
++R+ ++ FR R VL+ T+V RGIDIP V+ V+NYD+P + Y H
Sbjct: 276 DLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIH 335
Query: 601 RIGRTGRAGKTGVATTFLTFHDTDVF 626
RIGRTGR G+ GVA +F+ HD + F
Sbjct: 336 RIGRTGRFGRKGVAISFV--HDKNSF 359
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 192 bits (488), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 134/386 (34%), Positives = 205/386 (53%), Gaps = 41/386 (10%)
Query: 251 RNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQ--RDVIGIAETGSGKTAAFVLP 308
+++ E L PELL+ + + ++ PS IQ A+PL L R++I +++G+GKTAAF L
Sbjct: 5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 309 MLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIE 368
MLT R+ P E P A+ +AP+RELA+Q E + + I IV S E
Sbjct: 65 MLT---RVNP-----EDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVP-DSFE 115
Query: 369 EQGFRIRQGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDM-GFEPQVVGVLD 427
+ + +V++ TPG ++D + R+ L + VLDEAD M+D G Q + V
Sbjct: 116 KNK---QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKR 172
Query: 428 AMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGKATE 487
+P +D +L +FSAT AV + A+K + N + + T +
Sbjct: 173 FLP--------KDTQL---------VLFSATFADAVRQYAKKIVPNANTLELQTNEVNVD 215
Query: 488 LISQHVVMMK-ESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHG 546
I Q + K E++KF L L + ++I+FV TKK A+++ L G+ V+ LHG
Sbjct: 216 AIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHG 275
Query: 547 GKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP------GNIEMYTH 600
++R+ ++ FR R VL+ T+V RGIDIP V+ V+NYD+P + Y H
Sbjct: 276 DLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIH 335
Query: 601 RIGRTGRAGKTGVATTFLTFHDTDVF 626
RIGRTGR G+ GVA +F+ HD + F
Sbjct: 336 RIGRTGRFGRKGVAISFV--HDKNSF 359
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 191 bits (486), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 127/408 (31%), Positives = 210/408 (51%), Gaps = 40/408 (9%)
Query: 247 PRPMRNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFV 306
P M + + L PELLRA+ G+++PS +Q IP + DV+ A++G GKTA FV
Sbjct: 3 PGHMSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFV 62
Query: 307 LPMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYL-GIKVVSIVGGQ 365
L L +L P++ + +VM TRELA QI +E +F+ Y+ +KV GG
Sbjct: 63 LATL---QQLEPVTGQVSV-----LVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGL 114
Query: 366 SIEEQGFRIRQGC-EVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVG 424
SI++ +++ C +V+ TPGR++ + L + +LDEAD+M+
Sbjct: 115 SIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKML---------- 164
Query: 425 VLDAMPSSNLKPENEDEELDEKRIYRTT------YMFSATMPPAVERLARKYLRNPVVVT 478
E D D + I+R T MFSAT+ + + RK++++P+ +
Sbjct: 165 ------------EQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIF 212
Query: 479 IGTAGKAT-ELISQHVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKL 537
+ K T + Q+ V +K++EK +L LLD L ++FV + + +A+ L +
Sbjct: 213 VDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQ 272
Query: 538 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEM 597
+ +H G QE+R + F+ + +LVAT++ GRG+DI V NYDMP + +
Sbjct: 273 NFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDT 332
Query: 598 YTHRIGRTGRAGKTGVATTFLT-FHDTDVFYDLKQMLIQSNSPVPPEL 644
Y HR+ R GR G G+A TF++ +D + D++ + S +P E+
Sbjct: 333 YLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 380
>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 = 191 bits (484), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 125/394 (31%), Positives = 206/394 (52%), Gaps = 27/394 (6%)
Query: 253 WAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTY 312
+ + +L LLR V G++ PS IQ AI ++ DV+ A++G+GKT F + L
Sbjct: 24 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 83
Query: 313 ISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGF 372
I + + P A+++APTRELA QI++ + A ++ IKV + +GG S E
Sbjct: 84 I--------DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAE 135
Query: 373 RIRQGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSS 432
+R ++V+ TPGR+ D ++RR ++ +LDEAD M+ GF+ Q+ + +P +
Sbjct: 136 GLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPT 194
Query: 433 NLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGKATELISQH 492
+ SATMP V + K++RNPV + + E I Q
Sbjct: 195 T-----------------QVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQF 237
Query: 493 VVMMKESE-KFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQE 551
V ++E E K+ L L D + A++F NT++ + + L + V+ ++ Q+
Sbjct: 238 YVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQ 297
Query: 552 QREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKT 611
+R+ ++ FR+ +L++TD+ RGID+ V+ VINYD+P N E Y HRIGR GR G+
Sbjct: 298 ERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRK 357
Query: 612 GVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 645
GVA F+T D +L++ +P ++A
Sbjct: 358 GVAINFVTNEDVGAMRELEKFYSTQIEELPSDIA 391
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 188 bits (477), Expect = 9e-48, Method: Compositional matrix adjust.
Identities = 124/397 (31%), Positives = 205/397 (51%), Gaps = 40/397 (10%)
Query: 258 LTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLP 317
L PELLRA+ G+++PS +Q IP + DV+ A++G GKTA FVL L +L
Sbjct: 15 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL---QQLE 71
Query: 318 PISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYL-GIKVVSIVGGQSIEEQGFRIRQ 376
P++ + +VM TRELA QI +E +F+ Y+ +KV GG SI++ +++
Sbjct: 72 PVTGQVSV-----LVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKK 126
Query: 377 GC-EVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLK 435
C +V+ TPGR++ + L + +LDE D+M+
Sbjct: 127 NCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKML--------------------- 165
Query: 436 PENEDEELDEKRIYRTT------YMFSATMPPAVERLARKYLRNPVVVTIGTAGKAT-EL 488
E D D + I+R T MFSAT+ + + RK++++P+ + + K T
Sbjct: 166 -EQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHG 224
Query: 489 ISQHVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGK 548
+ Q+ V +K++EK +L LLD L ++FV + + +A+ L + + +H G
Sbjct: 225 LQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGM 284
Query: 549 SQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRA 608
QE+R + F+ + +LVAT++ GRG+DI V NYDMP + + Y HR+ R GR
Sbjct: 285 PQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRF 344
Query: 609 GKTGVATTFLT-FHDTDVFYDLKQMLIQSNSPVPPEL 644
G G+A TF++ +D + D++ + S +P E+
Sbjct: 345 GTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 381
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 188 bits (477), Expect = 9e-48, Method: Compositional matrix adjust.
Identities = 124/397 (31%), Positives = 205/397 (51%), Gaps = 40/397 (10%)
Query: 258 LTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLP 317
L PELLRA+ G+++PS +Q IP + DV+ A++G GKTA FVL L +L
Sbjct: 15 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL---QQLE 71
Query: 318 PISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYL-GIKVVSIVGGQSIEEQGFRIRQ 376
P++ + +VM TRELA QI +E +F+ Y+ +KV GG SI++ +++
Sbjct: 72 PVTGQVSV-----LVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKK 126
Query: 377 GC-EVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLK 435
C +V+ TPGR++ + L + +LDE D+M+
Sbjct: 127 NCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKML--------------------- 165
Query: 436 PENEDEELDEKRIYRTT------YMFSATMPPAVERLARKYLRNPVVVTIGTAGKAT-EL 488
E D D + I+R T MFSAT+ + + RK++++P+ + + K T
Sbjct: 166 -EQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHG 224
Query: 489 ISQHVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGK 548
+ Q+ V +K++EK +L LLD L ++FV + + +A+ L + + +H G
Sbjct: 225 LQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGM 284
Query: 549 SQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRA 608
QE+R + F+ + +LVAT++ GRG+DI V NYDMP + + Y HR+ R GR
Sbjct: 285 PQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRF 344
Query: 609 GKTGVATTFLT-FHDTDVFYDLKQMLIQSNSPVPPEL 644
G G+A TF++ +D + D++ + S +P E+
Sbjct: 345 GTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 381
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 184 bits (468), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 125/357 (35%), Positives = 189/357 (52%), Gaps = 45/357 (12%)
Query: 264 RAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLPPISEEN 323
+A+ +G+KN + +Q IPL LQ ++V+ A+TGSGKTAA+ +P+L
Sbjct: 7 QAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL----------- 55
Query: 324 EAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQGCEVVIA 383
G ++V+ PTREL +Q+ Y+ KV + GG + Q R+R ++V+A
Sbjct: 56 ---GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRN-ADIVVA 111
Query: 384 TPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLKPENEDEEL 443
TPGRL+D + L+ V++DEAD M +MGF + +L +SN K
Sbjct: 112 TPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIIL--AQTSNRK-------- 161
Query: 444 DEKRIYRTTYMFSATMPPAVERLARKYLRN--PVVVTIGTAGKATELISQHVVMMKESEK 501
T +FSAT+P + ++ + ++ N + IG A + V +K+ +
Sbjct: 162 -------ITGLFSATIPEEIRKVVKDFITNYEEIEACIGLAN-----VEHKFVHVKDDWR 209
Query: 502 FSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREISLEGFR 561
S++Q L E DK IVFV T+ + VAK L +L L G Q R +++ FR
Sbjct: 210 -SKVQ-ALRENKDKGVIVFVRTR---NRVAK-LVRLFDNAIELRGDLPQSVRNRNIDAFR 263
Query: 562 TKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVATTFL 618
Y++L+ TDVA RG+DIP V VIN+D P ++ Y HRIGRTGR G+ G A TF+
Sbjct: 264 EGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFI 320
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 181 bits (459), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 123/394 (31%), Positives = 199/394 (50%), Gaps = 27/394 (6%)
Query: 253 WAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTY 312
+ + +L LLR V G++ PS IQ AI ++ DV+ A++G+GKT F + L
Sbjct: 23 FDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 313 ISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGF 372
I + + P A+ +APTRELA QI++ A + IKV + +GG S E
Sbjct: 83 I--------DTSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAE 134
Query: 373 RIRQGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSS 432
+R ++V+ TPGR+ D ++RR ++ +LDEAD + GF+ Q+ + +P +
Sbjct: 135 GLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPT 193
Query: 433 NLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGKATELISQH 492
+ SAT P V + K+ RNPV + + E I Q
Sbjct: 194 T-----------------QVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQF 236
Query: 493 VVMMKESE-KFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQE 551
V ++E E K+ L L D + A++F NT++ + + L + V+ ++ Q+
Sbjct: 237 YVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQ 296
Query: 552 QREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKT 611
+R+ + FR+ +L++TD+ RGID+ V+ VINYD+P N E Y HRIGR GR G+
Sbjct: 297 ERDTIXKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRK 356
Query: 612 GVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 645
GVA F+T D +L++ +P ++A
Sbjct: 357 GVAINFVTNEDVGAXRELEKFYSTQIEELPSDIA 390
>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 = 179 bits (453), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 129/383 (33%), Positives = 203/383 (53%), Gaps = 44/383 (11%)
Query: 250 MRNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQ--RDVIGIAETGSGKTAAFVL 307
++++ E +L P+LL+ V +G+ PS IQ A+PL L + +++I +++G+GKTAAFVL
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 308 PMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQ---IEEETVKFAHYLGIKVVSIVGG 364
ML+ + E + P + ++PT ELA Q + E+ KF Y +K+ V G
Sbjct: 151 AMLSQV--------EPANKYPQCLCLSPTYELALQTGKVIEQMGKF--YPELKLAYAVRG 200
Query: 365 QSIEEQGFRIRQGCEVVIATPGRLID-CLERRYAVLNQCNYVVLDEADRMI-DMGFEPQV 422
+E +G +I + ++VI TPG ++D C + ++ + VLDEAD MI G + Q
Sbjct: 201 NKLE-RGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQS 257
Query: 423 VGVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTA 482
+ + +P + +FSAT +V + A+K + +P V+ +
Sbjct: 258 IRIQRMLPRNC-----------------QMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300
Query: 483 GKATELISQHVVMMKE-SEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRV 541
+ + I Q+ V+ EKF L L + A++F +T+K A +A L K G++V
Sbjct: 301 EETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQV 360
Query: 542 TTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP----GN--I 595
L G EQR +E FR + VLV T+V RGID+ V+ VIN+D+P GN
Sbjct: 361 ALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDN 420
Query: 596 EMYTHRIGRTGRAGKTGVATTFL 618
E Y HRIGRTGR GK G+A +
Sbjct: 421 ETYLHRIGRTGRFGKRGLAVNMV 443
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 178 bits (452), Expect = 8e-45, Method: Compositional matrix adjust.
Identities = 129/383 (33%), Positives = 203/383 (53%), Gaps = 44/383 (11%)
Query: 250 MRNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQ--RDVIGIAETGSGKTAAFVL 307
++++ E +L P+LL+ V +G+ PS IQ A+PL L + +++I +++G+GKTAAFVL
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 308 PMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQ---IEEETVKFAHYLGIKVVSIVGG 364
ML+ + E + P + ++PT ELA Q + E+ KF Y +K+ V G
Sbjct: 84 AMLSQV--------EPANKYPQCLCLSPTYELALQTGKVIEQMGKF--YPELKLAYAVRG 133
Query: 365 QSIEEQGFRIRQGCEVVIATPGRLID-CLERRYAVLNQCNYVVLDEADRMI-DMGFEPQV 422
+E +G +I + ++VI TPG ++D C + ++ + VLDEAD MI G + Q
Sbjct: 134 NKLE-RGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQS 190
Query: 423 VGVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTA 482
+ + +P + +FSAT +V + A+K + +P V+ +
Sbjct: 191 IRIQRMLPRNC-----------------QMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 233
Query: 483 GKATELISQHVVMMKE-SEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRV 541
+ + I Q+ V+ EKF L L + A++F +T+K A +A L K G++V
Sbjct: 234 EETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQV 293
Query: 542 TTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP----GN--I 595
L G EQR +E FR + VLV T+V RGID+ V+ VIN+D+P GN
Sbjct: 294 ALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDN 353
Query: 596 EMYTHRIGRTGRAGKTGVATTFL 618
E Y HRIGRTGR GK G+A +
Sbjct: 354 ETYLHRIGRTGRFGKRGLAVNMV 376
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 178 bits (452), Expect = 8e-45, Method: Compositional matrix adjust.
Identities = 129/383 (33%), Positives = 203/383 (53%), Gaps = 44/383 (11%)
Query: 250 MRNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQ--RDVIGIAETGSGKTAAFVL 307
++++ E +L P+LL+ V +G+ PS IQ A+PL L + +++I +++G+GKTAAFVL
Sbjct: 40 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 99
Query: 308 PMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQ---IEEETVKFAHYLGIKVVSIVGG 364
ML+ + E + P + ++PT ELA Q + E+ KF Y +K+ V G
Sbjct: 100 AMLSQV--------EPANKYPQCLCLSPTYELALQTGKVIEQMGKF--YPELKLAYAVRG 149
Query: 365 QSIEEQGFRIRQGCEVVIATPGRLID-CLERRYAVLNQCNYVVLDEADRMI-DMGFEPQV 422
+E +G +I + ++VI TPG ++D C + ++ + VLDEAD MI G + Q
Sbjct: 150 NKLE-RGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQS 206
Query: 423 VGVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTA 482
+ + +P + +FSAT +V + A+K + +P V+ +
Sbjct: 207 IRIQRMLPRNC-----------------QMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 249
Query: 483 GKATELISQHVVMMKE-SEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRV 541
+ + I Q+ V+ EKF L L + A++F +T+K A +A L K G++V
Sbjct: 250 EETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQV 309
Query: 542 TTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP----GN--I 595
L G EQR +E FR + VLV T+V RGID+ V+ VIN+D+P GN
Sbjct: 310 ALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDN 369
Query: 596 EMYTHRIGRTGRAGKTGVATTFL 618
E Y HRIGRTGR GK G+A +
Sbjct: 370 ETYLHRIGRTGRFGKRGLAVNMV 392
>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 = 178 bits (451), Expect = 9e-45, Method: Compositional matrix adjust.
Identities = 129/383 (33%), Positives = 203/383 (53%), Gaps = 44/383 (11%)
Query: 250 MRNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQ--RDVIGIAETGSGKTAAFVL 307
++++ E +L P+LL+ V +G+ PS IQ A+PL L + +++I +++G+GKTAAFVL
Sbjct: 61 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 120
Query: 308 PMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQ---IEEETVKFAHYLGIKVVSIVGG 364
ML+ + E + P + ++PT ELA Q + E+ KF Y +K+ V G
Sbjct: 121 AMLSQV--------EPANKYPQCLCLSPTYELALQTGKVIEQMGKF--YPELKLAYAVRG 170
Query: 365 QSIEEQGFRIRQGCEVVIATPGRLID-CLERRYAVLNQCNYVVLDEADRMI-DMGFEPQV 422
+E +G +I + ++VI TPG ++D C + ++ + VLDEAD MI G + Q
Sbjct: 171 NKLE-RGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQS 227
Query: 423 VGVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTA 482
+ + +P + +FSAT +V + A+K + +P V+ +
Sbjct: 228 IRIQRMLPRNC-----------------QMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 270
Query: 483 GKATELISQHVVMMKE-SEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRV 541
+ + I Q+ V+ EKF L L + A++F +T+K A +A L K G++V
Sbjct: 271 EETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQV 330
Query: 542 TTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP----GN--I 595
L G EQR +E FR + VLV T+V RGID+ V+ VIN+D+P GN
Sbjct: 331 ALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDN 390
Query: 596 EMYTHRIGRTGRAGKTGVATTFL 618
E Y HRIGRTGR GK G+A +
Sbjct: 391 ETYLHRIGRTGRFGKRGLAVNMV 413
>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 = 176 bits (445), Expect = 5e-44, Method: Compositional matrix adjust.
Identities = 92/248 (37%), Positives = 146/248 (58%), Gaps = 20/248 (8%)
Query: 250 MRNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPM 309
+ N+ E KL P + + Y+ P+PIQ AIP L+ RD++ A+TGSGKTAAF++P+
Sbjct: 22 IENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPI 81
Query: 310 LTYISRLPPISEENEAEGPY--AVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSI 367
+ ++ ++++ ++ Y +++APTRELA QI E+ KF+ ++ + GG
Sbjct: 82 INHLV-CQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADT 140
Query: 368 EEQGFRIRQGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLD 427
Q ++ GC +++ATPGRL+D +E+ L C Y+VLDEADRM+DMGFEPQ+ +++
Sbjct: 141 HSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIE 200
Query: 428 A--MPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGKA 485
MPS I R T MFSAT P +++LA +L N + +T+G G
Sbjct: 201 ESNMPSG---------------INRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGST 245
Query: 486 TELISQHV 493
++ I Q +
Sbjct: 246 SDSIKQEI 253
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 165 bits (417), Expect = 8e-41, Method: Compositional matrix adjust.
Identities = 90/260 (34%), Positives = 143/260 (55%), Gaps = 20/260 (7%)
Query: 222 LEEMTERDWRIFREDFNISYKGSKIPRPMRNWAEGKLTPELLRAVERVGYKNPSPIQMAA 281
L T ++ +R I+ +G P+P+ N+ E ++ + R + P+ IQ
Sbjct: 14 LARRTAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQG 73
Query: 282 IPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLPPISEENEAEGPYAVVMAPTRELAQ 341
P+ L D++G+A+TGSGKT +++LP + +I+ P + +GP +V+APTRELAQ
Sbjct: 74 WPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLER---GDGPICLVLAPTRELAQ 130
Query: 342 QIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQGCEVVIATPGRLIDCLERRYAVLNQ 401
Q+++ ++ +K I GG Q + +G E+ IATPGRLID LE L +
Sbjct: 131 QVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRR 190
Query: 402 CNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPP 461
Y+VLDEADRM+DMGFEPQ+ ++D ++P+ R T M+SAT P
Sbjct: 191 TTYLVLDEADRMLDMGFEPQIRKIVD-----QIRPD------------RQTLMWSATWPK 233
Query: 462 AVERLARKYLRNPVVVTIGT 481
V +LA +L++ + + IG
Sbjct: 234 EVRQLAEDFLKDYIHINIGA 253
>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 = 164 bits (415), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 89/255 (34%), Positives = 142/255 (55%), Gaps = 20/255 (7%)
Query: 226 TERDWRIFREDFNISYKGSKIPRPMRNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLG 285
T ++ +R I+ +G P+P+ N+ E ++ + R + P+ IQ P+
Sbjct: 4 TAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVA 63
Query: 286 LQQRDVIGIAETGSGKTAAFVLPMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEE 345
L D++G+A+TGSGKT +++LP + +I+ P + +GP +V+APTRELAQQ+++
Sbjct: 64 LSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLER---GDGPICLVLAPTRELAQQVQQ 120
Query: 346 ETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQGCEVVIATPGRLIDCLERRYAVLNQCNYV 405
++ +K I GG Q + +G E+ IATPGRLID LE L + Y+
Sbjct: 121 VAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYL 180
Query: 406 VLDEADRMIDMGFEPQVVGVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVER 465
VLDEADRM+DMGFEPQ+ ++D ++P+ R T M+SAT P V +
Sbjct: 181 VLDEADRMLDMGFEPQIRKIVD-----QIRPD------------RQTLMWSATWPKEVRQ 223
Query: 466 LARKYLRNPVVVTIG 480
LA +L++ + + IG
Sbjct: 224 LAEDFLKDYIHINIG 238
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 164 bits (414), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 126/391 (32%), Positives = 200/391 (51%), Gaps = 45/391 (11%)
Query: 255 EGKLTPELLRAVERVGYKNPSPIQMAAIP--LGLQQRDVIGIAETGSGKTAAFVLPMLTY 312
EG L E+ +A+ R+ + +P+Q I L + DVI A+TG+GKT AF++P+ +
Sbjct: 25 EGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQH 84
Query: 313 ISRLPPISEENEAEGPY-AVVMAPTRELAQQIEEETVKFAHYL--GIK---VVSIVGGQS 366
+ I+ + +++ AV++APTR+LA QIE E VK H + G+K VS+VGG
Sbjct: 85 L-----INTKFDSQYMVKAVIVAPTRDLALQIEAE-VKKIHDMNYGLKKYACVSLVGGTD 138
Query: 367 IEEQGFRIRQ-GCEVVIATPGRLIDCLER-RYAVLNQCNYVVLDEADRMIDMGFEPQVVG 424
++ + +VIATPGRLID LE+ +Y VLDEADR++++GF +
Sbjct: 139 FRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLET 198
Query: 425 VLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGK 484
+ + N K + + T +FSAT+ V++LA + + + T K
Sbjct: 199 ISGILNEKNSKSADNIK----------TLLFSATLDDKVQKLANNIMNKKECLFLDTVDK 248
Query: 485 ----ATELISQHVVMMKESEKFSR-----LQRLLDELGDK----TAIVFVNTKKNADMVA 531
A E I Q VV+ SEKF+ ++ + ++ ++ AI+F T K +
Sbjct: 249 NEPEAHERIDQSVVI---SEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLC 305
Query: 532 ---KNLDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVIN 588
KN K + HG +Q +R ++ F+ +LV TDV RG+D P+V V+
Sbjct: 306 SILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQ 365
Query: 589 YDMPGNIEMYTHRIGRTGRAGKTGVATTFLT 619
+P + Y HRIGRT R+GK G + F+
Sbjct: 366 IGVPSELANYIHRIGRTARSGKEGSSVLFIC 396
>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 = 163 bits (412), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 125/390 (32%), Positives = 197/390 (50%), Gaps = 43/390 (11%)
Query: 255 EGKLTPELLRAVERVGYKNPSPIQMAAIP--LGLQQRDVIGIAETGSGKTAAFVLPMLTY 312
EG L E+ +A+ R+ + +P+Q I L + DVI A+TG+GKT AF++P+ +
Sbjct: 76 EGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQH 135
Query: 313 ISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYL--GIK---VVSIVGGQSI 367
+ ++ + AV++APTR+LA QIE E VK H + G+K VS+VGG
Sbjct: 136 LIN----TKFDSQYMVKAVIVAPTRDLALQIEAE-VKKIHDMNYGLKKYACVSLVGGTDF 190
Query: 368 EEQGFRIRQ-GCEVVIATPGRLIDCLER-RYAVLNQCNYVVLDEADRMIDMGFEPQVVGV 425
++ + +VIATPGRLID LE+ +Y VLDEADR++++GF + +
Sbjct: 191 RAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETI 250
Query: 426 LDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGK- 484
+ N K + + T +FSAT+ V++LA + + + T K
Sbjct: 251 SGILNEKNSKSADNIK----------TLLFSATLDDKVQKLANNIMNKKECLFLDTVDKN 300
Query: 485 ---ATELISQHVVMMKESEKFSR-----LQRLLDELGDK----TAIVFVNTKKNADMVA- 531
A E I Q VV+ SEKF+ ++ + ++ ++ AI+F T K +
Sbjct: 301 EPEAHERIDQSVVI---SEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCS 357
Query: 532 --KNLDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINY 589
KN K + HG +Q +R ++ F+ +LV TDV RG+D P+V V+
Sbjct: 358 ILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQI 417
Query: 590 DMPGNIEMYTHRIGRTGRAGKTGVATTFLT 619
+P + Y HRIGRT R+GK G + F+
Sbjct: 418 GVPSELANYIHRIGRTARSGKEGSSVLFIC 447
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 162 bits (410), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 125/390 (32%), Positives = 197/390 (50%), Gaps = 43/390 (11%)
Query: 255 EGKLTPELLRAVERVGYKNPSPIQMAAIP--LGLQQRDVIGIAETGSGKTAAFVLPMLTY 312
EG L E+ +A+ R+ + +P+Q I L + DVI A+TG+GKT AF++P+ +
Sbjct: 25 EGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQH 84
Query: 313 ISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYL--GIK---VVSIVGGQSI 367
+ ++ + AV++APTR+LA QIE E VK H + G+K VS+VGG
Sbjct: 85 LIN----TKFDSQYMVKAVIVAPTRDLALQIEAE-VKKIHDMNYGLKKYACVSLVGGTDF 139
Query: 368 EEQGFRIRQ-GCEVVIATPGRLIDCLER-RYAVLNQCNYVVLDEADRMIDMGFEPQVVGV 425
++ + +VIATPGRLID LE+ +Y VLDEADR++++GF + +
Sbjct: 140 RAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETI 199
Query: 426 LDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGK- 484
+ N K + + T +FSAT+ V++LA + + + T K
Sbjct: 200 SGILNEKNSKSADNIK----------TLLFSATLDDKVQKLANNIMNKKECLFLDTVDKN 249
Query: 485 ---ATELISQHVVMMKESEKFSR-----LQRLLDELGDK----TAIVFVNTKKNADMVA- 531
A E I Q VV+ SEKF+ ++ + ++ ++ AI+F T K +
Sbjct: 250 EPEAHERIDQSVVI---SEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCS 306
Query: 532 --KNLDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINY 589
KN K + HG +Q +R ++ F+ +LV TDV RG+D P+V V+
Sbjct: 307 ILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQI 366
Query: 590 DMPGNIEMYTHRIGRTGRAGKTGVATTFLT 619
+P + Y HRIGRT R+GK G + F+
Sbjct: 367 GVPSELANYIHRIGRTARSGKEGSSVLFIC 396
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 159 bits (403), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 118/356 (33%), Positives = 176/356 (49%), Gaps = 41/356 (11%)
Query: 277 IQMAAIPLGLQQ--RDVIGIAETGSGKTAAFVLPMLTYISRLPPISEENEAEGPYAVVMA 334
IQ A+PL L R++IG +++G+GKTAAF L ML+ + P P A+ +A
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVP--------KPQAICLA 196
Query: 335 PTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQGCEVVIATPGRLIDCLER 394
P+RELA+QI + + Y +K + G + +G +I ++VI TPG ++D ++R
Sbjct: 197 PSRELARQIMDVVTEMGKYTEVK--TAFGIKDSVPKGAKI--DAQIVIGTPGTVMDLMKR 252
Query: 395 RYAVLNQCNYVVLDEADRMIDM-GFEPQVVGVLDAMPSSNLKPENEDEELDEKRIYRTTY 453
R VLDEAD M+D G Q +M +L P N
Sbjct: 253 RQLDARDIKVFVLDEADNMLDQQGLGDQ------SMRIKHLLPRNTQ-----------IV 295
Query: 454 MFSATMPPAVERLARKYLRNPVVVTIGTAGKATELISQ-HVVMMKESEKFSRLQRLLDEL 512
+FSAT VE+ A ++ N + + T + E I Q ++ E K++ L L L
Sbjct: 296 LFSATFSERVEKYAERFAPNANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLL 355
Query: 513 GDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATD 572
+I+F K A+ +A+ + G+ V L G QR+ ++ FR VLV T+
Sbjct: 356 TIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTN 415
Query: 573 VAGRGIDIPDVAHVINYDMP------GNIEMYTHRIGRTGRAGKTGVATTFLTFHD 622
V RGID+ V V+NYDMP + + Y HRIGRTGR G+ GV+ F+ HD
Sbjct: 416 VIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFV--HD 469
>pdb|2GXQ|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 1
pdb|2GXS|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXS|B Chain B, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXU|A Chain A, Hera N-Terminal Domain In Complex With Orthophosphate,
Crystal Form 1
Length = 207
Score = 155 bits (392), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 91/222 (40%), Positives = 127/222 (57%), Gaps = 24/222 (10%)
Query: 258 LTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLP 317
L PE+L A+ G P+PIQ AA+PL L+ +D+IG A TG+GKT AF LP+ RL
Sbjct: 8 LKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPI---AERLA 64
Query: 318 PISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQG 377
P E P A+V+ PTRELA Q+ E A +L KVV++ GG +Q + +G
Sbjct: 65 PSQERGRK--PRALVLTPTRELALQVASELTAVAPHL--KVVAVYGGTGYGKQKEALLRG 120
Query: 378 CEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLKPE 437
+ V+ATPGR +D L + L++ VLDEAD M+ MGFE +V +L A P S
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPS----- 175
Query: 438 NEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTI 479
R T +FSAT+P +RLA +Y++NPV++ +
Sbjct: 176 ------------RQTLLFSATLPSWAKRLAERYMKNPVLINV 205
>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 = 154 bits (388), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/222 (40%), Positives = 127/222 (57%), Gaps = 24/222 (10%)
Query: 258 LTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLP 317
L PE+L A+ G P+PI+ AA+PL L+ +D+IG A TG+GKT AF LP+ RL
Sbjct: 8 LKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPI---AERLA 64
Query: 318 PISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQG 377
P E P A+V+ PTRELA Q+ E A +L KVV++ GG +Q + +G
Sbjct: 65 PSQERGRK--PRALVLTPTRELALQVASELTAVAPHL--KVVAVYGGTGYGKQKEALLRG 120
Query: 378 CEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLKPE 437
+ V+ATPGR +D L + L++ VLDEAD M+ MGFE +V +L A P S
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPS----- 175
Query: 438 NEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTI 479
R T +FSAT+P +RLA +Y++NPV++ +
Sbjct: 176 ------------RQTLLFSATLPSWAKRLAERYMKNPVLINV 205
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 153 bits (387), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 87/225 (38%), Positives = 125/225 (55%), Gaps = 26/225 (11%)
Query: 258 LTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLP 317
+T L A +++G+ P+ IQ+ AIPL LQ RD+IG+AETGSGKT AF LP+L + P
Sbjct: 50 VTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETP 109
Query: 318 PISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQG 377
+ +A+V+ PTRELA QI E+ +G++ IVGG Q + +
Sbjct: 110 --------QRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKK 161
Query: 378 CEVVIATPGRLIDCLERRYAV-LNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLKP 436
++IATPGRLID LE L Y+V+DEADR+++M FE +V +L +P
Sbjct: 162 PHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRD---- 217
Query: 437 ENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGT 481
R T++FSATM V++L R L+NPV + +
Sbjct: 218 -------------RKTFLFSATMTKKVQKLQRAALKNPVKCAVSS 249
>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 = 148 bits (374), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 89/235 (37%), Positives = 139/235 (59%), Gaps = 21/235 (8%)
Query: 246 IPRPMRNWAEG-KLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAA 304
IP+P + + + P+LL+++ RVG P+PIQ A P+ LQ D+I +A+TG+GKT +
Sbjct: 14 IPKPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLS 73
Query: 305 FVLPMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGG 364
+++P ++ PIS E + GP +V+ PTRELA +E E K++ Y G+K + I GG
Sbjct: 74 YLMPGFIHLDS-QPISRE-QRNGPGMLVLTPTRELALHVEAECSKYS-YKGLKSICIYGG 130
Query: 365 QSIEEQGFRIRQGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVG 424
++ Q I +G +++IATPGRL D L Y+V+DEAD+M+DM FEPQ+
Sbjct: 131 RNRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRK 190
Query: 425 VLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTI 479
+L +++P+ R T M SAT P V +LA YL++P++V +
Sbjct: 191 IL-----LDVRPD------------RQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>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 = 142 bits (359), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 75/163 (46%), Positives = 104/163 (63%), Gaps = 1/163 (0%)
Query: 483 GKATELISQHVVMMKESEKFSRLQRLLDELG-DKTAIVFVNTKKNADMVAKNLDKLGYRV 541
G +E I+Q VV ++ES+K S L LL+ G D +VFV TKK AD + L GY
Sbjct: 14 GSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYAC 73
Query: 542 TTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHR 601
T++HG +SQ RE +L FR+ + +LVAT VA RG+DI +V HVIN+D+P +IE Y HR
Sbjct: 74 TSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHR 133
Query: 602 IGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPEL 644
IGRTGR G G+AT+F + ++ DL +L+++ VP L
Sbjct: 134 IGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWL 176
>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 = 131 bits (329), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 72/168 (42%), Positives = 97/168 (57%), Gaps = 8/168 (4%)
Query: 481 TAGKATELISQHVVMMKESEKFSRLQRLLDELGDKT---AIVFVNTKKNADMVAKNLDKL 537
+ G A+ + Q V +KE K L L KT ++F K + D + + L
Sbjct: 22 SMGAASLDVIQEVEYVKEEAKMVYLLECLQ----KTPPPVLIFAEKKADVDAIHEYLLLK 77
Query: 538 GYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEM 597
G +HGGK QE+R ++E FR + +VLVATDVA +G+D P + HVINYDMP IE
Sbjct: 78 GVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIEN 137
Query: 598 YTHRIGRTGRAGKTGVATTFLT-FHDTDVFYDLKQMLIQSNSPVPPEL 644
Y HRIGRTG +G TG+ATTF+ D V DLK +L+++ VPP L
Sbjct: 138 YVHRIGRTGCSGNTGIATTFINKACDESVLMDLKALLLEAKQKVPPVL 185
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 118 bits (296), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 76/250 (30%), Positives = 124/250 (49%), Gaps = 36/250 (14%)
Query: 238 NISYKGSKIPRPMRNWAE-------GKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRD 290
N+ ++G I NW E L LLR + G++ PS IQ AI ++ D
Sbjct: 13 NLYFQGGVIES---NWNEIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYD 69
Query: 291 VIGIAETGSGKTAAFVLPMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKF 350
VI A++G+GKTA F + +L + E E + A+V+APTRELAQQI++ +
Sbjct: 70 VIAQAQSGTGKTATFAISILQQL--------EIEFKETQALVLAPTRELAQQIQKVILAL 121
Query: 351 AHYLGIKVVSIVGGQSIEEQGFRIR-QGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDE 409
Y+G + +GG ++ + +++ + +V+ TPGR+ D L RRY VLDE
Sbjct: 122 GDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDE 181
Query: 410 ADRMIDMGFEPQVVGVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARK 469
AD M+ GF+ Q+ + + +S + SATMP V + +K
Sbjct: 182 ADEMLSRGFKDQIYEIFQKLNTS-----------------IQVVLLSATMPTDVLEVTKK 224
Query: 470 YLRNPVVVTI 479
++R+P+ + +
Sbjct: 225 FMRDPIRILV 234
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 118 bits (295), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 71/223 (31%), Positives = 116/223 (52%), Gaps = 26/223 (11%)
Query: 257 KLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRL 316
+L +LLR V G++ PS IQ AI ++ DV+ A++G+GKT F + L I
Sbjct: 27 ELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI--- 83
Query: 317 PPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQ 376
+ + P A+++APTRELA QI++ + A ++ IKV + +GG S E +R
Sbjct: 84 -----DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRD 138
Query: 377 GCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLKP 436
++V+ TPGR+ D ++RR ++ +LDEAD M+ GF+ Q+ + +P +
Sbjct: 139 -AQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTT--- 194
Query: 437 ENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTI 479
+ SATMP V + K++RNPV + +
Sbjct: 195 --------------QVVLLSATMPNDVLEVTTKFMRNPVRILV 223
>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 = 117 bits (294), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 71/227 (31%), Positives = 117/227 (51%), Gaps = 26/227 (11%)
Query: 253 WAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTY 312
+ + +L LLR V G++ PS IQ AI ++ DV+ A++G+GKT F + L
Sbjct: 16 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 75
Query: 313 ISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGF 372
I + + P A+++APTRELA QI++ + A ++ IKV + +GG S E
Sbjct: 76 I--------DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAE 127
Query: 373 RIRQGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSS 432
+R ++V+ TPGR+ D ++RR ++ +LDEAD M+ GF+ Q+ + +P +
Sbjct: 128 GLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPT 186
Query: 433 NLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTI 479
+ SATMP V + K++RNPV + +
Sbjct: 187 T-----------------QVVLLSATMPNDVLEVTTKFMRNPVRILV 216
>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 = 117 bits (294), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 62/152 (40%), Positives = 87/152 (57%)
Query: 482 AGKATELISQHVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRV 541
AG T I V+ ++E KFS L+ +L + I+F TK++ + + LD LGY
Sbjct: 3 AGLTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPC 62
Query: 542 TTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHR 601
+HGG QE R + F+ Y LVATDVA RGIDI +++ VINYD+P E Y HR
Sbjct: 63 DKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHR 122
Query: 602 IGRTGRAGKTGVATTFLTFHDTDVFYDLKQML 633
GRTGRAG G A +F+T + D+++ +
Sbjct: 123 TGRTGRAGNKGKAISFVTAFEKRFLADIEEYI 154
>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 = 115 bits (289), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 66/218 (30%), Positives = 119/218 (54%), Gaps = 26/218 (11%)
Query: 258 LTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLP 317
L ELL + +G++ PSPIQ +IP+ L RD++ A+ G+GK+ A+++P+L RL
Sbjct: 10 LKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLL---ERL- 65
Query: 318 PISEENEAEGPYAVVMAPTRELAQQIEEETVKFA-HYLGIKVVSIVGGQSIEEQGFRIRQ 376
+ + + A+V+ PTRELA Q+ + ++ + H G KV++ GG ++ + R+
Sbjct: 66 ----DLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDD 121
Query: 377 GCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLKP 436
VVIATPGR++D +++ A ++ +VLDEAD+++ F + ++ +P +
Sbjct: 122 TVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKN---- 177
Query: 437 ENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNP 474
R ++SAT P +V++ +L P
Sbjct: 178 -------------RQILLYSATFPLSVQKFMNSHLEKP 202
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 114 bits (285), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 73/223 (32%), Positives = 116/223 (52%), Gaps = 23/223 (10%)
Query: 258 LTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLP 317
L+ + L+ ++ Y+ + IQ I L LQ +DV+G A+TGSGKT AF++P+L + RL
Sbjct: 32 LSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQ 91
Query: 318 PISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQG 377
S +G ++++PTRELA Q E K I+GG+ ++ + RI
Sbjct: 92 WTS----TDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERI-NN 146
Query: 378 CEVVIATPGRLIDCLERRYAV-LNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLKP 436
+++ TPGRL+ ++ + +VLDEADR++DMGF + V++ +P
Sbjct: 147 INILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKK---- 202
Query: 437 ENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTI 479
R T +FSAT +V+ LAR L+NP V +
Sbjct: 203 -------------RQTLLFSATQTKSVKDLARLSLKNPEYVWV 232
>pdb|2G9N|A Chain A, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
pdb|2G9N|B Chain B, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
Length = 221
Score = 110 bits (276), Expect = 2e-24, Method: Composition-based stats.
Identities = 72/237 (30%), Positives = 112/237 (47%), Gaps = 35/237 (14%)
Query: 252 NWAE-------GKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAA 304
NW E L+ LLR + G++ PS IQ AI + DVI A++G+G TA
Sbjct: 9 NWNEIVDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTAT 68
Query: 305 FVLPMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGG 364
F + +L I E + A+V+APTRELAQQI+ + Y+G + +GG
Sbjct: 69 FAISILQQI--------ELDLXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGG 120
Query: 365 QSI--EEQGFRIRQGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQV 422
++ E Q ++ + +++ TPGR+ D L RRY VLDEAD M+ GF Q+
Sbjct: 121 TNVRAEVQXLQM-EAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQI 179
Query: 423 VGVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTI 479
+ + S+ + SATMP V + ++R+P+ + +
Sbjct: 180 YDIFQXLNSNT-----------------QVVLLSATMPSDVLEVTXXFMRDPIRILV 219
>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 = 109 bits (272), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 74/246 (30%), Positives = 122/246 (49%), Gaps = 38/246 (15%)
Query: 242 KGSKIPRPMRNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGK 301
KGS + + + L PELLRA+ G+++PS +Q IP + DV+ A++G GK
Sbjct: 5 KGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGK 64
Query: 302 TAAFVLPMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYL-GIKVVS 360
TA FVL L +L P++ + +VM TRELA QI +E +F+ Y+ +KV
Sbjct: 65 TAVFVLATL---QQLEPVTGQVS-----VLVMCHTRELAFQISKEYERFSKYMPNVKVAV 116
Query: 361 IVGGQSIEEQGFRIRQGC-EVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFE 419
GG SI++ +++ C +V+ TPGR++ + L + +LDE D+M+
Sbjct: 117 FFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKML----- 171
Query: 420 PQVVGVLDAMPSSNLKPENEDEELDEKRIYRTT------YMFSATMPPAVERLARKYLRN 473
E D D + I+R T MFSAT+ + + RK++++
Sbjct: 172 -----------------EQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQD 214
Query: 474 PVVVTI 479
P+ + +
Sbjct: 215 PMEIFV 220
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 105 bits (263), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 69/217 (31%), Positives = 117/217 (53%), Gaps = 34/217 (15%)
Query: 263 LRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLPPISEE 322
L+A++ +G+ N + IQ +I L+ RD++ A+TGSGKT AF++P + I +L +
Sbjct: 66 LKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPR- 124
Query: 323 NEAEGPYAVVMAPTRELAQQ----IEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQGC 378
G ++++PTRELA Q ++E H G+ I+GG + + ++ G
Sbjct: 125 ---NGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGL----IMGGSNRSAEAQKLGNGI 177
Query: 379 EVVIATPGRLIDCLERRYAVLN---QCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLK 435
+++ATPGRL+D ++ + QC +V+DEADR++D+GFE ++ ++ +P+
Sbjct: 178 NIIVATPGRLLDHMQNTPGFMYKNLQC--LVIDEADRILDVGFEEELKQIIKLLPTR--- 232
Query: 436 PENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLR 472
R T +FSAT VE LAR L+
Sbjct: 233 --------------RQTMLFSATQTRKVEDLARISLK 255
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 103 bits (258), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 74/259 (28%), Positives = 129/259 (49%), Gaps = 33/259 (12%)
Query: 233 FREDFNISYKGSKIPRPMRNWA----EGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQ 288
R I +G+ +P P+ + E K+ LL+ + G++ P+PIQM AIP+ L
Sbjct: 7 LRNKHKIHVQGTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHG 66
Query: 289 RDVIGIAETGSGKTAAFVLPMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETV 348
R+++ A TGSGKT AF +P+L + ++ +G A++++PTRELA QI E +
Sbjct: 67 RELLASAPTGSGKTLAFSIPILMQL-------KQPANKGFRALIISPTRELASQIHRELI 119
Query: 349 KFAHYLGIKVVSI-VGGQSIEEQGFRIRQGCEVVIATPGRLIDCLERR--YAVLNQCNYV 405
K + G ++ I + ++ G + + ++++ TP RLI L++ L ++
Sbjct: 120 KISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWL 179
Query: 406 VLDEADRMID---MGFEPQVVGVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPA 462
V+DE+D++ + GF Q+ + A S ++ MFSAT
Sbjct: 180 VVDESDKLFEDGKTGFRDQLASIFLACTSHKVR----------------RAMFSATFAYD 223
Query: 463 VERLARKYLRNPVVVTIGT 481
VE+ + L N + V+IG
Sbjct: 224 VEQWCKLNLDNVISVSIGA 242
>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 = 102 bits (253), Expect = 8e-22, Method: Compositional matrix adjust.
Identities = 53/158 (33%), Positives = 79/158 (50%)
Query: 489 ISQHVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGK 548
++Q+ + E +K L L L +I+F N+ + +++AK + +LGY +H
Sbjct: 19 VTQYYAYVTERQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKM 78
Query: 549 SQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRA 608
QE R FR LV TD+ RGIDI V VIN+D P E Y HRIGR+GR
Sbjct: 79 RQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRF 138
Query: 609 GKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELAK 646
G G+A +T+ D +++ L P+P + K
Sbjct: 139 GHLGLAINLITYDDRFNLKSIEEQLGTEIKPIPSNIDK 176
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 100 bits (250), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 55/135 (40%), Positives = 81/135 (60%), Gaps = 8/135 (5%)
Query: 498 ESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREISL 557
E++KF L L + ++I+FV TKK A+++ L G+ V+ LHG ++R+ +
Sbjct: 19 EADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLI 78
Query: 558 EGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP------GNIEMYTHRIGRTGRAGKT 611
+ FR R VL+ T+V RGIDIP V+ V+NYD+P + Y HRIGRTGR G+
Sbjct: 79 DDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRK 138
Query: 612 GVATTFLTFHDTDVF 626
GVA +F+ HD + F
Sbjct: 139 GVAISFV--HDKNSF 151
>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 = 99.8 bits (247), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 55/135 (40%), Positives = 80/135 (59%), Gaps = 8/135 (5%)
Query: 498 ESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREISL 557
E++KF L L ++I+FV TKK A+++ L G+ V+ LHG ++R+ +
Sbjct: 20 EADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLI 79
Query: 558 EGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP------GNIEMYTHRIGRTGRAGKT 611
+ FR R VL+ T+V RGIDIP V+ V+NYD+P + Y HRIGRTGR G+
Sbjct: 80 DDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRK 139
Query: 612 GVATTFLTFHDTDVF 626
GVA +F+ HD + F
Sbjct: 140 GVAISFV--HDKNSF 152
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 99.8 bits (247), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 55/135 (40%), Positives = 80/135 (59%), Gaps = 8/135 (5%)
Query: 498 ESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREISL 557
E++KF L L ++I+FV TKK A+++ L G+ V+ LHG ++R+ +
Sbjct: 21 EADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLI 80
Query: 558 EGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMP------GNIEMYTHRIGRTGRAGKT 611
+ FR R VL+ T+V RGIDIP V+ V+NYD+P + Y HRIGRTGR G+
Sbjct: 81 DDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRK 140
Query: 612 GVATTFLTFHDTDVF 626
GVA +F+ HD + F
Sbjct: 141 GVAISFV--HDKNSF 153
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 97.1 bits (240), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 75/226 (33%), Positives = 116/226 (51%), Gaps = 32/226 (14%)
Query: 251 RNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQ--RDVIGIAETGSGKTAAFVLP 308
+++ E L PELL+ + + ++ PS IQ A+PL L R++I +++G+GKTAAF L
Sbjct: 22 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 81
Query: 309 MLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIE 368
MLT R+ P E P A+ +AP+RELA+Q E + + I IV S E
Sbjct: 82 MLT---RVNP-----EDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPD-SFE 132
Query: 369 EQGFRIRQGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMID-MGFEPQVVGVLD 427
+ + +V++ TPG ++D + R+ L + VLDEAD M+D G Q + V
Sbjct: 133 KNK---QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKR 189
Query: 428 AMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRN 473
+P +D +L +FSAT AV + A+K + N
Sbjct: 190 FLP--------KDTQL---------VLFSATFADAVRQYAKKIVPN 218
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 96.7 bits (239), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 53/123 (43%), Positives = 71/123 (57%)
Query: 500 EKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREISLEG 559
K + L LL + +IVFV ++ +A L + G L G Q +R +++
Sbjct: 16 HKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKR 75
Query: 560 FRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVATTFLT 619
R NVLVATDVA RGIDIPDV+HV N+DMP + + Y HRIGRT RAG+ G A + +
Sbjct: 76 LTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVE 135
Query: 620 FHD 622
HD
Sbjct: 136 AHD 138
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 89.4 bits (220), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 51/157 (32%), Positives = 87/157 (55%), Gaps = 1/157 (0%)
Query: 489 ISQHVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGK 548
+ Q+ V +K++EK +L LLD L ++FV + + +A+ L + + +H G
Sbjct: 6 LQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGM 65
Query: 549 SQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRA 608
QE+R + F+ + +LVAT++ GRG+DI V NYDMP + + Y HR+ R GR
Sbjct: 66 PQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRF 125
Query: 609 GKTGVATTFLTF-HDTDVFYDLKQMLIQSNSPVPPEL 644
G G+A TF++ +D + D++ + S +P E+
Sbjct: 126 GTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 162
>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 = 89.4 bits (220), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 64/224 (28%), Positives = 106/224 (47%), Gaps = 29/224 (12%)
Query: 260 PELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLPPI 319
P ++ A++ + + P+ IQ IP L+ +G ++TG+GKT A++LP+ I
Sbjct: 13 PFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKIK----- 67
Query: 320 SEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYL----GIKVVSIVGGQSIEEQGFRIR 375
E E + AV+ APTRELA QI ET+K + I ++GG ++ ++
Sbjct: 68 PERAEVQ---AVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLN 124
Query: 376 QGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMGFEPQVVGVLDAMPSSNLK 435
+VI TPGR+ D + + ++ + +V+DEAD +D GF V + P
Sbjct: 125 VQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKD--- 181
Query: 436 PENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTI 479
+FSAT+P ++ +KY NP V +
Sbjct: 182 --------------LQXLVFSATIPEKLKPFLKKYXENPTFVHV 211
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 89.0 bits (219), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 72/237 (30%), Positives = 125/237 (52%), Gaps = 37/237 (15%)
Query: 250 MRNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQ--RDVIGIAETGSGKTAAFVL 307
++++ E +L P+LL+ V +G+ PS IQ A+PL L + +++I +++G+GKTAAFVL
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 308 PMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQ---IEEETVKFAHYLGIKVVSIVGG 364
ML+ + E + P + ++PT ELA Q + E+ KF Y +K+ V G
Sbjct: 151 AMLSQV--------EPANKYPQCLCLSPTYELALQTGKVIEQMGKF--YPELKLAYAVRG 200
Query: 365 QSIEEQGFRIRQGCEVVIATPGRLID-CLERRYAVLNQCNYVVLDEADRMI-DMGFEPQV 422
+ E+G +I + ++VI TPG ++D C + ++ + VLDEAD MI G + Q
Sbjct: 201 NKL-ERGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQS 257
Query: 423 VGVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTI 479
+ + +P + +FSAT +V + A+K + +P V+ +
Sbjct: 258 IRIQRMLPRNC-----------------QMLLFSATFEDSVWKFAQKVVPDPNVIKL 297
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 87.8 bits (216), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 72/237 (30%), Positives = 125/237 (52%), Gaps = 37/237 (15%)
Query: 250 MRNWAEGKLTPELLRAVERVGYKNPSPIQMAAIPLGLQQ--RDVIGIAETGSGKTAAFVL 307
++++ E +L P+LL+ V +G+ PS IQ A+PL L + +++I +++G+GKTAAFVL
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 308 PMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQ---IEEETVKFAHYLGIKVVSIVGG 364
ML+ + E + P + ++PT ELA Q + E+ KF Y +K+ V G
Sbjct: 84 AMLSQV--------EPANKYPQCLCLSPTYELALQTGKVIEQMGKF--YPELKLAYAVRG 133
Query: 365 QSIEEQGFRIRQGCEVVIATPGRLID-CLERRYAVLNQCNYVVLDEADRMI-DMGFEPQV 422
+ E+G +I + ++VI TPG ++D C + ++ + VLDEAD MI G + Q
Sbjct: 134 NKL-ERGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQS 190
Query: 423 VGVLDAMPSSNLKPENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTI 479
+ + +P + +FSAT +V + A+K + +P V+ +
Sbjct: 191 IRIQRMLPRNC-----------------QMLLFSATFEDSVWKFAQKVVPDPNVIKL 230
>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 = 85.9 bits (211), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 60/226 (26%), Positives = 107/226 (47%), Gaps = 28/226 (12%)
Query: 258 LTPELLRAVERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLP 317
L+ +L + G++ PSP+Q+ AIPLG D+I A++G+GKT F S +
Sbjct: 31 LSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVF--------STIA 82
Query: 318 PISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYL-GIKVVSIVGGQSIEEQGFRIRQ 376
S E +++APTRE+A QI + G++ +GG + + R+++
Sbjct: 83 LDSLVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKK 142
Query: 377 GCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMIDMG-FEPQVVGVLDAMPSSNLK 435
C + + +PGR+ +E Y +LDEAD++++ G F+ Q+ + ++P+S
Sbjct: 143 -CHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPAS--- 198
Query: 436 PENEDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGT 481
+ SAT P + KY+R+P V + +
Sbjct: 199 --------------KQMLAVSATYPEFLANALTKYMRDPTFVRLNS 230
>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 = 84.7 bits (208), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 47/133 (35%), Positives = 75/133 (56%), Gaps = 7/133 (5%)
Query: 489 ISQHVVMMKE-SEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGG 547
I Q+ V+ + +K+ L + + AI+F T++NA + + + G++V+ L G
Sbjct: 8 IRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGE 67
Query: 548 KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPG------NIEMYTHR 601
+ EQR ++ FR + VL+ T+V RGID+ V V+N+D+P + E Y HR
Sbjct: 68 LTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHR 127
Query: 602 IGRTGRAGKTGVA 614
IGRTGR GK G+A
Sbjct: 128 IGRTGRFGKKGLA 140
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 80.5 bits (197), Expect = 3e-15, Method: Composition-based stats.
Identities = 54/160 (33%), Positives = 89/160 (55%), Gaps = 1/160 (0%)
Query: 487 ELISQHVVMMKESE-KFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLH 545
E I Q V ++E E K+ L L D + A++F NT++ + + L + V+ ++
Sbjct: 2 EGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIY 61
Query: 546 GGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRT 605
Q++R+ ++ FR+ +L++TD+ RGID+ V+ VINYD+P N E Y HRIGR
Sbjct: 62 SDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRG 121
Query: 606 GRAGKTGVATTFLTFHDTDVFYDLKQMLIQSNSPVPPELA 645
GR G+ GVA F+T D +L++ +P ++A
Sbjct: 122 GRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIA 161
>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 = 79.3 bits (194), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 39/84 (46%), Positives = 50/84 (59%)
Query: 517 AIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGR 576
A+VF TK + +A+ L +LG+ LHG SQ +RE + FR VLVATDVA R
Sbjct: 31 AMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAAR 90
Query: 577 GIDIPDVAHVINYDMPGNIEMYTH 600
G+DIP V V++Y MP E Y H
Sbjct: 91 GLDIPQVDLVVHYRMPDRAEAYQH 114
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 77.8 bits (190), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 39/84 (46%), Positives = 50/84 (59%)
Query: 517 AIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGR 576
A+VF TK + +A+ L +LG+ LHG SQ +RE L FR VLVATDVA R
Sbjct: 34 AMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAAR 93
Query: 577 GIDIPDVAHVINYDMPGNIEMYTH 600
G+DIP V V++Y +P E Y H
Sbjct: 94 GLDIPQVDLVVHYRLPDRAEAYQH 117
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 86/369 (23%), Positives = 144/369 (39%), Gaps = 59/369 (15%)
Query: 267 ERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLPPISEENEAE 326
E GY+ P Q I L RD + + TG GK+ + +P L
Sbjct: 19 ETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALLL-------------- 64
Query: 327 GPYAVVMAPTRELAQ-QIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQGCE-----V 380
VV++P L + Q+++ G+ + Q+ E+Q + GC +
Sbjct: 65 NGLTVVVSPLISLMKDQVDQLQAN-----GVAAACLNSTQTREQQ-LEVMTGCRTGQIRL 118
Query: 381 VIATPGRLIDCLERRYAVLNQCNYVVL--DEADRMIDMGFEPQVVGVLDAMPSSNLKPEN 438
+ P RL+ L+ L N V+L DEA + G + +PE
Sbjct: 119 LYIAPERLM--LDNFLEHLAHWNPVLLAVDEAHCISQWG--------------HDFRPEY 162
Query: 439 EDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGKATELIS-----QHV 493
+R +M A+ A R +V +G ++ S
Sbjct: 163 AALGQLRQRFPTLPFM-------ALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRY 215
Query: 494 VMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQR 553
++M++ + +L R + E K+ I++ N++ + A L G H G R
Sbjct: 216 MLMEKFKPLDQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVR 275
Query: 554 EISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGV 613
E F+ ++VAT G GI+ P+V V+++D+P NIE Y TGRAG+ G+
Sbjct: 276 ADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQ---ETGRAGRDGL 332
Query: 614 ATTFLTFHD 622
+ F+D
Sbjct: 333 PAEAMLFYD 341
>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 = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 37/106 (34%), Positives = 54/106 (50%), Gaps = 3/106 (2%)
Query: 517 AIVFVNTKKNADMVA---KNLDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDV 573
AI+F T K + KN K + HG +Q +R ++ F+ +LV TDV
Sbjct: 36 AIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDV 95
Query: 574 AGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVATTFLT 619
RG+D P+V V+ +P + Y HRIGRT R+GK G + F+
Sbjct: 96 GARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFIC 141
>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 = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 37/106 (34%), Positives = 54/106 (50%), Gaps = 3/106 (2%)
Query: 517 AIVFVNTKKNADMVA---KNLDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDV 573
AI+F T K + KN K + HG +Q +R ++ F+ +LV TDV
Sbjct: 36 AIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDV 95
Query: 574 AGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVATTFLT 619
RG+D P+V V+ +P + Y HRIGRT R+GK G + F+
Sbjct: 96 GARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFIC 141
>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 = 37/106 (34%), Positives = 54/106 (50%), Gaps = 3/106 (2%)
Query: 517 AIVFVNTKKNADMVA---KNLDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDV 573
AI+F T K + KN K + HG +Q +R ++ F+ +LV TDV
Sbjct: 36 AIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDV 95
Query: 574 AGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVATTFLT 619
RG+D P+V V+ +P + Y HRIGRT R+GK G + F+
Sbjct: 96 GARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFIC 141
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 68.6 bits (166), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 89/364 (24%), Positives = 138/364 (37%), Gaps = 56/364 (15%)
Query: 267 ERVGYKNPSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLPPISEENEAE 326
E GY+ P Q I L RD + + TG GK+ + +P L
Sbjct: 19 ETFGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALLL-------------- 64
Query: 327 GPYAVVMAPTRELAQ-QIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIRQGCE-----V 380
VV++P L + Q+++ G+ + Q+ E+Q + GC +
Sbjct: 65 NGLTVVVSPLISLXKDQVDQLQAN-----GVAAACLNSTQTREQQ-LEVXTGCRTGQIRL 118
Query: 381 VIATPGRLIDCLERRYAVLNQCNYVVL--DEADRMIDMGFEPQVVGVLDAMPSSNLKPEN 438
+ P RL L+ L N V+L DEA + G + +PE
Sbjct: 119 LYIAPERLX--LDNFLEHLAHWNPVLLAVDEAHCISQWG--------------HDFRPEY 162
Query: 439 EDEELDEKRIYRTTYMFSATMPPAVERLARKYLRNPVVVTIGTAGKATELIS--QHVVMM 496
L + R T F A A + R +V +G ++ S + +
Sbjct: 163 A--ALGQLRQRFPTLPFXALTATADDTT-----RQDIVRLLGLNDPLIQISSFDRPNIRY 215
Query: 497 KESEKF---SRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQR 553
EKF +L R + E K+ I++ N++ + A L G H G R
Sbjct: 216 XLXEKFKPLDQLXRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVR 275
Query: 554 EISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGV 613
E F+ ++VAT G GI+ P+V V+++D+P NIE Y GR GR G
Sbjct: 276 ADVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAE 335
Query: 614 ATTF 617
A F
Sbjct: 336 AXLF 339
>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 = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 32/123 (26%), Positives = 54/123 (43%), Gaps = 3/123 (2%)
Query: 515 KTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVA 574
++ I++ ++K+++ V +L LG H E + + V+VAT
Sbjct: 268 QSGIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAF 327
Query: 575 GRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQMLI 634
G GID PDV VI++ M ++E Y GR GR + F D + + M++
Sbjct: 328 GMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILYYGFGD---IFRISSMVV 384
Query: 635 QSN 637
N
Sbjct: 385 MEN 387
>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 = 52.8 bits (125), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 42/137 (30%), Positives = 66/137 (48%), Gaps = 14/137 (10%)
Query: 484 KATELISQHVVMMKESEKFSRLQRLLDEL----GDKTAIVFVNTKKNADMVAKNLDKLGY 539
KA L+ Q + + K +L+ ++ E + IVF N ++ A + L K G
Sbjct: 327 KAISLLVQAKEIGLDHPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGI 386
Query: 540 RVTTLHG--------GKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYD- 590
+ G G SQ ++++ L+ F +NVLVAT V G+D+P+V V+ Y+
Sbjct: 387 KAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEP 446
Query: 591 MPGNIEMYTHRIGRTGR 607
+P I R GRTGR
Sbjct: 447 VPSAIRSIQRR-GRTGR 462
Score = 32.3 bits (72), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 32/128 (25%), Positives = 60/128 (46%), Gaps = 11/128 (8%)
Query: 287 QQRDVIGIAETGSGKTAAFVLPMLTYISRLPPISEENEAEGPYAVVMAPTRELAQQIEEE 346
++ + + + TG GKT ++ M+ RL G +++APT+ L Q E
Sbjct: 22 KETNCLIVLPTGLGKT---LIAMMIAEYRLTKY-------GGKVLMLAPTKPLVLQHAES 71
Query: 347 TVKFAHYLGIKVVSIVGGQSIEEQGFRIRQGCEVVIATPGRLIDCLERRYAVLNQCNYVV 406
+ + K+V++ G +S EE+ + +V++ATP + + L L + +V
Sbjct: 72 FRRLFNLPPEKIVALTGEKSPEERS-KAWARAKVIVATPQTIENDLLAGRISLEDVSLIV 130
Query: 407 LDEADRMI 414
DEA R +
Sbjct: 131 FDEAHRAV 138
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 35/62 (56%)
Query: 549 SQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRA 608
S+E+RE LEGFRT R+ +V++ V GID+PD + G+ Y R+GR R
Sbjct: 379 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRP 438
Query: 609 GK 610
K
Sbjct: 439 SK 440
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 35/62 (56%)
Query: 549 SQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRA 608
S+E+RE LEGFRT R+ +V++ V GID+PD + G+ Y R+GR R
Sbjct: 144 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRP 203
Query: 609 GK 610
K
Sbjct: 204 SK 205
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 48/87 (55%), Gaps = 5/87 (5%)
Query: 539 YRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIP--DVAHVINYDMPGNIE 596
+++ +HG SQE+++ + F RY++LV+T V GID+P +V + N + G +
Sbjct: 614 FKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLAQ 673
Query: 597 MYTHRIGRTGRAGKTGVATTFLTFHDT 623
++ R GR GR G+ A FL D
Sbjct: 674 LHQLR-GRVGRGGQE--AYCFLVVGDV 697
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 39/160 (24%), Positives = 72/160 (45%), Gaps = 15/160 (9%)
Query: 257 KLTPELLRAVERVGYKNPSPIQMAAIPLGLQQRD-VIGIAETGSGKTAAFVLPMLTYISR 315
KL ++ +++ G K +P Q A+ GL + + ++ + TGSGKT + +++++ +
Sbjct: 14 KLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLK 73
Query: 316 LPPISEENEAEGPYAVVMAPTRELAQQIEEETVKFAHYLGIKVVSIVGGQSIEEQGFRIR 375
G A+ + P R L + + T K +G KV G ++ +
Sbjct: 74 ----------NGGKAIYVTPLRALTNE-KYLTFKDWELIGFKVAMTSGDYDTDDAWLK-- 120
Query: 376 QGCEVVIATPGRLIDCLERRYAVLNQCNYVVLDEADRMID 415
+++I T +L R LN+ NY VLDE + D
Sbjct: 121 -NYDIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLND 159
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 50/117 (42%), Gaps = 12/117 (10%)
Query: 545 HGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVI------NYDMPGN---- 594
H G S+ R++ EGFR ++ V+VAT G+++P +I N + G
Sbjct: 319 HAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEI 378
Query: 595 -IEMYTHRIGRTGRAGKTGVATTFLTFHDT-DVFYDLKQMLIQSNSPVPPELAKHEA 649
I Y GR GR G + + + D DV K+ ++ P+ +L A
Sbjct: 379 PIMEYKQMSGRAGRPGFDQIGESIVVVRDKEDVDRVFKKYVLSDVEPIESKLGSERA 435
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 42.4 bits (98), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 33/114 (28%), Positives = 56/114 (49%), Gaps = 21/114 (18%)
Query: 498 ESEKFSRLQRLLDELGDKT-----AIVFVNTKKNADMVA------KNLDKLGYRVTTLHG 546
E+EK ++L+ + E +T I+F T+++A ++ K ++G + L G
Sbjct: 129 ENEKLTKLRNTIXEHFTRTEESARGIIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIG 188
Query: 547 G---------KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDM 591
EQRE+ + FRT + N+L+AT VA G+DI + VI Y +
Sbjct: 189 AGHSSEFKPXTQNEQREV-ISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 66/253 (26%), Positives = 112/253 (44%), Gaps = 50/253 (19%)
Query: 383 ATPGRLIDCLERRYAVLNQCNYVVLDE------ADR-----MIDMGFEPQVVGVLDAMPS 431
+TP L+D + ++ ++V L + DR ++D GF ++ LD P
Sbjct: 345 STPYTLLDYFPDDFLIIVDESHVTLPQLRGMYNGDRARKQVLVDHGF--RLPSALDNRPL 402
Query: 432 SNLKPENEDEELDEKRIYRTTYMFSAT--------MPPAVERLARKY-LRNPVVVTIGTA 482
+ EE E++I + Y+ SAT P VE++ R L +P + T
Sbjct: 403 TF-------EEF-EQKINQIIYI-SATPGPYELEHSPGVVEQIIRPTGLLDPTIDVRPTK 453
Query: 483 GKATELISQHVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVT 542
G+ +LI E R++R ++ +V TKK A+ + L + G +V
Sbjct: 454 GQIDDLIG---------EIHERVER------NERTLVTTLTKKMAEDLTDYLKEAGIKVA 498
Query: 543 TLHGG-KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHV--INYDMPGNIEMYT 599
LH K+ E+ EI + R +Y+VLV ++ G+DIP+V+ V ++ D G +
Sbjct: 499 YLHSEIKTLERIEI-IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSER 557
Query: 600 HRIGRTGRAGKTG 612
I GRA +
Sbjct: 558 SLIQTIGRAARNA 570
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 57/117 (48%), Gaps = 21/117 (17%)
Query: 498 ESEKFSRLQRLLDELGDKT-----AIVFVNTKKNADMVAK------NLDKLGYRVTTLHG 546
E+EK ++L+ + E +T I+F T+++A +++ ++G + L G
Sbjct: 379 ENEKLTKLRNTIMEQYTRTEESARGIIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIG 438
Query: 547 G---------KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVINYDMPGN 594
EQ+E+ + FRT + N+L+AT VA G+DI + VI Y + N
Sbjct: 439 AGHSSEFKPMTQNEQKEV-ISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTN 494
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 67/253 (26%), Positives = 111/253 (43%), Gaps = 50/253 (19%)
Query: 383 ATPGRLIDCLERRYAVLNQCNYVVLDE------ADR-----MIDMGFEPQVVGVLDAMPS 431
+TP L+D + ++ ++V L + DR ++D GF ++ LD P
Sbjct: 320 STPYTLLDYFPDDFLIIVDESHVTLPQLRGMYNGDRARKQVLVDHGF--RLPSALDNRPL 377
Query: 432 SNLKPENEDEELDEKRIYRTTYMFSAT--------MPPAVERLARKY-LRNPVVVTIGTA 482
+ EE E++I + Y+ SAT P VE++ R L +P + T
Sbjct: 378 TF-------EEF-EQKINQIIYV-SATPGPYELEHSPGVVEQIIRPTGLLDPTIDVRPTK 428
Query: 483 GKATELISQHVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVT 542
G+ +LI + E+ R +R L V TKK A+ + L + G +V
Sbjct: 429 GQIDDLIGEI------RERVERNERTL---------VTTLTKKMAEDLTDYLKEAGIKVA 473
Query: 543 TLHGG-KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHV--INYDMPGNIEMYT 599
LH K+ E+ EI + R +Y+VLV ++ G+DIP+V+ V ++ D G +
Sbjct: 474 YLHSEIKTLERIEI-IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSER 532
Query: 600 HRIGRTGRAGKTG 612
I GRA +
Sbjct: 533 SLIQTIGRAARNA 545
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 67/253 (26%), Positives = 111/253 (43%), Gaps = 50/253 (19%)
Query: 383 ATPGRLIDCLERRYAVLNQCNYVVLDE------ADR-----MIDMGFEPQVVGVLDAMPS 431
+TP L+D + ++ ++V L + DR ++D GF ++ LD P
Sbjct: 320 STPYTLLDYFPDDFLIIVDESHVTLPQLRGMYNGDRARKQVLVDHGF--RLPSALDNRPL 377
Query: 432 SNLKPENEDEELDEKRIYRTTYMFSAT--------MPPAVERLARKY-LRNPVVVTIGTA 482
+ EE E++I + Y+ SAT P VE++ R L +P + T
Sbjct: 378 TF-------EEF-EQKINQIIYV-SATPGPYELEHSPGVVEQIIRPTGLLDPTIDVRPTK 428
Query: 483 GKATELISQHVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVT 542
G+ +LI + E+ R +R L V TKK A+ + L + G +V
Sbjct: 429 GQIDDLIGEI------RERVERNERTL---------VTTLTKKMAEDLTDYLKEAGIKVA 473
Query: 543 TLHGG-KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHV--INYDMPGNIEMYT 599
LH K+ E+ EI + R +Y+VLV ++ G+DIP+V+ V ++ D G +
Sbjct: 474 YLHSEIKTLERIEI-IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSER 532
Query: 600 HRIGRTGRAGKTG 612
I GRA +
Sbjct: 533 SLIQTIGRAARNA 545
>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 = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 67/253 (26%), Positives = 111/253 (43%), Gaps = 50/253 (19%)
Query: 383 ATPGRLIDCLERRYAVLNQCNYVVLDE------ADR-----MIDMGFEPQVVGVLDAMPS 431
+TP L+D + ++ ++V L + DR ++D GF ++ LD P
Sbjct: 320 STPYTLLDYFPDDFLIIVDESHVTLPQLRGMYNGDRARKQVLVDHGF--RLPSALDNRPL 377
Query: 432 SNLKPENEDEELDEKRIYRTTYMFSAT--------MPPAVERLARKY-LRNPVVVTIGTA 482
+ EE E++I + Y+ SAT P VE++ R L +P + T
Sbjct: 378 TF-------EEF-EQKINQIIYV-SATPGPYELEHSPGVVEQIIRPTGLLDPTIDVRPTK 428
Query: 483 GKATELISQHVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVT 542
G+ +LI + E+ R +R L V TKK A+ + L + G +V
Sbjct: 429 GQIDDLIGEI------RERVERNERTL---------VTTLTKKMAEDLTDYLKEAGIKVA 473
Query: 543 TLHGG-KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHV--INYDMPGNIEMYT 599
LH K+ E+ EI + R +Y+VLV ++ G+DIP+V+ V ++ D G +
Sbjct: 474 YLHSEIKTLERIEI-IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSER 532
Query: 600 HRIGRTGRAGKTG 612
I GRA +
Sbjct: 533 SLIQTIGRAARNA 545
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 67/253 (26%), Positives = 111/253 (43%), Gaps = 50/253 (19%)
Query: 383 ATPGRLIDCLERRYAVLNQCNYVVLDE------ADR-----MIDMGFEPQVVGVLDAMPS 431
+TP L+D + ++ ++V L + DR ++D GF ++ LD P
Sbjct: 319 STPYTLLDYFPDDFLIIVDESHVTLPQLRGMYNGDRARKQVLVDHGF--RLPSALDNRPL 376
Query: 432 SNLKPENEDEELDEKRIYRTTYMFSAT--------MPPAVERLARKY-LRNPVVVTIGTA 482
+ EE E++I + Y+ SAT P VE++ R L +P + T
Sbjct: 377 TF-------EEF-EQKINQIIYV-SATPGPYELEHSPGVVEQIIRPTGLLDPTIDVRPTK 427
Query: 483 GKATELISQHVVMMKESEKFSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVT 542
G+ +LI + E+ R +R L V TKK A+ + L + G +V
Sbjct: 428 GQIDDLIGEI------RERVERNERTL---------VTTLTKKMAEDLTDYLKEAGIKVA 472
Query: 543 TLHGG-KSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHV--INYDMPGNIEMYT 599
LH K+ E+ EI + R +Y+VLV ++ G+DIP+V+ V ++ D G +
Sbjct: 473 YLHSEIKTLERIEI-IRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSER 531
Query: 600 HRIGRTGRAGKTG 612
I GRA +
Sbjct: 532 SLIQTIGRAARNA 544
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 55/114 (48%), Gaps = 6/114 (5%)
Query: 522 NTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIP 581
N +K A+ +A+ + + R+ HG + + E + F +R+NVLV T + GIDIP
Sbjct: 824 NIQKAAERLAELVPE--ARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIP 881
Query: 582 DVAHVI--NYDMPGNIEMYTHRIGRTGRAGKTGVATTFLTFHDTDVFYDLKQML 633
+I D G +++ R GR GR+ A LT H + D ++ L
Sbjct: 882 TANTIIIERADHFGLAQLHQLR-GRVGRSHHQAYA-WLLTPHPKAMTTDAQKRL 933
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 51/99 (51%), Gaps = 4/99 (4%)
Query: 517 AIVFVNTKKNADMVAKNLDKLGYRVTTLHGG-KSQEQREISLEGFRTKRYNVLVATDVAG 575
+V TKK ++ + L ++G +V LH K+ E+ EI + R +Y+VLV ++
Sbjct: 454 VLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEI-IRDLRLGKYDVLVGINLLR 512
Query: 576 RGIDIPDVAHV--INYDMPGNIEMYTHRIGRTGRAGKTG 612
G+DIP+V+ V ++ D G + I GRA +
Sbjct: 513 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA 551
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 51/99 (51%), Gaps = 4/99 (4%)
Query: 517 AIVFVNTKKNADMVAKNLDKLGYRVTTLHGG-KSQEQREISLEGFRTKRYNVLVATDVAG 575
+V TKK ++ + L ++G +V LH K+ E+ EI + R +Y+VLV ++
Sbjct: 448 VLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEI-IRDLRLGKYDVLVGINLLR 506
Query: 576 RGIDIPDVAHV--INYDMPGNIEMYTHRIGRTGRAGKTG 612
G+DIP+V+ V ++ D G + I GRA +
Sbjct: 507 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA 545
>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 = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 557 LEGFRTKRYN-VLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVAT 615
L+ F+T + N +L+AT VA GIDI V+ Y+ GN+ GR AG +
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 745
Query: 616 T 616
T
Sbjct: 746 T 746
>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 = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 557 LEGFRTKRYN-VLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVAT 615
L+ F+T + N +L+AT VA GIDI V+ Y+ GN+ GR AG +
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 745
Query: 616 T 616
T
Sbjct: 746 T 746
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 54/122 (44%), Gaps = 17/122 (13%)
Query: 518 IVFVNTKKNADMVAKNLDK---LGYRVTTLHGGKSQEQR---------EISLEGFRTK-R 564
I+FV T+ D + K +++ L + + G+ + R + LE FR
Sbjct: 393 ILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGXTLPAQKCVLEAFRASGD 452
Query: 565 YNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVATTFLTFHDTD 624
N+L+AT VA GIDI + VI Y+ GN+ GR GRA + FL D
Sbjct: 453 NNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGR-GRARDS---KCFLLTSSAD 508
Query: 625 VF 626
V
Sbjct: 509 VI 510
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 557 LEGFRTKRYN-VLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKTGVAT 615
L+ F+T + N +L+AT VA GIDI V+ Y+ GN+ GR AG +
Sbjct: 445 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 504
Query: 616 T 616
T
Sbjct: 505 T 505
>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 = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 2/76 (2%)
Query: 538 GYRVTTLHGGKSQEQREISLEGFRTKRY--NVLVATDVAGRGIDIPDVAHVINYDMPGNI 595
G R H G S +R+ + F + VL+ +++ G + +H + +D+P N
Sbjct: 528 GIRAAVFHEGXSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHXVXFDLPFNP 587
Query: 596 EMYTHRIGRTGRAGKT 611
++ RIGR R G+
Sbjct: 588 DLLEQRIGRLDRIGQA 603
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 37.7 bits (86), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 50/108 (46%), Gaps = 3/108 (2%)
Query: 513 GDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATD 572
G++T +V V T + A+ + L + G R LH +R+ + R Y+ LV +
Sbjct: 440 GERT-LVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGIN 498
Query: 573 VAGRGIDIPDVAHV--INYDMPGNIEMYTHRIGRTGRAGKTGVATTFL 618
+ G+DIP+V+ V ++ D G + I GRA + +L
Sbjct: 499 LLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNARGEVWL 546
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 37.7 bits (86), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 35/68 (51%), Gaps = 2/68 (2%)
Query: 542 TTLHGGKSQEQREISLEGFRTK-RYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTH 600
T + G + ++ L+ F+ +N+L+AT VA GIDI VI Y+ GN+
Sbjct: 429 TNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQ 488
Query: 601 RIGRTGRA 608
GR GRA
Sbjct: 489 TRGR-GRA 495
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 37.7 bits (86), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 35/68 (51%), Gaps = 2/68 (2%)
Query: 542 TTLHGGKSQEQREISLEGFRTK-RYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTH 600
T + G + ++ L+ F+ +N+L+AT VA GIDI VI Y+ GN+
Sbjct: 437 TNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQ 496
Query: 601 RIGRTGRA 608
GR GRA
Sbjct: 497 TRGR-GRA 503
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 37.7 bits (86), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 50/108 (46%), Gaps = 3/108 (2%)
Query: 513 GDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREISLEGFRTKRYNVLVATD 572
G++T +V V T + A+ + L + G R LH +R+ + R Y+ LV +
Sbjct: 439 GERT-LVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGIN 497
Query: 573 VAGRGIDIPDVAHV--INYDMPGNIEMYTHRIGRTGRAGKTGVATTFL 618
+ G+DIP+V+ V ++ D G + I GRA + +L
Sbjct: 498 LLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNARGEVWL 545
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 37.7 bits (86), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 35/68 (51%), Gaps = 2/68 (2%)
Query: 542 TTLHGGKSQEQREISLEGFRTK-RYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTH 600
T + G + ++ L+ F+ +N+L+AT VA GIDI VI Y+ GN+
Sbjct: 438 TNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQ 497
Query: 601 RIGRTGRA 608
GR GRA
Sbjct: 498 TRGR-GRA 504
>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
Maritima
Length = 822
Score = 37.7 bits (86), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 37/140 (26%), Positives = 66/140 (47%), Gaps = 12/140 (8%)
Query: 493 VVMMKESEKFSRLQRLLDELGDKTAIVFVNTK--KNADMVAKNLDKLGYRVTTLHGGKSQ 550
+V + EK+ ++ +++ K V V T + +++++ L K G L+ +
Sbjct: 451 LVFRTQKEKYEKIVEEIEKRYKKGQPVLVGTTSIEKSELLSSMLKKKGIPHQVLNAKYHE 510
Query: 551 EQREISLEGFRTKRYNVLVATDVAGRGIDI---PDVAHVINYDMPGNIEMYTHRI----- 602
++ EI + ++ V +AT++AGRG DI P VA + + G + RI
Sbjct: 511 KEAEIVAKA--GQKGMVTIATNMAGRGTDIKLGPGVAELGGLCIIGTERHESRRIDNQLR 568
Query: 603 GRTGRAGKTGVATTFLTFHD 622
GR GR G G + FL+ D
Sbjct: 569 GRAGRQGDPGESIFFLSLED 588
>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 = 37.4 bits (85), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 37/140 (26%), Positives = 66/140 (47%), Gaps = 12/140 (8%)
Query: 493 VVMMKESEKFSRLQRLLDELGDKTAIVFVNTK--KNADMVAKNLDKLGYRVTTLHGGKSQ 550
+V + EK+ ++ +++ K V V T + +++++ L K G L+ +
Sbjct: 451 LVFRTQKEKYEKIVEEIEKRYKKGQPVLVGTTSIEKSELLSSMLKKKGIPHQVLNAKYHE 510
Query: 551 EQREISLEGFRTKRYNVLVATDVAGRGIDI---PDVAHVINYDMPGNIEMYTHRI----- 602
++ EI + ++ V +AT++AGRG DI P VA + + G + RI
Sbjct: 511 KEAEIVAKA--GQKGMVTIATNMAGRGTDIKLGPGVAELGGLCIIGTERHESRRIDNQLR 568
Query: 603 GRTGRAGKTGVATTFLTFHD 622
GR GR G G + FL+ D
Sbjct: 569 GRAGRQGDPGESIFFLSLED 588
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 35.8 bits (81), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 34/126 (26%), Positives = 52/126 (41%), Gaps = 22/126 (17%)
Query: 502 FSRLQRLLDELGDKTAIVFVNTKKNADMVAKNLDKLGYRVTTLHGGKSQEQREISLEGFR 561
FS++ R+LD LGD +I +N ++ L G QR IS++ F
Sbjct: 578 FSQMVRMLDILGDYLSIKGINFQR------------------LDGTVPSAQRRISIDHFN 619
Query: 562 TKRYN---VLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAG-KTGVATTF 617
+ N L++T G GI++ V+ +D N + + R R G K V
Sbjct: 620 SPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIGQKNHVMVYR 679
Query: 618 LTFHDT 623
L DT
Sbjct: 680 LVSKDT 685
>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 = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 567 VLVATDVAGRGIDIP---DVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 618
V +AT++AGRG DI V + + G + RI GR+GR G G+ +L
Sbjct: 483 VTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYL 542
Query: 619 TFHD 622
+ D
Sbjct: 543 SMED 546
>pdb|3IQM|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 802
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 567 VLVATDVAGRGIDIP---DVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 618
V +AT++AGRG DI V + + G + RI GR+GR G G+ +L
Sbjct: 480 VTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYL 539
Query: 619 TFHD 622
+ D
Sbjct: 540 SMED 543
>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 = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 567 VLVATDVAGRGIDIP---DVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 618
V +AT++AGRG DI V + + G + RI GR+GR G G+ +L
Sbjct: 480 VTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYL 539
Query: 619 TFHD 622
+ D
Sbjct: 540 SMED 543
>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 = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 567 VLVATDVAGRGIDIP---DVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 618
V +AT++AGRG DI V + + G + RI GR+GR G G+ +L
Sbjct: 483 VTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYL 542
Query: 619 TFHD 622
+ D
Sbjct: 543 SMED 546
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 567 VLVATDVAGRGIDIP---DVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 618
V +AT++AGRG DI V + + G + RI GR+GR G G+ +L
Sbjct: 480 VTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYL 539
Query: 619 TFHD 622
+ D
Sbjct: 540 SMED 543
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 567 VLVATDVAGRGIDIP---DVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 618
V +AT++AGRG DI V + + G + RI GR+GR G G+ +L
Sbjct: 480 VTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYL 539
Query: 619 TFHD 622
+ D
Sbjct: 540 SMED 543
>pdb|3BXZ|A Chain A, Crystal Structure Of The Isolated Dead Motor Domains From
Escherichia Coli Seca
pdb|3BXZ|B Chain B, Crystal Structure Of The Isolated Dead Motor Domains From
Escherichia Coli Seca
Length = 471
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 51/94 (54%), Gaps = 12/94 (12%)
Query: 493 VVMMKESEKFSRLQRLLDELGDKTA-----IVFVNTKKNADMVAKNLDKLGYRVTTLHGG 547
+V M E+EK +Q +++++ ++TA +V + + +++V+ L K G + L+
Sbjct: 288 LVYMTEAEK---IQAIIEDIKERTAKGQPVLVGTISIEKSELVSNELTKAGIKHNVLNAK 344
Query: 548 -KSQEQREISLEGFRTKRYNVLVATDVAGRGIDI 580
+ E ++ G+ V +AT++AGRG DI
Sbjct: 345 FHANEAAIVAQAGYPAA---VTIATNMAGRGTDI 375
>pdb|2VDA|A Chain A, Solution Structure Of The Seca-Signal Peptide Complex
Length = 828
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 51/94 (54%), Gaps = 12/94 (12%)
Query: 493 VVMMKESEKFSRLQRLLDELGDKTA-----IVFVNTKKNADMVAKNLDKLGYRVTTLHGG 547
+V M E+EK +Q +++++ ++TA +V + + +++V+ L K G + L+
Sbjct: 418 LVYMTEAEK---IQAIIEDIKERTAKGQPVLVGTISIEKSELVSNELTKAGIKHNVLNAK 474
Query: 548 -KSQEQREISLEGFRTKRYNVLVATDVAGRGIDI 580
+ E ++ G+ V +AT++AGRG DI
Sbjct: 475 FHANEAAIVAQAGYPAA---VTIATNMAGRGTDI 505
>pdb|2FSF|A Chain A, Escherichia Coli Seca, The Preprotein Translocase Dimeric
Atpase
pdb|2FSF|B Chain B, Escherichia Coli Seca, The Preprotein Translocase Dimeric
Atpase
pdb|2FSH|A Chain A, Complex Seca:amp-Pnp From Escherichia Coli
pdb|2FSH|B Chain B, Complex Seca:amp-Pnp From Escherichia Coli
pdb|2FSI|A Chain A, Complex Seca:adp From Escherichia Coli
pdb|2FSI|B Chain B, Complex Seca:adp From Escherichia Coli
Length = 853
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 51/94 (54%), Gaps = 12/94 (12%)
Query: 493 VVMMKESEKFSRLQRLLDELGDKTA-----IVFVNTKKNADMVAKNLDKLGYRVTTLHGG 547
+V M E+EK +Q +++++ ++TA +V + + +++V+ L K G + L+
Sbjct: 418 LVYMTEAEK---IQAIIEDIKERTAKGQPVLVGTISIEKSELVSNELTKAGIKHNVLNAK 474
Query: 548 -KSQEQREISLEGFRTKRYNVLVATDVAGRGIDI 580
+ E ++ G+ V +AT++AGRG DI
Sbjct: 475 FHANEAAIVAQAGYPAA---VTIATNMAGRGTDI 505
>pdb|3IQY|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 841
Score = 30.0 bits (66), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 567 VLVATDVAGRGIDIP---DVAHVINYDMPGNIEMYTHRI-----GRTGRAGKTGVATTFL 618
V +AT++AG+G DI V + + G + RI GR+GR G G+ +L
Sbjct: 480 VTIATNMAGKGTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYL 539
Query: 619 TFHD 622
+ D
Sbjct: 540 SMED 543
>pdb|2PMK|A Chain A, Crystal Structures Of An Isolated Abc-Atpase In Complex
With Tnp-Adp
Length = 243
Score = 30.0 bits (66), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 268 RVGYKNPSPIQMAAIPLGLQQRDVIGI-AETGSGKTAAFVLPMLTYI 313
R YK SP+ + I L ++Q +VIGI +GSGK+ L YI
Sbjct: 10 RFRYKPDSPVILDNINLSIKQGEVIGIVGRSGSGKSTLTKLIQRFYI 56
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
Length = 500
Score = 29.6 bits (65), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 55/114 (48%), Gaps = 13/114 (11%)
Query: 505 LQRLLDELGDKTAIV--FVNTKKNADMVAKNL--DKLGYRVTTLHGGKSQEQREISLEGF 560
++ LDE GDK AI FV+ K + +N+ +L V L+G S+++R+ + F
Sbjct: 334 IEEALDE-GDKIAIFTQFVDXGK----IIRNIIEKELNTEVPFLYGELSKKERDDIISKF 388
Query: 561 RTK---RYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKT 611
+ ++ VL + G GI++ VI++D N + R R G+T
Sbjct: 389 QNNPSVKFIVL-SVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQT 441
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 29.6 bits (65), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 55/114 (48%), Gaps = 13/114 (11%)
Query: 505 LQRLLDELGDKTAIV--FVNTKKNADMVAKNL--DKLGYRVTTLHGGKSQEQREISLEGF 560
++ LDE GDK AI FV+ K + +N+ +L V L+G S+++R+ + F
Sbjct: 334 IEEALDE-GDKIAIFTQFVDMGK----IIRNIIEKELNTEVPFLYGELSKKERDDIISKF 388
Query: 561 RTK---RYNVLVATDVAGRGIDIPDVAHVINYDMPGNIEMYTHRIGRTGRAGKT 611
+ ++ VL + G GI++ VI++D N + R R G+T
Sbjct: 389 QNNPSVKFIVL-SVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQT 441
>pdb|1MT0|A Chain A, Atp-Binding Domain Of Haemolysin B From Escherichia Coli
Length = 241
Score = 29.6 bits (65), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 268 RVGYKNPSPIQMAAIPLGLQQRDVIGI-AETGSGKTAAFVLPMLTYI 313
R YK SP+ + I L ++Q +VIGI +GSGK+ L YI
Sbjct: 8 RFRYKPDSPVILDNINLSIKQGEVIGIVGRSGSGKSTLTKLIQRFYI 54
>pdb|2FF7|A Chain A, The Abc-Atpase Of The Abc-Transporter Hlyb In The Adp
Bound State
Length = 247
Score = 29.6 bits (65), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 268 RVGYKNPSPIQMAAIPLGLQQRDVIGI-AETGSGKTAAFVLPMLTYI 313
R YK SP+ + I L ++Q +VIGI +GSGK+ L YI
Sbjct: 14 RFRYKPDSPVILDNINLSIKQGEVIGIVGRSGSGKSTLTKLIQRFYI 60
>pdb|2FFB|A Chain A, The Crystal Structure Of The Hlyb-Nbd E631q Mutant In
Complex With Adp
pdb|2FGK|A Chain A, Crystal Structure Of The Abc-Cassette E631q Mutant Of Hlyb
With Bound Atp
pdb|2FGK|B Chain B, Crystal Structure Of The Abc-Cassette E631q Mutant Of Hlyb
With Bound Atp
pdb|2FGK|C Chain C, Crystal Structure Of The Abc-Cassette E631q Mutant Of Hlyb
With Bound Atp
pdb|2FGK|D Chain D, Crystal Structure Of The Abc-Cassette E631q Mutant Of Hlyb
With Bound Atp
Length = 247
Score = 29.6 bits (65), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 268 RVGYKNPSPIQMAAIPLGLQQRDVIGI-AETGSGKTAAFVLPMLTYI 313
R YK SP+ + I L ++Q +VIGI +GSGK+ L YI
Sbjct: 14 RFRYKPDSPVILDNINLSIKQGEVIGIVGRSGSGKSTLTKLIQRFYI 60
>pdb|1XEF|A Chain A, Crystal Structure Of The AtpMG2+ BOUND COMPOSITE DIMER OF
HLYB-Nbd
pdb|1XEF|B Chain B, Crystal Structure Of The AtpMG2+ BOUND COMPOSITE DIMER OF
HLYB-Nbd
pdb|1XEF|C Chain C, Crystal Structure Of The AtpMG2+ BOUND COMPOSITE DIMER OF
HLYB-Nbd
pdb|1XEF|D Chain D, Crystal Structure Of The AtpMG2+ BOUND COMPOSITE DIMER OF
HLYB-Nbd
Length = 241
Score = 29.6 bits (65), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 268 RVGYKNPSPIQMAAIPLGLQQRDVIGI-AETGSGKTAAFVLPMLTYI 313
R YK SP+ + I L ++Q +VIGI +GSGK+ L YI
Sbjct: 8 RFRYKPDSPVILDNINLSIKQGEVIGIVGRSGSGKSTLTKLIQRFYI 54
>pdb|2FFA|A Chain A, Crystal Structure Of Abc-Atpase H662a Of The
Abc-Transporter Hlyb In Complex With Adp
pdb|2FGJ|A Chain A, Crystal Structure Of The Abc-Cassette H662a Mutant Of Hlyb
With Bound Atp
pdb|2FGJ|B Chain B, Crystal Structure Of The Abc-Cassette H662a Mutant Of Hlyb
With Bound Atp
pdb|2FGJ|C Chain C, Crystal Structure Of The Abc-Cassette H662a Mutant Of Hlyb
With Bound Atp
pdb|2FGJ|D Chain D, Crystal Structure Of The Abc-Cassette H662a Mutant Of Hlyb
With Bound Atp
Length = 247
Score = 29.6 bits (65), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 268 RVGYKNPSPIQMAAIPLGLQQRDVIGI-AETGSGKTAAFVLPMLTYI 313
R YK SP+ + I L ++Q +VIGI +GSGK+ L YI
Sbjct: 14 RFRYKPDSPVILDNINLSIKQGEVIGIVGRSGSGKSTLTKLIQRFYI 60
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 29.6 bits (65), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 28/72 (38%), Gaps = 7/72 (9%)
Query: 545 HGGKSQEQREISLEGFRTKRYNVLVATDVAGRGIDIPDVAHVI-------NYDMPGNIEM 597
H G QR + + FR V+VAT G+++P ++ Y +
Sbjct: 303 HAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSE 362
Query: 598 YTHRIGRTGRAG 609
Y GR GR G
Sbjct: 363 YKQMAGRAGRPG 374
>pdb|1GKU|B Chain B, Reverse Gyrase From Archaeoglobus Fulgidus
Length = 1054
Score = 29.3 bits (64), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 60/147 (40%), Gaps = 21/147 (14%)
Query: 274 PSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLPPISEENEAEGPYAVVM 333
P IQ L++ A TG GKT+ F L M +++ +G V+
Sbjct: 57 PRAIQKMWAKRILRKESFAATAPTGVGKTS-FGLAMSLFLA----------LKGKRCYVI 105
Query: 334 APTRELAQQIEEETVKFAHYLGIKVVSIVGG------QSIEEQGFRIRQGCEVVIATPGR 387
PT L Q E K+A G+ +++G + +E + + ++VI T
Sbjct: 106 FPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTT-- 163
Query: 388 LIDCLERRYAVLNQCNYVVLDEADRMI 414
L + Y L +++ +D+ D ++
Sbjct: 164 --QFLSKHYRELGHFDFIFVDDVDAIL 188
>pdb|3B5J|A Chain A, Crystal Structures Of The S504a Mutant Of An Isolated
Abc-atpase In Complex With Tnp-adp
Length = 243
Score = 29.3 bits (64), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 268 RVGYKNPSPIQMAAIPLGLQQRDVIGI-AETGSGKTAAFVLPMLTYI 313
R YK SP+ + I L ++Q +VIGI GSGK+ L YI
Sbjct: 10 RFRYKPDSPVILDNINLSIKQGEVIGIVGRAGSGKSTLTKLIQRFYI 56
>pdb|1GL9|B Chain B, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
pdb|1GL9|C Chain C, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
Length = 1054
Score = 29.3 bits (64), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 60/147 (40%), Gaps = 21/147 (14%)
Query: 274 PSPIQMAAIPLGLQQRDVIGIAETGSGKTAAFVLPMLTYISRLPPISEENEAEGPYAVVM 333
P IQ L++ A TG GKT+ F L M +++ +G V+
Sbjct: 57 PRAIQKMWAKRILRKESFAATAPTGVGKTS-FGLAMSLFLA----------LKGKRCYVI 105
Query: 334 APTRELAQQIEEETVKFAHYLGIKVVSIVGG------QSIEEQGFRIRQGCEVVIATPGR 387
PT L Q E K+A G+ +++G + +E + + ++VI T
Sbjct: 106 FPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTT-- 163
Query: 388 LIDCLERRYAVLNQCNYVVLDEADRMI 414
L + Y L +++ +D+ D ++
Sbjct: 164 --QFLSKHYRELGHFDFIFVDDVDAIL 188
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 0.135 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,041,760
Number of Sequences: 62578
Number of extensions: 672277
Number of successful extensions: 2017
Number of sequences better than 100.0: 126
Number of HSP's better than 100.0 without gapping: 93
Number of HSP's successfully gapped in prelim test: 33
Number of HSP's that attempted gapping in prelim test: 1734
Number of HSP's gapped (non-prelim): 148
length of query: 671
length of database: 14,973,337
effective HSP length: 105
effective length of query: 566
effective length of database: 8,402,647
effective search space: 4755898202
effective search space used: 4755898202
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)