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= 009500
(533 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 = 249 bits (636), Expect = 3e-66, Method: Compositional matrix adjust.
Identities = 138/413 (33%), Positives = 228/413 (55%), Gaps = 22/413 (5%)
Query: 123 INVKGDAVPAPILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTG 182
+ G+ P I SFS + + ++ NIE Y PTPVQ AIP + L+ A TG
Sbjct: 3 VEATGNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTG 62
Query: 183 SGKTASFLVPVISQCAN------IRL-----HHSQNQKNPLAMVLTPTRELCIQVEEQAK 231
SGKTA+FL+P++SQ + +R + + ++ P+++VL PTREL +Q+ E+A+
Sbjct: 63 SGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEAR 122
Query: 232 LLGKGLPFKTALVVGGDAMARQVYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLD 291
+ +V GG + +Q+ +++G L+V TPGRL+D++ + I LD + VLD
Sbjct: 123 KFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLD 182
Query: 292 EVDCMLQRGFRDQVMQIFRAISLP-----QILMYSATISQEVEKMXXXXXXXXXXXXXGK 346
E D ML GF Q+ +I ++P +M+SAT +E++ + G+
Sbjct: 183 EADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGR 242
Query: 347 PNMPNKAVKQLAIWVESNKKKQKLFDIL--MSKQHFTPPAVVYVGSRLGADLLSNAISVT 404
++ + Q +WVE + K+ L D+L K T +V+V ++ GAD L + +
Sbjct: 243 VGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLT---LVFVETKKGADSLEDFL-YH 298
Query: 405 TGMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIK 464
G SIHG++ ++R E + F G+ P++VAT + RG+++ V+ VI FD+P+ I+
Sbjct: 299 EGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIE 358
Query: 465 EYVHQIGRASQMGDEGTAIVFVNEENKNLFQELVDILKSSGAGIPRELINSRY 517
EYVH+IGR ++G+ G A F NE N N+ ++L+D+L + +P L N Y
Sbjct: 359 EYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENMAY 411
>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 = 236 bits (601), Expect = 3e-62, Method: Compositional matrix adjust.
Identities = 136/423 (32%), Positives = 225/423 (53%), Gaps = 14/423 (3%)
Query: 95 FYVRESDENSGFQSLTIGQTDSLR----KRLEINVKGDAVPAPILSFSSCSLSQKLLQNI 150
FY+ N + + G + + + V G VP PI F+S L ++ N+
Sbjct: 12 FYIPPEPSNDAIEIFSSGIASGIHFSKYNNIPVKVTGSDVPQPIQHFTSADLRDIIIDNV 71
Query: 151 EAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKN 210
+GY +PTP+Q +IP SG+ L+ A TGSGKTA+FL+P++S+ + H
Sbjct: 72 NKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKL--LEDPHELELGR 129
Query: 211 PLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVYRIQQGVELIVGTPGR 270
P ++++PTREL IQ+ +A+ K +V GG + Q I +G +++ TPGR
Sbjct: 130 PQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGR 189
Query: 271 LIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAISL---PQILMYSATISQE 327
L+D + + I +D R VLDE D ML GF + + +I +++ Q LM+SAT +E
Sbjct: 190 LLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTLMFSATFPEE 249
Query: 328 VEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQKLFDILMSKQHFTPPAVVY 387
+++M G VKQ V K+ KL +IL + T +V+
Sbjct: 250 IQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEILSEQADGT---IVF 306
Query: 388 VGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVE 447
V ++ GAD L++ +S SIHG++ +R + +R F G + V++AT + RG++
Sbjct: 307 VETKRGADFLASFLS-EKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLD 365
Query: 448 LLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVN-EENKNLFQELVDILKSSGA 506
+ ++ VI +DMP+ I +YVH+IGR ++G+ G A F + E+++ + +LV IL+ SG
Sbjct: 366 IKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVKILEGSGQ 425
Query: 507 GIP 509
+P
Sbjct: 426 TVP 428
>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 = 197 bits (500), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 114/406 (28%), Positives = 215/406 (52%), Gaps = 33/406 (8%)
Query: 108 SLTIGQTDSLRKRL-----------EINVKGDAVPAPILSFSSCSLSQKLLQNIEAAGYD 156
+ T+ + S RKRL E + + D P +F + L + LL+ I A G++
Sbjct: 3 TATMATSGSARKRLLKEEDMTKVEFETSEEVDVTP----TFDTMGLREDLLRGIYAYGFE 58
Query: 157 MPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVL 216
P+ +Q +AI + G+ ++ + +G+GKTA+F + V+ QC +I++ +Q A++L
Sbjct: 59 KPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVL-QCLDIQVRETQ------ALIL 111
Query: 217 TPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVYRIQQGVELIVGTPGRLIDLLM 276
PTREL +Q+++ LG + + +GG + + ++ G ++ GTPGR+ D++
Sbjct: 112 APTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIR 171
Query: 277 KHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAI-SLPQILMYSATISQEVEKMXXXX 335
+ + I+M VLDE D ML +GF++Q+ ++R + Q+++ SAT+ E+ +M
Sbjct: 172 RRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKF 231
Query: 336 XXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQ----KLFDILMSKQHFTPPAVVYVGSR 391
+ + + +KQ + VE + K L+D L Q AV++ ++
Sbjct: 232 MTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ-----AVIFCNTK 286
Query: 392 LGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGV 451
D L+ + S+HG+ P KER IM+ F G V+++T + RG+++ V
Sbjct: 287 RKVDWLTEKMR-EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQV 345
Query: 452 RQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNEENKNLFQEL 497
+I +D+PN+ + Y+H+IGR+ + G +G AI FV ++ + +++
Sbjct: 346 SLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDI 391
>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 = 197 bits (500), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 114/406 (28%), Positives = 215/406 (52%), Gaps = 33/406 (8%)
Query: 108 SLTIGQTDSLRKRL-----------EINVKGDAVPAPILSFSSCSLSQKLLQNIEAAGYD 156
+ T+ + S RKRL E + + D P +F + L + LL+ I A G++
Sbjct: 4 TATMATSGSARKRLLKEEDMTKVEFETSEEVDVTP----TFDTMGLREDLLRGIYAYGFE 59
Query: 157 MPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVL 216
P+ +Q +AI + G+ ++ + +G+GKTA+F + V+ QC +I++ +Q A++L
Sbjct: 60 KPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVL-QCLDIQVRETQ------ALIL 112
Query: 217 TPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVYRIQQGVELIVGTPGRLIDLLM 276
PTREL +Q+++ LG + + +GG + + ++ G ++ GTPGR+ D++
Sbjct: 113 APTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIR 172
Query: 277 KHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAI-SLPQILMYSATISQEVEKMXXXX 335
+ + I+M VLDE D ML +GF++Q+ ++R + Q+++ SAT+ E+ +M
Sbjct: 173 RRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKF 232
Query: 336 XXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQ----KLFDILMSKQHFTPPAVVYVGSR 391
+ + + +KQ + VE + K L+D L Q AV++ ++
Sbjct: 233 MTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ-----AVIFCNTK 287
Query: 392 LGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGV 451
D L+ + S+HG+ P KER IM+ F G V+++T + RG+++ V
Sbjct: 288 RKVDWLTEKMR-EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQV 346
Query: 452 RQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNEENKNLFQEL 497
+I +D+PN+ + Y+H+IGR+ + G +G AI FV ++ + +++
Sbjct: 347 SLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDI 392
>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 = 196 bits (499), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 114/406 (28%), Positives = 215/406 (52%), Gaps = 33/406 (8%)
Query: 108 SLTIGQTDSLRKRL-----------EINVKGDAVPAPILSFSSCSLSQKLLQNIEAAGYD 156
+ T+ + S RKRL E + + D P +F + L + LL+ I A G++
Sbjct: 4 TATMATSGSARKRLLKEEDMTKVEFETSEEVDVTP----TFDTMGLREDLLRGIYAYGFE 59
Query: 157 MPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVL 216
P+ +Q +AI + G+ ++ + +G+GKTA+F + V+ QC +I++ +Q A++L
Sbjct: 60 KPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVL-QCLDIQVRETQ------ALIL 112
Query: 217 TPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVYRIQQGVELIVGTPGRLIDLLM 276
PTREL +Q+++ LG + + +GG + + ++ G ++ GTPGR+ D++
Sbjct: 113 APTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIR 172
Query: 277 KHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAI-SLPQILMYSATISQEVEKMXXXX 335
+ + I+M VLDE D ML +GF++Q+ ++R + Q+++ SAT+ E+ +M
Sbjct: 173 RRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKF 232
Query: 336 XXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQ----KLFDILMSKQHFTPPAVVYVGSR 391
+ + + +KQ + VE + K L+D L Q AV++ ++
Sbjct: 233 MTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ-----AVIFCNTK 287
Query: 392 LGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGV 451
D L+ + S+HG+ P KER IM+ F G V+++T + RG+++ V
Sbjct: 288 RKVDWLTEKMR-EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQV 346
Query: 452 RQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNEENKNLFQEL 497
+I +D+PN+ + Y+H+IGR+ + G +G AI FV ++ + +++
Sbjct: 347 SLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDI 392
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 196 bits (499), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 107/367 (29%), Positives = 202/367 (55%), Gaps = 18/367 (4%)
Query: 136 SFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVIS 195
+F + L + LL+ I A G++ P+ +Q +AI + G+ ++ + +G+GKTA+F V V+
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVL- 60
Query: 196 QCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVY 255
QC +I++ +Q A++L PTREL +QV++ LG + ++ +GG + +
Sbjct: 61 QCLDIQVRETQ------ALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIR 114
Query: 256 RIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAI-SL 314
++ G ++ GTPGR+ D++ + + I+M VLDE D ML +GF++Q+ ++R +
Sbjct: 115 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 174
Query: 315 PQILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQ----KL 370
Q+++ SAT+ EV +M + + + +KQ + VE + K L
Sbjct: 175 TQVVLISATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDL 234
Query: 371 FDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLV 430
+D L Q AV++ ++ D L+ + S+HG+ P KER IM+ F
Sbjct: 235 YDTLTITQ-----AVIFCNTKRKVDWLTEKMR-EANFTVSSMHGDMPQKERESIMKEFRS 288
Query: 431 GEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNEEN 490
G V+++T + RG+++ V +I +D+PN+ + Y+H+IGR+ + G +G A+ FV ++
Sbjct: 289 GASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDD 348
Query: 491 KNLFQEL 497
+ +++
Sbjct: 349 IRVLRDI 355
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 195 bits (495), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 106/367 (28%), Positives = 201/367 (54%), Gaps = 18/367 (4%)
Query: 136 SFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVIS 195
+F + L + LL+ I A G++ P+ +Q +AI + G+ ++ + +G+GKTA+F V V+
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVL- 60
Query: 196 QCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVY 255
QC +I++ +Q A++L PTREL +QV++ LG + + +GG + +
Sbjct: 61 QCLDIQVRETQ------ALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIR 114
Query: 256 RIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAI-SL 314
++ G ++ GTPGR+ D++ + + I+M VLDE D ML +GF++Q+ ++R +
Sbjct: 115 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 174
Query: 315 PQILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQ----KL 370
Q+++ SAT+ E+ +M + + + +KQ + VE + K L
Sbjct: 175 TQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDL 234
Query: 371 FDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLV 430
+D L Q AV++ ++ D L+ + S+HG+ P KER IM+ F
Sbjct: 235 YDTLTITQ-----AVIFCNTKRKVDWLTEKMR-EANFTVSSMHGDMPQKERESIMKEFRS 288
Query: 431 GEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNEEN 490
G V+++T + RG+++ V +I +D+PN+ + Y+H+IGR+ + G +G A+ FV ++
Sbjct: 289 GASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDD 348
Query: 491 KNLFQEL 497
+ +++
Sbjct: 349 IRVLRDI 355
>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 = 195 bits (495), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 105/367 (28%), Positives = 201/367 (54%), Gaps = 18/367 (4%)
Query: 136 SFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVIS 195
+F + L + LL+ I A G++ P+ +Q +AI + G+ ++ + +G+GKTA+F + V+
Sbjct: 17 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVL- 75
Query: 196 QCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVY 255
QC +I++ +Q A++L PTREL +Q+++ LG + + +GG + +
Sbjct: 76 QCLDIQVRETQ------ALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIR 129
Query: 256 RIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAI-SL 314
++ G ++ GTPGR+ D++ + + I+M VLDE D ML +GF++Q+ ++R +
Sbjct: 130 KLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPA 189
Query: 315 PQILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQ----KL 370
Q+++ SAT+ E+ +M + + + +KQ + VE + K L
Sbjct: 190 TQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDL 249
Query: 371 FDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLV 430
+D L Q AV++ ++ D L+ + S+HG+ P KER IM+ F
Sbjct: 250 YDTLTITQ-----AVIFCNTKRKVDWLTEKMR-EANFTVSSMHGDMPQKERESIMKEFRS 303
Query: 431 GEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNEEN 490
G V+++T + RG+++ V +I +D+PN+ + Y+H+IGR+ + G +G AI FV ++
Sbjct: 304 GASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDD 363
Query: 491 KNLFQEL 497
+ +++
Sbjct: 364 IRILRDI 370
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 181 bits (460), Expect = 6e-46, Method: Compositional matrix adjust.
Identities = 119/406 (29%), Positives = 204/406 (50%), Gaps = 24/406 (5%)
Query: 113 QTDSLRKRLEINVKGDAVPAPILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSG 172
QTD + +N KG+ +F L ++LL I AG++ P+P+Q +AIP A++G
Sbjct: 11 QTDDV-----LNTKGN-------TFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITG 58
Query: 173 KSLLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKL 232
+ +L A G+GKTA+F++P + + +L+ Q A+++ PTREL +Q + +
Sbjct: 59 RDILARAKNGTGKTAAFVIPTLEKVKP-KLNKIQ------ALIMVPTRELALQTSQVVRT 111
Query: 233 LGKGLPFKTALVVGGDAMARQVYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDE 292
LGK + GG + + R+ + V ++VGTPGR++DL + +L D +F++DE
Sbjct: 112 LGKHCGISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDE 171
Query: 293 VDCMLQRGFRDQVMQIFRAI-SLPQILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPN 351
D ML R F+ + QI + Q L++SAT V++ + +
Sbjct: 172 ADKMLSRDFKTIIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLME-ELTL 230
Query: 352 KAVKQLAIWVESNKKKQKLFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALS 411
K + Q +VE +K L + L SK A+++ S +LL+ I+ G
Sbjct: 231 KGITQYYAFVEERQKLHCL-NTLFSKLQIN-QAIIFCNSTNRVELLAKKIT-DLGYSCYY 287
Query: 412 IHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIG 471
H +ER ++ F G+V +V + +L RG+++ V VI FD P + + Y+H+IG
Sbjct: 288 SHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIG 347
Query: 472 RASQMGDEGTAIVFVNEENKNLFQELVDILKSSGAGIPRELINSRY 517
R+ + G G AI +N ++ ++ L + A IP + S Y
Sbjct: 348 RSGRFGHLGLAINLINWNDRFNLYKIEQELGTEIAAIPATIDKSLY 393
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 177 bits (448), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 121/380 (31%), Positives = 202/380 (53%), Gaps = 19/380 (5%)
Query: 136 SFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVIS 195
SF +LS+ LL+ I A G++ P+ +Q +AI + G ++ A +G+GKTA+F + ++
Sbjct: 41 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQ 100
Query: 196 QCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVY 255
Q I L Q A+VL PTREL Q+++ LG + +GG + +V
Sbjct: 101 Q---IELDLKATQ----ALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQ 153
Query: 256 RIQ-QGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAI-S 313
++Q + +IVGTPGR+ D+L + + I+MFVLDE D ML RGF+DQ+ IF+ + S
Sbjct: 154 KLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNS 213
Query: 314 LPQILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQK---- 369
Q+++ SAT+ +V ++ K + + ++Q I VE + K
Sbjct: 214 NTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCD 273
Query: 370 LFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFL 429
L++ L Q AV+++ +R D L+ + ++HG+ KER IMR F
Sbjct: 274 LYETLTITQ-----AVIFINTRRKVDWLTEKMH-ARDFTVSAMHGDMDQKERDVIMREFR 327
Query: 430 VGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNEE 489
G V++ T +L RG+++ V VI +D+P + + Y+H+IGR + G +G AI V EE
Sbjct: 328 SGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEE 387
Query: 490 NKNLFQELVDILKSSGAGIP 509
+K +++ +S +P
Sbjct: 388 DKRTLRDIETFYNTSIEEMP 407
>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 = 176 bits (446), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 121/380 (31%), Positives = 202/380 (53%), Gaps = 19/380 (5%)
Query: 136 SFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVIS 195
SF +LS+ LL+ I A G++ P+ +Q +AI + G ++ A +G+GKTA+F + ++
Sbjct: 15 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQ 74
Query: 196 QCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVY 255
Q I L Q A+VL PTREL Q+++ LG + +GG + +V
Sbjct: 75 Q---IELDLKATQ----ALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQ 127
Query: 256 RIQ-QGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAI-S 313
++Q + +IVGTPGR+ D+L + + I+MFVLDE D ML RGF+DQ+ IF+ + S
Sbjct: 128 KLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNS 187
Query: 314 LPQILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQK---- 369
Q+++ SAT+ +V ++ K + + ++Q I VE + K
Sbjct: 188 NTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCD 247
Query: 370 LFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFL 429
L++ L Q AV+++ +R D L+ + ++HG+ KER IMR F
Sbjct: 248 LYETLTITQ-----AVIFINTRRKVDWLTEKMH-ARDFTVSAMHGDMDQKERDVIMREFR 301
Query: 430 VGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNEE 489
G V++ T +L RG+++ V VI +D+P + + Y+H+IGR + G +G AI V EE
Sbjct: 302 SGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEE 361
Query: 490 NKNLFQELVDILKSSGAGIP 509
+K +++ +S +P
Sbjct: 362 DKRTLRDIETFYNTSIEEMP 381
>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 = 166 bits (419), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 105/355 (29%), Positives = 192/355 (54%), Gaps = 21/355 (5%)
Query: 136 SFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGK-SLLVSANTGSGKTASFLVPVI 194
+F+ +LS +L I G++ PT +Q + IP L+ + +++ A TGSGKTASF +P+I
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 195 SQCANIRLHHSQNQKNPL-AMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQ 253
N+ N + A++LTPTREL IQV ++ + L K A + GG A+ Q
Sbjct: 67 ELV---------NENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQ 117
Query: 254 VYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAIS 313
+ + + ++VGTPGR++D + + + L +++ F+LDE D L GF V +I A +
Sbjct: 118 I-KALKNANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACN 176
Query: 314 L-PQILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQKLFD 372
+IL++SAT +E+ + N ++Q + V N++ + L
Sbjct: 177 KDKRILLFSATXPREILNLAKKYXGDYSFIKA----KINANIEQSYVEVNENERFEALCR 232
Query: 373 ILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLVGE 432
+L +K+ + +V+ ++ L++ + G KA +IHG+ +R +++R F +
Sbjct: 233 LLKNKEFY---GLVFCKTKRDTKELASXLR-DIGFKAGAIHGDLSQSQREKVIRLFKQKK 288
Query: 433 VPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVN 487
+ +++AT + RG+++ + VI + +P + + Y H+IGR + G +G AI +N
Sbjct: 289 IRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIIN 343
>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 = 157 bits (397), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 103/380 (27%), Positives = 190/380 (50%), Gaps = 11/380 (2%)
Query: 134 ILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPV 193
+ F L + LL+ + G++ P+ +Q +AI + G +L A +G+GKT +F +
Sbjct: 21 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 80
Query: 194 ISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQ 253
+ + + K P A++L PTREL +Q+++ L + K +GG +
Sbjct: 81 LQRI-------DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVED 133
Query: 254 VYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAIS 313
++ +++VGTPGR+ D + + D I+MF+LDE D ML GF++Q+ QIF +
Sbjct: 134 AEGLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLP 192
Query: 314 -LPQILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQKLFD 372
Q+++ SAT+ +V ++ K + + +KQ + VE + K +
Sbjct: 193 PTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLT 252
Query: 373 ILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLVGE 432
L T AV++ +R + L+ + +I+ + P +ER IM+ F G
Sbjct: 253 DLYDSISVTQ-AVIFCNTRRKVEELTTKLR-NDKFTVSAIYSDLPQQERDTIMKEFRSGS 310
Query: 433 VPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNEENKN 492
++++T +L RG+++ V VI +D+P + + Y+H+IGR + G +G AI FV E+
Sbjct: 311 SRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVG 370
Query: 493 LFQELVDILKSSGAGIPREL 512
+EL + +P ++
Sbjct: 371 AMRELEKFYSTQIEELPSDI 390
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 155 bits (391), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 112/393 (28%), Positives = 197/393 (50%), Gaps = 16/393 (4%)
Query: 131 PAPILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFL 190
P + F L +LL+ I G++ P+ VQ + IP A+ G +L A +G GKTA F+
Sbjct: 3 PGHMSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFV 62
Query: 191 VPVISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLP-FKTALVVGGDA 249
+ + Q + S +V+ TREL Q+ ++ + K +P K A+ GG +
Sbjct: 63 LATLQQLEPVTGQVS-------VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLS 115
Query: 250 MARQVYRIQQGV-ELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCML-QRGFRDQVMQ 307
+ + +++ ++VGTPGR++ L + L I+ F+LDE D ML Q R V +
Sbjct: 116 IKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQE 175
Query: 308 IFRAI-SLPQILMYSATISQEVEKM-XXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNK 365
IFR Q++M+SAT+S+E+ + + + ++Q + ++ N+
Sbjct: 176 IFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNE 235
Query: 366 KKQKLFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIM 425
K +KLFD+L + V++V S L+ + V A++IH P +ER
Sbjct: 236 KNRKLFDLLDVLEF--NQVVIFVKSVQRCIALAQLL-VEQNFPAIAIHRGMPQEERLSRY 292
Query: 426 RSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVF 485
+ F + ++VAT + GRG+++ V +DMP Y+H++ RA + G +G AI F
Sbjct: 293 QQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITF 352
Query: 486 VNEENK-NLFQELVDILKSSGAGIPRELINSRY 517
V++EN + ++ D + + + +P E+ S Y
Sbjct: 353 VSDENDAKILNDVQDRFEVNISELPDEIDISSY 385
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 154 bits (388), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 111/387 (28%), Positives = 195/387 (50%), Gaps = 16/387 (4%)
Query: 137 FSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQ 196
F L +LL+ I G++ P+ VQ + IP A+ G +L A +G GKTA F++ + Q
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 197 CANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLP-FKTALVVGGDAMARQVY 255
+ S +V+ TREL Q+ ++ + K +P K A+ GG ++ +
Sbjct: 70 LEPVTGQVS-------VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEE 122
Query: 256 RIQQGV-ELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCML-QRGFRDQVMQIFRAI- 312
+++ ++VGTPGR++ L + L I+ F+LDE D ML Q R V +IFR
Sbjct: 123 VLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTP 182
Query: 313 SLPQILMYSATISQEVEKMXXXXXXX-XXXXXXGKPNMPNKAVKQLAIWVESNKKKQKLF 371
Q++M+SAT+S+E+ + + + ++Q + ++ N+K +KLF
Sbjct: 183 HEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLF 242
Query: 372 DILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLVG 431
D+L + V++V S L+ + V A++IH P +ER + F
Sbjct: 243 DLLDVLEF--NQVVIFVKSVQRCIALAQLL-VEQNFPAIAIHRGMPQEERLSRYQQFKDF 299
Query: 432 EVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNEENK 491
+ ++VAT + GRG+++ V +DMP Y+H++ RA + G +G AI FV++EN
Sbjct: 300 QRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEND 359
Query: 492 -NLFQELVDILKSSGAGIPRELINSRY 517
+ ++ D + + + +P E+ S Y
Sbjct: 360 AKILNDVQDRFEVNISELPDEIDISSY 386
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 154 bits (388), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 106/351 (30%), Positives = 174/351 (49%), Gaps = 31/351 (8%)
Query: 142 LSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANIR 201
+++K+ Q I G+ T VQ + IP L GK+++V A TGSGKTA++ +P++
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILELGMK-- 58
Query: 202 LHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVYRIQQGV 261
++V+TPTREL QV + +G+ + K A V GG Q+ R++
Sbjct: 59 -----------SLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNA- 106
Query: 262 ELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAISLPQIL-MY 320
+++V TPGRL+DL K I+L + ++DE D M + GF D + I S +I ++
Sbjct: 107 DIVVATPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLF 166
Query: 321 SATISQEVEKMXXXXXXXXXXXXX--GKPNMPNKAVKQLAIWVESNKKKQKLFDILMSKQ 378
SATI +E+ K+ G N+ +K V W K Q L ++
Sbjct: 167 SATIPEEIRKVVKDFITNYEEIEACIGLANVEHKFVHVKDDW---RSKVQAL------RE 217
Query: 379 HFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLVGEVPVIVA 438
+ +V+V +R L A+ + G+ P R + +F GE +++
Sbjct: 218 NKDKGVIVFVRTRNRVAKLVRLFD-----NAIELRGDLPQSVRNRNIDAFREGEYDMLIT 272
Query: 439 TGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNEE 489
T + RG+++ V +VI FD P ++ Y+H+IGR +MG +G AI F+ E
Sbjct: 273 TDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILNE 323
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 153 bits (387), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 111/387 (28%), Positives = 195/387 (50%), Gaps = 16/387 (4%)
Query: 137 FSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQ 196
F L +LL+ I G++ P+ VQ + IP A+ G +L A +G GKTA F++ + Q
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 197 CANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLP-FKTALVVGGDAMARQVY 255
+ S +V+ TREL Q+ ++ + K +P K A+ GG ++ +
Sbjct: 70 LEPVTGQVS-------VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEE 122
Query: 256 RIQQGV-ELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCML-QRGFRDQVMQIFRAI- 312
+++ ++VGTPGR++ L + L I+ F+LDE D ML Q R V +IFR
Sbjct: 123 VLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTP 182
Query: 313 SLPQILMYSATISQEVEKMXXXXXXX-XXXXXXGKPNMPNKAVKQLAIWVESNKKKQKLF 371
Q++M+SAT+S+E+ + + + ++Q + ++ N+K +KLF
Sbjct: 183 HEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLF 242
Query: 372 DILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLVG 431
D+L + V++V S L+ + V A++IH P +ER + F
Sbjct: 243 DLLDVLEF--NQVVIFVKSVQRCIALAQLL-VEQNFPAIAIHRGMPQEERLSRYQQFKDF 299
Query: 432 EVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNEENK 491
+ ++VAT + GRG+++ V +DMP Y+H++ RA + G +G AI FV++EN
Sbjct: 300 QRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEND 359
Query: 492 -NLFQELVDILKSSGAGIPRELINSRY 517
+ ++ D + + + +P E+ S Y
Sbjct: 360 AKILNDVQDRFEVNISELPDEIDISSY 386
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 149 bits (375), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 102/384 (26%), Positives = 188/384 (48%), Gaps = 19/384 (4%)
Query: 134 ILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPV 193
+ F L + LL+ + G++ P+ +Q +AI + G +L A +G+GKT +F +
Sbjct: 20 VYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAA 79
Query: 194 ISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQ 253
+ + + K P A+ L PTREL +Q+++ L K +GG +
Sbjct: 80 LQRI-------DTSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVED 132
Query: 254 VYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAIS 313
++ +++VGTPGR+ D + + D I+ F+LDE D L GF++Q+ QIF +
Sbjct: 133 AEGLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLP 191
Query: 314 -LPQILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQK--- 369
Q+++ SAT +V ++ K + + +KQ + VE + K +
Sbjct: 192 PTTQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLT 251
Query: 370 -LFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSF 428
L+D + Q AV++ +R + L+ + +I+ + P +ER I + F
Sbjct: 252 DLYDSISVTQ-----AVIFCNTRRKVEELTTKLR-NDKFTVSAIYSDLPQQERDTIXKEF 305
Query: 429 LVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNE 488
G ++++T +L RG+++ V VI +D+P + + Y+H+IGR + G +G AI FV
Sbjct: 306 RSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTN 365
Query: 489 ENKNLFQELVDILKSSGAGIPREL 512
E+ +EL + +P ++
Sbjct: 366 EDVGAXRELEKFYSTQIEELPSDI 389
>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 = 147 bits (370), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 78/230 (33%), Positives = 121/230 (52%), Gaps = 7/230 (3%)
Query: 134 ILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPV 193
I +F L + NI A Y PTP+Q AIP+ L + ++ A TGSGKTA+FL+P+
Sbjct: 22 IENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPI 81
Query: 194 ISQ--CANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMA 251
I+ C ++ P ++L PTREL IQ+ +++ P ++ +V GG
Sbjct: 82 INHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTH 141
Query: 252 RQVYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRA 311
Q+ +Q G L+V TPGRL+D + K+ I L+ + VLDE D ML GF Q+ +I
Sbjct: 142 SQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEE 201
Query: 312 ISLP-----QILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQ 356
++P Q LM+SAT +E++K+ G+ + ++KQ
Sbjct: 202 SNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGSTSDSIKQ 251
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 142 bits (358), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 108/384 (28%), Positives = 196/384 (51%), Gaps = 33/384 (8%)
Query: 136 SFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSG--KSLLVSANTGSGKTASFLVPV 193
SF L+ +LL+ I A + P+ +Q +A+P L ++++ + +G+GKTA+F + +
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 194 ISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQ 253
+++ + +P A+ L P+REL Q E + +GK + L+V D+ +
Sbjct: 66 LTRV-------NPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVP-DSFEKN 117
Query: 254 VYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCML-QRGFRDQVMQIFRAI 312
Q ++IVGTPG ++DL+ + ++L I++FVLDE D ML Q+G DQ +++ R
Sbjct: 118 K---QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRF- 173
Query: 313 SLP---QILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQK 369
LP Q++++SAT + V + + A+KQL + ++ K
Sbjct: 174 -LPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADK-- 230
Query: 370 LFDILMSKQHFTP--PAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRS 427
FD+L ++++V ++ A++L + + G + +HG+ +ER ++
Sbjct: 231 -FDVLTELYGLMTIGSSIIFVATKKTANVLYGKLK-SEGHEVSILHGDLQTQERDRLIDD 288
Query: 428 FLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIK------EYVHQIGRASQMGDEGT 481
F G V++ T +L RG+++ V V+ +D+P Y+H+IGR + G +G
Sbjct: 289 FREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGV 348
Query: 482 AIVFVNEENKNLFQELVDILKSSG 505
AI FV++ KN F L I K G
Sbjct: 349 AISFVHD--KNSFNILSAIQKYFG 370
>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 = 142 bits (357), Expect = 6e-34, Method: Compositional matrix adjust.
Identities = 108/384 (28%), Positives = 196/384 (51%), Gaps = 33/384 (8%)
Query: 136 SFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSG--KSLLVSANTGSGKTASFLVPV 193
SF L+ +LL+ I A + P+ +Q +A+P L ++++ + +G+GKTA+F + +
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 194 ISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQ 253
+++ + +P A+ L P+REL Q E + +GK + L+V D+ +
Sbjct: 66 LTRV-------NPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVP-DSFEKN 117
Query: 254 VYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCML-QRGFRDQVMQIFRAI 312
Q ++IVGTPG ++DL+ + ++L I++FVLDE D ML Q+G DQ +++ R
Sbjct: 118 K---QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRF- 173
Query: 313 SLP---QILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQK 369
LP Q++++SAT + V + + A+KQL + ++ K
Sbjct: 174 -LPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADK-- 230
Query: 370 LFDILMSKQHFTP--PAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRS 427
FD+L ++++V ++ A++L + + G + +HG+ +ER ++
Sbjct: 231 -FDVLTELYGVMTIGSSIIFVATKKTANVLYGKLK-SEGHEVSILHGDLQTQERDRLIDD 288
Query: 428 FLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIK------EYVHQIGRASQMGDEGT 481
F G V++ T +L RG+++ V V+ +D+P Y+H+IGR + G +G
Sbjct: 289 FREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGV 348
Query: 482 AIVFVNEENKNLFQELVDILKSSG 505
AI FV++ KN F L I K G
Sbjct: 349 AISFVHD--KNSFNILSAIQKYFG 370
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 135 bits (341), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 83/247 (33%), Positives = 125/247 (50%), Gaps = 13/247 (5%)
Query: 89 PATDECFYVRESDENSGFQSLTIGQTDSLRKRLEINVKGDAVPAPILSFSSCSLSQKLLQ 148
P ++ FY E+ T + ++ R+ EI V+G P P+L+F + ++
Sbjct: 1 PKFEKNFY----QEHPDLARRTAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMD 56
Query: 149 NIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANIRLHHS--- 205
I + PT +Q Q P ALSG ++ A TGSGKT S+L+P I + ++H
Sbjct: 57 VIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAI-----VHINHQPFL 111
Query: 206 QNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVYRIQQGVELIV 265
+ P+ +VL PTREL QV++ A + K+ + GG Q+ +++GVE+ +
Sbjct: 112 ERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICI 171
Query: 266 GTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAISLP-QILMYSATI 324
TPGRLID L L VLDE D ML GF Q+ +I I Q LM+SAT
Sbjct: 172 ATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATW 231
Query: 325 SQEVEKM 331
+EV ++
Sbjct: 232 PKEVRQL 238
>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 = 133 bits (335), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 79/226 (34%), Positives = 118/226 (52%), Gaps = 9/226 (3%)
Query: 110 TIGQTDSLRKRLEINVKGDAVPAPILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSA 169
T + ++ R+ EI V+G P P+L+F + ++ I + PT +Q Q P A
Sbjct: 4 TAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVA 63
Query: 170 LSGKSLLVSANTGSGKTASFLVPVISQCANIRLHHS---QNQKNPLAMVLTPTRELCIQV 226
LSG ++ A TGSGKT S+L+P I + ++H + P+ +VL PTREL QV
Sbjct: 64 LSGLDMVGVAQTGSGKTLSYLLPAI-----VHINHQPFLERGDGPICLVLAPTRELAQQV 118
Query: 227 EEQAKLLGKGLPFKTALVVGGDAMARQVYRIQQGVELIVGTPGRLIDLLMKHDIELDDIR 286
++ A + K+ + GG Q+ +++GVE+ + TPGRLID L L
Sbjct: 119 QQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTT 178
Query: 287 MFVLDEVDCMLQRGFRDQVMQIFRAISLP-QILMYSATISQEVEKM 331
VLDE D ML GF Q+ +I I Q LM+SAT +EV ++
Sbjct: 179 YLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQL 224
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 130 bits (326), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 84/227 (37%), Positives = 131/227 (57%), Gaps = 20/227 (8%)
Query: 117 LRKRLEINVKGDAVPAPILSFSSC----SLSQKLLQNIEAAGYDMPTPVQMQAIPSALSG 172
LR + +I+V+G +P PI +F ++ +LLQNI AG+ MPTP+QMQAIP L G
Sbjct: 7 LRNKHKIHVQGTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHG 66
Query: 173 KSLLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKL 232
+ LL SA TGSGKT +F +P++ Q L N K A++++PTREL Q+ +
Sbjct: 67 RELLASAPTGSGKTLAFSIPILMQ-----LKQPAN-KGFRALIISPTRELASQIHRELIK 120
Query: 233 LGKGLPFKTALVVGGDAMARQV-YRIQQGVELIVGTPGRLIDLLMKHD---IELDDIRMF 288
+ +G F+ ++ A++ + + +++V TP RLI LL K D I+L +
Sbjct: 121 ISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLL-KQDPPGIDLASVEWL 179
Query: 289 VLDEVDCMLQ---RGFRDQVMQIFRAISLPQI--LMYSATISQEVEK 330
V+DE D + + GFRDQ+ IF A + ++ M+SAT + +VE+
Sbjct: 180 VVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQ 226
>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 = 129 bits (325), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 107/375 (28%), Positives = 186/375 (49%), Gaps = 36/375 (9%)
Query: 134 ILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSG--KSLLVSANTGSGKTASFLV 191
+ SF L +LLQ + A G++ P+ +Q A+P L+ ++L+ + +G+GKTA+F++
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 192 PVISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLP-FKTALVVGGDAM 250
++SQ K P + L+PT EL +Q + + +GK P K A V G+ +
Sbjct: 151 AMLSQV-------EPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKL 203
Query: 251 ARQVYRIQQGVELIVGTPGRLIDLLMKHD-IELDDIRMFVLDEVDCML-QRGFRDQVMQI 308
R +Q +++GTPG ++D K I+ I++FVLDE D M+ +G +DQ ++I
Sbjct: 204 ERGQKISEQ---IVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 260
Query: 309 FRAISLP---QILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNK 365
R LP Q+L++SAT V K + +KQ + S
Sbjct: 261 QRM--LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRD 318
Query: 366 KKQK----LFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKER 421
+K + L+ + Q A+++ +R A L+ +S G + + GE +++R
Sbjct: 319 EKFQALCNLYGAITIAQ-----AMIFCHTRKTASWLAAELS-KEGHQVALLSGEMMVEQR 372
Query: 422 REIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMP-----NSIKE-YVHQIGRASQ 475
++ F G+ V+V T + RG+++ V VI FD+P N E Y+H+IGR +
Sbjct: 373 AAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 432
Query: 476 MGDEGTAIVFVNEEN 490
G G A+ V+ ++
Sbjct: 433 FGKRGLAVNMVDSKH 447
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 129 bits (325), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 109/377 (28%), Positives = 190/377 (50%), Gaps = 40/377 (10%)
Query: 134 ILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSG--KSLLVSANTGSGKTASFLV 191
+ SF L +LLQ + A G++ P+ +Q A+P L+ ++L+ + +G+GKTA+F++
Sbjct: 40 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 99
Query: 192 PVISQC--ANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLP-FKTALVVGGD 248
++SQ AN K P + L+PT EL +Q + + +GK P K A V G+
Sbjct: 100 AMLSQVEPAN---------KYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN 150
Query: 249 AMARQVYRIQQGVELIVGTPGRLIDLLMKHD-IELDDIRMFVLDEVDCML-QRGFRDQVM 306
+ R +I + ++++GTPG ++D K I+ I++FVLDE D M+ +G +DQ +
Sbjct: 151 KLERG-QKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSI 207
Query: 307 QIFRAISLP---QILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVES 363
+I R LP Q+L++SAT V K + +KQ + S
Sbjct: 208 RIQRM--LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSS 265
Query: 364 NKKKQK----LFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMK 419
+K + L+ + Q A+++ +R A L+ +S G + + GE ++
Sbjct: 266 RDEKFQALCNLYGAITIAQ-----AMIFCHTRKTASWLAAELS-KEGHQVALLSGEMMVE 319
Query: 420 ERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMP-----NSIKE-YVHQIGRA 473
+R ++ F G+ V+V T + RG+++ V VI FD+P N E Y+H+IGR
Sbjct: 320 QRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRT 379
Query: 474 SQMGDEGTAIVFVNEEN 490
+ G G A+ V+ ++
Sbjct: 380 GRFGKRGLAVNMVDSKH 396
>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 = 129 bits (324), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 109/377 (28%), Positives = 188/377 (49%), Gaps = 40/377 (10%)
Query: 134 ILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSG--KSLLVSANTGSGKTASFLV 191
+ SF L +LLQ + A G++ P+ +Q A+P L+ ++L+ + +G+GKTA+F++
Sbjct: 61 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 120
Query: 192 PVISQC--ANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLP-FKTALVVGGD 248
++SQ AN K P + L+PT EL +Q + + +GK P K A V G+
Sbjct: 121 AMLSQVEPAN---------KYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN 171
Query: 249 AMARQVYRIQQGVELIVGTPGRLIDLLMKHD-IELDDIRMFVLDEVDCML-QRGFRDQVM 306
+ R +Q +++GTPG ++D K I+ I++FVLDE D M+ +G +DQ +
Sbjct: 172 KLERGQKISEQ---IVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSI 228
Query: 307 QIFRAISLP---QILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVES 363
+I R LP Q+L++SAT V K + +KQ + S
Sbjct: 229 RIQRM--LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSS 286
Query: 364 NKKKQK----LFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMK 419
+K + L+ + Q A+++ +R A L+ +S G + + GE ++
Sbjct: 287 RDEKFQALCNLYGAITIAQ-----AMIFCHTRKTASWLAAELS-KEGHQVALLSGEMMVE 340
Query: 420 ERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMP-----NSIKE-YVHQIGRA 473
+R ++ F G+ V+V T + RG+++ V VI FD+P N E Y+H+IGR
Sbjct: 341 QRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRT 400
Query: 474 SQMGDEGTAIVFVNEEN 490
+ G G A+ V+ ++
Sbjct: 401 GRFGKRGLAVNMVDSKH 417
>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 = 129 bits (324), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 107/375 (28%), Positives = 186/375 (49%), Gaps = 36/375 (9%)
Query: 134 ILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSG--KSLLVSANTGSGKTASFLV 191
+ SF L +LLQ + A G++ P+ +Q A+P L+ ++L+ + +G+GKTA+F++
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 192 PVISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLP-FKTALVVGGDAM 250
++SQ K P + L+PT EL +Q + + +GK P K A V G+ +
Sbjct: 84 AMLSQV-------EPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKL 136
Query: 251 ARQVYRIQQGVELIVGTPGRLIDLLMKHD-IELDDIRMFVLDEVDCML-QRGFRDQVMQI 308
R +Q +++GTPG ++D K I+ I++FVLDE D M+ +G +DQ ++I
Sbjct: 137 ERGQKISEQ---IVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 193
Query: 309 FRAISLP---QILMYSATISQEVEKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNK 365
R LP Q+L++SAT V K + +KQ + S
Sbjct: 194 QRM--LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRD 251
Query: 366 KKQK----LFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKER 421
+K + L+ + Q A+++ +R A L+ +S G + + GE +++R
Sbjct: 252 EKFQALCNLYGAITIAQ-----AMIFCHTRKTASWLAAELS-KEGHQVALLSGEMMVEQR 305
Query: 422 REIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMP-----NSIKE-YVHQIGRASQ 475
++ F G+ V+V T + RG+++ V VI FD+P N E Y+H+IGR +
Sbjct: 306 AAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 365
Query: 476 MGDEGTAIVFVNEEN 490
G G A+ V+ ++
Sbjct: 366 FGKRGLAVNMVDSKH 380
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 125 bits (315), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 99/354 (27%), Positives = 180/354 (50%), Gaps = 35/354 (9%)
Query: 161 VQMQAIPSALSG--KSLLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVLTP 218
+Q +A+P LS ++++ + +G+GKTA+F + ++S+ + P A+ L P
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRV-------DASVPKPQAICLAP 197
Query: 219 TRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVYRIQQGVELIVGTPGRLIDLLMKH 278
+REL Q+ + +GK KTA + D++ + + ++++GTPG ++DL+ +
Sbjct: 198 SRELARQIMDVVTEMGKYTEVKTAFGIK-DSVPKGA---KIDAQIVIGTPGTVMDLMKRR 253
Query: 279 DIELDDIRMFVLDEVDCML-QRGFRDQVMQIFRAISL-PQILMYSATISQEVEKMXXXXX 336
++ DI++FVLDE D ML Q+G DQ M+I + QI+++SAT S+ VEK
Sbjct: 254 QLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFA 313
Query: 337 XXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQ----KLFDILMSKQHFTPPAVVYVGSRL 392
+ + +KQL + +S + K +L+ +L Q ++++ +
Sbjct: 314 PNANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQ-----SIIFCKKKD 368
Query: 393 GADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVR 452
A+ ++ ++ G + G +R IM SF VG V+V T ++ RG+++ V
Sbjct: 369 TAEEIARRMT-ADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVN 427
Query: 453 QVIIFDMP------NSIKEYVHQIGRASQMGDEGTAIVFVNE----ENKNLFQE 496
V+ +DMP + Y+H+IGR + G G +I FV++ E N QE
Sbjct: 428 LVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDKKSWEEMNAIQE 481
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 119 bits (298), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 66/195 (33%), Positives = 115/195 (58%), Gaps = 9/195 (4%)
Query: 136 SFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVIS 195
+F +L + LL+ I A G++ P+ +Q +AI + G ++ A +G+GKTA+F + ++
Sbjct: 31 NFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQ 90
Query: 196 QCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVY 255
Q I +Q A+VL PTREL Q+++ LG + +GG + ++
Sbjct: 91 QL-EIEFKETQ------ALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQ 143
Query: 256 RIQ-QGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAISL 314
++Q + ++VGTPGR+ D+L + + I+MFVLDE D ML RGF+DQ+ +IF+ ++
Sbjct: 144 KLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNT 203
Query: 315 P-QILMYSATISQEV 328
Q+++ SAT+ +V
Sbjct: 204 SIQVVLLSATMPTDV 218
>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 = 118 bits (295), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 70/199 (35%), Positives = 108/199 (54%), Gaps = 9/199 (4%)
Query: 135 LSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVI 194
+ F L ++L+ + G PTP+Q A+P AL GK L+ A TG+GKT +F +P+
Sbjct: 1 MEFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIA 60
Query: 195 SQCANIRLHHSQNQ-KNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQ 253
RL SQ + + P A+VLTPTREL +QV + + L K V GG +Q
Sbjct: 61 E-----RLAPSQERGRKPRALVLTPTRELALQVASELTAVAPHL--KVVAVYGGTGYGKQ 113
Query: 254 VYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAIS 313
+ +G + +V TPGR +D L + ++L + + VLDE D ML GF ++V + A
Sbjct: 114 KEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATP 173
Query: 314 LP-QILMYSATISQEVEKM 331
Q L++SAT+ +++
Sbjct: 174 PSRQTLLFSATLPSWAKRL 192
>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 = 117 bits (292), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 69/199 (34%), Positives = 108/199 (54%), Gaps = 9/199 (4%)
Query: 135 LSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVI 194
+ F L ++L+ + G PTP++ A+P AL GK L+ A TG+GKT +F +P+
Sbjct: 1 MEFKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIA 60
Query: 195 SQCANIRLHHSQNQ-KNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQ 253
RL SQ + + P A+VLTPTREL +QV + + L K V GG +Q
Sbjct: 61 E-----RLAPSQERGRKPRALVLTPTRELALQVASELTAVAPHL--KVVAVYGGTGYGKQ 113
Query: 254 VYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAIS 313
+ +G + +V TPGR +D L + ++L + + VLDE D ML GF ++V + A
Sbjct: 114 KEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATP 173
Query: 314 LP-QILMYSATISQEVEKM 331
Q L++SAT+ +++
Sbjct: 174 PSRQTLLFSATLPSWAKRL 192
>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 = 115 bits (288), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 71/195 (36%), Positives = 110/195 (56%), Gaps = 9/195 (4%)
Query: 136 SFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVIS 195
SF +LS+ LL+ I A G++ P+ +Q +AI + G ++ A +G+G TA+F + ++
Sbjct: 16 SFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQ 75
Query: 196 QCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVY 255
Q I L Q A+VL PTREL Q++ LG + +GG + +V
Sbjct: 76 Q---IELDLXATQ----ALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQ 128
Query: 256 RIQ-QGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAI-S 313
+Q + +IVGTPGR+ D+L + + I MFVLDE D ML RGF DQ+ IF+ + S
Sbjct: 129 XLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNS 188
Query: 314 LPQILMYSATISQEV 328
Q+++ SAT+ +V
Sbjct: 189 NTQVVLLSATMPSDV 203
>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 = 115 bits (287), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 60/166 (36%), Positives = 99/166 (59%), Gaps = 6/166 (3%)
Query: 354 VKQLAIWVESNKKKQKLFDILMS--KQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALS 411
+ Q +WVE + K+ L D+L + K T +V+V ++ GAD L + + G S
Sbjct: 20 ITQKVVWVEESDKRSFLLDLLNATGKDSLT---LVFVETKKGADSLEDFL-YHEGYACTS 75
Query: 412 IHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIG 471
IHG++ ++R E + F G+ P++VAT + RG+++ V+ VI FD+P+ I+EYVH+IG
Sbjct: 76 IHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIG 135
Query: 472 RASQMGDEGTAIVFVNEENKNLFQELVDILKSSGAGIPRELINSRY 517
R ++G+ G A F NE N N+ ++L+D+L + +P L N Y
Sbjct: 136 RTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENMAY 181
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 114 bits (286), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 98/372 (26%), Positives = 174/372 (46%), Gaps = 39/372 (10%)
Query: 159 TPVQMQAIPSALSGKS--LLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVL 216
TPVQ + I LS + ++ A TG+GKT +FL+P+ N + +Q A+++
Sbjct: 45 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKF---DSQYMVKAVIV 101
Query: 217 TPTRELCIQVEEQAKL---LGKGL-PFKTALVVGGDAMARQVYRIQQ-GVELIVGTPGRL 271
PTR+L +Q+E + K + GL + +VGG + ++ + +++ TPGRL
Sbjct: 102 APTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRL 161
Query: 272 IDLLMKHDIELDDIRMF-VLDEVDCMLQRGFRDQVMQI--------FRAISLPQILMYSA 322
ID+L K+ + + VLDE D +L+ GFRD + I ++ + L++SA
Sbjct: 162 IDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSA 221
Query: 323 TISQEVEK-----MXXXXXXXXXXXXXGKPN----------MPNKAVKQLAIWVESNKKK 367
T+ +V+K M +P + K + VE KK+
Sbjct: 222 TLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQ 281
Query: 368 QKLFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRS 427
K D F P V S L + +L N + L HG+ +R +++
Sbjct: 282 IKERDSNYKAIIFAP--TVKFTSFLCS-ILKNEFK--KDLPILEFHGKITQNKRTSLVKR 336
Query: 428 FLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVN 487
F E ++V T + RG++ V +V+ +P+ + Y+H+IGR ++ G EG++++F+
Sbjct: 337 FKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFIC 396
Query: 488 EENKNLFQELVD 499
++ +EL D
Sbjct: 397 KDELPFVRELED 408
>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 = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 68/199 (34%), Positives = 113/199 (56%), Gaps = 13/199 (6%)
Query: 137 FSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQ 196
F L ++LL I G++ P+P+Q ++IP ALSG+ +L A G+GK+ ++L+P++ +
Sbjct: 5 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLER 64
Query: 197 CANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGL-PFKTALVVGGDAMARQVY 255
+ N AMV+ PTREL +QV + + K + K GG + +
Sbjct: 65 L-------DLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIM 117
Query: 256 RIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAISLP 315
R+ V +++ TPGR++DL+ K ++D ++M VLDE D +L + F Q+M+ ++LP
Sbjct: 118 RLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFV-QIMEDI-ILTLP 175
Query: 316 ---QILMYSATISQEVEKM 331
QIL+YSAT V+K
Sbjct: 176 KNRQILLYSATFPLSVQKF 194
>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 = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 98/372 (26%), Positives = 174/372 (46%), Gaps = 39/372 (10%)
Query: 159 TPVQMQAIPSALSGKS--LLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVL 216
TPVQ + I LS + ++ A TG+GKT +FL+P+ N + +Q A+++
Sbjct: 96 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKF---DSQYMVKAVIV 152
Query: 217 TPTRELCIQVEEQAKL---LGKGL-PFKTALVVGGDAMARQVYRIQQ-GVELIVGTPGRL 271
PTR+L +Q+E + K + GL + +VGG + ++ + +++ TPGRL
Sbjct: 153 APTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRL 212
Query: 272 IDLLMKHDIELDDIRMF-VLDEVDCMLQRGFRDQVMQI--------FRAISLPQILMYSA 322
ID+L K+ + + VLDE D +L+ GFRD + I ++ + L++SA
Sbjct: 213 IDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSA 272
Query: 323 TISQEVEK-----MXXXXXXXXXXXXXGKPN----------MPNKAVKQLAIWVESNKKK 367
T+ +V+K M +P + K + VE KK+
Sbjct: 273 TLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQ 332
Query: 368 QKLFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRS 427
K D F P V S L + +L N + L HG+ +R +++
Sbjct: 333 IKERDSNYKAIIFAP--TVKFTSFLCS-ILKNEFK--KDLPILEFHGKITQNKRTSLVKR 387
Query: 428 FLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVN 487
F E ++V T + RG++ V +V+ +P+ + Y+H+IGR ++ G EG++++F+
Sbjct: 388 FKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFIC 447
Query: 488 EENKNLFQELVD 499
++ +EL D
Sbjct: 448 KDELPFVRELED 459
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 113 bits (282), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 98/372 (26%), Positives = 174/372 (46%), Gaps = 39/372 (10%)
Query: 159 TPVQMQAIPSALSGKS--LLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVL 216
TPVQ + I LS + ++ A TG+GKT +FL+P+ N + +Q A+++
Sbjct: 45 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKF---DSQYMVKAVIV 101
Query: 217 TPTRELCIQVEEQAKL---LGKGL-PFKTALVVGGDAMARQVYRIQQ-GVELIVGTPGRL 271
PTR+L +Q+E + K + GL + +VGG + ++ + +++ TPGRL
Sbjct: 102 APTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRL 161
Query: 272 IDLLMKHDIELDDIRMF-VLDEVDCMLQRGFRDQVMQI--------FRAISLPQILMYSA 322
ID+L K+ + + VLDE D +L+ GFRD + I ++ + L++SA
Sbjct: 162 IDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSA 221
Query: 323 TISQEVEK-----MXXXXXXXXXXXXXGKPN----------MPNKAVKQLAIWVESNKKK 367
T+ +V+K M +P + K + VE KK+
Sbjct: 222 TLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQ 281
Query: 368 QKLFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRS 427
K D F P V S L + +L N + L HG+ +R +++
Sbjct: 282 IKERDSNYKAIIFAP--TVKFTSFLCS-ILKNEFK--KDLPILEFHGKITQNKRTSLVKR 336
Query: 428 FLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVN 487
F E ++V T + RG++ V +V+ +P+ + Y+H+IGR ++ G EG++++F+
Sbjct: 337 FKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFIC 396
Query: 488 EENKNLFQELVD 499
++ +EL D
Sbjct: 397 KDELPFVRELED 408
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 112 bits (279), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 67/198 (33%), Positives = 111/198 (56%), Gaps = 9/198 (4%)
Query: 136 SFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVIS 195
+F ++ L + + G+ PT +Q++AIP AL G+ ++ A TGSGKT +F +P++
Sbjct: 44 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPIL- 102
Query: 196 QCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVY 255
N L Q A+VLTPTREL Q+ EQ + LG + ++A++VGG Q
Sbjct: 103 ---NALLETPQRL---FALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSL 156
Query: 256 RIQQGVELIVGTPGRLIDLLMK-HDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAISL 314
+ + +I+ TPGRLID L L ++ V+DE D +L F +V +I + I
Sbjct: 157 ALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPR 216
Query: 315 P-QILMYSATISQEVEKM 331
+ ++SAT++++V+K+
Sbjct: 217 DRKTFLFSATMTKKVQKL 234
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 110 bits (276), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 59/196 (30%), Positives = 106/196 (54%), Gaps = 9/196 (4%)
Query: 134 ILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPV 193
+ F L ++LL+ + G++ P+ +Q +AI + G +L A +G+GKT +F +
Sbjct: 20 VYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 79
Query: 194 ISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQ 253
+ + + K P A++L PTREL +Q+++ L + K +GG +
Sbjct: 80 LQRI-------DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVED 132
Query: 254 VYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAI- 312
++ +++VGTPGR+ D + + D I+MF+LDE D ML GF++Q+ QIF +
Sbjct: 133 AEGLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLP 191
Query: 313 SLPQILMYSATISQEV 328
Q+++ SAT+ +V
Sbjct: 192 PTTQVVLLSATMPNDV 207
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 110 bits (275), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 70/202 (34%), Positives = 111/202 (54%), Gaps = 10/202 (4%)
Query: 134 ILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPV 193
I FS LS+K L+ ++ A Y + T +Q Q I AL GK +L +A TGSGKT +FLVPV
Sbjct: 24 ITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPV 83
Query: 194 ISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQ 253
+ ++ + ++++PTREL Q E + +GK F L++GG + +
Sbjct: 84 LEALYRLQWTSTDGLG---VLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHE 140
Query: 254 VYRIQQGVELIVGTPGRLIDLLMKH-DIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAI 312
RI + ++V TPGRL+ + + D++M VLDE D +L GF D + +
Sbjct: 141 AERI-NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIE-- 197
Query: 313 SLP---QILMYSATISQEVEKM 331
+LP Q L++SAT ++ V+ +
Sbjct: 198 NLPKKRQTLLFSATQTKSVKDL 219
>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 = 110 bits (275), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 59/196 (30%), Positives = 105/196 (53%), Gaps = 9/196 (4%)
Query: 134 ILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPV 193
+ F L + LL+ + G++ P+ +Q +AI + G +L A +G+GKT +F +
Sbjct: 13 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 72
Query: 194 ISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQ 253
+ + + K P A++L PTREL +Q+++ L + K +GG +
Sbjct: 73 LQRI-------DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVED 125
Query: 254 VYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAI- 312
++ +++VGTPGR+ D + + D I+MF+LDE D ML GF++Q+ QIF +
Sbjct: 126 AEGLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLP 184
Query: 313 SLPQILMYSATISQEV 328
Q+++ SAT+ +V
Sbjct: 185 PTTQVVLLSATMPNDV 200
>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 = 109 bits (273), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 79/206 (38%), Positives = 110/206 (53%), Gaps = 8/206 (3%)
Query: 130 VPAPILSFSSC-SLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTAS 188
+P P F LL++I G PTP+Q QA P L G L+V A TG+GKT S
Sbjct: 14 IPKPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLS 73
Query: 189 FLVPVISQCANIRLHHSQNQKN-PLAMVLTPTRELCIQVE-EQAKLLGKGLPFKTALVVG 246
+L+P + + S+ Q+N P +VLTPTREL + VE E +K KGL K+ + G
Sbjct: 74 YLMPGFIHLDSQPI--SREQRNGPGMLVLTPTRELALHVEAECSKYSYKGL--KSICIYG 129
Query: 247 GDAMARQVYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVM 306
G Q+ I +GV++I+ TPGRL DL M + + L I V+DE D ML F Q+
Sbjct: 130 GRNRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIR 189
Query: 307 QIFRAISLP-QILMYSATISQEVEKM 331
+I + Q +M SAT V ++
Sbjct: 190 KILLDVRPDRQTVMTSATWPDTVRQL 215
>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 = 101 bits (251), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 68/209 (32%), Positives = 110/209 (52%), Gaps = 11/209 (5%)
Query: 124 NVKGDAVPAPILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGS 183
+VKG V F L +LL+ I G++ P+ VQ + IP A+ G +L A +G
Sbjct: 3 DVKGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGM 62
Query: 184 GKTASFLVPVISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLP-FKTA 242
GKTA F++ + Q + S +V+ TREL Q+ ++ + K +P K A
Sbjct: 63 GKTAVFVLATLQQLEPVTGQVS-------VLVMCHTRELAFQISKEYERFSKYMPNVKVA 115
Query: 243 LVVGGDAMARQVYRIQQGV-ELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCML-QRG 300
+ GG ++ + +++ ++VGTPGR++ L + L I+ F+LDE D ML Q
Sbjct: 116 VFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLD 175
Query: 301 FRDQVMQIFRAISL-PQILMYSATISQEV 328
R V +IFR Q++M+SAT+S+E+
Sbjct: 176 MRRDVQEIFRMTPHEKQVMMFSATLSKEI 204
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 98.2 bits (243), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 62/200 (31%), Positives = 110/200 (55%), Gaps = 7/200 (3%)
Query: 136 SFSS-CSL-SQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPV 193
SF+S C+L ++ L+ I+ G+ T +Q ++I L G+ LL +A TGSGKT +FL+P
Sbjct: 53 SFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPA 112
Query: 194 ISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQ 253
+ +R ++L+PTREL +Q K L L++GG + +
Sbjct: 113 VELIVKLRFMPRNGTG---VLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAE 169
Query: 254 VYRIQQGVELIVGTPGRLIDLLMKH-DIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAI 312
++ G+ +IV TPGRL+D + +++ V+DE D +L GF +++ QI + +
Sbjct: 170 AQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLL 229
Query: 313 -SLPQILMYSATISQEVEKM 331
+ Q +++SAT +++VE +
Sbjct: 230 PTRRQTMLFSATQTRKVEDL 249
>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 = 95.1 bits (235), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 66/202 (32%), Positives = 112/202 (55%), Gaps = 15/202 (7%)
Query: 127 GDAVPAPILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKT 186
GD + A F S LS+ +L+ + AAG++ P+PVQ++AIP G L+V A +G+GKT
Sbjct: 16 GDVLLAEPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKT 75
Query: 187 ASFLVPVISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLG-KGLPFKTALVV 245
F + ++ L + Q ++L PTRE+ +Q+ +G K + + +
Sbjct: 76 CVFSTIALD---SLVLENLSTQ----ILILAPTREIAVQIHSVITAIGIKMEGLECHVFI 128
Query: 246 GGDAMARQVYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRG-FRDQ 304
GG +++ R+++ + VG+PGR+ L+ + IR+F+LDE D +L+ G F++Q
Sbjct: 129 GGTPLSQDKTRLKK-CHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQ 187
Query: 305 VMQIFRAISLP---QILMYSAT 323
+ I+ SLP Q+L SAT
Sbjct: 188 INWIYS--SLPASKQMLAVSAT 207
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 93.6 bits (231), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 68/206 (33%), Positives = 115/206 (55%), Gaps = 20/206 (9%)
Query: 134 ILSFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALS--GKSLLVSANTGSGKTASFLV 191
+ SF L +LLQ + A G++ P+ +Q A+P L+ ++L+ + +G+GKTA+F++
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 192 PVISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLP-FKTALVVGGDAM 250
++SQ K P + L+PT EL +Q + + +GK P K A V G+ +
Sbjct: 151 AMLSQV-------EPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKL 203
Query: 251 ARQVYRIQQGVELIVGTPGRLIDLLMKHD-IELDDIRMFVLDEVDCML-QRGFRDQVMQI 308
R +I + ++++GTPG ++D K I+ I++FVLDE D M+ +G +DQ ++I
Sbjct: 204 ERG-QKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 260
Query: 309 FRAISLP---QILMYSATISQEVEKM 331
R LP Q+L++SAT V K
Sbjct: 261 QRM--LPRNCQMLLFSATFEDSVWKF 284
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 92.8 bits (229), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 68/204 (33%), Positives = 114/204 (55%), Gaps = 20/204 (9%)
Query: 136 SFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALS--GKSLLVSANTGSGKTASFLVPV 193
SF L +LLQ + A G++ P+ +Q A+P L+ ++L+ + +G+GKTA+F++ +
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 85
Query: 194 ISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLP-FKTALVVGGDAMAR 252
+SQ K P + L+PT EL +Q + + +GK P K A V G+ + R
Sbjct: 86 LSQV-------EPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLER 138
Query: 253 QVYRIQQGVELIVGTPGRLIDLLMKHD-IELDDIRMFVLDEVDCML-QRGFRDQVMQIFR 310
+I + ++++GTPG ++D K I+ I++FVLDE D M+ +G +DQ ++I R
Sbjct: 139 G-QKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQR 195
Query: 311 AISLP---QILMYSATISQEVEKM 331
LP Q+L++SAT V K
Sbjct: 196 M--LPRNCQMLLFSATFEDSVWKF 217
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 90.5 bits (223), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 63/201 (31%), Positives = 114/201 (56%), Gaps = 19/201 (9%)
Query: 136 SFSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSG--KSLLVSANTGSGKTASFLVPV 193
SF L+ +LL+ I A + P+ +Q +A+P L ++++ + +G+GKTA+F + +
Sbjct: 23 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 82
Query: 194 ISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQ 253
+++ + +P A+ L P+REL Q E + +GK + L+V D+ +
Sbjct: 83 LTRV-------NPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVP-DSFEKN 134
Query: 254 VYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCML-QRGFRDQVMQIFRAI 312
Q ++IVGTPG ++DL+ + ++L I++FVLDE D ML Q+G DQ +++ R
Sbjct: 135 K---QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRF- 190
Query: 313 SLP---QILMYSATISQEVEK 330
LP Q++++SAT + V +
Sbjct: 191 -LPKDTQLVLFSATFADAVRQ 210
>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 = 85.5 bits (210), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 56/200 (28%), Positives = 104/200 (52%), Gaps = 16/200 (8%)
Query: 137 FSSCSLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQ 196
F+ +++ I+ + PT +Q + IP AL G+S + + TG+GKT ++L+P+ +
Sbjct: 6 FTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEK 65
Query: 197 CANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALV----VGGDAMAR 252
I+ ++ Q A++ PTREL Q+ + + K P +V +GG +
Sbjct: 66 ---IKPERAEVQ----AVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQK 118
Query: 253 QVYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAI 312
+ ++ +++GTPGR+ D + + +++ + V+DE D L GF V QI A
Sbjct: 119 ALEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQI--AA 176
Query: 313 SLP---QILMYSATISQEVE 329
P Q L++SATI ++++
Sbjct: 177 RXPKDLQXLVFSATIPEKLK 196
>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 = 82.0 bits (201), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 44/150 (29%), Positives = 85/150 (56%), Gaps = 2/150 (1%)
Query: 361 VESNKKKQKLFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKE 420
VE K++ K+ +L Q PP +++ + D + + + G++A++IHG K +E
Sbjct: 34 VEYVKEEAKMVYLLECLQKTPPPVLIFAEKKADVDAIHEYL-LLKGVEAVAIHGGKDQEE 92
Query: 421 RREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEG 480
R + + +F G+ V+VAT + +G++ ++ VI +DMP I+ YVH+IGR G+ G
Sbjct: 93 RTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTG 152
Query: 481 TAIVFVNEE-NKNLFQELVDILKSSGAGIP 509
A F+N+ ++++ +L +L + +P
Sbjct: 153 IATTFINKACDESVLMDLKALLLEAKQKVP 182
>pdb|2YQP|A Chain A, Solution Structure Of The Zf-Hit Domain In Dead
(Asp-Glu- Ala-Asp) Box Polypeptide 59
Length = 60
Score = 73.6 bits (179), Expect = 3e-13, Method: Composition-based stats.
Identities = 32/44 (72%), Positives = 36/44 (81%)
Query: 27 KDQREALPEEPKCVICGRYGEYICDETDDDVCSLECKQKLLCRV 70
K QR A P EP CV+CGRYGEYICD+TD+DVCSLECK K L +V
Sbjct: 10 KTQRWAEPGEPICVVCGRYGEYICDKTDEDVCSLECKAKHLLQV 53
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 47/166 (28%), Positives = 87/166 (52%), Gaps = 4/166 (2%)
Query: 353 AVKQLAIWVESNKKKQKLFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSI 412
++Q + ++ N+K +KLFD+L + V++V S L+ + V A++I
Sbjct: 5 GLQQYYVKLKDNEKNRKLFDLLDVLEF--NQVVIFVKSVQRCIALAQLL-VEQNFPAIAI 61
Query: 413 HGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGR 472
H P +ER + F + ++VAT + GRG+++ V +DMP Y+H++ R
Sbjct: 62 HRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVAR 121
Query: 473 ASQMGDEGTAIVFVNEENK-NLFQELVDILKSSGAGIPRELINSRY 517
A + G +G AI FV++EN + ++ D + + + +P E+ S Y
Sbjct: 122 AGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEIDISSY 167
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 65.9 bits (159), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 80/368 (21%), Positives = 149/368 (40%), Gaps = 58/368 (15%)
Query: 141 SLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANI 200
S ++++LQ E GY P Q + I + LSG+ LV TG GK+ + +P +
Sbjct: 11 SGAKQVLQ--ETFGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALL----- 63
Query: 201 RLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVYRIQQG 260
N L +V++P + + ++ +L G+ A + Q + G
Sbjct: 64 --------LNGLTVVVSPL--ISLXKDQVDQLQANGV---AAACLNSTQTREQQLEVXTG 110
Query: 261 -----VELIVGTPGRL-IDLLMKHDIELDDIRMFVLDEVDCMLQRG--FR------DQVM 306
+ L+ P RL +D ++H + + + +DE C+ Q G FR Q+
Sbjct: 111 CRTGQIRLLYIAPERLXLDNFLEHLAHWNPV-LLAVDEAHCISQWGHDFRPEYAALGQLR 169
Query: 307 QIFRAISLPQILMYSA-TISQEVEKMXXXXXXXXXXXXXGKPNMPN------KAVKQLAI 359
Q F + + + T Q++ ++ +PN+ K + QL
Sbjct: 170 QRFPTLPFXALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYXLXEKFKPLDQLXR 229
Query: 360 WVESNKKKQKLFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMK 419
+V+ + K ++Y SR + + + + G+ A + H
Sbjct: 230 YVQEQRGKS---------------GIIYCNSRAKVEDTAARLQ-SKGISAAAYHAGLENN 273
Query: 420 ERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDE 479
R ++ F ++ ++VAT G G+ VR V+ FD+P +I+ Y + GRA + G
Sbjct: 274 VRADVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLP 333
Query: 480 GTAIVFVN 487
A +F +
Sbjct: 334 AEAXLFYD 341
>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 = 65.5 bits (158), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 43/162 (26%), Positives = 78/162 (48%), Gaps = 6/162 (3%)
Query: 349 MPNKAVKQLAIWVESNKKKQKLFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMK 408
+ + ++ I V K L D+LM++ +++ ++ + L++ + G
Sbjct: 5 LTTRNIEHAVIQVREENKFSLLKDVLMTEN--PDSCIIFCRTKEHVNQLTDELD-DLGYP 61
Query: 409 ALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVH 468
IHG ++R ++M F GE +VAT + RG+++ + VI +D+P + YVH
Sbjct: 62 CDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVH 121
Query: 469 QIGRASQMGDEGTAIVFVNEENKNLFQELVDILKSSGAGIPR 510
+ GR + G++G AI FV K L DI + G I +
Sbjct: 122 RTGRTGRAGNKGKAISFVTAFEKRF---LADIEEYIGFEIQK 160
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 65.1 bits (157), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 80/368 (21%), Positives = 152/368 (41%), Gaps = 58/368 (15%)
Query: 141 SLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANI 200
S ++++LQ E GY P Q + I + LSG+ LV TG GK+ + +P +
Sbjct: 11 SGAKQVLQ--ETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALL----- 63
Query: 201 RLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVYRIQQG 260
N L +V++P + + ++ +L G+ A + Q + G
Sbjct: 64 --------LNGLTVVVSPL--ISLMKDQVDQLQANGV---AAACLNSTQTREQQLEVMTG 110
Query: 261 -----VELIVGTPGRL-IDLLMKHDIELDDIRMFVLDEVDCMLQRG--FRDQVMQIF--- 309
+ L+ P RL +D ++H + + + +DE C+ Q G FR + +
Sbjct: 111 CRTGQIRLLYIAPERLMLDNFLEHLAHWNPV-LLAVDEAHCISQWGHDFRPEYAALGQLR 169
Query: 310 -RAISLPQILMYSA---TISQEVEKMXXXXXXXXXXXXXGKPNMPN------KAVKQLAI 359
R +LP + + + T Q++ ++ +PN+ K + QL
Sbjct: 170 QRFPTLPFMALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYMLMEKFKPLDQLMR 229
Query: 360 WVESNKKKQKLFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMK 419
+V+ + K ++Y SR + + + + G+ A + H
Sbjct: 230 YVQEQRGKS---------------GIIYCNSRAKVEDTAARLQ-SKGISAAAYHAGLENN 273
Query: 420 ERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDE 479
R ++ F ++ ++VAT G G+ VR V+ FD+P +I+ Y + GRA + G
Sbjct: 274 VRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLP 333
Query: 480 GTAIVFVN 487
A++F +
Sbjct: 334 AEAMLFYD 341
>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 = 64.3 bits (155), Expect = 2e-10, Method: Composition-based stats.
Identities = 39/118 (33%), Positives = 60/118 (50%), Gaps = 1/118 (0%)
Query: 377 KQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLVGEVPVI 436
KQ ++V+V R L+N + G+ + GE +R E ++ G V V+
Sbjct: 26 KQPEATRSIVFVRKRERVHELANWLR-EAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVL 84
Query: 437 VATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNEENKNLF 494
VAT + RG+++ V V FDMP S Y+H+IGR ++ G +GTAI V + L
Sbjct: 85 VATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVEAHDHLLL 142
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 45/161 (27%), Positives = 81/161 (50%), Gaps = 14/161 (8%)
Query: 353 AVKQLAIWVESNKKKQKLFDILMSKQHFTP--PAVVYVGSRLGADLLSNAISVTTGMKAL 410
A+KQL + ++ K FD+L ++++V ++ A++L + + G +
Sbjct: 8 AIKQLYMDCKNEADK---FDVLTELYGLMTIGSSIIFVATKKTANVLYGKLK-SEGHEVS 63
Query: 411 SIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIK------ 464
+HG+ +ER ++ F G V++ T +L RG+++ V V+ +D+P
Sbjct: 64 ILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPA 123
Query: 465 EYVHQIGRASQMGDEGTAIVFVNEENKNLFQELVDILKSSG 505
Y+H+IGR + G +G AI FV++ KN F L I K G
Sbjct: 124 TYIHRIGRTGRFGRKGVAISFVHD--KNSFNILSAIQKYFG 162
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 48/170 (28%), Positives = 83/170 (48%), Gaps = 15/170 (8%)
Query: 345 GKPNMPN-KAVKQLAIWVESNKKKQKLFDILMSKQHFTP--PAVVYVGSRLGADLLSNAI 401
G N N A+KQL ++ K FD+L ++++V ++ A++L +
Sbjct: 1 GATNEVNVDAIKQLYXDCKNEADK---FDVLTELYGLXTIGSSIIFVATKKTANVLYGKL 57
Query: 402 SVTTGMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPN 461
+ G + +HG+ +ER ++ F G V++ T +L RG+++ V V+ +D+P
Sbjct: 58 K-SEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPT 116
Query: 462 SIK------EYVHQIGRASQMGDEGTAIVFVNEENKNLFQELVDILKSSG 505
Y+H+IGR + G +G AI FV++ KN F L I K G
Sbjct: 117 LANGQADPATYIHRIGRTGRFGRKGVAISFVHD--KNSFNILSAIQKYFG 164
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 42/166 (25%), Positives = 76/166 (45%), Gaps = 3/166 (1%)
Query: 352 KAVKQLAIWVESNKKKQKLFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALS 411
K V Q +V + ++K + L S+ ++++ S +LL+ IS G
Sbjct: 17 KGVTQYYAYV-TERQKVHCLNTLFSRLQINQ-SIIFCNSSQRVELLAKKIS-QLGYSCFY 73
Query: 412 IHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIG 471
IH + + R + F G +V T + RG+++ V VI FD P + Y+H+IG
Sbjct: 74 IHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIG 133
Query: 472 RASQMGDEGTAIVFVNEENKNLFQELVDILKSSGAGIPRELINSRY 517
R+ + G G AI + +++ + + + L + IP + S Y
Sbjct: 134 RSGRFGHLGLAINLITYDDRFNLKSIEEQLGTEIKPIPSNIDKSLY 179
>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 = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 45/161 (27%), Positives = 80/161 (49%), Gaps = 14/161 (8%)
Query: 353 AVKQLAIWVESNKKKQKLFDILMSKQHFTP--PAVVYVGSRLGADLLSNAISVTTGMKAL 410
A+KQL ++ K FD+L ++++V ++ A++L + + G +
Sbjct: 9 AIKQLYXDCKNEADK---FDVLTELYGVXTIGSSIIFVATKKTANVLYGKLK-SEGHEVS 64
Query: 411 SIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIK------ 464
+HG+ +ER ++ F G V++ T +L RG+++ V V+ +D+P
Sbjct: 65 ILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPA 124
Query: 465 EYVHQIGRASQMGDEGTAIVFVNEENKNLFQELVDILKSSG 505
Y+H+IGR + G +G AI FV++ KN F L I K G
Sbjct: 125 TYIHRIGRTGRFGRKGVAISFVHD--KNSFNILSAIQKYFG 163
>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 = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 52/90 (57%)
Query: 410 LSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQ 469
L HG+ +R +++ F E ++V T + RG++ V +V+ +P+ + Y+H+
Sbjct: 64 LEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHR 123
Query: 470 IGRASQMGDEGTAIVFVNEENKNLFQELVD 499
IGR ++ G EG++++F+ ++ +EL D
Sbjct: 124 IGRTARSGKEGSSVLFICKDELPFVRELED 153
>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 = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 52/90 (57%)
Query: 410 LSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQ 469
L HG+ +R +++ F E ++V T + RG++ V +V+ +P+ + Y+H+
Sbjct: 64 LEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHR 123
Query: 470 IGRASQMGDEGTAIVFVNEENKNLFQELVD 499
IGR ++ G EG++++F+ ++ +EL D
Sbjct: 124 IGRTARSGKEGSSVLFICKDELPFVRELED 153
>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 = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 52/90 (57%)
Query: 410 LSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQ 469
L HG+ +R +++ F E ++V T + RG++ V +V+ +P+ + Y+H+
Sbjct: 64 LEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHR 123
Query: 470 IGRASQMGDEGTAIVFVNEENKNLFQELVD 499
IGR ++ G EG++++F+ ++ +EL D
Sbjct: 124 IGRTARSGKEGSSVLFICKDELPFVRELED 153
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 56.2 bits (134), Expect = 5e-08, Method: Composition-based stats.
Identities = 43/161 (26%), Positives = 81/161 (50%), Gaps = 2/161 (1%)
Query: 352 KAVKQLAIWVESNKKKQKLFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALS 411
+ +KQ + VE + K + L T AV++ +R + L+ + +
Sbjct: 2 EGIKQFYVNVEEEEYKYECLTDLYDSISVTQ-AVIFCNTRRKVEELTTKLR-NDKFTVSA 59
Query: 412 IHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIG 471
I+ + P +ER IM+ F G ++++T +L RG+++ V VI +D+P + + Y+H+IG
Sbjct: 60 IYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIG 119
Query: 472 RASQMGDEGTAIVFVNEENKNLFQELVDILKSSGAGIPREL 512
R + G +G AI FV E+ +EL + +P ++
Sbjct: 120 RGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDI 160
>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 = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 37/137 (27%), Positives = 68/137 (49%), Gaps = 10/137 (7%)
Query: 354 VKQLAIWVESNKKK-QKLFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSI 412
++Q + E K K Q L +I S A+++ +R A L+ + + G + +
Sbjct: 8 IRQYYVLCEHRKDKYQALCNIYGSIT--IGQAIIFCQTRRNAKWLTVEM-IQDGHQVSLL 64
Query: 413 HGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKE------Y 466
GE +++R I++ F G+ V++ T + RG+++ V V+ FD+P E Y
Sbjct: 65 SGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETY 124
Query: 467 VHQIGRASQMGDEGTAI 483
+H+IGR + G +G A
Sbjct: 125 LHRIGRTGRFGKKGLAF 141
>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 = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 70/354 (19%), Positives = 145/354 (40%), Gaps = 58/354 (16%)
Query: 160 PVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVLTPT 219
P+Q++ I ++GK + + TG GK+ + +P + C++ +V+ P
Sbjct: 47 PLQLETINVTMAGKEVFLVMPTGGGKSLCYQLPAL--CSD-----------GFTLVICPL 93
Query: 220 RELCIQVEEQAKLLGK-GLPFKTALVVGGDAMARQVYRIQ-------QGVELIVGTPGRL 271
L +E+Q +L + G+ +A ++ + V + ++LI TP ++
Sbjct: 94 ISL---MEDQLMVLKQLGI---SATMLNASSSKEHVKWVHAEMVNKNSELKLIYVTPEKI 147
Query: 272 ID--LLMKHDIELDDIRMFV---LDEVDCMLQRG--FRDQVMQI---FRAISLPQILMYS 321
+ M + + R F +DEV C Q G FR + R ++ +
Sbjct: 148 AKSKMFMSRLEKAYEARRFTRIAVDEVHCCSQWGHDFRPDYKALGILKRQFPNASLIGLT 207
Query: 322 ATISQEV----EKMXXXXXXXXXXXXXGKPNMPNKAVKQLAIWVESNKKKQKLFDI---- 373
AT + V +K+ +PN+ + E +K D
Sbjct: 208 ATATNHVLTDAQKILCIEKCFTFTASFNRPNL----------YYEVRQKPSNTEDFIEDI 257
Query: 374 --LMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALSIHGEKPMKERREIMRSFLVG 431
L++ ++ ++Y S+ ++ ++ ++ G+ A + H +++ + R +
Sbjct: 258 VKLINGRYKGQSGIIYCFSQKDSEQVTVSLQ-NLGIHAGAYHANLEPEDKTTVHRKWSAN 316
Query: 432 EVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGRASQMGDEGTAIVF 485
E+ V+VAT G G++ VR VI M S++ Y + GRA + + I++
Sbjct: 317 EIQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILY 370
>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 = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 37/63 (58%)
Query: 406 GMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKE 465
G A ++HG+ ER +M +F GEV V+VAT + RG+++ V V+ + MP+ +
Sbjct: 52 GHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEA 111
Query: 466 YVH 468
Y H
Sbjct: 112 YQH 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 = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 37/63 (58%)
Query: 406 GMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKE 465
G A ++HG+ ER ++ +F GEV V+VAT + RG+++ V V+ + +P+ +
Sbjct: 55 GHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEA 114
Query: 466 YVH 468
Y H
Sbjct: 115 YQH 117
>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 = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 47/182 (25%), Positives = 82/182 (45%), Gaps = 36/182 (19%)
Query: 351 NKAVKQLAIWVE-SNKKKQKLFDILMSKQHFTPPA---VVYVGSRLGADLLSNAIS---- 402
NK +K+LA E N+K KL + +M + T + +++ +R A LS I+
Sbjct: 366 NKMLKRLAENPEYENEKLTKLRNTIMEQYTRTEESARGIIFTKTRQSAYALSQWITENEK 425
Query: 403 -VTTGMKALSIHGE------KPM--KERREIMRSFLVGEVPVIVATGILGRGVELLGVRQ 453
G+KA + G KPM E++E++ F G++ +++AT + G+++
Sbjct: 426 FAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNI 485
Query: 454 VIIFDMPNSIKEYVHQIGRASQMGDEGTAIVFVNEENKNLFQELVDILKSSGAG-IPREL 512
VI + + + V GRA DE T ++ + SG+G I RE
Sbjct: 486 VIRYGLVTNEIAMVQARGRAR--ADESTYVLVAH----------------SGSGVIERET 527
Query: 513 IN 514
+N
Sbjct: 528 VN 529
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 44/191 (23%), Positives = 79/191 (41%), Gaps = 37/191 (19%)
Query: 160 PVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVLTPT 219
P QM+ AL GK++++ TG GKT V A L + P +++
Sbjct: 10 PYQMEVAQPALEGKNIIICLPTGCGKTR-----VAVYIAKDHLDKKKKASEPGKVIVLVN 64
Query: 220 RELCIQVEEQAKLLGKGL-PF--KTALVVG--GDAMARQVY-RIQQGVELIVGTPGRLID 273
+ L ++ +L K PF K V+G GD + + + + ++I+ T L +
Sbjct: 65 KVLLVE-----QLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILEN 119
Query: 274 LLMKHD------IELDDIRMFVLDEV-----DCMLQRGFRDQVMQIFR----------AI 312
L+ + ++L D + ++DE + + R +MQ + I
Sbjct: 120 SLLNLENGEDAGVQLSDFSLIIIDECHHTNKEAVYNNIMRHYLMQKLKNNRLKKENKPVI 179
Query: 313 SLPQILMYSAT 323
LPQIL +A+
Sbjct: 180 PLPQILGLTAS 190
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 37.4 bits (85), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 45/164 (27%), Positives = 73/164 (44%), Gaps = 26/164 (15%)
Query: 140 CSLSQKLLQNIEAAGYDMPTPVQMQAIPSAL-SGKSLLVSANTGSGKTASFLVPVISQCA 198
L +++ I+ G P Q +A+ L G LL+++ TGSGKT +I++
Sbjct: 13 LKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKT------LIAEMG 66
Query: 199 NIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGD-AMARQVYRI 257
I K A+ +TP R L + K L FK ++G AM Y
Sbjct: 67 IISFLLKNGGK---AIYVTPLRALTNE---------KYLTFKDWELIGFKVAMTSGDYDT 114
Query: 258 Q----QGVELIVGTPGRLIDLLMKHDIE-LDDIRMFVLDEVDCM 296
+ ++I+ T +L D L +H E L+++ FVLDE+ +
Sbjct: 115 DDAWLKNYDIIITTYEKL-DSLWRHRPEWLNEVNYFVLDELHYL 157
>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 = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 47/93 (50%), Gaps = 6/93 (6%)
Query: 406 GMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPN---- 461
G+K +H E ER EI+R +G+ V+V +L G+++ V V I D
Sbjct: 475 GIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFL 534
Query: 462 -SIKEYVHQIGRASQMGDEGTAIVFVNEENKNL 493
S + + IGRA++ EG I++ ++ K++
Sbjct: 535 RSERSLIQTIGRAARNA-EGRVIMYADKITKSM 566
>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 = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 47/93 (50%), Gaps = 6/93 (6%)
Query: 406 GMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPN---- 461
G+K +H E ER EI+R +G+ V+V +L G+++ V V I D
Sbjct: 469 GIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFL 528
Query: 462 -SIKEYVHQIGRASQMGDEGTAIVFVNEENKNL 493
S + + IGRA++ EG I++ ++ K++
Sbjct: 529 RSERSLIQTIGRAARNA-EGRVIMYADKITKSM 560
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 36.2 bits (82), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 46/93 (49%), Gaps = 6/93 (6%)
Query: 406 GMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPN---- 461
G+K +H E ER EI+R +G+ V+V +L G+++ V V I D
Sbjct: 468 GIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFL 527
Query: 462 -SIKEYVHQIGRASQMGDEGTAIVFVNEENKNL 493
S + + IGRA++ + G I++ + K++
Sbjct: 528 RSERSLIQTIGRAARNAN-GHVIMYADTITKSM 559
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 36.2 bits (82), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 46/93 (49%), Gaps = 6/93 (6%)
Query: 406 GMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPN---- 461
G+K +H E ER EI+R +G+ V+V +L G+++ V V I D
Sbjct: 469 GIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFL 528
Query: 462 -SIKEYVHQIGRASQMGDEGTAIVFVNEENKNL 493
S + + IGRA++ + G I++ + K++
Sbjct: 529 RSERSLIQTIGRAARNAN-GHVIMYADTITKSM 560
>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 = 36.2 bits (82), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 46/93 (49%), Gaps = 6/93 (6%)
Query: 406 GMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPN---- 461
G+K +H E ER EI+R +G+ V+V +L G+++ V V I D
Sbjct: 469 GIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFL 528
Query: 462 -SIKEYVHQIGRASQMGDEGTAIVFVNEENKNL 493
S + + IGRA++ + G I++ + K++
Sbjct: 529 RSERSLIQTIGRAARNAN-GHVIMYADTITKSM 560
>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 = 36.2 bits (82), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 46/93 (49%), Gaps = 6/93 (6%)
Query: 406 GMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPN---- 461
G+K +H E ER EI+R +G+ V+V +L G+++ V V I D
Sbjct: 469 GIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFL 528
Query: 462 -SIKEYVHQIGRASQMGDEGTAIVFVNEENKNL 493
S + + IGRA++ + G I++ + K++
Sbjct: 529 RSERSLIQTIGRAARNAN-GHVIMYADTITKSM 560
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 35.8 bits (81), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 46/93 (49%), Gaps = 6/93 (6%)
Query: 406 GMKALSIHGEKPMKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPN---- 461
G+K +H E ER EI+R +G+ V+V +L G+++ V V I D
Sbjct: 494 GIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFL 553
Query: 462 -SIKEYVHQIGRASQMGDEGTAIVFVNEENKNL 493
S + + IGRA++ + G I++ + K++
Sbjct: 554 RSERSLIQTIGRAARNAN-GHVIMYADTITKSM 585
>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 = 34.3 bits (77), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 42/83 (50%), Gaps = 9/83 (10%)
Query: 420 ERREIMRSFLVGEVPVIVATGILGRGVEL----LGVRQVIIFDMPN---SIKEYVHQIGR 472
+RR + +F G + V+VAT L GV L + VR + FD + + EY GR
Sbjct: 310 QRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSEYKQMAGR 369
Query: 473 ASQ--MGDEGTAIVFVNEENKNL 493
A + M + G AI+ V + ++ +
Sbjct: 370 AGRPGMDERGEAIIIVGKRDREI 392
Score = 29.6 bits (65), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 44/91 (48%), Gaps = 10/91 (10%)
Query: 141 SLSQKLLQNIEAAGYDMPTPVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANI 200
S+S + ++ G + P Q +A+ SGK+LL++ T +GKT ++++ A +
Sbjct: 9 SISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKT------LLAEMAMV 62
Query: 201 RLHHSQNQKNPLAMVLTPTRELCIQVEEQAK 231
R + K ++ + P R L + E K
Sbjct: 63 R----EAIKGGKSLYVVPLRALAGEKYESFK 89
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 34.3 bits (77), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 44/186 (23%), Positives = 87/186 (46%), Gaps = 17/186 (9%)
Query: 142 LSQKLLQNIEAAGYDMPTPVQMQAIPSA-LSGKSLLVSANTGSGKTASFLVPVISQCANI 200
+ +++ ++ G + P Q +A+ S L GK+ L+S T SGKT +I++ A +
Sbjct: 8 VDERIKSTLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKT------LIAEIAMV 61
Query: 201 RLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGKGLPFKTALVVGGDAMARQVYRIQQG 260
+Q K A+ + P + L + ++ + K + + A+ GD ++ +
Sbjct: 62 HRILTQGGK---AVYIVPLKALAEEKFQEFQDWEK-IGLRVAMAT-GDYDSKDEW--LGK 114
Query: 261 VELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVDCMLQRGFRDQVMQIFRAISL--PQIL 318
++I+ T + LL + D+++ V DE+ + R R +++ A L QI+
Sbjct: 115 YDIIIATAEKFDSLLRHGSSWIKDVKILVADEIHLIGSRD-RGATLEVILAHMLGKAQII 173
Query: 319 MYSATI 324
SATI
Sbjct: 174 GLSATI 179
>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 = 33.5 bits (75), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 29/54 (53%)
Query: 419 KERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGR 472
+ER EI+ F G IV++ +L G+++ +I S +EY+ ++GR
Sbjct: 381 EEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 434
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 32.7 bits (73), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 29/54 (53%)
Query: 419 KERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQIGR 472
+ER EI+ F G IV++ +L G+++ +I S +EY+ ++GR
Sbjct: 146 EEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 199
>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 = 32.3 bits (72), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 52/117 (44%), Gaps = 10/117 (8%)
Query: 176 LVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEEQAKLLGK 235
L+ TG GKT + A RL + ++L PT+ L +Q E + L
Sbjct: 27 LIVLPTGLGKTL-----IAMMIAEYRLTKYGGK----VLMLAPTKPLVLQHAESFRRLF- 76
Query: 236 GLPFKTALVVGGDAMARQVYRIQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDE 292
LP + + + G+ + + ++IV TP + + L+ I L+D+ + V DE
Sbjct: 77 NLPPEKIVALTGEKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDE 133
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 32.3 bits (72), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 45/191 (23%), Positives = 80/191 (41%), Gaps = 37/191 (19%)
Query: 160 PVQMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVLTPT 219
P QM+ AL GK++++ TGSGKT V A L + P +++
Sbjct: 36 PYQMEVAQPALEGKNIIICLPTGSGKTR-----VAVYIAKDHLDKKKKASEPGKVIVLVN 90
Query: 220 RELCIQVEEQAKLLGKGL-PF--KTALVVG--GDAMARQVY-RIQQGVELIVGTPGRLID 273
+ L ++ +L K PF K V+G GD + + + + ++I+ T L +
Sbjct: 91 KVLLVE-----QLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILEN 145
Query: 274 LLMKHD------IELDDIRMFVLDEV-----DCMLQRGFRDQVMQIFR----------AI 312
L+ + ++L D + ++DE + + R +MQ + I
Sbjct: 146 SLLNLENGEDAGVQLSDFSLIIIDECHHTNKEAVYNNIMRHYLMQKLKNNRLKKENKPVI 205
Query: 313 SLPQILMYSAT 323
LPQIL +A+
Sbjct: 206 PLPQILGLTAS 216
>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 = 32.0 bits (71), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 53/197 (26%), Positives = 83/197 (42%), Gaps = 37/197 (18%)
Query: 152 AAGYDMPTPV---------QMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANIRL 202
A G P PV Q++ A++GK+ L+ A TGSGKT F+ +I +
Sbjct: 234 AEGIGKPPPVYETKKARSYQIELAQPAINGKNALICAPTGSGKT--FVSILICE------ 285
Query: 203 HHSQNQK--NPLAMVLTPTRELCIQVEEQAKLLGKGL----PFKTALVVGGDAMARQVYR 256
HH QN +V T+ + V EQ K + K + + G + V +
Sbjct: 286 HHFQNMPAGRKAKVVFLATK---VPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEK 342
Query: 257 IQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVD-CMLQRG-------FRDQVMQI 308
+ + ++IV TP L++ D L + +F L D C G + Q
Sbjct: 343 VIEDSDIIVVTPQILVNSF--EDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQK 400
Query: 309 FRAIS-LPQILMYSATI 324
F + S LPQIL +A++
Sbjct: 401 FNSASQLPQILGLTASV 417
>pdb|1YKS|A Chain A, Crystal Structure Of Yellow Fever Virus Ns3 Helicase
Length = 440
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 31/57 (54%), Gaps = 9/57 (15%)
Query: 172 GKSLLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEE 228
G + ++ + G+GKT FL ++++CA RL +VL PTR + +++E
Sbjct: 8 GMTTVLDFHPGAGKTRRFLPQILAECARRRLR---------TLVLAPTRVVLSEMKE 55
>pdb|1YMF|A Chain A, Crystal Structure Of Yellow Fever Virus Ns3 Helicase
Complexed With Adp
Length = 440
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 9/57 (15%)
Query: 172 GKSLLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVLTPTRELCIQVEE 228
G + ++ + G+GKT FL ++++CA RL +VL PTR + + +E
Sbjct: 8 GXTTVLDFHPGAGKTRRFLPQILAECARRRLR---------TLVLAPTRVVLSEXKE 55
>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 = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 53/197 (26%), Positives = 83/197 (42%), Gaps = 37/197 (18%)
Query: 152 AAGYDMPTPV---------QMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANIRL 202
A G P PV Q++ A++GK+ L+ A TGSGKT F+ +I +
Sbjct: 234 AEGIGKPPPVYETKKARSYQIELAQPAINGKNALICAPTGSGKT--FVSILICE------ 285
Query: 203 HHSQNQK--NPLAMVLTPTRELCIQVEEQAKLLGKGL----PFKTALVVGGDAMARQVYR 256
HH QN +V T+ + V EQ K + K + + G + V +
Sbjct: 286 HHFQNMPAGRKAKVVFLATK---VPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEK 342
Query: 257 IQQGVELIVGTPGRLIDLLMKHDIELDDIRMFVLDEVD-CMLQRG-------FRDQVMQI 308
+ + ++IV TP L++ D L + +F L D C G + Q
Sbjct: 343 VIEDSDIIVVTPQILVNSF--EDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQK 400
Query: 309 FRAIS-LPQILMYSATI 324
F + S LPQIL +A++
Sbjct: 401 FNSASQLPQILGLTASV 417
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 29/151 (19%), Positives = 65/151 (43%), Gaps = 18/151 (11%)
Query: 364 NKKKQKLFDILMSKQHFTPPAV--VYVGSRLGADLLSNAIS-----------VTTGMKAL 410
N K + L IL + H P + ++V +R D L N I + TG
Sbjct: 379 NPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKT 438
Query: 411 SIHGEKPMKERREIMRSFLV-GEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQ 469
+ + + ++ I+ +F G+ +++AT + G+++ VI+++ ++ + +
Sbjct: 439 NQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQT 498
Query: 470 IGRASQMGDEGTAIV----FVNEENKNLFQE 496
GR G + + + +E N+++E
Sbjct: 499 RGRGRARGSKCFLLTSNAGVIEKEQINMYKE 529
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 59/141 (41%), Gaps = 16/141 (11%)
Query: 158 PTPVQMQAIPSALSGKSLLVSANTGSGKT-ASFLVPVISQCANIRLHHSQNQKNPLAMVL 216
P Q++ A+ GK+ ++ A TG GKT S L+ C + Q QK +
Sbjct: 14 PRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLI-----CEHHLKKFPQGQKGKVVFFA 68
Query: 217 TPTRELCIQVEEQAK-LLGKGLP---FKTALVVGGDAMARQVYRIQQGVELIVGTPGRLI 272
I V EQ K + K ++ + G A V +I + ++I+ TP L+
Sbjct: 69 NQ-----IPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILV 123
Query: 273 DLLMKHDI-ELDDIRMFVLDE 292
+ L K I L + + DE
Sbjct: 124 NNLKKGTIPSLSIFTLMIFDE 144
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 29/151 (19%), Positives = 65/151 (43%), Gaps = 18/151 (11%)
Query: 364 NKKKQKLFDILMSKQHFTPPAV--VYVGSRLGADLLSNAIS-----------VTTGMKAL 410
N K + L IL + H P + ++V +R D L N I + TG
Sbjct: 378 NPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKT 437
Query: 411 SIHGEKPMKERREIMRSFLV-GEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQ 469
+ + + ++ I+ +F G+ +++AT + G+++ VI+++ ++ + +
Sbjct: 438 NQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQT 497
Query: 470 IGRASQMGDEGTAIV----FVNEENKNLFQE 496
GR G + + + +E N+++E
Sbjct: 498 RGRGRARGSKCFLLTSNAGVIEKEQINMYKE 528
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 59/141 (41%), Gaps = 16/141 (11%)
Query: 158 PTPVQMQAIPSALSGKSLLVSANTGSGKT-ASFLVPVISQCANIRLHHSQNQKNPLAMVL 216
P Q++ A+ GK+ ++ A TG GKT S L+ C + Q QK +
Sbjct: 13 PRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLI-----CEHHLKKFPQGQKGKVVFFA 67
Query: 217 TPTRELCIQVEEQAK-LLGKGLP---FKTALVVGGDAMARQVYRIQQGVELIVGTPGRLI 272
I V EQ K + K ++ + G A V +I + ++I+ TP L+
Sbjct: 68 NQ-----IPVYEQQKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILV 122
Query: 273 DLLMKHDI-ELDDIRMFVLDE 292
+ L K I L + + DE
Sbjct: 123 NNLKKGTIPSLSIFTLMIFDE 143
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 29/151 (19%), Positives = 65/151 (43%), Gaps = 18/151 (11%)
Query: 364 NKKKQKLFDILMSKQHFTPPAV--VYVGSRLGADLLSNAIS-----------VTTGMKAL 410
N K + L IL + H P + ++V +R D L N I + TG
Sbjct: 370 NPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKT 429
Query: 411 SIHGEKPMKERREIMRSFLV-GEVPVIVATGILGRGVELLGVRQVIIFDMPNSIKEYVHQ 469
+ + + ++ I+ +F G+ +++AT + G+++ VI+++ ++ + +
Sbjct: 430 NQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQT 489
Query: 470 IGRASQMGDEGTAIV----FVNEENKNLFQE 496
GR G + + + +E N+++E
Sbjct: 490 RGRGRARGSKCFLLTSNAGVIEKEQINMYKE 520
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 59/141 (41%), Gaps = 16/141 (11%)
Query: 158 PTPVQMQAIPSALSGKSLLVSANTGSGKT-ASFLVPVISQCANIRLHHSQNQKNPLAMVL 216
P Q++ A+ GK+ ++ A TG GKT S L+ C + Q QK +
Sbjct: 5 PRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLI-----CEHHLKKFPQGQKGKVVFFA 59
Query: 217 TPTRELCIQVEEQAK-LLGKGLP---FKTALVVGGDAMARQVYRIQQGVELIVGTPGRLI 272
I V EQ K + K ++ + G A V +I + ++I+ TP L+
Sbjct: 60 NQ-----IPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILV 114
Query: 273 DLLMKHDI-ELDDIRMFVLDE 292
+ L K I L + + DE
Sbjct: 115 NNLKKGTIPSLSIFTLMIFDE 135
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 28/114 (24%), Positives = 53/114 (46%), Gaps = 20/114 (17%)
Query: 364 NKKKQKLFDILMSKQHFT-----PPAVVYVGSRLGADLLSNAIS-----VTTGMKALSIH 413
N+K KL + + +HFT +++ +R A LS I+ G+KA +
Sbjct: 130 NEKLTKLRNTIX--EHFTRTEESARGIIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLI 187
Query: 414 GE------KP--MKERREIMRSFLVGEVPVIVATGILGRGVELLGVRQVIIFDM 459
G KP E+RE++ F G++ +++AT + G+++ VI + +
Sbjct: 188 GAGHSSEFKPXTQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>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 = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 48/178 (26%), Positives = 78/178 (43%), Gaps = 28/178 (15%)
Query: 162 QMQAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANIRLHHSQNQK--NPLAMVLTPT 219
Q++ A++GK+ L+ A TGSGKT F+ +I + HH QN +V T
Sbjct: 12 QIELAQPAINGKNALICAPTGSGKT--FVSILICE------HHFQNMPAGRKAKVVFLAT 63
Query: 220 RELCIQVEEQAKLLGKGL----PFKTALVVGGDAMARQVYRIQQGVELIVGTPGRLIDLL 275
+ + V EQ K + K + + G + V ++ + ++IV TP L++
Sbjct: 64 K---VPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSF 120
Query: 276 MKHDIELDDIRMFVLDEVD-CMLQRG-------FRDQVMQIFRAIS-LPQILMYSATI 324
D L + +F L D C G + Q F + S LPQIL +A++
Sbjct: 121 --EDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASV 176
>pdb|2VL7|A Chain A, Structure Of S. Tokodaii Xpd4
Length = 540
Score = 28.9 bits (63), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 37/86 (43%), Gaps = 17/86 (19%)
Query: 164 QAIPSALSGKSLLVSANTGSGKTASFLVPVISQCANIRLHHSQNQKNPLAMVLTPTRELC 223
+AI + GK+LL++A G GKT V V+ Q ++ T T
Sbjct: 18 EAINALKHGKTLLLNAKPGLGKTV--FVEVLGM-----------QLKKKVLIFTRTHSQL 64
Query: 224 IQVEEQAKLLGKGLPFKTALVVGGDA 249
+ + AKLLG KT ++G A
Sbjct: 65 DSIYKNAKLLG----LKTGFLIGKSA 86
>pdb|2PPL|A Chain A, Human Pancreatic Lipase-Related Protein 1
Length = 485
Score = 28.9 bits (63), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 24/43 (55%)
Query: 369 KLFDILMSKQHFTPPAVVYVGSRLGADLLSNAISVTTGMKALS 411
++ DIL+++ + P V +G LGA + A S T G+ ++
Sbjct: 157 QMLDILLTEYSYPPSKVHLIGHSLGAHVAGEAGSKTPGLSRIT 199
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
0.319 0.135 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,195,301
Number of Sequences: 62578
Number of extensions: 562312
Number of successful extensions: 1621
Number of sequences better than 100.0: 97
Number of HSP's better than 100.0 without gapping: 82
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1369
Number of HSP's gapped (non-prelim): 116
length of query: 533
length of database: 14,973,337
effective HSP length: 103
effective length of query: 430
effective length of database: 8,527,803
effective search space: 3666955290
effective search space used: 3666955290
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)