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= 011100
(493 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 197 bits (500), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 94/197 (47%), Positives = 139/197 (70%), Gaps = 2/197 (1%)
Query: 57 DSTVTFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFAL 116
+ T TF LG+ + + C +LG +PT +Q IP L+G+D++GLA+TGSGKT AFAL
Sbjct: 40 EETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFAL 99
Query: 117 PILHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLM 176
PIL+ L E P + ALV+TPTRELA+Q++EQF+ALGS + ++ V+VGG+D ++Q+ +L
Sbjct: 100 PILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALA 159
Query: 177 NRPHVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKN 236
+PH++IATPGR+ LE K+LV+DEADR+L++ FE E+ + + +P++
Sbjct: 160 KKPHIIIATPGRLIDHLENTKGFN--LRALKYLVMDEADRILNMDFETEVDKILKVIPRD 217
Query: 237 RQTLLFSATMTSDLQTL 253
R+T LFSATMT +Q L
Sbjct: 218 RKTFLFSATMTKKVQKL 234
>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 = 190 bits (483), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 122/335 (36%), Positives = 175/335 (52%), Gaps = 16/335 (4%)
Query: 62 FAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHR 121
F L + + + G + PTP+Q IP I G+D++ AQTGSGKTAAF LPIL +
Sbjct: 58 FTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSK 117
Query: 122 LAEDPYGV-----LALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLM 176
L EDP+ + ++++PTRELA Q+ + + +L+ +V GG Q + +
Sbjct: 118 LLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECIT 177
Query: 177 NRPHVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQ--CLP 234
HVVIATPGR LL+ F T+F+VLDEADR+LD+GF E++R + +
Sbjct: 178 RGCHVVIATPGR---LLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMR 234
Query: 235 KNRQTLLFSATMTSDLQTLL-ELSANKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVYLM 293
QTL+FSAT ++Q + E N + G +KQ + K K L+
Sbjct: 235 PEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVG-GACSDVKQTIYEVNKYAKRSKLI 293
Query: 294 HVLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSG 353
+LS+ D I+FV T R + ++H + QSQR AL FK+G
Sbjct: 294 EILSEQAD----GTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNG 349
Query: 354 QATILLATDVASRGLDIPTVDLVLNYDIPRYPRDY 388
+L+AT VASRGLDI + V+NYD+P DY
Sbjct: 350 SMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDY 384
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 185 bits (470), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 120/360 (33%), Positives = 188/360 (52%), Gaps = 27/360 (7%)
Query: 82 RPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPYGV------------ 129
RPTPVQ H IP I E +D++ AQTGSGKTAAF LPIL ++ D G
Sbjct: 37 RPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGRYG 96
Query: 130 ------LALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHVVI 183
++LV+ PTRELA Q+ E+ + +R VV GG D+ Q + L H+++
Sbjct: 97 RRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLV 156
Query: 184 ATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQ---CLPKN-RQT 239
ATPGR+ ++E I F K+LVLDEADR+LD+GFE ++R + + PK R T
Sbjct: 157 ATPGRLVDMMERG-KIGLDF--CKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHT 213
Query: 240 LLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVYLMHVLSKM 299
++FSAT ++Q L ++ F T E + Q+ +++ ++ K +L+ +L+
Sbjct: 214 MMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKVVWVEESDKRSFLLDLLNAT 273
Query: 300 EDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQATILL 359
+ ++FV T + ++H +SQ R ALH+F+SG++ IL+
Sbjct: 274 GKDSL--TLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILV 331
Query: 360 ATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVTQNDVDLIHEI 419
AT VA+RGLDI V V+N+D+P +Y SF + ++++ ++
Sbjct: 332 ATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKDL 391
>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 = 182 bits (461), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 114/376 (30%), Positives = 185/376 (49%), Gaps = 16/376 (4%)
Query: 61 TFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILH 120
+F + L+E ++ G +P+ +Q I ++G DV+ AQ+G+GKTA FA+ IL
Sbjct: 15 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQ 74
Query: 121 RLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSL-MNRP 179
++ D ALV+ PTRELA Q+ + ALG + C +GG ++ + + L M P
Sbjct: 75 QIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAP 134
Query: 180 HVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKNRQT 239
H+++ TPGR+ +L P K VLDEAD +L GF++++ +FQ L N Q
Sbjct: 135 HIIVGTPGRVFDMLNRRYLSPKYI---KMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQV 191
Query: 240 LLFSATMTSDLQTLLELSANKAYFYEAYEGFK-----TVETLKQQYIFIPKNVKDVYLMH 294
+L SATM SD+ L K + + T+E ++Q YI + + ++ L
Sbjct: 192 VLLSATMPSDV-----LEVTKKFMRDPIRILVKKEELTLEGIRQFYINVER--EEWKLDT 244
Query: 295 VLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQ 354
+ E + I A+IF++T R D A+H Q +R + F+SG
Sbjct: 245 LCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGS 304
Query: 355 ATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVTQNDVD 414
+ +L+ TD+ +RG+D+ V LV+NYD+P +Y + VT+ D
Sbjct: 305 SRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKR 364
Query: 415 LIHEIEAVVGKQLEEF 430
+ +IE +EE
Sbjct: 365 TLRDIETFYNTSIEEM 380
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 181 bits (460), Expect = 6e-46, Method: Compositional matrix adjust.
Identities = 114/376 (30%), Positives = 185/376 (49%), Gaps = 16/376 (4%)
Query: 61 TFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILH 120
+F + L+E ++ G +P+ +Q I ++G DV+ AQ+G+GKTA FA+ IL
Sbjct: 41 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQ 100
Query: 121 RLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSL-MNRP 179
++ D ALV+ PTRELA Q+ + ALG + C +GG ++ + + L M P
Sbjct: 101 QIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAP 160
Query: 180 HVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKNRQT 239
H+++ TPGR+ +L P K VLDEAD +L GF++++ +FQ L N Q
Sbjct: 161 HIIVGTPGRVFDMLNRRYLSPKYI---KMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQV 217
Query: 240 LLFSATMTSDLQTLLELSANKAYFYEAYEGFK-----TVETLKQQYIFIPKNVKDVYLMH 294
+L SATM SD+ L K + + T+E ++Q YI + + ++ L
Sbjct: 218 VLLSATMPSDV-----LEVTKKFMRDPIRILVKKEELTLEGIRQFYINVER--EEWKLDT 270
Query: 295 VLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQ 354
+ E + I A+IF++T R D A+H Q +R + F+SG
Sbjct: 271 LCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGS 330
Query: 355 ATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVTQNDVD 414
+ +L+ TD+ +RG+D+ V LV+NYD+P +Y + VT+ D
Sbjct: 331 SRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKR 390
Query: 415 LIHEIEAVVGKQLEEF 430
+ +IE +EE
Sbjct: 391 TLRDIETFYNTSIEEM 406
>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 = 178 bits (452), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 111/380 (29%), Positives = 192/380 (50%), Gaps = 9/380 (2%)
Query: 53 STTTDSTVTFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTA 112
S D T TF +GL E ++ G +P+ +Q I +I++G+DV+ +Q+G+GKTA
Sbjct: 31 SEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTA 90
Query: 113 AFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQA 172
F++ +L L AL++ PTRELA Q+ + ALG ++++C +GG ++
Sbjct: 91 TFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDI 150
Query: 173 KSLMNRPHVVIATPGRIKVLLEEDPDIPPVFSRT-KFLVLDEADRVLDVGFEEELRVVFQ 231
+ L HVV TPGR+ ++ + +R K LVLDEAD +L+ GF+E++ V++
Sbjct: 151 RKLDYGQHVVAGTPGRVFDMIRR----RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYR 206
Query: 232 CLPKNRQTLLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVY 291
LP Q +L SAT+ ++ + T+E +KQ ++ + ++ +
Sbjct: 207 YLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVE---REEW 263
Query: 292 LMHVLSKMED-MGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRF 350
L + D + I A+IF +T R + ++H Q +R S + F
Sbjct: 264 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEF 323
Query: 351 KSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVTQ 410
+SG + +L++TDV +RGLD+P V L++NYD+P Y +FV
Sbjct: 324 RSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN 383
Query: 411 NDVDLIHEIEAVVGKQLEEF 430
+D+ ++ +IE Q++E
Sbjct: 384 DDIRILRDIEQYYSTQIDEM 403
>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 = 178 bits (452), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 111/380 (29%), Positives = 192/380 (50%), Gaps = 9/380 (2%)
Query: 53 STTTDSTVTFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTA 112
S D T TF +GL E ++ G +P+ +Q I +I++G+DV+ +Q+G+GKTA
Sbjct: 30 SEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTA 89
Query: 113 AFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQA 172
F++ +L L AL++ PTRELA Q+ + ALG ++++C +GG ++
Sbjct: 90 TFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDI 149
Query: 173 KSLMNRPHVVIATPGRIKVLLEEDPDIPPVFSRT-KFLVLDEADRVLDVGFEEELRVVFQ 231
+ L HVV TPGR+ ++ + +R K LVLDEAD +L+ GF+E++ V++
Sbjct: 150 RKLDYGQHVVAGTPGRVFDMIRR----RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYR 205
Query: 232 CLPKNRQTLLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVY 291
LP Q +L SAT+ ++ + T+E +KQ ++ + ++ +
Sbjct: 206 YLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVE---REEW 262
Query: 292 LMHVLSKMED-MGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRF 350
L + D + I A+IF +T R + ++H Q +R S + F
Sbjct: 263 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEF 322
Query: 351 KSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVTQ 410
+SG + +L++TDV +RGLD+P V L++NYD+P Y +FV
Sbjct: 323 RSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN 382
Query: 411 NDVDLIHEIEAVVGKQLEEF 430
+D+ ++ +IE Q++E
Sbjct: 383 DDIRILRDIEQYYSTQIDEM 402
>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 = 178 bits (451), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 111/380 (29%), Positives = 192/380 (50%), Gaps = 9/380 (2%)
Query: 53 STTTDSTVTFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTA 112
S D T TF +GL E ++ G +P+ +Q I +I++G+DV+ +Q+G+GKTA
Sbjct: 31 SEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTA 90
Query: 113 AFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQA 172
F++ +L L AL++ PTRELA Q+ + ALG ++++C +GG ++
Sbjct: 91 TFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDI 150
Query: 173 KSLMNRPHVVIATPGRIKVLLEEDPDIPPVFSRT-KFLVLDEADRVLDVGFEEELRVVFQ 231
+ L HVV TPGR+ ++ + +R K LVLDEAD +L+ GF+E++ V++
Sbjct: 151 RKLDYGQHVVAGTPGRVFDMIRR----RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYR 206
Query: 232 CLPKNRQTLLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVY 291
LP Q +L SAT+ ++ + T+E +KQ ++ + ++ +
Sbjct: 207 YLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVE---REEW 263
Query: 292 LMHVLSKMED-MGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRF 350
L + D + I A+IF +T R + ++H Q +R S + F
Sbjct: 264 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEF 323
Query: 351 KSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVTQ 410
+SG + +L++TDV +RGLD+P V L++NYD+P Y +FV
Sbjct: 324 RSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN 383
Query: 411 NDVDLIHEIEAVVGKQLEEF 430
+D+ ++ +IE Q++E
Sbjct: 384 DDIRILRDIEQYYSTQIDEM 403
>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 = 177 bits (450), Expect = 8e-45, Method: Compositional matrix adjust.
Identities = 111/380 (29%), Positives = 192/380 (50%), Gaps = 9/380 (2%)
Query: 53 STTTDSTVTFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTA 112
S D T TF +GL E ++ G +P+ +Q I +I++G+DV+ +Q+G+GKTA
Sbjct: 9 SEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTA 68
Query: 113 AFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQA 172
F++ +L L AL++ PTRELA Q+ + ALG ++++C +GG ++
Sbjct: 69 TFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDI 128
Query: 173 KSLMNRPHVVIATPGRIKVLLEEDPDIPPVFSRT-KFLVLDEADRVLDVGFEEELRVVFQ 231
+ L HVV TPGR+ ++ + +R K LVLDEAD +L+ GF+E++ V++
Sbjct: 129 RKLDYGQHVVAGTPGRVFDMIRR----RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYR 184
Query: 232 CLPKNRQTLLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVY 291
LP Q +L SAT+ ++ + T+E +KQ ++ + ++ +
Sbjct: 185 YLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVE---REEW 241
Query: 292 LMHVLSKMED-MGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRF 350
L + D + I A+IF +T R + ++H Q +R S + F
Sbjct: 242 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEF 301
Query: 351 KSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVTQ 410
+SG + +L++TDV +RGLD+P V L++NYD+P Y +FV
Sbjct: 302 RSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN 361
Query: 411 NDVDLIHEIEAVVGKQLEEF 430
+D+ ++ +IE Q++E
Sbjct: 362 DDIRILRDIEQYYSTQIDEM 381
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 174 bits (441), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 108/372 (29%), Positives = 189/372 (50%), Gaps = 9/372 (2%)
Query: 61 TFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILH 120
TF +GL E ++ G +P+ +Q I +I++G+DV+ +Q+G+GKTA F++ +L
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 121 RLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPH 180
L AL++ PTRELA Q+ + ALG ++++C +GG ++ + L H
Sbjct: 62 CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQH 121
Query: 181 VVIATPGRIKVLLEEDPDIPPVFSRT-KFLVLDEADRVLDVGFEEELRVVFQCLPKNRQT 239
VV TPGR+ ++ + +R K LVLDEAD +L+ GF+E++ V++ LP Q
Sbjct: 122 VVAGTPGRVFDMIRR----RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 177
Query: 240 LLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVYLMHVLSKM 299
+L SAT+ ++ + T+E +KQ ++ + ++ + L +
Sbjct: 178 VLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVE---REEWKFDTLCDL 234
Query: 300 ED-MGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQATIL 358
D + I A+IF +T R + ++H Q +R S + F+SG + +L
Sbjct: 235 YDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 294
Query: 359 LATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVTQNDVDLIHE 418
++TDV +RGLD+P V L++NYD+P Y +FV +D+ ++ +
Sbjct: 295 ISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRD 354
Query: 419 IEAVVGKQLEEF 430
IE Q++E
Sbjct: 355 IEQYYSTQIDEM 366
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 169 bits (429), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 107/372 (28%), Positives = 188/372 (50%), Gaps = 9/372 (2%)
Query: 61 TFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILH 120
TF +GL E ++ G +P+ +Q I +I++G+DV+ +Q+G+GKTA F++ +L
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 121 RLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPH 180
L AL++ PTRELA Q+ + ALG ++++ +GG ++ + L H
Sbjct: 62 CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYGQH 121
Query: 181 VVIATPGRIKVLLEEDPDIPPVFSRT-KFLVLDEADRVLDVGFEEELRVVFQCLPKNRQT 239
VV TPGR+ ++ + +R K LVLDEAD +L+ GF+E++ V++ LP Q
Sbjct: 122 VVAGTPGRVFDMIRR----RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 177
Query: 240 LLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVYLMHVLSKM 299
+L SAT+ ++ + T+E +KQ ++ + ++ + L +
Sbjct: 178 VLISATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVE---REEWKFDTLCDL 234
Query: 300 ED-MGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQATIL 358
D + I A+IF +T R + ++H Q +R S + F+SG + +L
Sbjct: 235 YDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 294
Query: 359 LATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVTQNDVDLIHE 418
++TDV +RGLD+P V L++NYD+P Y +FV +D+ ++ +
Sbjct: 295 ISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRD 354
Query: 419 IEAVVGKQLEEF 430
IE Q++E
Sbjct: 355 IEQYYSTQIDEM 366
>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 = 168 bits (426), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 105/329 (31%), Positives = 175/329 (53%), Gaps = 14/329 (4%)
Query: 61 TFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGK-DVLGLAQTGSGKTAAFALPIL 119
F L L++ + + G +PT +Q IP L + +++ A+TGSGKTA+FA+P++
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 120 HRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRP 179
+ E+ G+ A+++TPTRELA Q+A++ ++L +L+ + GG + Q K+L N
Sbjct: 67 ELVNENN-GIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALKN-A 124
Query: 180 HVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKNRQT 239
++V+ TPGRI L+ K+ +LDEAD L+ GF +++ + K+++
Sbjct: 125 NIVVGTPGRI---LDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRI 181
Query: 240 LLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVYLMHVLSKM 299
LLFSAT ++ L + F +A K ++Q Y+ + +N + L +L
Sbjct: 182 LLFSATXPREILNLAKKYXGDYSFIKA----KINANIEQSYVEVNENERFEALCRLLKNK 237
Query: 300 EDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQATILL 359
E G+ +F T R +A A+H SQSQR + FK + IL+
Sbjct: 238 EFYGL----VFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILI 293
Query: 360 ATDVASRGLDIPTVDLVLNYDIPRYPRDY 388
ATDV SRG+D+ ++ V+NY +P+ P Y
Sbjct: 294 ATDVXSRGIDVNDLNCVINYHLPQNPESY 322
>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 = 165 bits (417), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 112/374 (29%), Positives = 181/374 (48%), Gaps = 16/374 (4%)
Query: 62 FAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHR 121
F + L E ++ G P+ +Q I I+EG DVL AQ+G+GKT F++ L R
Sbjct: 24 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 83
Query: 122 LAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHV 181
+ AL++ PTRELA Q+ + AL + ++ +GG + A+ L + +
Sbjct: 84 IDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRD-AQI 142
Query: 182 VIATPGRIKVLLEEDPDIPPVFSRT---KFLVLDEADRVLDVGFEEELRVVFQCLPKNRQ 238
V+ TPGR+ +I RT K +LDEAD +L GF+E++ +F LP Q
Sbjct: 143 VVGTPGRVF------DNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQ 196
Query: 239 TLLFSATMTSD-LQTLLELSANKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVYLMHVLS 297
+L SATM +D L+ + N + T+E +KQ Y+ + ++ Y L+
Sbjct: 197 VVLLSATMPNDVLEVTTKFMRNPVRILVKKDEL-TLEGIKQFYVNVE---EEEYKYECLT 252
Query: 298 KMED-MGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQAT 356
+ D + + A+IF +T R A++S Q +R + + F+SG +
Sbjct: 253 DLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSR 312
Query: 357 ILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVTQNDVDLI 416
IL++TD+ +RG+D+ V LV+NYD+P +Y +FVT DV +
Sbjct: 313 ILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAM 372
Query: 417 HEIEAVVGKQLEEF 430
E+E Q+EE
Sbjct: 373 RELEKFYSTQIEEL 386
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 162 bits (409), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 104/383 (27%), Positives = 174/383 (45%), Gaps = 7/383 (1%)
Query: 45 KFTNPDPNSTTTDSTVTFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLA 104
K T P + TF L + E G +P+P+Q IP + G+D+L A
Sbjct: 6 KDTRPQTDDVLNTKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARA 65
Query: 105 QTGSGKTAAFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVG 164
+ G+GKTAAF +P L ++ + AL++ PTRELA Q ++ + LG + C V G
Sbjct: 66 KNGTGKTAAFVIPTLEKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTG 125
Query: 165 GMDLLTQAKSLMNRPHVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEE 224
G +L L H+++ TPGR+ L+ S ++DEAD++L F+
Sbjct: 126 GTNLRDDILRLNETVHILVGTPGRV---LDLASRKVADLSDCSLFIMDEADKMLSRDFKT 182
Query: 225 ELRVVFQCLPKNRQTLLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVETLKQQYIFIP 284
+ + LP Q+LLFSAT ++ + +K Y E T++ + Q Y F+
Sbjct: 183 IIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLMEEL-TLKGITQYYAFVE 241
Query: 285 KNVKDVYLMHVLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRL 344
+ K L + SK++ I AIIF ++ H+ Q +R
Sbjct: 242 ERQKLHCLNTLFSKLQ---INQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERN 298
Query: 345 SALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXX 404
H F+ G+ L+ +D+ +RG+DI V++V+N+D P+ Y
Sbjct: 299 KVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLA 358
Query: 405 XSFVTQNDVDLIHEIEAVVGKQL 427
+ + ND +++IE +G ++
Sbjct: 359 INLINWNDRFNLYKIEQELGTEI 381
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 158 bits (399), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 108/357 (30%), Positives = 169/357 (47%), Gaps = 16/357 (4%)
Query: 79 GMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITPTR 138
G P+ +Q I I+EG DVL AQ+G+GKT F++ L R+ AL + PTR
Sbjct: 40 GFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALXLAPTR 99
Query: 139 ELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIKVLLEEDPD 198
ELA Q+ + AL ++ +GG + A+ L + +V+ TPGR+ +
Sbjct: 100 ELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGLRD-AQIVVGTPGRVF------DN 152
Query: 199 IPPVFSRT---KFLVLDEADRVLDVGFEEELRVVFQCLPKNRQTLLFSATMTSD-LQTLL 254
I RT K +LDEAD L GF+E++ +F LP Q +L SAT +D L+
Sbjct: 153 IQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVLLSATXPNDVLEVTT 212
Query: 255 ELSANKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVYLMHVLSKMED-MGIRSAIIFVST 313
+ N + T+E +KQ Y+ + ++ Y L+ + D + + A+IF +T
Sbjct: 213 KFXRNPVRILVKKDEL-TLEGIKQFYVNVE---EEEYKYECLTDLYDSISVTQAVIFCNT 268
Query: 314 CRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTV 373
R A++S Q +R + F+SG + IL++TD+ +RG+D+ V
Sbjct: 269 RRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDLLARGIDVQQV 328
Query: 374 DLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVTQNDVDLIHEIEAVVGKQLEEF 430
LV+NYD+P +Y +FVT DV E+E Q+EE
Sbjct: 329 SLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAXRELEKFYSTQIEEL 385
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 153 bits (387), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 102/354 (28%), Positives = 178/354 (50%), Gaps = 21/354 (5%)
Query: 77 ELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITP 136
+ G P+ VQ CIP+ + G DVL A++G GKTA F L L +L V LV+
Sbjct: 24 DCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCH 83
Query: 137 TRELAYQLAEQFKALGSGL-HLRCEVVVGGMDLLTQAKSL-MNRPHVVIATPGRIKVLLE 194
TRELA+Q++++++ + +++ V GG+ + + L N PH+V+ TPGRI L
Sbjct: 84 TRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALAR 143
Query: 195 EDPDIPPVFSRTKFLVLDEADRVLD-VGFEEELRVVFQCLPKNRQTLLFSATMTSDLQTL 253
K +LDEAD++L+ + +++ +F+ P +Q ++FSAT++ +++ +
Sbjct: 144 NK---SLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPV 200
Query: 254 LELSANKAYFYEAYEGFKTVET------LKQQYIFIPKNVKDVYLMHVLSKMEDMGIRSA 307
+ + + E F ET L+Q Y+ + N K+ L +L +E
Sbjct: 201 C-----RKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLE---FNQV 252
Query: 308 IIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQATILLATDVASRG 367
+IFV + + C + A+A+H Q +RLS +FK Q IL+AT++ RG
Sbjct: 253 VIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRG 312
Query: 368 LDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVT-QNDVDLIHEIE 420
+DI V++ NYD+P Y +FV+ +ND ++++++
Sbjct: 313 MDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQ 366
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 152 bits (383), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 101/354 (28%), Positives = 177/354 (50%), Gaps = 21/354 (5%)
Query: 77 ELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITP 136
+ G P+ VQ CIP+ + G DVL A++G GKTA F L L +L V LV+
Sbjct: 25 DCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCH 84
Query: 137 TRELAYQLAEQFKALGSGL-HLRCEVVVGGMDLLTQAKSL-MNRPHVVIATPGRIKVLLE 194
TRELA+Q++++++ + +++ V GG+ + + L N PH+V+ TPGRI L
Sbjct: 85 TRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALAR 144
Query: 195 EDPDIPPVFSRTKFLVLDEADRVLD-VGFEEELRVVFQCLPKNRQTLLFSATMTSDLQTL 253
K +LDE D++L+ + +++ +F+ P +Q ++FSAT++ +++ +
Sbjct: 145 NK---SLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPV 201
Query: 254 LELSANKAYFYEAYEGFKTVET------LKQQYIFIPKNVKDVYLMHVLSKMEDMGIRSA 307
+ + + E F ET L+Q Y+ + N K+ L +L +E
Sbjct: 202 C-----RKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLE---FNQV 253
Query: 308 IIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQATILLATDVASRG 367
+IFV + + C + A+A+H Q +RLS +FK Q IL+AT++ RG
Sbjct: 254 VIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRG 313
Query: 368 LDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVT-QNDVDLIHEIE 420
+DI V++ NYD+P Y +FV+ +ND ++++++
Sbjct: 314 MDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQ 367
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 152 bits (383), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 101/354 (28%), Positives = 177/354 (50%), Gaps = 21/354 (5%)
Query: 77 ELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITP 136
+ G P+ VQ CIP+ + G DVL A++G GKTA F L L +L V LV+
Sbjct: 25 DCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCH 84
Query: 137 TRELAYQLAEQFKALGSGL-HLRCEVVVGGMDLLTQAKSL-MNRPHVVIATPGRIKVLLE 194
TRELA+Q++++++ + +++ V GG+ + + L N PH+V+ TPGRI L
Sbjct: 85 TRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALAR 144
Query: 195 EDPDIPPVFSRTKFLVLDEADRVLD-VGFEEELRVVFQCLPKNRQTLLFSATMTSDLQTL 253
K +LDE D++L+ + +++ +F+ P +Q ++FSAT++ +++ +
Sbjct: 145 NK---SLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPV 201
Query: 254 LELSANKAYFYEAYEGFKTVET------LKQQYIFIPKNVKDVYLMHVLSKMEDMGIRSA 307
+ + + E F ET L+Q Y+ + N K+ L +L +E
Sbjct: 202 C-----RKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLE---FNQV 253
Query: 308 IIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQATILLATDVASRG 367
+IFV + + C + A+A+H Q +RLS +FK Q IL+AT++ RG
Sbjct: 254 VIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRG 313
Query: 368 LDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVT-QNDVDLIHEIE 420
+DI V++ NYD+P Y +FV+ +ND ++++++
Sbjct: 314 MDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQ 367
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 151 bits (382), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 107/318 (33%), Positives = 169/318 (53%), Gaps = 26/318 (8%)
Query: 73 QTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLAL 132
Q +E+G + T VQ+ IP +L+GK+V+ A+TGSGKTAA+A+PIL G+ +L
Sbjct: 7 QAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILE------LGMKSL 60
Query: 133 VITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIKVL 192
V+TPTREL Q+A + +G + + V GGM Q + N +V+ATPGR L
Sbjct: 61 VVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRN-ADIVVATPGR---L 116
Query: 193 LEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKNRQTLLFSATMTSDLQT 252
L+ S + +++DEAD + ++GF ++++++ + T LFSAT+ +++
Sbjct: 117 LDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRK 176
Query: 253 LLELSANKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVYLMHV--LSKMEDMGIRSAIIF 310
+++ EA G VE + F+ +VKD + V L + +D G+ I+F
Sbjct: 177 VVKDFITNYEEIEACIGLANVE-----HKFV--HVKDDWRSKVQALRENKDKGV---IVF 226
Query: 311 VSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDI 370
V T A+ L QS R + F+ G+ +L+ TDVASRGLDI
Sbjct: 227 VRTRNRVAKLVRLF----DNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDI 282
Query: 371 PTVDLVLNYDIPRYPRDY 388
P V+ V+N+D P+ R Y
Sbjct: 283 PLVEKVINFDAPQDLRTY 300
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 140 bits (353), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 122/395 (30%), Positives = 191/395 (48%), Gaps = 40/395 (10%)
Query: 84 TPVQTHCIPKIL--EGKDVLGLAQTGSGKTAAFALPILHRLA----EDPYGVLALVITPT 137
TPVQ I IL E DV+ A+TG+GKT AF +PI L + Y V A+++ PT
Sbjct: 45 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPT 104
Query: 138 RELAYQLAEQFKA---LGSGLH-LRCEVVVGGMDLLTQAKSLMN--RPHVVIATPGRIKV 191
R+LA Q+ + K + GL C +VGG D A + MN RP++VIATPGR+
Sbjct: 105 RDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRA-AMNKMNKLRPNIVIATPGRLID 163
Query: 192 LLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPK-------NRQTLLFSA 244
+LE+ + F + VLDEADR+L++GF ++L + L + N +TLLFSA
Sbjct: 164 VLEKYSN--KFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSA 221
Query: 245 TMTSDLQTLLELSANK--AYFYEAYEGFK--TVETLKQQYIFIPKNVKDVY--LMHVLSK 298
T+ +Q L NK F + + + E + Q + K ++ + H+ +
Sbjct: 222 TLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQ 281
Query: 299 MEDMGIR-SAIIFVSTCRSCH---XXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQ 354
+++ AIIF T + D + H +Q++R S + RFK +
Sbjct: 282 IKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDE 341
Query: 355 ATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVTQNDVD 414
+ IL+ TDV +RG+D P V VL +P +Y F+ ++++
Sbjct: 342 SGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP 401
Query: 415 LIHEIE----AVVGKQLEEFECKEQ---EVLSDIT 442
+ E+E V+ KQ E++E E+ EVL +T
Sbjct: 402 FVRELEDAKNIVIAKQ-EKYEPSEEIKSEVLEAVT 435
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 140 bits (353), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 122/395 (30%), Positives = 191/395 (48%), Gaps = 40/395 (10%)
Query: 84 TPVQTHCIPKIL--EGKDVLGLAQTGSGKTAAFALPILHRLA----EDPYGVLALVITPT 137
TPVQ I IL E DV+ A+TG+GKT AF +PI L + Y V A+++ PT
Sbjct: 45 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPT 104
Query: 138 RELAYQLAEQFKA---LGSGLH-LRCEVVVGGMDLLTQAKSLMN--RPHVVIATPGRIKV 191
R+LA Q+ + K + GL C +VGG D A + MN RP++VIATPGR+
Sbjct: 105 RDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDF-RAAMNKMNKLRPNIVIATPGRLID 163
Query: 192 LLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPK-------NRQTLLFSA 244
+LE+ + F + VLDEADR+L++GF ++L + L + N +TLLFSA
Sbjct: 164 VLEKYSN--KFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSA 221
Query: 245 TMTSDLQTLLELSANK--AYFYEAYEGFK--TVETLKQQYIFIPKNVKDVY--LMHVLSK 298
T+ +Q L NK F + + + E + Q + K ++ + H+ +
Sbjct: 222 TLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQ 281
Query: 299 MEDMGIR-SAIIFVSTCRSCH---XXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQ 354
+++ AIIF T + D + H +Q++R S + RFK +
Sbjct: 282 IKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDE 341
Query: 355 ATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVTQNDVD 414
+ IL+ TDV +RG+D P V VL +P +Y F+ ++++
Sbjct: 342 SGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP 401
Query: 415 LIHEIE----AVVGKQLEEFECKEQ---EVLSDIT 442
+ E+E V+ KQ E++E E+ EVL +T
Sbjct: 402 FVRELEDAKNIVIAKQ-EKYEPSEEIKSEVLEAVT 435
>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 = 140 bits (353), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 122/395 (30%), Positives = 191/395 (48%), Gaps = 40/395 (10%)
Query: 84 TPVQTHCIPKIL--EGKDVLGLAQTGSGKTAAFALPILHRLA----EDPYGVLALVITPT 137
TPVQ I IL E DV+ A+TG+GKT AF +PI L + Y V A+++ PT
Sbjct: 96 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPT 155
Query: 138 RELAYQLAEQFKA---LGSGLH-LRCEVVVGGMDLLTQAKSLMN--RPHVVIATPGRIKV 191
R+LA Q+ + K + GL C +VGG D A + MN RP++VIATPGR+
Sbjct: 156 RDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDF-RAAMNKMNKLRPNIVIATPGRLID 214
Query: 192 LLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPK-------NRQTLLFSA 244
+LE+ + F + VLDEADR+L++GF ++L + L + N +TLLFSA
Sbjct: 215 VLEKYSN--KFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSA 272
Query: 245 TMTSDLQTLLELSANK--AYFYEAYEGFK--TVETLKQQYIFIPKNVKDVY--LMHVLSK 298
T+ +Q L NK F + + + E + Q + K ++ + H+ +
Sbjct: 273 TLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQ 332
Query: 299 MEDMGIR-SAIIFVSTCRSCH---XXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQ 354
+++ AIIF T + D + H +Q++R S + RFK +
Sbjct: 333 IKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDE 392
Query: 355 ATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSFVTQNDVD 414
+ IL+ TDV +RG+D P V VL +P +Y F+ ++++
Sbjct: 393 SGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELP 452
Query: 415 LIHEIE----AVVGKQLEEFECKEQ---EVLSDIT 442
+ E+E V+ KQ E++E E+ EVL +T
Sbjct: 453 FVRELEDAKNIVIAKQ-EKYEPSEEIKSEVLEAVT 486
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 138 bits (347), Expect = 9e-33, Method: Compositional matrix adjust.
Identities = 81/211 (38%), Positives = 121/211 (57%), Gaps = 7/211 (3%)
Query: 62 FAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHR 121
F+ L++ ++ +E R T +Q I L+GKDVLG A+TGSGKT AF +P+L
Sbjct: 27 FSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEA 86
Query: 122 LAEDPY----GVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMN 177
L + G+ L+I+PTRELAYQ E + +G +++GG DL +A+ + N
Sbjct: 87 LYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERI-N 145
Query: 178 RPHVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKNR 237
++++ TPGR+ L D + + + LVLDEADR+LD+GF + + V + LPK R
Sbjct: 146 NINILVCTPGRL--LQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKR 203
Query: 238 QTLLFSATMTSDLQTLLELSANKAYFYEAYE 268
QTLLFSAT T ++ L LS + +E
Sbjct: 204 QTLLFSATQTKSVKDLARLSLKNPEYVWVHE 234
>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 = 136 bits (342), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 83/181 (45%), Positives = 110/181 (60%), Gaps = 10/181 (5%)
Query: 79 GMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLA---EDPYGVLALVIT 135
G+ PTP+Q +P LEGKD++G A+TG+GKT AFALPI RLA E ALV+T
Sbjct: 20 GLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLT 79
Query: 136 PTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHVVIATPGR-IKVLLE 194
PTRELA Q+A + A+ HL+ V GG Q ++L+ V+ATPGR + L +
Sbjct: 80 PTRELALQVASELTAVAP--HLKVVAVYGGTGYGKQKEALLRGADAVVATPGRALDYLRQ 137
Query: 195 EDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKNRQTLLFSATMTSDLQTLL 254
D+ SR + VLDEAD +L +GFEEE+ + P +RQTLLFSAT+ S + L
Sbjct: 138 GVLDL----SRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSATLPSWAKRLA 193
Query: 255 E 255
E
Sbjct: 194 E 194
>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 = 134 bits (338), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 82/181 (45%), Positives = 110/181 (60%), Gaps = 10/181 (5%)
Query: 79 GMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLA---EDPYGVLALVIT 135
G+ PTP++ +P LEGKD++G A+TG+GKT AFALPI RLA E ALV+T
Sbjct: 20 GLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLT 79
Query: 136 PTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHVVIATPGR-IKVLLE 194
PTRELA Q+A + A+ HL+ V GG Q ++L+ V+ATPGR + L +
Sbjct: 80 PTRELALQVASELTAVAP--HLKVVAVYGGTGYGKQKEALLRGADAVVATPGRALDYLRQ 137
Query: 195 EDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKNRQTLLFSATMTSDLQTLL 254
D+ SR + VLDEAD +L +GFEEE+ + P +RQTLLFSAT+ S + L
Sbjct: 138 GVLDL----SRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSATLPSWAKRLA 193
Query: 255 E 255
E
Sbjct: 194 E 194
>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 = 134 bits (336), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 86/227 (37%), Positives = 129/227 (56%), Gaps = 19/227 (8%)
Query: 51 PNSTTTDSTVTFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGK 110
P+ + T+ F L L +RPTP+Q + IP ILE +D++ AQTGSGK
Sbjct: 14 PDYSATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGK 73
Query: 111 TAAFALPILHRLA-----EDPYGVLA----LVITPTRELAYQLAEQFKALGSGLHLRCEV 161
TAAF +PI++ L + Y A L++ PTRELA Q+ + + LR V
Sbjct: 74 TAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCV 133
Query: 162 VVGGMDLLTQAKSLMNRPHVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDVG 221
V GG D +Q + + H+++ATPGR+ +E++ I F K++VLDEADR+LD+G
Sbjct: 134 VYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKN-KISLEF--CKYIVLDEADRMLDMG 190
Query: 222 FEEELRVVFQ--CLPK--NRQTLLFSATMTSDLQTLLELSANKAYFY 264
FE ++R + + +P NRQTL+FSAT ++Q +L+A+ Y Y
Sbjct: 191 FEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQ---KLAADFLYNY 234
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 132 bits (333), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 97/326 (29%), Positives = 168/326 (51%), Gaps = 14/326 (4%)
Query: 61 TFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEG--KDVLGLAQTGSGKTAAFALPI 118
+F LGLA ++ + ++P+ +Q +P +L ++++ +Q+G+GKTAAF+L +
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 119 LHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNR 178
L R+ + A+ + P+RELA Q E + +G + +++V D + K +
Sbjct: 66 LTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVP--DSFEKNKQI--N 121
Query: 179 PHVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDV-GFEEELRVVFQCLPKNR 237
V++ TPG + L+ + K VLDEAD +LD G ++ V + LPK+
Sbjct: 122 AQVIVGTPGTVLDLMRRKL---MQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDT 178
Query: 238 QTLLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVYLMHVLS 297
Q +LFSAT ++ + A E V+ +KQ Y+ KN D + VL+
Sbjct: 179 QLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDC-KNEADKF--DVLT 235
Query: 298 KMED-MGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQAT 356
++ M I S+IIFV+T ++ + E LH +R + F+ G++
Sbjct: 236 ELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSK 295
Query: 357 ILLATDVASRGLDIPTVDLVLNYDIP 382
+L+ T+V +RG+DIPTV +V+NYD+P
Sbjct: 296 VLITTNVLARGIDIPTVSMVVNYDLP 321
>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 = 132 bits (333), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 97/326 (29%), Positives = 168/326 (51%), Gaps = 14/326 (4%)
Query: 61 TFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEG--KDVLGLAQTGSGKTAAFALPI 118
+F LGLA ++ + ++P+ +Q +P +L ++++ +Q+G+GKTAAF+L +
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 119 LHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNR 178
L R+ + A+ + P+RELA Q E + +G + +++V D + K +
Sbjct: 66 LTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVP--DSFEKNKQI--N 121
Query: 179 PHVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDV-GFEEELRVVFQCLPKNR 237
V++ TPG + L+ + K VLDEAD +LD G ++ V + LPK+
Sbjct: 122 AQVIVGTPGTVLDLMRRKL---MQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDT 178
Query: 238 QTLLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVYLMHVLS 297
Q +LFSAT ++ + A E V+ +KQ Y+ KN D + VL+
Sbjct: 179 QLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDC-KNEADKF--DVLT 235
Query: 298 KMED-MGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQAT 356
++ M I S+IIFV+T ++ + E LH +R + F+ G++
Sbjct: 236 ELYGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSK 295
Query: 357 ILLATDVASRGLDIPTVDLVLNYDIP 382
+L+ T+V +RG+DIPTV +V+NYD+P
Sbjct: 296 VLITTNVLARGIDIPTVSMVVNYDLP 321
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 131 bits (329), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 75/200 (37%), Positives = 117/200 (58%), Gaps = 6/200 (3%)
Query: 69 EWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPY- 127
E ++ KE+G T +Q I +LEG+D+L A+TGSGKT AF +P + + + +
Sbjct: 63 ENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFM 122
Query: 128 ---GVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHVVIA 184
G L+++PTRELA Q K L + +++GG + +A+ L N ++++A
Sbjct: 123 PRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVA 182
Query: 185 TPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKNRQTLLFSA 244
TPGR+ ++ P ++ + LV+DEADR+LDVGFEEEL+ + + LP RQT+LFSA
Sbjct: 183 TPGRLLDHMQNTPGF--MYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSA 240
Query: 245 TMTSDLQTLLELSANKAYFY 264
T T ++ L +S K Y
Sbjct: 241 TQTRKVEDLARISLKKEPLY 260
>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 = 120 bits (302), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 68/191 (35%), Positives = 104/191 (54%), Gaps = 4/191 (2%)
Query: 61 TFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILH 120
+F + L+E ++ G P+ +Q I + G DV+ AQ+G+G TA FA+ IL
Sbjct: 16 SFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQ 75
Query: 121 RLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSL-MNRP 179
++ D ALV+ PTRELA Q+ ALG + C +GG ++ + + L M P
Sbjct: 76 QIELDLXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQXLQMEAP 135
Query: 180 HVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKNRQT 239
H+++ TPGR+ +L + P + VLDEAD +L GF +++ +FQ L N Q
Sbjct: 136 HIIVGTPGRVFDMLNRRY-LSPXY--IXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQV 192
Query: 240 LLFSATMTSDL 250
+L SATM SD+
Sbjct: 193 VLLSATMPSDV 203
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 118 bits (295), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 68/191 (35%), Positives = 105/191 (54%), Gaps = 4/191 (2%)
Query: 61 TFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILH 120
F + L E ++ G +P+ +Q I ++G DV+ AQ+G+GKTA FA+ IL
Sbjct: 31 NFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQ 90
Query: 121 RLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNR-P 179
+L + ALV+ PTRELA Q+ + ALG + C +GG ++ + + L P
Sbjct: 91 QLEIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQAEAP 150
Query: 180 HVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKNRQT 239
H+V+ TPGR+ +L P K VLDEAD +L GF++++ +FQ L + Q
Sbjct: 151 HIVVGTPGRVFDMLNRRYLSP---KWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQV 207
Query: 240 LLFSATMTSDL 250
+L SATM +D+
Sbjct: 208 VLLSATMPTDV 218
>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 = 116 bits (290), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 69/190 (36%), Positives = 103/190 (54%), Gaps = 10/190 (5%)
Query: 77 ELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITP 136
E+G +P+P+Q IP L G+D+L A+ G+GK+ A+ +P+L RL + A+VI P
Sbjct: 20 EMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLDLKKDNIQAMVIVP 79
Query: 137 TRELAYQLA----EQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIKVL 192
TRELA Q++ + K +G + GG +L L + HVVIATPGRI L
Sbjct: 80 TRELALQVSQICIQVSKHMGGA---KVMATTGGTNLRDDIMRLDDTVHVVIATPGRILDL 136
Query: 193 LEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKNRQTLLFSATMTSDLQT 252
+++ + +VLDEAD++L F + + + LPKNRQ LL+SAT +Q
Sbjct: 137 IKKG---VAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSATFPLSVQK 193
Query: 253 LLELSANKAY 262
+ K Y
Sbjct: 194 FMNSHLEKPY 203
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 67/178 (37%), Positives = 98/178 (55%), Gaps = 8/178 (4%)
Query: 83 PTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPY-----GVLALVITPT 137
PT +Q P L G D++G+AQTGSGKT ++ LP + + P+ G + LV+ PT
Sbjct: 66 PTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPT 125
Query: 138 RELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIKVLLEEDP 197
RELA Q+ + L+ + GG Q + L + IATPGR+ LE
Sbjct: 126 RELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGK 185
Query: 198 DIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKNRQTLLFSATMTSDLQTLLE 255
RT +LVLDEADR+LD+GFE ++R + + +RQTL++SAT +++ L E
Sbjct: 186 T---NLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAE 240
>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 = 114 bits (285), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 67/178 (37%), Positives = 98/178 (55%), Gaps = 8/178 (4%)
Query: 83 PTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPY-----GVLALVITPT 137
PT +Q P L G D++G+AQTGSGKT ++ LP + + P+ G + LV+ PT
Sbjct: 52 PTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPT 111
Query: 138 RELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIKVLLEEDP 197
RELA Q+ + L+ + GG Q + L + IATPGR+ LE
Sbjct: 112 RELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGK 171
Query: 198 DIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKNRQTLLFSATMTSDLQTLLE 255
RT +LVLDEADR+LD+GFE ++R + + +RQTL++SAT +++ L E
Sbjct: 172 T---NLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAE 226
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 114 bits (284), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 94/347 (27%), Positives = 162/347 (46%), Gaps = 13/347 (3%)
Query: 40 TTQLEKFTNPDPNSTTTDSTVTFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEG-- 97
T Q+E DPNS S +F L L +Q +G RP+ +Q + +P +L
Sbjct: 23 TNQVEVLQR-DPNSPLY-SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPP 80
Query: 98 KDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGL-H 156
++++ +Q+G+GKTAAF L +L ++ L ++PT ELA Q + + +G
Sbjct: 81 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE 140
Query: 157 LRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADR 216
L+ V G L K +VI TPG + + I P + K VLDEAD
Sbjct: 141 LKLAYAVRGNKLERGQKI---SEQIVIGTPGTVLDWCSKLKFIDP--KKIKVFVLDEADV 195
Query: 217 VLDV-GFEEELRVVFQCLPKNRQTLLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVET 275
++ G +++ + + LP+N Q LLFSAT + + + +T++T
Sbjct: 196 MIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDT 255
Query: 276 LKQQYIFIPKNVKDVYLMHVLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALH 335
+KQ Y+ + +D + + + I A+IF T ++ + L
Sbjct: 256 IKQYYVLC--SSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLS 313
Query: 336 SFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIP 382
QR + + RF+ G+ +L+ T+V +RG+D+ V +V+N+D+P
Sbjct: 314 GEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 360
>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 = 114 bits (284), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 94/347 (27%), Positives = 162/347 (46%), Gaps = 13/347 (3%)
Query: 40 TTQLEKFTNPDPNSTTTDSTVTFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEG-- 97
T Q+E DPNS S +F L L +Q +G RP+ +Q + +P +L
Sbjct: 7 TNQVEVLQR-DPNSPLY-SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPP 64
Query: 98 KDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGL-H 156
++++ +Q+G+GKTAAF L +L ++ L ++PT ELA Q + + +G
Sbjct: 65 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE 124
Query: 157 LRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADR 216
L+ V G L K +VI TPG + + I P + K VLDEAD
Sbjct: 125 LKLAYAVRGNKLERGQKI---SEQIVIGTPGTVLDWCSKLKFIDP--KKIKVFVLDEADV 179
Query: 217 VLDV-GFEEELRVVFQCLPKNRQTLLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVET 275
++ G +++ + + LP+N Q LLFSAT + + + +T++T
Sbjct: 180 MIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDT 239
Query: 276 LKQQYIFIPKNVKDVYLMHVLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALH 335
+KQ Y+ + +D + + + I A+IF T ++ + L
Sbjct: 240 IKQYYVLC--SSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLS 297
Query: 336 SFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIP 382
QR + + RF+ G+ +L+ T+V +RG+D+ V +V+N+D+P
Sbjct: 298 GEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 344
>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 = 113 bits (283), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 94/347 (27%), Positives = 162/347 (46%), Gaps = 13/347 (3%)
Query: 40 TTQLEKFTNPDPNSTTTDSTVTFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEG-- 97
T Q+E DPNS S +F L L +Q +G RP+ +Q + +P +L
Sbjct: 44 TNQVEVLQR-DPNSPLY-SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPP 101
Query: 98 KDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGL-H 156
++++ +Q+G+GKTAAF L +L ++ L ++PT ELA Q + + +G
Sbjct: 102 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE 161
Query: 157 LRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADR 216
L+ V G L K +VI TPG + + I P + K VLDEAD
Sbjct: 162 LKLAYAVRGNKLERGQKI---SEQIVIGTPGTVLDWCSKLKFIDP--KKIKVFVLDEADV 216
Query: 217 VLDV-GFEEELRVVFQCLPKNRQTLLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVET 275
++ G +++ + + LP+N Q LLFSAT + + + +T++T
Sbjct: 217 MIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDT 276
Query: 276 LKQQYIFIPKNVKDVYLMHVLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALH 335
+KQ Y+ + +D + + + I A+IF T ++ + L
Sbjct: 277 IKQYYVLC--SSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLS 334
Query: 336 SFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIP 382
QR + + RF+ G+ +L+ T+V +RG+D+ V +V+N+D+P
Sbjct: 335 GEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 381
>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 = 113 bits (283), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 94/347 (27%), Positives = 161/347 (46%), Gaps = 13/347 (3%)
Query: 40 TTQLEKFTNPDPNSTTTDSTVTFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEG-- 97
T Q+E DPNS S +F L L +Q +G RP+ +Q + +P +L
Sbjct: 74 TNQVEVLQR-DPNSPLY-SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPP 131
Query: 98 KDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGL-H 156
++++ +Q+G+GKTAAF L +L ++ L ++PT ELA Q + + +G
Sbjct: 132 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE 191
Query: 157 LRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADR 216
L+ V G L K +VI TPG + + I P + K VLDEAD
Sbjct: 192 LKLAYAVRGNKLERGQKI---SEQIVIGTPGTVLDWCSKLKFIDP--KKIKVFVLDEADV 246
Query: 217 VLDV-GFEEELRVVFQCLPKNRQTLLFSATMTSDLQTLLELSANKAYFYEAYEGFKTVET 275
++ G +++ + + LP+N Q LLFSAT + + + +T++T
Sbjct: 247 MIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDT 306
Query: 276 LKQQYIFIPKNVKDVYLMHVLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALH 335
+KQ Y+ +D + + + I A+IF T ++ + L
Sbjct: 307 IKQYYVLCSS--RDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLS 364
Query: 336 SFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIP 382
QR + + RF+ G+ +L+ T+V +RG+D+ V +V+N+D+P
Sbjct: 365 GEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 411
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 107 bits (266), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 65/192 (33%), Positives = 100/192 (52%), Gaps = 10/192 (5%)
Query: 62 FAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHR 121
F + L E ++ G P+ +Q I I+EG DVL AQ+G+GKT F++ L R
Sbjct: 23 FDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 122 LAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHV 181
+ AL++ PTRELA Q+ + AL + ++ +GG + A+ L + +
Sbjct: 83 IDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRD-AQI 141
Query: 182 VIATPGRIKVLLEEDPDIPPVFSRT---KFLVLDEADRVLDVGFEEELRVVFQCLPKNRQ 238
V+ TPGR+ +I RT K +LDEAD +L GF+E++ +F LP Q
Sbjct: 142 VVGTPGRVF------DNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQ 195
Query: 239 TLLFSATMTSDL 250
+L SATM +D+
Sbjct: 196 VVLLSATMPNDV 207
>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 = 106 bits (265), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 65/192 (33%), Positives = 100/192 (52%), Gaps = 10/192 (5%)
Query: 62 FAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHR 121
F + L E ++ G P+ +Q I I+EG DVL AQ+G+GKT F++ L R
Sbjct: 16 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 75
Query: 122 LAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHV 181
+ AL++ PTRELA Q+ + AL + ++ +GG + A+ L + +
Sbjct: 76 IDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRD-AQI 134
Query: 182 VIATPGRIKVLLEEDPDIPPVFSRT---KFLVLDEADRVLDVGFEEELRVVFQCLPKNRQ 238
V+ TPGR+ +I RT K +LDEAD +L GF+E++ +F LP Q
Sbjct: 135 VVGTPGRVF------DNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQ 188
Query: 239 TLLFSATMTSDL 250
+L SATM +D+
Sbjct: 189 VVLLSATMPNDV 200
>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 = 106 bits (264), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 70/214 (32%), Positives = 104/214 (48%), Gaps = 13/214 (6%)
Query: 62 FAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHR 121
F + ++ K L +PT +Q IP L G+ +G +QTG+GKT A+ LPI +
Sbjct: 6 FTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEK 65
Query: 122 LAEDPYGVLALVITPTRELAYQLAEQ------FKALGSGLHLRCEVVVGGMDLLTQAKSL 175
+ + V A++ PTRELA Q+ + F + RC ++GG D + L
Sbjct: 66 IKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARC--LIGGTDKQKALEKL 123
Query: 176 MNRPHVVIATPGRIKVLLEEDP-DIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLP 234
+PH+VI TPGRI + E D+ LV+DEAD LD GF ++ + P
Sbjct: 124 NVQPHIVIGTPGRINDFIREQALDV----HTAHILVVDEADLXLDXGFITDVDQIAARXP 179
Query: 235 KNRQTLLFSATMTSDLQTLLELSANKAYFYEAYE 268
K+ Q L+FSAT+ L+ L+ F E
Sbjct: 180 KDLQXLVFSATIPEKLKPFLKKYXENPTFVHVLE 213
>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 = 105 bits (262), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 64/186 (34%), Positives = 103/186 (55%), Gaps = 6/186 (3%)
Query: 62 FAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHR 121
F L L+ ++ + G RP+PVQ IP G D++ A++G+GKT F+ L
Sbjct: 26 FESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDS 85
Query: 122 LAEDPYGVLALVITPTRELAYQLAEQFKALGSGLH-LRCEVVVGGMDLLTQAKSLMNRPH 180
L + L++ PTRE+A Q+ A+G + L C V +GG L+Q K+ + + H
Sbjct: 86 LVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTP-LSQDKTRLKKCH 144
Query: 181 VVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLDVG-FEEELRVVFQCLPKNRQT 239
+ + +PGRIK L+E D P + +LDEAD++L+ G F+E++ ++ LP ++Q
Sbjct: 145 IAVGSPGRIKQLIELDYLNP---GSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQM 201
Query: 240 LLFSAT 245
L SAT
Sbjct: 202 LAVSAT 207
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 104 bits (259), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 84/304 (27%), Positives = 144/304 (47%), Gaps = 20/304 (6%)
Query: 86 VQTHCIPKILEG--KDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITPTRELAYQ 143
+Q +P +L ++++G +Q+G+GKTAAFAL +L R+ A+ + P+RELA Q
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELARQ 204
Query: 144 LAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIKVLLE----EDPDI 199
+ + +G + + G D + + + +VI TPG + L++ + DI
Sbjct: 205 IMDVVTEMGK--YTEVKTAFGIKDSVPKGAKI--DAQIVIGTPGTVMDLMKRRQLDARDI 260
Query: 200 PPVFSRTKFLVLDEADRVLD-VGFEEELRVVFQCLPKNRQTLLFSATMTSDLQTLLELSA 258
K VLDEAD +LD G ++ + LP+N Q +LFSAT + ++ E A
Sbjct: 261 -------KVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFA 313
Query: 259 NKAYFYEAYEGFKTVETLKQQYIFIPKNVKDVYLMHVLSKMEDMGIRSAIIFVSTCRSCH 318
A +VE +KQ Y+ ++ L + +G +IIF +
Sbjct: 314 PNANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIG--QSIIFCKKKDTAE 371
Query: 319 XXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLN 378
L +QR + + F+ G + +L+ T+V +RG+D+ V+LV+N
Sbjct: 372 EIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVN 431
Query: 379 YDIP 382
YD+P
Sbjct: 432 YDMP 435
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 100 bits (250), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 62/196 (31%), Positives = 109/196 (55%), Gaps = 15/196 (7%)
Query: 72 VQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPY-GVL 130
+Q + G + PTP+Q IP +L G+++L A TGSGKT AF++PIL +L + G
Sbjct: 41 LQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPANKGFR 100
Query: 131 ALVITPTRELAYQLAEQFKALGSG----LHLRCEVVVGGMDLLTQAKSLMNRPHVVIATP 186
AL+I+PTRELA Q+ + + G +H+ + V ++ + +++ TP
Sbjct: 101 ALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFD---ILVTTP 157
Query: 187 GRIKVLLEEDPDIPPV-FSRTKFLVLDEADRVLD---VGFEEELRVVF-QCLPKNRQTLL 241
R+ LL++DP P + + ++LV+DE+D++ + GF ++L +F C + +
Sbjct: 158 NRLIYLLKQDP--PGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAM 215
Query: 242 FSATMTSDLQTLLELS 257
FSAT D++ +L+
Sbjct: 216 FSATFAYDVEQWCKLN 231
>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 = 98.6 bits (244), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 57/178 (32%), Positives = 99/178 (55%), Gaps = 6/178 (3%)
Query: 77 ELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITP 136
+ G P+ VQ CIP+ + G DVL A++G GKTA F L L +L V LV+
Sbjct: 31 DCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCH 90
Query: 137 TRELAYQLAEQFKALGSGL-HLRCEVVVGGMDLLTQAKSL-MNRPHVVIATPGRIKVLLE 194
TRELA+Q++++++ + +++ V GG+ + + L N PH+V+ TPGRI L
Sbjct: 91 TRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALAR 150
Query: 195 EDPDIPPVFSRTKFLVLDEADRVLD-VGFEEELRVVFQCLPKNRQTLLFSATMTSDLQ 251
K +LDE D++L+ + +++ +F+ P +Q ++FSAT++ +++
Sbjct: 151 NK---SLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIR 205
>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 = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 66/184 (35%), Positives = 104/184 (56%), Gaps = 14/184 (7%)
Query: 78 LGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPY------GVLA 131
+G+ +PTP+Q+ P IL+G D++ +AQTG+GKT ++ +P L P G
Sbjct: 38 VGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQRNGPGM 97
Query: 132 LVITPTRELAYQL-AEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIK 190
LV+TPTRELA + AE K GL C + GG + Q + + ++IATPGR+
Sbjct: 98 LVLTPTRELALHVEAECSKYSYKGLKSIC--IYGGRNRNGQIEDISKGVDIIIATPGRLN 155
Query: 191 VLLEEDPDIPPVFSRT-KFLVLDEADRVLDVGFEEELRVVFQCLPKNRQTLLFSATMTSD 249
L + V R+ +LV+DEAD++LD+ FE ++R + + +RQT++ SAT
Sbjct: 156 DLQMNN----SVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTSATWPDT 211
Query: 250 LQTL 253
++ L
Sbjct: 212 VRQL 215
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 84.7 bits (208), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 62/199 (31%), Positives = 105/199 (52%), Gaps = 11/199 (5%)
Query: 50 DPNSTTTDSTVTFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILEG--KDVLGLAQTG 107
DPNS S +F LGLA ++ + ++P+ +Q +P +L ++++ +Q+G
Sbjct: 13 DPNSPLY-SAKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSG 71
Query: 108 SGKTAAFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMD 167
+GKTAAF+L +L R+ + A+ + P+RELA Q E + +G + +++V D
Sbjct: 72 TGKTAAFSLTMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVP--D 129
Query: 168 LLTQAKSLMNRPHVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADRVLD-VGFEEEL 226
+ K + V++ TPG + L+ + K VLDEAD +LD G ++
Sbjct: 130 SFEKNKQI--NAQVIVGTPGTVLDLMRRKLM---QLQKIKIFVLDEADNMLDQQGLGDQC 184
Query: 227 RVVFQCLPKNRQTLLFSAT 245
V + LPK+ Q +LFSAT
Sbjct: 185 IRVKRFLPKDTQLVLFSAT 203
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 66/210 (31%), Positives = 103/210 (49%), Gaps = 11/210 (5%)
Query: 40 TTQLEKFTNPDPNSTTTDSTVTFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILE--G 97
T Q+E DPNS S +F L L +Q +G RP+ +Q + +P +L
Sbjct: 74 TNQVEVLQR-DPNSPLY-SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPP 131
Query: 98 KDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGL-H 156
++++ +Q+G+GKTAAF L +L ++ L ++PT ELA Q + + +G
Sbjct: 132 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE 191
Query: 157 LRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADR 216
L+ V G L K +VI TPG + + I P + K VLDEAD
Sbjct: 192 LKLAYAVRGNKLERGQKI---SEQIVIGTPGTVLDWCSKLKFIDP--KKIKVFVLDEADV 246
Query: 217 VLDV-GFEEELRVVFQCLPKNRQTLLFSAT 245
++ G +++ + + LP+N Q LLFSAT
Sbjct: 247 MIATQGHQDQSIRIQRMLPRNCQMLLFSAT 276
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 66/210 (31%), Positives = 103/210 (49%), Gaps = 11/210 (5%)
Query: 40 TTQLEKFTNPDPNSTTTDSTVTFAGLGLAEWAVQTCKELGMRRPTPVQTHCIPKILE--G 97
T Q+E DPNS S +F L L +Q +G RP+ +Q + +P +L
Sbjct: 7 TNQVEVLQR-DPNSPLY-SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPP 64
Query: 98 KDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGL-H 156
++++ +Q+G+GKTAAF L +L ++ L ++PT ELA Q + + +G
Sbjct: 65 QNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPE 124
Query: 157 LRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIKVLLEEDPDIPPVFSRTKFLVLDEADR 216
L+ V G L K +VI TPG + + I P + K VLDEAD
Sbjct: 125 LKLAYAVRGNKLERGQKI---SEQIVIGTPGTVLDWCSKLKFIDP--KKIKVFVLDEADV 179
Query: 217 VLDV-GFEEELRVVFQCLPKNRQTLLFSAT 245
++ G +++ + + LP+N Q LLFSAT
Sbjct: 180 MIATQGHQDQSIRIQRMLPRNCQMLLFSAT 209
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 44/159 (27%), Positives = 76/159 (47%), Gaps = 4/159 (2%)
Query: 273 VETLKQQYIFIPKNVKDVYLMHVLSKMED-MGIRSAIIFVSTCRSCHXXXXXXXXXDQEA 331
+E +KQ Y+ + + + Y L+ + D + + A+IF +T R
Sbjct: 1 LEGIKQFYVNVEE---EEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTV 57
Query: 332 VALHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXX 391
A++S Q +R + + F+SG + IL++TD+ +RG+D+ V LV+NYD+P +Y
Sbjct: 58 SAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHR 117
Query: 392 XXXXXXXXXXXXXXSFVTQNDVDLIHEIEAVVGKQLEEF 430
+FVT DV + E+E Q+EE
Sbjct: 118 IGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEEL 156
>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 = 68.2 bits (165), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 55/111 (49%), Gaps = 4/111 (3%)
Query: 278 QQYIFIPKNVKDVYLMHVLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSF 337
Q+ ++ + K VYL+ L K +IF EAVA+H
Sbjct: 32 QEVEYVKEEAKMVYLLECLQKTPP----PVLIFAEKKADVDAIHEYLLLKGVEAVAIHGG 87
Query: 338 KSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDY 388
K Q +R A+ F+ G+ +L+ATDVAS+GLD P + V+NYD+P +Y
Sbjct: 88 KDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENY 138
>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 = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 38/148 (25%), Positives = 73/148 (49%), Gaps = 2/148 (1%)
Query: 272 TVETLKQQYIFIPKNVKDVYLMHVLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEA 331
T E + Q+ +++ ++ K +L+ +L+ + ++FV T +
Sbjct: 16 TSENITQKVVWVEESDKRSFLLDLLNATGKDSL--TLVFVETKKGADSLEDFLYHEGYAC 73
Query: 332 VALHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXX 391
++H +SQ R ALH+F+SG++ IL+AT VA+RGLDI V V+N+D+P +Y
Sbjct: 74 TSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHR 133
Query: 392 XXXXXXXXXXXXXXSFVTQNDVDLIHEI 419
SF + ++++ ++
Sbjct: 134 IGRTGRVGNLGLATSFFNERNINITKDL 161
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 65.5 bits (158), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 40/150 (26%), Positives = 72/150 (48%), Gaps = 4/150 (2%)
Query: 272 TVETLKQQYIFIPKNVKDVYLMHVLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEA 331
++ L+Q Y+ + N K+ L +L +E +IFV + + C + A
Sbjct: 2 SLHGLQQYYVKLKDNEKNRKLFDLLDVLE---FNQVVIFVKSVQRCIALAQLLVEQNFPA 58
Query: 332 VALHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXX 391
+A+H Q +RLS +FK Q IL+AT++ RG+DI V++ NYD+P Y
Sbjct: 59 IAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHR 118
Query: 392 XXXXXXXXXXXXXXSFVT-QNDVDLIHEIE 420
+FV+ +ND ++++++
Sbjct: 119 VARAGRFGTKGLAITFVSDENDAKILNDVQ 148
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 62.0 bits (149), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 38/112 (33%), Positives = 63/112 (56%), Gaps = 4/112 (3%)
Query: 272 TVETLKQQYIFIPKNVKDVYLMHVLSKMED-MGIRSAIIFVSTCRSCHXXXXXXXXXDQE 330
V+ +KQ Y+ KN D + VL+++ M I S+IIFV+T ++ + E
Sbjct: 5 NVDAIKQLYMDC-KNEADKF--DVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHE 61
Query: 331 AVALHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIP 382
LH +R + F+ G++ +L+ T+V +RG+DIPTV +V+NYD+P
Sbjct: 62 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLP 113
>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 = 62.0 bits (149), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 31/98 (31%), Positives = 49/98 (50%)
Query: 334 LHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXX 393
+H Q R ++ FK G+ L+ATDVA+RG+DI + LV+NYD+P Y
Sbjct: 65 IHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTG 124
Query: 394 XXXXXXXXXXXXSFVTQNDVDLIHEIEAVVGKQLEEFE 431
SFVT + + +IE +G ++++ E
Sbjct: 125 RTGRAGNKGKAISFVTAFEKRFLADIEEYIGFEIQKIE 162
>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 = 62.0 bits (149), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 42/76 (55%)
Query: 307 AIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQATILLATDVASR 366
A++F T A ALH SQ +R + F+ G+ +L+ATDVA+R
Sbjct: 31 AMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAAR 90
Query: 367 GLDIPTVDLVLNYDIP 382
GLDIP VDLV++Y +P
Sbjct: 91 GLDIPQVDLVVHYRMP 106
>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 = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 31/76 (40%), Positives = 42/76 (55%)
Query: 307 AIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQATILLATDVASR 366
A++F T A ALH SQ +R L F+ G+ +L+ATDVA+R
Sbjct: 34 AMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAAR 93
Query: 367 GLDIPTVDLVLNYDIP 382
GLDIP VDLV++Y +P
Sbjct: 94 GLDIPQVDLVVHYRLP 109
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 58.5 bits (140), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 37/112 (33%), Positives = 61/112 (54%), Gaps = 4/112 (3%)
Query: 272 TVETLKQQYIFIPKNVKDVYLMHVLSKMEDMG-IRSAIIFVSTCRSCHXXXXXXXXXDQE 330
V+ +KQ Y KN D + VL+++ + I S+IIFV+T ++ + E
Sbjct: 7 NVDAIKQLYXDC-KNEADKF--DVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHE 63
Query: 331 AVALHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIP 382
LH +R + F+ G++ +L+ T+V +RG+DIPTV V+NYD+P
Sbjct: 64 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLP 115
>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 = 58.5 bits (140), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 45/79 (56%)
Query: 304 IRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSALHRFKSGQATILLATDV 363
I S+IIFV+T ++ + E LH +R + F+ G++ +L+ T+V
Sbjct: 36 IGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNV 95
Query: 364 ASRGLDIPTVDLVLNYDIP 382
+RG+DIPTV V+NYD+P
Sbjct: 96 LARGIDIPTVSXVVNYDLP 114
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 41/142 (28%), Positives = 59/142 (41%), Gaps = 7/142 (4%)
Query: 288 KDVYLMHVLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRLSAL 347
K L+H+L + E +I+FV H L Q +R A+
Sbjct: 17 KTALLVHLLKQPEAT---RSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAI 73
Query: 348 HRFKSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXXXXXXXXXXXXXXSF 407
R G+ +L+ATDVA+RG+DIP V V N+D+PR Y S
Sbjct: 74 KRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISL 133
Query: 408 VTQNDVDLIHEIEAVVGKQLEE 429
V +D H + VG+ +EE
Sbjct: 134 VEAHD----HLLLGKVGRYIEE 151
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 53/105 (50%), Gaps = 1/105 (0%)
Query: 278 QQYIFIPKNVKDVYLMHVLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSF 337
+QY + ++ KD Y + + + I AIIF T R+ + L
Sbjct: 9 RQYYVLCEHRKDKY-QALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGE 67
Query: 338 KSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIP 382
+ QR S + RF+ G+ +L+ T+V +RG+D+ V +V+N+D+P
Sbjct: 68 LTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLP 112
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 34/157 (21%), Positives = 69/157 (43%), Gaps = 3/157 (1%)
Query: 272 TVETLKQQYIFIPKNVKDVYLMHVLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEA 331
T++ + Q Y ++ + K L + S+++ I +IIF ++ +
Sbjct: 15 TLKGVTQYYAYVTERQKVHCLNTLFSRLQ---INQSIIFCNSSQRVELLAKKISQLGYSC 71
Query: 332 VALHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXX 391
+H+ Q R H F++G L+ TD+ +RG+DI V++V+N+D P+ Y
Sbjct: 72 FYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHR 131
Query: 392 XXXXXXXXXXXXXXSFVTQNDVDLIHEIEAVVGKQLE 428
+ +T +D + IE +G +++
Sbjct: 132 IGRSGRFGHLGLAINLITYDDRFNLKSIEEQLGTEIK 168
>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 = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 57/116 (49%), Gaps = 8/116 (6%)
Query: 334 LHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXX 393
H +Q++R S + RFK ++ IL+ TDV +RG+D P V VL +P +Y
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 394 XXXXXXXXXXXXSFVTQNDVDLIHEIE----AVVGKQLEEFECKEQ---EVLSDIT 442
F+ ++++ + E+E V+ KQ E++E E+ EVL +T
Sbjct: 126 RTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQ-EKYEPSEEIKSEVLEAVT 180
>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 = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 57/116 (49%), Gaps = 8/116 (6%)
Query: 334 LHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXX 393
H +Q++R S + RFK ++ IL+ TDV +RG+D P V VL +P +Y
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 394 XXXXXXXXXXXXSFVTQNDVDLIHEIE----AVVGKQLEEFECKEQ---EVLSDIT 442
F+ ++++ + E+E V+ KQ E++E E+ EVL +T
Sbjct: 126 RTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQ-EKYEPSEEIKSEVLEAVT 180
>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 = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 57/116 (49%), Gaps = 8/116 (6%)
Query: 334 LHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDYXXXXX 393
H +Q++R S + RFK ++ IL+ TDV +RG+D P V VL +P +Y
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 394 XXXXXXXXXXXXSFVTQNDVDLIHEIE----AVVGKQLEEFECKEQ---EVLSDIT 442
F+ ++++ + E+E V+ KQ E++E E+ EVL +T
Sbjct: 126 RTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQ-EKYEPSEEIKSEVLEAVT 180
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 48.5 bits (114), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 77/344 (22%), Positives = 123/344 (35%), Gaps = 50/344 (14%)
Query: 65 LGLAEWAVQTCKE-LGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLA 123
L L A Q +E G ++ P Q I +L G+D L + TG GK+ + +P L
Sbjct: 7 LNLESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALL--- 63
Query: 124 EDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHVVI 183
L +V++P L +Q +A G L + ++
Sbjct: 64 ---LNGLTVVVSPLISLXKDQVDQLQANGVAAACLNSTQTREQQLEVXTGCRTGQIRLLY 120
Query: 184 ATPGRIKV--LLEEDPDIPPVFSRTKFLVLDEADRVLDVGFE--------EELRVVFQCL 233
P R+ + LE PV L +DEA + G + +LR F L
Sbjct: 121 IAPERLXLDNFLEHLAHWNPVL-----LAVDEAHCISQWGHDFRPEYAALGQLRQRFPTL 175
Query: 234 PKNRQTLLFSATMTSDLQTLLELSA---------NKAYFYEAYEGFKTVETLKQQYIFIP 284
P T T D+ LL L+ Y E FK ++ L + Y+
Sbjct: 176 PFXALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYXLXEKFKPLDQLXR-YVQEQ 234
Query: 285 KNVKDVYLMHVLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQSQRL 344
+ + + +K+ED R +S A A H+ + R
Sbjct: 235 RGKSGIIYCNSRAKVEDTAARLQSKGIS------------------AAAYHAGLENNVRA 276
Query: 345 SALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDY 388
+F+ I++AT G++ P V V+++DIPR Y
Sbjct: 277 DVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPRNIESY 320
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 79/348 (22%), Positives = 133/348 (38%), Gaps = 58/348 (16%)
Query: 65 LGLAEWAVQTCKE-LGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLA 123
L L A Q +E G ++ P Q I +L G+D L + TG GK+ + +P L
Sbjct: 7 LNLESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALL--- 63
Query: 124 EDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRC----EVVVGGMDLLTQAKSLMNRP 179
L +V++P L +Q +A +G+ C + ++++T ++ R
Sbjct: 64 ---LNGLTVVVSPLISLMKDQVDQLQA--NGVAAACLNSTQTREQQLEVMTGCRTGQIR- 117
Query: 180 HVVIATPGRIKV--LLEEDPDIPPVFSRTKFLVLDEADRVLDVGFE--------EELRVV 229
++ P R+ + LE PV L +DEA + G + +LR
Sbjct: 118 -LLYIAPERLMLDNFLEHLAHWNPVL-----LAVDEAHCISQWGHDFRPEYAALGQLRQR 171
Query: 230 FQCLPKNRQTLLFSATMTSDLQTLLELSA---------NKAYFYEAYEGFKTVETLKQQY 280
F LP T T D+ LL L+ Y E FK ++ L +Y
Sbjct: 172 FPTLPFMALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYMLMEKFKPLDQL-MRY 230
Query: 281 IFIPKNVKDVYLMHVLSKMEDMGIRSAIIFVSTCRSCHXXXXXXXXXDQEAVALHSFKSQ 340
+ + + + +K+ED R +S A A H+
Sbjct: 231 VQEQRGKSGIIYCNSRAKVEDTAARLQSKGIS------------------AAAYHAGLEN 272
Query: 341 SQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDIPRYPRDY 388
+ R +F+ I++AT G++ P V V+++DIPR Y
Sbjct: 273 NVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESY 320
>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 = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 46/176 (26%), Positives = 72/176 (40%), Gaps = 10/176 (5%)
Query: 74 TCKELGMRRPTPVQTHCIPK-ILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLAL 132
T KE G+ P Q + ILEGK+ L T SGKT + ++HR+ G A+
Sbjct: 15 TLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQ--GGKAV 72
Query: 133 VITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIKVL 192
I P + LA + ++F+ + LR + G D + + ++IAT + L
Sbjct: 73 YIVPLKALAEEKFQEFQDW-EKIGLRVAMATGDYD---SKDEWLGKYDIIIATAEKFDSL 128
Query: 193 LEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVVFQCLPKNRQTLLFSATMTS 248
L K LV DE + L V+ + Q + SAT+ +
Sbjct: 129 LRHGSSW---IKDVKILVADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSATIGN 181
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 51/190 (26%), Positives = 83/190 (43%), Gaps = 15/190 (7%)
Query: 72 VQTCKELGMRRPTPVQTHCIPK-ILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPYGVL 130
++ K+ G+++ P QT + K +LEG +L + TGSGKT + I+ L ++ G
Sbjct: 20 IEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLKN--GGK 77
Query: 131 ALVITPTRELAYQLAEQFKALGSGLHLRCEVVVGGMDLLTQAKSLMNRPHVVIATPGRIK 190
A+ +TP R L E++ + +V + D T L N ++I T ++
Sbjct: 78 AIYVTPLRALT---NEKYLTFKDWELIGFKVAMTSGDYDTDDAWLKNY-DIIITTYEKLD 133
Query: 191 VLLEEDPDIPPVFSRTKFLVLDEADRVLDVGFEEELRVV--FQCLPKNRQTLLFSATMTS 248
L P+ + + VLDE + D E VV K R L SAT+++
Sbjct: 134 SLWRHRPEW---LNEVNYFVLDELHYLND---PERGPVVESVTIRAKRRNLLALSATISN 187
Query: 249 DLQTLLELSA 258
Q L A
Sbjct: 188 YKQIAKWLGA 197
>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 = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 26/42 (61%)
Query: 339 SQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYD 380
SQ ++ L F G+ +L+AT V GLD+P VDLV+ Y+
Sbjct: 404 SQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYE 445
Score = 32.0 bits (71), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 37/124 (29%), Positives = 52/124 (41%), Gaps = 28/124 (22%)
Query: 106 TGSGKTAAFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKALGSGLHLRCEVVVG- 164
TG GKT + +RL + YG L++ PT+ L Q AE F+ L +L E +V
Sbjct: 32 TGLGKTLIAMMIAEYRLTK--YGGKVLMLAPTKPLVLQHAESFRRL---FNLPPEKIVAL 86
Query: 165 -GMDLLTQAKSLMNRPHVVIATP---------GRIKVLLEEDPDIPPVFSRTKFLVLDEA 214
G + R V++ATP GRI + ED +V DEA
Sbjct: 87 TGEKSPEERSKAWARAKVIVATPQTIENDLLAGRISL---ED---------VSLIVFDEA 134
Query: 215 DRVL 218
R +
Sbjct: 135 HRAV 138
>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 = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 29/43 (67%)
Query: 339 SQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDI 381
+Q+++ + +F++G+ +L+AT VA GLDI ++V+ Y +
Sbjct: 449 TQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 491
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 37.7 bits (86), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 29/43 (67%)
Query: 339 SQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLVLNYDI 381
+Q+++ + +F++G+ +L+AT VA GLDI ++V+ Y +
Sbjct: 199 TQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>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 = 37.7 bits (86), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 3/83 (3%)
Query: 67 LAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDP 126
++ +AV KE G+ P Q + K+ GK++L T +GKT + ++ E
Sbjct: 10 ISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVR---EAI 66
Query: 127 YGVLALVITPTRELAYQLAEQFK 149
G +L + P R LA + E FK
Sbjct: 67 KGGKSLYVVPLRALAGEKYESFK 89
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 51/113 (45%), Gaps = 10/113 (8%)
Query: 84 TPVQTHCIPKILEGKD-VLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITPTRELAY 142
P+QT + D V A TGSGKT IL L + G + ITP LA
Sbjct: 928 NPIQTQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQSSEG-RCVYITPMEALAE 986
Query: 143 QL-AEQFKALGSGLHLRCEVVVG--GMDLLTQAKSLMNRPHVVIATPGRIKVL 192
Q+ + ++ L+ + ++ G DL L+ + +++I+TP + +L
Sbjct: 987 QVYMDWYEKFQDRLNKKVVLLTGETSTDL-----KLLGKGNIIISTPEKWDIL 1034
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 51/113 (45%), Gaps = 10/113 (8%)
Query: 84 TPVQTHCIPKILEGKD-VLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITPTRELAY 142
P+QT + D V A TGSGKT IL L + G + ITP LA
Sbjct: 928 NPIQTQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQSSEG-RCVYITPMEALAE 986
Query: 143 QL-AEQFKALGSGLHLRCEVVVG--GMDLLTQAKSLMNRPHVVIATPGRIKVL 192
Q+ + ++ L+ + ++ G DL L+ + +++I+TP + +L
Sbjct: 987 QVYMDWYEKFQDRLNKKVVLLTGETSTDL-----KLLGKGNIIISTPEKWDIL 1034
>pdb|3DIN|A Chain A, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
pdb|3DIN|B Chain B, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
Length = 871
Score = 33.1 bits (74), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 46/114 (40%), Gaps = 6/114 (5%)
Query: 5 ILLDRNFPLFAKPKSKTRSKXXXXXXXXXXSKNAKTTQLEKFTNPDPNSTTTDSTVTFAG 64
IL D+N + K +K SK KN++ +L NS F
Sbjct: 2 ILFDKNKRIL-KKYAKMVSKINQIESDLRSKKNSELIRLSMVLKEKVNSFEDADEHLFEA 60
Query: 65 LGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPI 118
L A + + LGMR P VQ + EGK + +TG GKT A +PI
Sbjct: 61 FALVREAAR--RTLGMR-PFDVQVMGGIALHEGK--VAEMKTGEGKTLAATMPI 109
>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
Maritima
Length = 822
Score = 32.7 bits (73), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 46/114 (40%), Gaps = 6/114 (5%)
Query: 5 ILLDRNFPLFAKPKSKTRSKXXXXXXXXXXSKNAKTTQLEKFTNPDPNSTTTDSTVTFAG 64
IL D+N + K +K SK KN++ +L NS F
Sbjct: 2 ILFDKNKRIL-KKYAKMVSKINQIESDLRSKKNSELIRLSMVLKEKVNSFEDADEHLFEA 60
Query: 65 LGLAEWAVQTCKELGMRRPTPVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPI 118
L A + + LGMR P VQ + EGK + +TG GKT A +PI
Sbjct: 61 FALVREAAR--RTLGMR-PFDVQVMGGIALHEGK--VAEMKTGEGKTLAATMPI 109
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 32.0 bits (71), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 347 LHRFK-SGQATILLATDVASRGLDIPTVDLVLNYD 380
L FK SG IL+AT VA G+DI +LV+ Y+
Sbjct: 444 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYE 478
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 32.0 bits (71), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 347 LHRFK-SGQATILLATDVASRGLDIPTVDLVLNYD 380
L FK SG IL+AT VA G+DI +LV+ Y+
Sbjct: 453 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYE 487
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 32.0 bits (71), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 347 LHRFK-SGQATILLATDVASRGLDIPTVDLVLNYD 380
L FK SG IL+AT VA G+DI +LV+ Y+
Sbjct: 452 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYE 486
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 19/29 (65%)
Query: 352 SGQATILLATDVASRGLDIPTVDLVLNYD 380
SG IL+AT VA G+DI +LV+ Y+
Sbjct: 450 SGDNNILIATSVADEGIDIAECNLVILYE 478
>pdb|4IQF|A Chain A, Crystal Structure Of Methyionyl-trna Formyltransferase
From Bacillus Anthracis
pdb|4IQF|B Chain B, Crystal Structure Of Methyionyl-trna Formyltransferase
From Bacillus Anthracis
pdb|4IQF|C Chain C, Crystal Structure Of Methyionyl-trna Formyltransferase
From Bacillus Anthracis
pdb|4IQF|D Chain D, Crystal Structure Of Methyionyl-trna Formyltransferase
From Bacillus Anthracis
Length = 317
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 111 TAAFALPILHRLAEDPYGVLALVITPTRELA 141
T F++P+L RL ED Y V+ +V P R +
Sbjct: 12 TPDFSVPVLRRLIEDGYDVIGVVTQPDRPVG 42
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 103 LAQTGSGKTAAFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKAL 151
L TG+GKT A I + G ALV+ P + LA QLA +F+ L
Sbjct: 35 LGATGTGKTVTMAKVI------EALGRPALVLAPNKILAAQLAAEFREL 77
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 103 LAQTGSGKTAAFALPILHRLAEDPYGVLALVITPTRELAYQLAEQFKAL 151
L TG+GKT A I + G ALV+ P + LA QLA +F+ L
Sbjct: 34 LGATGTGKTVTMAKVI------EALGRPALVLAPNKILAAQLAAEFREL 76
>pdb|3TXM|A Chain A, Crystal Structure Of Rpn6 From Drosophila Melanogaster,
Gd(3+) Complex
pdb|3TXN|A Chain A, Crystal Structure Of Rpn6 From Drosophila Melanogaster,
Native Data
Length = 394
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 10/17 (58%), Positives = 16/17 (94%)
Query: 261 AYFYEAYEGFKTVETLK 277
+YFYEA+EGF +V+++K
Sbjct: 202 SYFYEAFEGFDSVDSVK 218
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 23/43 (53%)
Query: 334 LHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLV 376
LHS +R+ + + G+ +L+ ++ GLDIP V LV
Sbjct: 481 LHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 523
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 23/43 (53%)
Query: 334 LHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLV 376
LHS +R+ + + G+ +L+ ++ GLDIP V LV
Sbjct: 475 LHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
>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 = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 23/43 (53%)
Query: 334 LHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLV 376
LHS +R+ + + G+ +L+ ++ GLDIP V LV
Sbjct: 475 LHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
>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 = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 23/43 (53%)
Query: 334 LHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLV 376
LHS +R+ + + G+ +L+ ++ GLDIP V LV
Sbjct: 475 LHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 23/43 (53%)
Query: 334 LHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLV 376
LHS +R+ + + G+ +L+ ++ GLDIP V LV
Sbjct: 475 LHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 23/43 (53%)
Query: 334 LHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLV 376
LHS +R+ + + G+ +L+ ++ GLDIP V LV
Sbjct: 474 LHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 516
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 23/43 (53%)
Query: 334 LHSFKSQSQRLSALHRFKSGQATILLATDVASRGLDIPTVDLV 376
LHS +R+ + + G+ +L+ ++ GLDIP V LV
Sbjct: 500 LHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 542
>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 = 28.5 bits (62), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 6/52 (11%)
Query: 85 PVQTHCIPKILEGKDVLGLAQTGSGKTAAFALPILHRLAEDPYGVLALVITP 136
P+Q I + GK+V + TG GK+ + LP L D + LVI P
Sbjct: 47 PLQLETINVTMAGKEVFLVMPTGGGKSLCYQLPA---LCSDGF---TLVICP 92
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.135 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,690,535
Number of Sequences: 62578
Number of extensions: 439304
Number of successful extensions: 1286
Number of sequences better than 100.0: 96
Number of HSP's better than 100.0 without gapping: 84
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1041
Number of HSP's gapped (non-prelim): 113
length of query: 493
length of database: 14,973,337
effective HSP length: 103
effective length of query: 390
effective length of database: 8,527,803
effective search space: 3325843170
effective search space used: 3325843170
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)