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= 018420
(356 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 560 bits (1444), Expect = e-160, Method: Compositional matrix adjust.
Identities = 264/354 (74%), Positives = 310/354 (87%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+QHECIPQAILGMDV+CQAKSGMGKTAVFVL+TLQQ EP GQV+ LV+CHTRELA+QI
Sbjct: 34 VQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRELAFQIS 93
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
E+ERFS Y+P++KVAVF+GG++IK +++LK CP IVVGTPGRILALAR+K L+LK++
Sbjct: 94 KEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHI 153
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIY 180
+HFILDECDKMLE LDMRRDVQEIF+MTPH+KQVMMFSATLSKEIRPVC+KFMQDPMEI+
Sbjct: 154 KHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIF 213
Query: 181 VDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVEC 240
VDDE KLTLHGL Q+Y+KL + EKNRKL DLLD L+FNQVVIFVKSV R L +LLVE
Sbjct: 214 VDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQ 273
Query: 241 NFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADT 300
NFP+I IH GM QEERL+RY+ FK+ +RILVAT+L GRG+DIERVNI NYDMP+ +DT
Sbjct: 274 NFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDT 333
Query: 301 YLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDTSTYM 354
YLHRV RAGRFGTKGLAITFVS +D+ ILN VQ RFEV+I ELP++ID S+Y+
Sbjct: 334 YLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEIDISSYI 387
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 560 bits (1443), Expect = e-160, Method: Compositional matrix adjust.
Identities = 264/353 (74%), Positives = 309/353 (87%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+QHECIPQAILGMDV+CQAKSGMGKTAVFVL+TLQQ EP GQV+ LV+CHTRELA+QI
Sbjct: 34 VQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRELAFQIS 93
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
E+ERFS Y+P++KVAVF+GG++IK +++LK CP IVVGTPGRILALAR+K L+LK++
Sbjct: 94 KEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHI 153
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIY 180
+HFILDECDKMLE LDMRRDVQEIF+MTPH+KQVMMFSATLSKEIRPVC+KFMQDPMEI+
Sbjct: 154 KHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIF 213
Query: 181 VDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVEC 240
VDDE KLTLHGL Q+Y+KL + EKNRKL DLLD L+FNQVVIFVKSV R L +LLVE
Sbjct: 214 VDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQ 273
Query: 241 NFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADT 300
NFP+I IH GM QEERL+RY+ FK+ +RILVAT+L GRG+DIERVNI NYDMP+ +DT
Sbjct: 274 NFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDT 333
Query: 301 YLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDTSTY 353
YLHRV RAGRFGTKGLAITFVS +D+ ILN VQ RFEV+I ELP++ID S+Y
Sbjct: 334 YLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEIDISSY 386
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 558 bits (1437), Expect = e-159, Method: Compositional matrix adjust.
Identities = 263/354 (74%), Positives = 309/354 (87%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+QHECIPQAILGMDV+CQAKSGMGKTAVFVL+TLQQ EP GQV+ LV+CHTRELA+QI
Sbjct: 33 VQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRELAFQIS 92
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
E+ERFS Y+P++KVAVF+GG++IK +++LK CP IVVGTPGRILALAR+K L+LK++
Sbjct: 93 KEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHI 152
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIY 180
+HFILDE DKMLE LDMRRDVQEIF+MTPH+KQVMMFSATLSKEIRPVC+KFMQDPMEI+
Sbjct: 153 KHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIF 212
Query: 181 VDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVEC 240
VDDE KLTLHGL Q+Y+KL + EKNRKL DLLD L+FNQVVIFVKSV R L +LLVE
Sbjct: 213 VDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQ 272
Query: 241 NFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADT 300
NFP+I IH GM QEERL+RY+ FK+ +RILVAT+L GRG+DIERVNI NYDMP+ +DT
Sbjct: 273 NFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDT 332
Query: 301 YLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDTSTYM 354
YLHRV RAGRFGTKGLAITFVS +D+ ILN VQ RFEV+I ELP++ID S+Y+
Sbjct: 333 YLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEIDISSYI 386
>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 = 310 bits (795), Expect = 6e-85, Method: Compositional matrix adjust.
Identities = 142/181 (78%), Positives = 167/181 (92%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+QHECIPQAILGMDV+CQAKSGMGKTAVFVL+TLQQ EP GQV+ LV+CHTRELA+QI
Sbjct: 40 VQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRELAFQIS 99
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
E+ERFS Y+P++KVAVF+GG++IK +++LK CP IVVGTPGRILALAR+K L+LK++
Sbjct: 100 KEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHI 159
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIY 180
+HFILDECDKMLE LDMRRDVQEIF+MTPH+KQVMMFSATLSKEIRPVC+KFMQDPMEI+
Sbjct: 160 KHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIF 219
Query: 181 V 181
V
Sbjct: 220 V 220
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 243 bits (620), Expect = 1e-64, Method: Compositional matrix adjust.
Identities = 139/355 (39%), Positives = 204/355 (57%), Gaps = 8/355 (2%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q E IP AI G D++ +AK+G GKTA FV+ TL++ +P ++ AL++ TRELA Q
Sbjct: 47 IQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKVKPKLNKIQALIMVPTRELALQTS 106
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLK-NECPQIVVGTPGRILALARDKDLSLKN 119
+ I V GG N++ D+L+ NE I+VGTPGR+L LA K L +
Sbjct: 107 QVVRTLGKHC-GISCMVTTGGTNLR--DDILRLNETVHILVGTPGRVLDLASRKVADLSD 163
Query: 120 VRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEI 179
FI+DE DKML S D + +++I P Q ++FSAT ++ K + P EI
Sbjct: 164 CSLFIMDEADKML-SRDFKTIIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEI 222
Query: 180 YVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVE 239
+ +E LTL G+ Q+Y + E +K LN L L NQ +IF S +R L K + +
Sbjct: 223 NLMEE--LTLKGITQYYAFVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITD 280
Query: 240 CNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD 299
+ H+ M Q+ER + F++G R LV +DL+ RGIDI+ VN+VIN+D P +A+
Sbjct: 281 LGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAE 340
Query: 300 TYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDTSTYM 354
TYLHR+GR+GRFG GLAI + + +D L +++ +I +P ID S Y+
Sbjct: 341 TYLHRIGRSGRFGHLGLAINLI-NWNDRFNLYKIEQELGTEIAAIPATIDKSLYV 394
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 243 bits (619), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 116/167 (69%), Positives = 138/167 (82%)
Query: 188 TLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICI 247
+LHGL Q+Y+KL + EKNRKL DLLD L+FNQVVIFVKSV R L +LLVE NFP+I I
Sbjct: 2 SLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI 61
Query: 248 HSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 307
H GM QEERL+RY+ FK+ +RILVAT+L GRG+DIERVNI NYDMP+ +DTYLHRV R
Sbjct: 62 HRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVAR 121
Query: 308 AGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDTSTYM 354
AGRFGTKGLAITFVS +D+ ILN VQ RFEV+I ELP++ID S+Y+
Sbjct: 122 AGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEIDISSYI 168
>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 = 224 bits (571), Expect = 6e-59, Method: Compositional matrix adjust.
Identities = 127/347 (36%), Positives = 199/347 (57%), Gaps = 8/347 (2%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q I Q I G DVI Q++SG GKTA F +S LQ + + AL+L TRELA QI
Sbjct: 64 IQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQ 123
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVVGTPGRILALARDKDLSLKN 119
Y+ +++ GG N+ +D+ K + Q +V GTPGR+ + R + L +
Sbjct: 124 KGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRA 180
Query: 120 VRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEI 179
++ +LDE D+ML + + ++++ P QV++ SATL EI + KFM DP+ I
Sbjct: 181 IKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRI 239
Query: 180 YVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLV 238
V + +LTL G+ Q ++ + E K L DL D L Q VIF + + L + +
Sbjct: 240 LVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR 298
Query: 239 ECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 298
E NF +H M Q+ER + K F+ G R+L++TD+ RG+D+ +V+++INYD+P++
Sbjct: 299 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 358
Query: 299 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELP 345
+ Y+HR+GR+GR+G KG+AI FV + D IL ++ + I E+P
Sbjct: 359 ELYIHRIGRSGRYGRKGVAINFVKN-DDIRILRDIEQYYSTQIDEMP 404
>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 = 224 bits (571), Expect = 6e-59, Method: Compositional matrix adjust.
Identities = 127/347 (36%), Positives = 199/347 (57%), Gaps = 8/347 (2%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q I Q I G DVI Q++SG GKTA F +S LQ + + AL+L TRELA QI
Sbjct: 64 IQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQ 123
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVVGTPGRILALARDKDLSLKN 119
Y+ +++ GG N+ +D+ K + Q +V GTPGR+ + R + L +
Sbjct: 124 KGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRA 180
Query: 120 VRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEI 179
++ +LDE D+ML + + ++++ P QV++ SATL EI + KFM DP+ I
Sbjct: 181 IKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRI 239
Query: 180 YVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLV 238
V + +LTL G+ Q ++ + E K L DL D L Q VIF + + L + +
Sbjct: 240 LVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR 298
Query: 239 ECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 298
E NF +H M Q+ER + K F+ G R+L++TD+ RG+D+ +V+++INYD+P++
Sbjct: 299 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 358
Query: 299 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELP 345
+ Y+HR+GR+GR+G KG+AI FV + D IL ++ + I E+P
Sbjct: 359 ELYIHRIGRSGRYGRKGVAINFVKN-DDIRILRDIEQYYSTQIDEMP 404
>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 = 224 bits (571), Expect = 6e-59, Method: Compositional matrix adjust.
Identities = 127/347 (36%), Positives = 199/347 (57%), Gaps = 8/347 (2%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q I Q I G DVI Q++SG GKTA F +S LQ + + AL+L TRELA QI
Sbjct: 63 IQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQ 122
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVVGTPGRILALARDKDLSLKN 119
Y+ +++ GG N+ +D+ K + Q +V GTPGR+ + R + L +
Sbjct: 123 KGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRA 179
Query: 120 VRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEI 179
++ +LDE D+ML + + ++++ P QV++ SATL EI + KFM DP+ I
Sbjct: 180 IKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRI 238
Query: 180 YVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLV 238
V + +LTL G+ Q ++ + E K L DL D L Q VIF + + L + +
Sbjct: 239 LVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR 297
Query: 239 ECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 298
E NF +H M Q+ER + K F+ G R+L++TD+ RG+D+ +V+++INYD+P++
Sbjct: 298 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 357
Query: 299 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELP 345
+ Y+HR+GR+GR+G KG+AI FV + D IL ++ + I E+P
Sbjct: 358 ELYIHRIGRSGRYGRKGVAINFVKN-DDIRILRDIEQYYSTQIDEMP 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 = 224 bits (570), Expect = 7e-59, Method: Compositional matrix adjust.
Identities = 127/347 (36%), Positives = 199/347 (57%), Gaps = 8/347 (2%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q I Q I G DVI Q++SG GKTA F +S LQ + + AL+L TRELA QI
Sbjct: 42 IQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQ 101
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVVGTPGRILALARDKDLSLKN 119
Y+ +++ GG N+ +D+ K + Q +V GTPGR+ + R + L +
Sbjct: 102 KGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRA 158
Query: 120 VRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEI 179
++ +LDE D+ML + + ++++ P QV++ SATL EI + KFM DP+ I
Sbjct: 159 IKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRI 217
Query: 180 YVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLV 238
V + +LTL G+ Q ++ + E K L DL D L Q VIF + + L + +
Sbjct: 218 LVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR 276
Query: 239 ECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 298
E NF +H M Q+ER + K F+ G R+L++TD+ RG+D+ +V+++INYD+P++
Sbjct: 277 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 336
Query: 299 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELP 345
+ Y+HR+GR+GR+G KG+AI FV + D IL ++ + I E+P
Sbjct: 337 ELYIHRIGRSGRYGRKGVAINFVKN-DDIRILRDIEQYYSTQIDEMP 382
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 221 bits (564), Expect = 4e-58, Method: Compositional matrix adjust.
Identities = 124/347 (35%), Positives = 199/347 (57%), Gaps = 8/347 (2%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q I Q I G DVI Q++SG GKTA F +S LQ + + AL+L TRELA Q+
Sbjct: 27 IQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQVRETQALILAPTRELAVQVQ 86
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVVGTPGRILALARDKDLSLKN 119
Y+ +++ GG N+ +D+ K + Q +V GTPGR+ + R + L +
Sbjct: 87 KGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRA 143
Query: 120 VRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEI 179
++ +LDE D+ML + + ++++ P QV++ SATL EI + KFM DP+ I
Sbjct: 144 IKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRI 202
Query: 180 YVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLV 238
V + +LTL G+ Q ++ + E K L DL D L Q VIF + + L + +
Sbjct: 203 LVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR 261
Query: 239 ECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 298
E NF +H M Q+ER + K F+ G R+L++TD+ RG+D+ +V+++INYD+P++
Sbjct: 262 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 321
Query: 299 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELP 345
+ Y+HR+GR+GR+G KG+A+ FV + D +L ++ + I E+P
Sbjct: 322 ELYIHRIGRSGRYGRKGVAVNFVKN-DDIRVLRDIEQYYSTQIDEMP 367
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 221 bits (562), Expect = 6e-58, Method: Compositional matrix adjust.
Identities = 123/347 (35%), Positives = 199/347 (57%), Gaps = 8/347 (2%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q I Q I G DVI Q++SG GKTA F +S LQ + + AL+L TRELA Q+
Sbjct: 27 IQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQVRETQALILAPTRELAVQVQ 86
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVVGTPGRILALARDKDLSLKN 119
Y+ +++ GG N+ +D+ K + Q +V GTPGR+ + R + L +
Sbjct: 87 KGLLALGDYM-NVQSHACIGGTNV--GEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRA 143
Query: 120 VRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEI 179
++ +LDE D+ML + + ++++ P QV++ SATL E+ + KFM DP+ I
Sbjct: 144 IKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISATLPHEVLEMTNKFMTDPIRI 202
Query: 180 YVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLV 238
V + +LTL G+ Q ++ + E K L DL D L Q VIF + + L + +
Sbjct: 203 LVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR 261
Query: 239 ECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 298
E NF +H M Q+ER + K F+ G R+L++TD+ RG+D+ +V+++INYD+P++
Sbjct: 262 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 321
Query: 299 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELP 345
+ Y+HR+GR+GR+G KG+A+ FV + D +L ++ + I E+P
Sbjct: 322 ELYIHRIGRSGRYGRKGVAVNFVKN-DDIRVLRDIEQYYSTQIDEMP 367
>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 = 210 bits (535), Expect = 9e-55, Method: Compositional matrix adjust.
Identities = 136/346 (39%), Positives = 199/346 (57%), Gaps = 5/346 (1%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q I I G DVI QA+SG GKTA F +S LQQ E + ALVL TRELA QI
Sbjct: 40 IQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVLAPTRELAQQIQ 99
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
Y+ A GG N++ L+ E P I+VGTPGR+ + + LS K +
Sbjct: 100 KVVMALGDYMGASCHACI-GGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYI 158
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIY 180
+ F+LDE D+ML S + + +IF+ + QV++ SAT+ ++ V KKFM+DP+ I
Sbjct: 159 KMFVLDEADEML-SRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRIL 217
Query: 181 VDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVE 239
V E +LTL G+ Q YI + E K L DL + L Q VIF+ + + L + +
Sbjct: 218 VKKE-ELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHA 276
Query: 240 CNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD 299
+F +H M Q+ER + F+ G+ R+L+ TDL+ RGID+++V++VINYD+P + +
Sbjct: 277 RDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRE 336
Query: 300 TYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELP 345
Y+HR+GR GRFG KG+AI V+ D L ++ + I+E+P
Sbjct: 337 NYIHRIGRGGRFGRKGVAINMVTE-EDKRTLRDIETFYNTSIEEMP 381
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 210 bits (534), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 135/346 (39%), Positives = 198/346 (57%), Gaps = 5/346 (1%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q I I G DVI QA+SG GKTA F +S LQQ E + ALVL TRELA QI
Sbjct: 66 IQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVLAPTRELAQQIQ 125
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
Y+ GG N++ L+ E P I+VGTPGR+ + + LS K +
Sbjct: 126 KVVMALGDYM-GASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYI 184
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIY 180
+ F+LDE D+ML S + + +IF+ + QV++ SAT+ ++ V KKFM+DP+ I
Sbjct: 185 KMFVLDEADEML-SRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRIL 243
Query: 181 VDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVE 239
V E +LTL G+ Q YI + E K L DL + L Q VIF+ + + L + +
Sbjct: 244 VKKE-ELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHA 302
Query: 240 CNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD 299
+F +H M Q+ER + F+ G+ R+L+ TDL+ RGID+++V++VINYD+P + +
Sbjct: 303 RDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRE 362
Query: 300 TYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELP 345
Y+HR+GR GRFG KG+AI V+ D L ++ + I+E+P
Sbjct: 363 NYIHRIGRGGRFGRKGVAINMVTE-EDKRTLRDIETFYNTSIEEMP 407
>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 = 204 bits (520), Expect = 4e-53, Method: Compositional matrix adjust.
Identities = 135/351 (38%), Positives = 205/351 (58%), Gaps = 7/351 (1%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q I I G DV+ QA+SG GKT F ++ LQ+ + + AL+L TRELA QI
Sbjct: 48 IQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQ 107
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
+ ++ DIKV GG + + L++ QIVVGTPGR+ + + +
Sbjct: 108 KVVMALAFHM-DIKVHACIGGTSFVEDAEGLRD--AQIVVGTPGRVFDNIQRRRFRTDKI 164
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIY 180
+ FILDE D+ML S + + +IF + P QV++ SAT+ ++ V KFM++P+ I
Sbjct: 165 KMFILDEADEMLSS-GFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRIL 223
Query: 181 VDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVE 239
V + +LTL G+ Q Y+ + E E K L DL D++ Q VIF + + EL L
Sbjct: 224 VKKD-ELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRN 282
Query: 240 CNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD 299
F I+S + Q+ER T K F+ G+ RIL++TDL+ RGID+++V++VINYD+P + +
Sbjct: 283 DKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKE 342
Query: 300 TYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDT 350
Y+HR+GR GRFG KG+AI FV++ D + +++ + I+ELP I T
Sbjct: 343 NYIHRIGRGGRFGRKGVAINFVTN-EDVGAMRELEKFYSTQIEELPSDIAT 392
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 197 bits (500), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 133/351 (37%), Positives = 199/351 (56%), Gaps = 7/351 (1%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q I I G DV+ QA+SG GKT F ++ LQ+ + + AL L TRELA QI
Sbjct: 47 IQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALXLAPTRELALQIQ 106
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
+ + DIKV GG + + L++ QIVVGTPGR+ + + +
Sbjct: 107 KVVXALA-FHXDIKVHACIGGTSFVEDAEGLRD--AQIVVGTPGRVFDNIQRRRFRTDKI 163
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIY 180
+ FILDE D+ L S + + +IF + P QV++ SAT ++ V KF ++P+ I
Sbjct: 164 KXFILDEADEXLSS-GFKEQIYQIFTLLPPTTQVVLLSATXPNDVLEVTTKFXRNPVRIL 222
Query: 181 VDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVE 239
V + +LTL G+ Q Y+ + E E K L DL D++ Q VIF + + EL L
Sbjct: 223 VKKD-ELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRN 281
Query: 240 CNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD 299
F I+S + Q+ER T K F+ G+ RIL++TDL+ RGID+++V++VINYD+P + +
Sbjct: 282 DKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKE 341
Query: 300 TYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDT 350
Y+HR+GR GRFG KG+AI FV++ D +++ + I+ELP I T
Sbjct: 342 NYIHRIGRGGRFGRKGVAINFVTN-EDVGAXRELEKFYSTQIEELPSDIAT 391
>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 = 190 bits (483), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 118/309 (38%), Positives = 178/309 (57%), Gaps = 11/309 (3%)
Query: 14 DVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDI 73
+++ QA++G GKTA F + ++ N G + A++L TRELA Q+ E E ++
Sbjct: 46 NIVAQARTGSGKTASFAIPLIELVNENNG-IEAIILTPTRELAIQVADEIESLKGN-KNL 103
Query: 74 KVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLE 133
K+A YGG I LKN IVVGTPGRIL L+LKNV++FILDE D+ L
Sbjct: 104 KIAKIYGGKAIYPQIKALKN--ANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXL- 160
Query: 134 SLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLV 193
+ +DV++I DK++++FSAT +EI + KK+ D Y +AK+ + +
Sbjct: 161 NXGFIKDVEKILNACNKDKRILLFSATXPREILNLAKKYXGD----YSFIKAKINAN-IE 215
Query: 194 QHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQ 253
Q Y++++E E+ L LL +F +V F K+ EL L + F + IH +SQ
Sbjct: 216 QSYVEVNENERFEALCRLLKNKEFYGLV-FCKTKRDTKELASXLRDIGFKAGAIHGDLSQ 274
Query: 254 EERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGT 313
+R + FK+ RIL+ATD+ RGID+ +N VINY +P + ++Y HR+GR GR G
Sbjct: 275 SQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGK 334
Query: 314 KGLAITFVS 322
KG AI+ ++
Sbjct: 335 KGKAISIIN 343
>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 = 184 bits (468), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 116/339 (34%), Positives = 183/339 (53%), Gaps = 13/339 (3%)
Query: 14 DVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDI 73
++I Q++SG GKTA FVL+ L Q EP L L T ELA Q E+ + P++
Sbjct: 103 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPEL 162
Query: 74 KVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKML 132
K+A G ++ + + QIV+GTPG +L ++ K + K ++ F+LDE D M+
Sbjct: 163 KLAYAVRGNKLERGQKI----SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 218
Query: 133 ESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGL 192
+ + I +M P + Q+++FSAT + +K + DP I + E + TL +
Sbjct: 219 ATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEE-TLDTI 277
Query: 193 VQHYIKLSEL-EKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGM 251
Q+Y+ S EK + L +L A+ Q +IF + A+ L L + + M
Sbjct: 278 KQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEM 337
Query: 252 SQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRV 305
E+R + F+EG +++LV T++ RGID+E+V++VIN+D+P D TYLHR+
Sbjct: 338 MVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 397
Query: 306 GRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKEL 344
GR GRFG +GLA+ V S +ILN++Q F I+ L
Sbjct: 398 GRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 436
>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 = 184 bits (468), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 116/339 (34%), Positives = 184/339 (54%), Gaps = 13/339 (3%)
Query: 14 DVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDI 73
++I Q++SG GKTA FVL+ L Q EP L L T ELA Q E+ + P++
Sbjct: 66 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPEL 125
Query: 74 KVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKML 132
K+A G ++ + + + QIV+GTPG +L ++ K + K ++ F+LDE D M+
Sbjct: 126 KLAYAVRGNKLERGQKISE----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 181
Query: 133 ESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGL 192
+ + I +M P + Q+++FSAT + +K + DP I + E + TL +
Sbjct: 182 ATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEE-TLDTI 240
Query: 193 VQHYIKLSEL-EKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGM 251
Q+Y+ S EK + L +L A+ Q +IF + A+ L L + + M
Sbjct: 241 KQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEM 300
Query: 252 SQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRV 305
E+R + F+EG +++LV T++ RGID+E+V++VIN+D+P D TYLHR+
Sbjct: 301 MVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 360
Query: 306 GRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKEL 344
GR GRFG +GLA+ V S +ILN++Q F I+ L
Sbjct: 361 GRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 399
>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 = 184 bits (468), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 116/339 (34%), Positives = 183/339 (53%), Gaps = 13/339 (3%)
Query: 14 DVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDI 73
++I Q++SG GKTA FVL+ L Q EP L L T ELA Q E+ + P++
Sbjct: 133 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPEL 192
Query: 74 KVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKML 132
K+A G ++ + + QIV+GTPG +L ++ K + K ++ F+LDE D M+
Sbjct: 193 KLAYAVRGNKLERGQKI----SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 248
Query: 133 ESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGL 192
+ + I +M P + Q+++FSAT + +K + DP I + E + TL +
Sbjct: 249 ATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEE-TLDTI 307
Query: 193 VQHYIKLSEL-EKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGM 251
Q+Y+ S EK + L +L A+ Q +IF + A+ L L + + M
Sbjct: 308 KQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEM 367
Query: 252 SQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRV 305
E+R + F+EG +++LV T++ RGID+E+V++VIN+D+P D TYLHR+
Sbjct: 368 MVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 427
Query: 306 GRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKEL 344
GR GRFG +GLA+ V S +ILN++Q F I+ L
Sbjct: 428 GRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 466
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 184 bits (468), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 116/339 (34%), Positives = 183/339 (53%), Gaps = 13/339 (3%)
Query: 14 DVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDI 73
++I Q++SG GKTA FVL+ L Q EP L L T ELA Q E+ + P++
Sbjct: 82 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPEL 141
Query: 74 KVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKML 132
K+A G ++ + + QIV+GTPG +L ++ K + K ++ F+LDE D M+
Sbjct: 142 KLAYAVRGNKLERGQKI----SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 197
Query: 133 ESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGL 192
+ + I +M P + Q+++FSAT + +K + DP I + E + TL +
Sbjct: 198 ATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEE-TLDTI 256
Query: 193 VQHYIKLSEL-EKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGM 251
Q+Y+ S EK + L +L A+ Q +IF + A+ L L + + M
Sbjct: 257 KQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEM 316
Query: 252 SQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRV 305
E+R + F+EG +++LV T++ RGID+E+V++VIN+D+P D TYLHR+
Sbjct: 317 MVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 376
Query: 306 GRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKEL 344
GR GRFG +GLA+ V S +ILN++Q F I+ L
Sbjct: 377 GRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 415
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 177 bits (450), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 109/339 (32%), Positives = 179/339 (52%), Gaps = 14/339 (4%)
Query: 14 DVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDI 73
++I Q++SG GKTA F L+ L + + + + A+ L +RELA QI Y ++
Sbjct: 160 NMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELARQIMDVVTEMGKYT-EV 218
Query: 74 KVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLE 133
K A G+ + K + QIV+GTPG ++ L + + L ++++ F+LDE D ML+
Sbjct: 219 KTAF---GIKDSVPKGAKID--AQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLD 273
Query: 134 SLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLV 193
+ I + P + Q+++FSAT S+ + ++F + EI + E +L++ G+
Sbjct: 274 QQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEIRLKTE-ELSVEGIK 332
Query: 194 QHYIKL-SELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMS 252
Q Y+ SE K L +L L Q +IF K A E+ + + C+ +
Sbjct: 333 QLYMDCQSEEHKYNVLVELYGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLE 392
Query: 253 QEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMP-DSA-----DTYLHRVG 306
+R F+ G ++LV T+++ RGID+ +VN+V+NYDMP D A TYLHR+G
Sbjct: 393 GAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIG 452
Query: 307 RAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELP 345
R GRFG G++I FV + +N +Q F+ I +P
Sbjct: 453 RTGRFGRVGVSINFVHDKKSWEEMNAIQEYFQRPITRVP 491
>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 = 172 bits (437), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 112/360 (31%), Positives = 189/360 (52%), Gaps = 18/360 (5%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP-----GQVTALVLCHTREL 55
+Q IP G D++ A++G GKTA F+L L + +P G+ +++ TREL
Sbjct: 82 IQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTREL 141
Query: 56 AYQICHEFERFS--TYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDK 113
A QI +E +F+ +YL K+ + YGG + + + + C +V+ TPGR+L
Sbjct: 142 AIQIFNEARKFAFESYL---KIGIVYGGTSFRHQNECITRGC-HVVIATPGRLLDFVDRT 197
Query: 114 DLSLKNVRHFILDECDKMLE---SLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCK 170
++ ++ R +LDE D+ML+ S DMRR + + M P + Q +MFSAT +EI+ +
Sbjct: 198 FITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHV-TMRP-EHQTLMFSATFPEEIQRMAG 255
Query: 171 KFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRA 230
+F+++ + + + + Q ++++ K KL ++L + ++FV++ A
Sbjct: 256 EFLKNYVFVAIGIVGG-ACSDVKQTIYEVNKYAKRSKLIEILSE-QADGTIVFVETKRGA 313
Query: 231 AELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVI 290
L L E FP+ IH Q +R + FK G+ ++L+AT + RG+DI+ + VI
Sbjct: 314 DFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVI 373
Query: 291 NYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDT 350
NYDMP D Y+HR+GR GR G G A +F D I + E + +P+ + T
Sbjct: 374 NYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVKILEGSGQTVPDFLRT 433
>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 = 167 bits (422), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 109/344 (31%), Positives = 185/344 (53%), Gaps = 23/344 (6%)
Query: 14 DVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQ---ICHEFERFSTYL 70
++I Q++SG GKTA F L+ L + P A+ L +RELA Q + E +F+
Sbjct: 46 NMIAQSQSGTGKTAAFSLTMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKIT 105
Query: 71 PDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDK 130
+ V + N +I+ Q++VGTPG +L L R K + L+ ++ F+LDE D
Sbjct: 106 SQLIVPDSFEK-NKQIN--------AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADN 156
Query: 131 MLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLH 190
ML+ + + + P D Q+++FSAT + +R KK + + + + ++ +
Sbjct: 157 MLDQQGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTN-EVNVD 215
Query: 191 GLVQHYIKL-SELEKNRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIH 248
+ Q Y+ +E +K L +L + +IFV + A L KL E + SI +H
Sbjct: 216 AIKQLYMDCKNEADKFDVLTELYGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LH 274
Query: 249 SGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYL 302
+ +ER F+EG ++L+ T+++ RGIDI V++V+NYD+P A+ TY+
Sbjct: 275 GDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYI 334
Query: 303 HRVGRAGRFGTKGLAITFVSSASDSDILNQVQARF-EVDIKELP 345
HR+GR GRFG KG+AI+FV + +IL+ +Q F ++++ +P
Sbjct: 335 HRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVP 378
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 166 bits (420), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 109/344 (31%), Positives = 185/344 (53%), Gaps = 23/344 (6%)
Query: 14 DVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQ---ICHEFERFSTYL 70
++I Q++SG GKTA F L+ L + P A+ L +RELA Q + E +F+
Sbjct: 46 NMIAQSQSGTGKTAAFSLTMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKIT 105
Query: 71 PDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDK 130
+ V + N +I+ Q++VGTPG +L L R K + L+ ++ F+LDE D
Sbjct: 106 SQLIVPDSFEK-NKQIN--------AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADN 156
Query: 131 MLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLH 190
ML+ + + + P D Q+++FSAT + +R KK + + + + ++ +
Sbjct: 157 MLDQQGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTN-EVNVD 215
Query: 191 GLVQHYIKL-SELEKNRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIH 248
+ Q Y+ +E +K L +L + +IFV + A L KL E + SI +H
Sbjct: 216 AIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LH 274
Query: 249 SGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYL 302
+ +ER F+EG ++L+ T+++ RGIDI V++V+NYD+P A+ TY+
Sbjct: 275 GDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYI 334
Query: 303 HRVGRAGRFGTKGLAITFVSSASDSDILNQVQARF-EVDIKELP 345
HR+GR GRFG KG+AI+FV + +IL+ +Q F ++++ +P
Sbjct: 335 HRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVP 378
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 159 bits (403), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 109/321 (33%), Positives = 169/321 (52%), Gaps = 20/321 (6%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q + IP + G +V+ +AK+G GKTA + + L+ + +LV+ TREL Q+
Sbjct: 20 VQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILELG------MKSLVVTPTRELTRQVA 73
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
Y+ D KVA YGG+ K + ++N IVV TPGR+L L + L +
Sbjct: 74 SHIRDIGRYM-DTKVAEVYGGMPYKAQINRVRN--ADIVVATPGRLLDLWSKGVIDLSSF 130
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIY 180
I+DE D M E + D++ I T + K +FSAT+ +EIR V K F+ + EI
Sbjct: 131 EIVIIDEADLMFE-MGFIDDIKIILAQTSNRKITGLFSATIPEEIRKVVKDFITNYEEI- 188
Query: 181 VDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVEC 240
EA + L + ++ + + + K+ L + D V++FV++ +R A+L +L
Sbjct: 189 ---EACIGLANVEHKFVHVKD-DWRSKVQALRENKD-KGVIVFVRTRNRVAKLVRLFDN- 242
Query: 241 NFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADT 300
+I + + Q R F+EG +L+ TD+ RG+DI V VIN+D P T
Sbjct: 243 ---AIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRT 299
Query: 301 YLHRVGRAGRFGTKGLAITFV 321
Y+HR+GR GR G KG AITF+
Sbjct: 300 YIHRIGRTGRMGRKGEAITFI 320
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 159 bits (401), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 118/379 (31%), Positives = 186/379 (49%), Gaps = 34/379 (8%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPN-PGQV--------------- 44
+Q IP D++ A++G GKTA F+L L Q + PG+
Sbjct: 41 VQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQ 100
Query: 45 --TALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGT 102
+LVL TRELA QI E +FS Y ++ V YGG +I L+ C ++V T
Sbjct: 101 YPISLVLAPTRELAVQIYEEARKFS-YRSRVRPCVVYGGADIGQQIRDLERGC-HLLVAT 158
Query: 103 PGRILALARDKDLSLKNVRHFILDECDKMLE---SLDMRRDVQEIFKMTPHDKQVMMFSA 159
PGR++ + + L ++ +LDE D+ML+ +RR V++ + MMFSA
Sbjct: 159 PGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSA 218
Query: 160 TLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQ 219
T KEI+ + + F+ + + + V T + Q + + E +K L DLL+A +
Sbjct: 219 TFPKEIQMLARDFLDEYIFLAVG-RVGSTSENITQKVVWVEESDKRSFLLDLLNATGKDS 277
Query: 220 V-VIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVG 278
+ ++FV++ A L L + IH SQ +R F+ G ILVAT +
Sbjct: 278 LTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAA 337
Query: 279 RGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSAS---DSDILN-QVQ 334
RG+DI V VIN+D+P + Y+HR+GR GR G GLA +F + + D+L+ V+
Sbjct: 338 RGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVE 397
Query: 335 ARFEVDIKELPEQIDTSTY 353
A+ +E+P ++ Y
Sbjct: 398 AK-----QEVPSWLENMAY 411
>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 = 138 bits (347), Expect = 5e-33, Method: Compositional matrix adjust.
Identities = 77/181 (42%), Positives = 105/181 (58%), Gaps = 3/181 (1%)
Query: 174 QDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAEL 233
QDP EI + +E LTL G+ Q+Y ++E +K LN L L NQ +IF S R L
Sbjct: 3 QDPYEINLMEE--LTLKGVTQYYAYVTERQKVHCLNTLFSRLQINQSIIFCNSSQRVELL 60
Query: 234 NKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYD 293
K + + + IH+ M QE R + F+ G R LV TDL RGIDI+ VN+VIN+D
Sbjct: 61 AKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFD 120
Query: 294 MPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDTSTY 353
P A+TYLHR+GR+GRFG GLAI + + D L ++ + +IK +P ID S Y
Sbjct: 121 FPKLAETYLHRIGRSGRFGHLGLAINLI-TYDDRFNLKSIEEQLGTEIKPIPSNIDKSLY 179
Query: 354 M 354
+
Sbjct: 180 V 180
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 127 bits (318), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 77/184 (41%), Positives = 102/184 (55%), Gaps = 2/184 (1%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q I I G DVI QA+SG GKTA F +S LQQ E + ALVL TRELA QI
Sbjct: 56 IQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEIEFKETQALVLAPTRELAQQIQ 115
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
Y+ A GG N++ L+ E P IVVGTPGR+ + + LS K +
Sbjct: 116 KVILALGDYMGATCHACI-GGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWI 174
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIY 180
+ F+LDE D+ML S + + EIF+ QV++ SAT+ ++ V KKFM+DP+ I
Sbjct: 175 KMFVLDEADEML-SRGFKDQIYEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRIL 233
Query: 181 VDDE 184
V E
Sbjct: 234 VKKE 237
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 117 bits (292), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 61/182 (33%), Positives = 112/182 (61%), Gaps = 4/182 (2%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q E IP A+ G D+I A++G GKT F L L P ++ ALVL TRELA+QI
Sbjct: 69 IQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTRELAFQIS 128
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRIL-ALARDKDLSLKN 119
+FE + + ++ AV GG++ + + L + P I++ TPGR++ L K +L+
Sbjct: 129 EQFEALGSSI-GVQSAVIVGGID-SMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRA 186
Query: 120 VRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEI 179
+++ ++DE D++L ++D +V +I K+ P D++ +FSAT++K+++ + + +++P++
Sbjct: 187 LKYLVMDEADRIL-NMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKC 245
Query: 180 YV 181
V
Sbjct: 246 AV 247
>pdb|2G9N|A Chain A, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
pdb|2G9N|B Chain B, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
Length = 221
Score = 115 bits (289), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 69/181 (38%), Positives = 95/181 (52%), Gaps = 2/181 (1%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q I I G DVI QA+SG G TA F +S LQQ E + ALVL TRELA QI
Sbjct: 41 IQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQIELDLXATQALVLAPTRELAQQIQ 100
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
Y+ GG N++ L+ E P I+VGTPGR+ + + LS +
Sbjct: 101 XVVMALGDYM-GASCHACIGGTNVRAEVQXLQMEAPHIIVGTPGRVFDMLNRRYLSPXYI 159
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIY 180
F+LDE D+ML S + +IF+ + QV++ SAT+ ++ V FM+DP+ I
Sbjct: 160 XMFVLDEADEML-SRGFXDQIYDIFQXLNSNTQVVLLSATMPSDVLEVTXXFMRDPIRIL 218
Query: 181 V 181
V
Sbjct: 219 V 219
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 108 bits (271), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 87/335 (25%), Positives = 160/335 (47%), Gaps = 28/335 (8%)
Query: 14 DVICQAKSGMGKTAVFVLSTLQQ----TEPNPGQVTALVLCHTRELAYQICHEFER---F 66
DVI +AK+G GKT F++ Q + V A+++ TR+LA QI E ++
Sbjct: 62 DVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDM 121
Query: 67 STYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRIL-ALARDKDLSLKNVRHFIL 125
+ L GG + + + + P IV+ TPGR++ L + + + V + +L
Sbjct: 122 NYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVL 181
Query: 126 DECDKMLESLDMRRDVQEIFKM-------TPHDKQVMMFSATLSKEIRPVCKKFMQDPME 178
DE D++LE + R D++ I + + + + ++FSATL +++ + M
Sbjct: 182 DEADRLLE-IGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKEC 240
Query: 179 IYVD--DEAKLTLHGLVQHYIKLSELEKN------RKLNDLLDALDFN-QVVIFVKSVSR 229
+++D D+ + H + + +SE N + + D N + +IF +V
Sbjct: 241 LFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKF 300
Query: 230 AAELNKLL---VECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERV 286
+ L +L + + P + H ++Q +R + K FK+ ILV TD+ RG+D V
Sbjct: 301 TSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNV 360
Query: 287 NIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFV 321
+ V+ +P Y+HR+GR R G +G ++ F+
Sbjct: 361 HEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 395
>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 = 108 bits (271), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 87/335 (25%), Positives = 160/335 (47%), Gaps = 28/335 (8%)
Query: 14 DVICQAKSGMGKTAVFVLSTLQQ----TEPNPGQVTALVLCHTRELAYQICHEFER---F 66
DVI +AK+G GKT F++ Q + V A+++ TR+LA QI E ++
Sbjct: 113 DVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDM 172
Query: 67 STYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRIL-ALARDKDLSLKNVRHFIL 125
+ L GG + + + + P IV+ TPGR++ L + + + V + +L
Sbjct: 173 NYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVL 232
Query: 126 DECDKMLESLDMRRDVQEIFKM-------TPHDKQVMMFSATLSKEIRPVCKKFMQDPME 178
DE D++LE + R D++ I + + + + ++FSATL +++ + M
Sbjct: 233 DEADRLLE-IGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKEC 291
Query: 179 IYVD--DEAKLTLHGLVQHYIKLSELEKN------RKLNDLLDALDFN-QVVIFVKSVSR 229
+++D D+ + H + + +SE N + + D N + +IF +V
Sbjct: 292 LFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKF 351
Query: 230 AAELNKLL---VECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERV 286
+ L +L + + P + H ++Q +R + K FK+ ILV TD+ RG+D V
Sbjct: 352 TSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNV 411
Query: 287 NIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFV 321
+ V+ +P Y+HR+GR R G +G ++ F+
Sbjct: 412 HEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 446
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 108 bits (269), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 87/335 (25%), Positives = 160/335 (47%), Gaps = 28/335 (8%)
Query: 14 DVICQAKSGMGKTAVFVLSTLQQ----TEPNPGQVTALVLCHTRELAYQICHEFER---F 66
DVI +AK+G GKT F++ Q + V A+++ TR+LA QI E ++
Sbjct: 62 DVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDM 121
Query: 67 STYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRIL-ALARDKDLSLKNVRHFIL 125
+ L GG + + + + P IV+ TPGR++ L + + + V + +L
Sbjct: 122 NYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVL 181
Query: 126 DECDKMLESLDMRRDVQEIFKM-------TPHDKQVMMFSATLSKEIRPVCKKFMQDPME 178
DE D++LE + R D++ I + + + + ++FSATL +++ + M
Sbjct: 182 DEADRLLE-IGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKEC 240
Query: 179 IYVD--DEAKLTLHGLVQHYIKLSELEKN------RKLNDLLDALDFN-QVVIFVKSVSR 229
+++D D+ + H + + +SE N + + D N + +IF +V
Sbjct: 241 LFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKF 300
Query: 230 AAELNKLL---VECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERV 286
+ L +L + + P + H ++Q +R + K FK+ ILV TD+ RG+D V
Sbjct: 301 TSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNV 360
Query: 287 NIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFV 321
+ V+ +P Y+HR+GR R G +G ++ F+
Sbjct: 361 HEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 395
>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 = 107 bits (268), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 65/184 (35%), Positives = 96/184 (52%), Gaps = 8/184 (4%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPG---QVTALVLCHTRELAY 57
+Q +P A+ G D+I QA++G GKT F L ++ P+ + ALVL TRELA
Sbjct: 27 IQAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLTPTRELAL 86
Query: 58 QICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSL 117
Q+ E + P +KV YGG K+ L VV TPGR L R L L
Sbjct: 87 QVASEL---TAVAPHLKVVAVYGGTGYGKQKEALLRGA-DAVVATPGRALDYLRQGVLDL 142
Query: 118 KNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPM 177
V +LDE D+ML S+ +V+ + TP +Q ++FSATL + + +++M++P+
Sbjct: 143 SRVEVAVLDEADEML-SMGFEEEVEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPV 201
Query: 178 EIYV 181
I V
Sbjct: 202 LINV 205
>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 = 107 bits (268), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 69/190 (36%), Positives = 105/190 (55%), Gaps = 5/190 (2%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q I I G DV+ QA+SG GKT F ++ LQ+ + + AL+L TRELA QI
Sbjct: 40 IQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQ 99
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
+ ++ DIKV GG + + L++ QIVVGTPGR+ + + +
Sbjct: 100 KVVMALAFHM-DIKVHACIGGTSFVEDAEGLRD--AQIVVGTPGRVFDNIQRRRFRTDKI 156
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIY 180
+ FILDE D+ML S + + +IF + P QV++ SAT+ ++ V KFM++P+ I
Sbjct: 157 KMFILDEADEMLSS-GFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRIL 215
Query: 181 VDDEAKLTLH 190
V + +LTL
Sbjct: 216 VKKD-ELTLE 224
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 107 bits (267), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 66/181 (36%), Positives = 100/181 (55%), Gaps = 4/181 (2%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q I I G DV+ QA+SG GKT F ++ LQ+ + + AL+L TRELA QI
Sbjct: 47 IQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQ 106
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
+ ++ DIKV GG + + L++ QIVVGTPGR+ + + +
Sbjct: 107 KVVMALAFHM-DIKVHACIGGTSFVEDAEGLRD--AQIVVGTPGRVFDNIQRRRFRTDKI 163
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIY 180
+ FILDE D+ML S + + +IF + P QV++ SAT+ ++ V KFM++P+ I
Sbjct: 164 KMFILDEADEMLSS-GFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRIL 222
Query: 181 V 181
V
Sbjct: 223 V 223
>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 = 107 bits (267), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 61/159 (38%), Positives = 87/159 (54%), Gaps = 9/159 (5%)
Query: 185 AKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPS 244
A LT + I++ E K L D+L + + +IF ++ +L L + +P
Sbjct: 3 AGLTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPC 62
Query: 245 ICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHR 304
IH GM QE+R FK G R LVATD+ RGIDIE +++VINYD+P ++Y+HR
Sbjct: 63 DKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHR 122
Query: 305 VGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKE 343
GR GR G KG AI+FV++ + RF DI+E
Sbjct: 123 TGRTGRAGNKGKAISFVTA---------FEKRFLADIEE 152
>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 = 106 bits (265), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 64/184 (34%), Positives = 96/184 (52%), Gaps = 8/184 (4%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPG---QVTALVLCHTRELAY 57
++ +P A+ G D+I QA++G GKT F L ++ P+ + ALVL TRELA
Sbjct: 27 IEAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLTPTRELAL 86
Query: 58 QICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSL 117
Q+ E + P +KV YGG K+ L VV TPGR L R L L
Sbjct: 87 QVASEL---TAVAPHLKVVAVYGGTGYGKQKEALLRGA-DAVVATPGRALDYLRQGVLDL 142
Query: 118 KNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPM 177
V +LDE D+ML S+ +V+ + TP +Q ++FSATL + + +++M++P+
Sbjct: 143 SRVEVAVLDEADEML-SMGFEEEVEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPV 201
Query: 178 EIYV 181
I V
Sbjct: 202 LINV 205
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 102 bits (254), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 67/163 (41%), Positives = 101/163 (61%), Gaps = 2/163 (1%)
Query: 189 LHGLVQHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICI 247
L G+ Q Y+ + E E K L DL D++ Q VIF + + EL L F I
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 248 HSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 307
+S + Q+ER T K F+ G+ RIL++TDL+ RGID+++V++VINYD+P + + Y+HR+GR
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 120
Query: 308 AGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDT 350
GRFG KG+AI FV++ D + +++ + I+ELP I T
Sbjct: 121 GGRFGRKGVAINFVTN-EDVGAMRELEKFYSTQIEELPSDIAT 162
>pdb|1Q0U|A Chain A, Crystal Structure Of The Bstdead N-Terminal Domain
pdb|1Q0U|B Chain B, Crystal Structure Of The Bstdead N-Terminal Domain
Length = 219
Score = 101 bits (251), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 61/185 (32%), Positives = 101/185 (54%), Gaps = 7/185 (3%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q IP A+ G + Q+++G GKT ++L ++ +P +V A++ TRELA QI
Sbjct: 30 IQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKIKPERAEVQAVITAPTRELATQIY 89
Query: 61 HEFERFSTYLPDIKVAV---FYGGVNIKIHKDLLK-NECPQIVVGTPGRILALARDKDLS 116
HE + + + P + V GG + + K L K N P IV+GTPGRI R++ L
Sbjct: 90 HETLKITKFCPKDRXIVARCLIGGTDKQ--KALEKLNVQPHIVIGTPGRINDFIREQALD 147
Query: 117 LKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDP 176
+ ++DE D L+ DV +I P D Q ++FSAT+ ++++P KK+ ++P
Sbjct: 148 VHTAHILVVDEADLXLDX-GFITDVDQIAARXPKDLQXLVFSATIPEKLKPFLKKYXENP 206
Query: 177 MEIYV 181
++V
Sbjct: 207 TFVHV 211
>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 = 98.2 bits (243), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 54/180 (30%), Positives = 103/180 (57%), Gaps = 4/180 (2%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q E IP A+ G D++ +AK+G GK+ +++ L++ + + A+V+ TRELA Q+
Sbjct: 29 IQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLDLKKDNIQAMVIVPTRELALQVS 88
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLK-NECPQIVVGTPGRILALARDKDLSLKN 119
+ S ++ KV GG N++ D+++ ++ +V+ TPGRIL L + + +
Sbjct: 89 QICIQVSKHMGGAKVMATTGGTNLR--DDIMRLDDTVHVVIATPGRILDLIKKGVAKVDH 146
Query: 120 VRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEI 179
V+ +LDE DK+L S D + +++I P ++Q++++SAT ++ ++ P EI
Sbjct: 147 VQMIVLDEADKLL-SQDFVQIMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLEKPYEI 205
>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 = 97.4 bits (241), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 44/116 (37%), Positives = 70/116 (60%)
Query: 220 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 279
V+IF + + +++ L+ ++ IH G QEER + F+EG K +LVATD+ +
Sbjct: 57 VLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASK 116
Query: 280 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQA 335
G+D + VINYDMP+ + Y+HR+GR G G G+A TF++ A D +L ++A
Sbjct: 117 GLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFINKACDESVLMDLKA 172
>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 = 96.7 bits (239), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 63/176 (35%), Positives = 88/176 (50%), Gaps = 2/176 (1%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
+Q + IP G+D+I QAKSG GKT VF L L+L TRE+A QI
Sbjct: 50 VQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVLENLSTQILILAPTREIAVQIH 109
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
+ ++ VF GG + K LK +C I VG+PGRI L L+ ++
Sbjct: 110 SVITAIGIKMEGLECHVFIGGTPLSQDKTRLK-KC-HIAVGSPGRIKQLIELDYLNPGSI 167
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDP 176
R FILDE DK+LE + + I+ P KQ++ SAT + + K+M+DP
Sbjct: 168 RLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVSATYPEFLANALTKYMRDP 223
>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 = 95.5 bits (236), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 63/165 (38%), Positives = 85/165 (51%), Gaps = 3/165 (1%)
Query: 194 QHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMS 252
Q Y + +LE K L LL + + ++FV+ R EL L E + + M
Sbjct: 6 QWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMV 65
Query: 253 QEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFG 312
Q +R K EG +LVATD+ RGIDI V+ V N+DMP S DTYLHR+GR R G
Sbjct: 66 QGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAG 125
Query: 313 TKGLAITFVSSASDSDILNQVQARFEVDIK-ELPEQIDTSTYMPS 356
KG AI+ V A D +L +V E IK + +++ T PS
Sbjct: 126 RKGTAISLV-EAHDHLLLGKVGRYIEEPIKARVIDELRPKTRAPS 169
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 92.4 bits (228), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 55/154 (35%), Positives = 90/154 (58%), Gaps = 9/154 (5%)
Query: 200 SELEKNRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIHSGMSQEERLT 258
+E +K L +L + +IFV + A L KL E + SI +H + +ER
Sbjct: 18 NEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LHGDLQTQERDR 76
Query: 259 RYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFG 312
F+EG ++L+ T+++ RGIDI V++V+NYD+P A+ TY+HR+GR GRFG
Sbjct: 77 LIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFG 136
Query: 313 TKGLAITFVSSASDSDILNQVQARF-EVDIKELP 345
KG+AI+FV + +IL+ +Q F ++++ +P
Sbjct: 137 RKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVP 170
>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 = 89.7 bits (221), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 54/145 (37%), Positives = 82/145 (56%), Gaps = 8/145 (5%)
Query: 200 SELEKNRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIHSGMSQEERLT 258
+E +K L +L +IFV + A L KL E + SI +H + +ER
Sbjct: 19 NEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LHGDLQTQERDR 77
Query: 259 RYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFG 312
F+EG ++L+ T+++ RGIDI V+ V+NYD+P A+ TY+HR+GR GRFG
Sbjct: 78 LIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFG 137
Query: 313 TKGLAITFVSSASDSDILNQVQARF 337
KG+AI+FV + +IL+ +Q F
Sbjct: 138 RKGVAISFVHDKNSFNILSAIQKYF 162
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 89.4 bits (220), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 56/172 (32%), Positives = 91/172 (52%), Gaps = 5/172 (2%)
Query: 14 DVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDI 73
++I Q++SG GKTA FVL+ L Q EP L L T ELA Q E+ + P++
Sbjct: 133 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPEL 192
Query: 74 KVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKML 132
K+A G ++ + + + QIV+GTPG +L ++ K + K ++ F+LDE D M+
Sbjct: 193 KLAYAVRGNKLERGQKISE----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 248
Query: 133 ESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDE 184
+ + I +M P + Q+++FSAT + +K + DP I + E
Sbjct: 249 ATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300
>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 = 89.4 bits (220), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 51/166 (30%), Positives = 94/166 (56%), Gaps = 10/166 (6%)
Query: 187 LTLHGLVQHYIKLSELEKNR--KLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPS 244
LTL+ + Q+Y+ L E K++ L ++ ++ Q +IF ++ A L +++
Sbjct: 3 LTLNNIRQYYV-LCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQV 61
Query: 245 ICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMP------DSA 298
+ ++ E+R + + F++G +++L+ T++ RGID+++V IV+N+D+P
Sbjct: 62 SLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDY 121
Query: 299 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKEL 344
+TYLHR+GR GRFG KGLA + + L ++Q F IK+L
Sbjct: 122 ETYLHRIGRTGRFGKKGLAFNMI-EVDELPSLMKIQDHFNSSIKQL 166
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 89.0 bits (219), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 54/145 (37%), Positives = 82/145 (56%), Gaps = 8/145 (5%)
Query: 200 SELEKNRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIHSGMSQEERLT 258
+E +K L +L +IFV + A L KL E + SI +H + +ER
Sbjct: 20 NEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LHGDLQTQERDR 78
Query: 259 RYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFG 312
F+EG ++L+ T+++ RGIDI V+ V+NYD+P A+ TY+HR+GR GRFG
Sbjct: 79 LIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFG 138
Query: 313 TKGLAITFVSSASDSDILNQVQARF 337
KG+AI+FV + +IL+ +Q F
Sbjct: 139 RKGVAISFVHDKNSFNILSAIQKYF 163
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 89.0 bits (219), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 56/172 (32%), Positives = 91/172 (52%), Gaps = 5/172 (2%)
Query: 14 DVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDI 73
++I Q++SG GKTA FVL+ L Q EP L L T ELA Q E+ + P++
Sbjct: 66 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPEL 125
Query: 74 KVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKML 132
K+A G ++ + + + QIV+GTPG +L ++ K + K ++ F+LDE D M+
Sbjct: 126 KLAYAVRGNKLERGQKISE----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 181
Query: 133 ESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDE 184
+ + I +M P + Q+++FSAT + +K + DP I + E
Sbjct: 182 ATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 233
>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 = 86.7 bits (213), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 56/187 (29%), Positives = 96/187 (51%), Gaps = 14/187 (7%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTL---------QQTEPNPGQVTALVLCH 51
+Q IP + D++ A++G GKTA F++ + QQ L+L
Sbjct: 49 IQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAP 108
Query: 52 TRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALAR 111
TRELA QI E ++FS P ++ V YGG + ++ C ++V TPGR++
Sbjct: 109 TRELAIQILSESQKFSLNTP-LRSCVVYGGADTHSQIREVQMGC-HLLVATPGRLVDFIE 166
Query: 112 DKDLSLKNVRHFILDECDKMLE---SLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPV 168
+SL+ ++ +LDE D+ML+ +R+ ++E + ++Q +MFSAT KEI+ +
Sbjct: 167 KNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKL 226
Query: 169 CKKFMQD 175
F+ +
Sbjct: 227 AADFLYN 233
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 85.5 bits (210), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 52/163 (31%), Positives = 85/163 (52%), Gaps = 12/163 (7%)
Query: 14 DVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQ---ICHEFERFSTYL 70
++I Q++SG GKTA F L+ L + P A+ L +RELA Q + E +F+
Sbjct: 63 NMIAQSQSGTGKTAAFSLTMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKIT 122
Query: 71 PDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDK 130
+ V + N +I+ Q++VGTPG +L L R K + L+ ++ F+LDE D
Sbjct: 123 SQLIVPDSFEK-NKQINA--------QVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADN 173
Query: 131 MLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFM 173
ML+ + + + P D Q+++FSAT + +R KK +
Sbjct: 174 MLDQQGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIV 216
>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 = 85.1 bits (209), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 48/136 (35%), Positives = 71/136 (52%), Gaps = 1/136 (0%)
Query: 188 TLHGLVQHYIKLSELEKNRKLNDLLDALDFNQV-VIFVKSVSRAAELNKLLVECNFPSIC 246
T + Q + + E +K L DLL+A + + ++FV++ A L L +
Sbjct: 16 TSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTS 75
Query: 247 IHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVG 306
IH SQ +R F+ G ILVAT + RG+DI V VIN+D+P + Y+HR+G
Sbjct: 76 IHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIG 135
Query: 307 RAGRFGTKGLAITFVS 322
R GR G GLA +F +
Sbjct: 136 RTGRVGNLGLATSFFN 151
>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 = 82.0 bits (201), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 54/188 (28%), Positives = 97/188 (51%), Gaps = 12/188 (6%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP------GQVTALVLCHTRE 54
+Q + P + G+D+I A++G GKT +++ + P LVL TRE
Sbjct: 46 IQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPTRE 105
Query: 55 LAYQICHEFERFSTYLPDIKVAVFYGGVNIKIH-KDLLKNECPQIVVGTPGRILALARDK 113
LA + E ++S +K YGG N +D+ K I++ TPGR+ L +
Sbjct: 106 LALHVEAECSKYS--YKGLKSICIYGGRNRNGQIEDISKGV--DIIIATPGRLNDLQMNN 161
Query: 114 DLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFM 173
++L+++ + ++DE DKML+ ++ +++I D+Q +M SAT +R + ++
Sbjct: 162 SVNLRSITYLVIDEADKMLD-MEFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLALSYL 220
Query: 174 QDPMEIYV 181
+DPM +YV
Sbjct: 221 KDPMIVYV 228
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 79.0 bits (193), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 35/96 (36%), Positives = 59/96 (61%)
Query: 208 LNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGN 267
L+DLL ++ ++F ++ + E+ + L+ P+ +H MSQ ER F++G
Sbjct: 19 LSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGE 78
Query: 268 KRILVATDLVGRGIDIERVNIVINYDMPDSADTYLH 303
R+LVATD+ RG+DI +V++V++Y MPD A+ Y H
Sbjct: 79 VRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQH 114
>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 = 75.9 bits (185), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 53/188 (28%), Positives = 94/188 (50%), Gaps = 12/188 (6%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP------GQVTALVLCHTRE 54
+Q + P A+ G+D++ A++G GKT ++L + P G + LVL TRE
Sbjct: 55 IQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPI-CLVLAPTRE 113
Query: 55 LAYQICHEFERFSTYLPDIKVAVFYGGVNIKIH-KDLLKNECPQIVVGTPGRILALARDK 113
LA Q+ + +K YGG +DL + +I + TPGR++
Sbjct: 114 LAQQVQQVAAEYCRAC-RLKSTCIYGGAPKGPQIRDLERGV--EICIATPGRLIDFLECG 170
Query: 114 DLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFM 173
+L+ + +LDE D+ML+ + +++I D+Q +M+SAT KE+R + + F+
Sbjct: 171 KTNLRRTTYLVLDEADRMLD-MGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFL 229
Query: 174 QDPMEIYV 181
+D + I +
Sbjct: 230 KDYIHINI 237
>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 = 75.9 bits (185), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 33/96 (34%), Positives = 59/96 (61%)
Query: 208 LNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGN 267
L+DLL ++ ++F ++ + E+ + L+ P+ +H +SQ ER F++G
Sbjct: 22 LSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGE 81
Query: 268 KRILVATDLVGRGIDIERVNIVINYDMPDSADTYLH 303
R+LVATD+ RG+DI +V++V++Y +PD A+ Y H
Sbjct: 82 VRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 75.5 bits (184), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 53/188 (28%), Positives = 94/188 (50%), Gaps = 12/188 (6%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP------GQVTALVLCHTRE 54
+Q + P A+ G+D++ A++G GKT ++L + P G + LVL TRE
Sbjct: 69 IQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPI-CLVLAPTRE 127
Query: 55 LAYQICHEFERFSTYLPDIKVAVFYGGVNIKIH-KDLLKNECPQIVVGTPGRILALARDK 113
LA Q+ + +K YGG +DL + +I + TPGR++
Sbjct: 128 LAQQVQQVAAEYCRAC-RLKSTCIYGGAPKGPQIRDLERGV--EICIATPGRLIDFLECG 184
Query: 114 DLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFM 173
+L+ + +LDE D+ML+ + +++I D+Q +M+SAT KE+R + + F+
Sbjct: 185 KTNLRRTTYLVLDEADRMLD-MGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFL 243
Query: 174 QDPMEIYV 181
+D + I +
Sbjct: 244 KDYIHINI 251
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 75.5 bits (184), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 53/192 (27%), Positives = 100/192 (52%), Gaps = 13/192 (6%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQ-----QTEPNPGQVTALVLCHTREL 55
+Q + I A+ G DV+ AK+G GKT F++ L+ Q G + L++ TREL
Sbjct: 51 IQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDG-LGVLIISPTREL 109
Query: 56 AYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDL 115
AYQ + D + GG ++K + + N I+V TPGR+L D+ +
Sbjct: 110 AYQTFEVLRKVGKN-HDFSAGLIIGGKDLKHEAERINN--INILVCTPGRLLQ-HMDETV 165
Query: 116 SL--KNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFM 173
S +++ +LDE D++L+ + + + + P +Q ++FSAT +K ++ + + +
Sbjct: 166 SFHATDLQMLVLDEADRILD-MGFADTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSL 224
Query: 174 QDPMEIYVDDEA 185
++P ++V ++A
Sbjct: 225 KNPEYVWVHEKA 236
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 72.0 bits (175), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 50/176 (28%), Positives = 89/176 (50%), Gaps = 10/176 (5%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQ-----QTEPNPGQVTALVLCHTREL 55
+QH+ I + G D++ AK+G GKT F++ ++ + P G L+L TREL
Sbjct: 80 IQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNG-TGVLILSPTREL 138
Query: 56 AYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRIL-ALARDKD 114
A Q + T+ + GG N L N I+V TPGR+L +
Sbjct: 139 AMQTFGVLKELMTHHVHT-YGLIMGGSNRSAEAQKLGNGI-NIIVATPGRLLDHMQNTPG 196
Query: 115 LSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCK 170
KN++ ++DE D++L+ + ++++I K+ P +Q M+FSAT ++++ + +
Sbjct: 197 FMYKNLQCLVIDEADRILD-VGFEEELKQIIKLLPTRRQTMLFSATQTRKVEDLAR 251
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 56/184 (30%), Positives = 85/184 (46%), Gaps = 23/184 (12%)
Query: 1 MQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ-TEPNPGQVTALVLCHTRELAYQI 59
+Q + IP + G +++ A +G GKT F + L Q +P AL++ TRELA QI
Sbjct: 55 IQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPANKGFRALIISPTRELASQI 114
Query: 60 CHEFERFSTYLPDIKVAVFYGGVNIKIHKDLL--KNECPQ------IVVGTPGRILALAR 111
E IK++ G IHK + K P+ I+V TP R++ L +
Sbjct: 115 HREL---------IKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLK 165
Query: 112 D--KDLSLKNVRHFILDECDKMLE--SLDMRRDVQEIF-KMTPHDKQVMMFSATLSKEIR 166
+ L +V ++DE DK+ E R + IF T H + MFSAT + ++
Sbjct: 166 QDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVE 225
Query: 167 PVCK 170
CK
Sbjct: 226 QWCK 229
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 56/106 (52%), Gaps = 3/106 (2%)
Query: 219 QVVIFVKSVSRAAELNKLL---VECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 275
+ +IF +V + L +L + + P + H ++Q +R + K FK+ ILV TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 276 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFV 321
+ RG+D V+ V+ +P Y+HR+GR R G +G ++ F+
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 140
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 56/106 (52%), Gaps = 3/106 (2%)
Query: 219 QVVIFVKSVSRAAELNKLL---VECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 275
+ +IF +V + L +L + + P + H ++Q +R + K FK+ ILV TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 276 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFV 321
+ RG+D V+ V+ +P Y+HR+GR R G +G ++ F+
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 140
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 56/106 (52%), Gaps = 3/106 (2%)
Query: 219 QVVIFVKSVSRAAELNKLL---VECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 275
+ +IF +V + L +L + + P + H ++Q +R + K FK+ ILV TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 276 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFV 321
+ RG+D V+ V+ +P Y+HR+GR R G +G ++ F+
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 140
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 50/104 (48%)
Query: 221 VIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRG 280
+I+ S ++ + L + H+G+ R + F+ + +I+VAT G G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMG 299
Query: 281 IDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSA 324
I+ V V+++D+P + ++Y GRAGR G A+ F A
Sbjct: 300 INKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPA 343
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 49/104 (47%)
Query: 221 VIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRG 280
+I+ S ++ + L + H+G+ R + F+ + +I+VAT G G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXG 299
Query: 281 IDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSA 324
I+ V V+++D+P + ++Y GRAGR G A F A
Sbjct: 300 INKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFYDPA 343
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 92/341 (26%), Positives = 141/341 (41%), Gaps = 56/341 (16%)
Query: 13 MDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQ-ICHEFERFSTYLP 71
M+ + Q G GKT V L+ L E G TA + T LA Q E FS +
Sbjct: 390 MNRLLQGDVGSGKTVVAQLAILDNYEA--GFQTAF-MVPTSILAIQHYRRTVESFSKF-- 444
Query: 72 DIKVAVFYGGVNI----KIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDE 127
+I VA+ G KI K L+N +V+GT I +D+ KN+ I+DE
Sbjct: 445 NIHVALLIGATTPSEKEKI-KSGLRNGQIDVVIGTHALI-----QEDVHFKNLGLVIIDE 498
Query: 128 CD----KMLESLDMRRDVQEIFKM--TPHDKQVMM-----FSATLSKEIRPVCKKF--MQ 174
K E+L + + + M TP + + + T+ E+ P K+ M
Sbjct: 499 QHRFGVKQREALMNKGKMVDTLVMSATPIPRSMALAFYGDLDVTVIDEMPPGRKEVQTML 558
Query: 175 DPM----EIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRA 230
PM E+Y ++ G Q +I +E++ KLN V A
Sbjct: 559 VPMDRVNEVYEFVRQEVMRGG--QAFIVYPLIEESDKLN-----------------VKSA 599
Query: 231 AELNKLLVECNFPSI---CIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVN 287
E+ + L + FP +H +SQEE+ F EG ILV+T ++ GID+ R N
Sbjct: 600 VEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRAN 659
Query: 288 IVINYDMPDSADTYLHRV-GRAGRFGTKGLAITFVSSASDS 327
+++ + LH++ GR GR G + V +
Sbjct: 660 VMVIENPERFGLAQLHQLRGRVGRGGQEAYCFLVVGDVGEE 700
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 58/111 (52%), Gaps = 5/111 (4%)
Query: 197 IKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEER 256
I + K RKL ++L+ ++++IF + ++K+ + P+I + S+EER
Sbjct: 329 IAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVFL---IPAITHRT--SREER 383
Query: 257 LTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 307
+GF+ G R +V++ ++ GID+ N+ + SA Y+ R+GR
Sbjct: 384 EEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 434
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 58/111 (52%), Gaps = 5/111 (4%)
Query: 197 IKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEER 256
I + K RKL ++L+ ++++IF + ++K+ + P+I + S+EER
Sbjct: 94 IAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVFL---IPAITHRT--SREER 148
Query: 257 LTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 307
+GF+ G R +V++ ++ GID+ N+ + SA Y+ R+GR
Sbjct: 149 EEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 199
>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 = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 37/73 (50%)
Query: 248 HSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 307
H+ + E++ T ++ + +++VAT G GID V VI++ M S + Y GR
Sbjct: 298 HANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGR 357
Query: 308 AGRFGTKGLAITF 320
AGR K I +
Sbjct: 358 AGRDDMKADCILY 370
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 33/61 (54%)
Query: 250 GMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAG 309
G+SQ E+ F G +LVAT + G+D+ V++V+ Y+ SA + R GR G
Sbjct: 402 GLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTG 461
Query: 310 R 310
R
Sbjct: 462 R 462
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 41/175 (23%), Positives = 79/175 (45%), Gaps = 24/175 (13%)
Query: 201 ELEKNRKLNDLL----DALDFN---QVVIFVKSVSRAAELNKLLVE---CNF--PSICIH 248
E +N KL +L+ DA +N + ++F K+ + + L K + E N+ P + +
Sbjct: 608 ETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMG 667
Query: 249 SGM----------SQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 298
G SQ+ L +K K+ R+L+AT + GIDI + N+V+ Y+ +
Sbjct: 668 RGRRDQTTGMTLPSQKGVLDAFKTSKDN--RLLIATSVADEGIDIVQCNLVVLYEYSGNV 725
Query: 299 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDTSTY 353
+ GR G+K + +T + +++ N+ + E ++ D T+
Sbjct: 726 TKMIQVRGRGRAAGSKCILVTSKTEVVENEKCNRYKEEMMNKAVEKIQKWDEETF 780
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 41/175 (23%), Positives = 79/175 (45%), Gaps = 24/175 (13%)
Query: 201 ELEKNRKLNDLL----DALDFN---QVVIFVKSVSRAAELNKLLVE---CNF--PSICIH 248
E +N KL +L+ DA +N + ++F K+ + + L K + E N+ P + +
Sbjct: 367 ETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMG 426
Query: 249 SGM----------SQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 298
G SQ+ L +K K+ R+L+AT + GIDI + N+V+ Y+ +
Sbjct: 427 RGRRDQTTGMTLPSQKGVLDAFKTSKDN--RLLIATSVADEGIDIVQCNLVVLYEYSGNV 484
Query: 299 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDTSTY 353
+ GR G+K + +T + +++ N+ + E ++ D T+
Sbjct: 485 TKMIQVRGRGRAAGSKCILVTSKTEVVENEKCNRYKEEMMNKAVEKIQKWDEETF 539
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 41/175 (23%), Positives = 79/175 (45%), Gaps = 24/175 (13%)
Query: 201 ELEKNRKLNDLL----DALDFN---QVVIFVKSVSRAAELNKLLVE---CNF--PSICIH 248
E +N KL +L+ DA +N + ++F K+ + + L K + E N+ P + +
Sbjct: 608 ETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMG 667
Query: 249 SGM----------SQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 298
G SQ+ L +K K+ R+L+AT + GIDI + N+V+ Y+ +
Sbjct: 668 RGRRDQTTGMTLPSQKGVLDAFKTSKDN--RLLIATSVADEGIDIVQCNLVVLYEYSGNV 725
Query: 299 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDTSTY 353
+ GR G+K + +T + +++ N+ + E ++ D T+
Sbjct: 726 TKMIQVRGRGRAAGSKCILVTSKTEVVENEKCNRYKEEMMNKAVEKIQKWDEETF 780
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 40/153 (26%), Positives = 65/153 (42%), Gaps = 30/153 (19%)
Query: 178 EIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLL 237
E+ V D +LT ++ H + E N + D + N + SVSR E+ L
Sbjct: 294 EVEVRDYKRLTPISVLDHAL---ESLDNLRPGDCIVCFSKNDIY----SVSRQIEIRGL- 345
Query: 238 VECNFPSICIHSGMSQEERLTRYKGFKEGNK--RILVATDLVGRGIDIERVNIVINYDM- 294
S I+ + +L + K F + N +ILVATD +G G+++ + +I Y +
Sbjct: 346 -----ESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGLNLS-IRRIIFYSLI 399
Query: 295 -------------PDSADTYLHRVGRAGRFGTK 314
P + L GRAGRF ++
Sbjct: 400 KPSINEKGERELEPITTSQALQIAGRAGRFSSR 432
>pdb|3RC3|A Chain A, Human Mitochondrial Helicase Suv3
Length = 677
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 40/153 (26%), Positives = 65/153 (42%), Gaps = 30/153 (19%)
Query: 178 EIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLL 237
E+ V D +LT ++ H + E N + D + N + SVSR E+ L
Sbjct: 294 EVEVRDYKRLTPISVLDHAL---ESLDNLRPGDCIVCFSKNDIY----SVSRQIEIRGL- 345
Query: 238 VECNFPSICIHSGMSQEERLTRYKGFKEGNK--RILVATDLVGRGIDIERVNIVINYDM- 294
S I+ + +L + K F + N +ILVATD +G G+++ + +I Y +
Sbjct: 346 -----ESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGXGLNLS-IRRIIFYSLI 399
Query: 295 -------------PDSADTYLHRVGRAGRFGTK 314
P + L GRAGRF ++
Sbjct: 400 KPSINEKGERELEPITTSQALQIAGRAGRFSSR 432
>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 = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 46/102 (45%), Gaps = 14/102 (13%)
Query: 221 VIFVKSVSRAAELNKLLVEC-NFPSICI---------HSG----MSQEERLTRYKGFKEG 266
+IF K+ A L++ + E F + + HS M+Q E+ F+ G
Sbjct: 404 IIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTG 463
Query: 267 NKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRA 308
+L+AT + G+DI+ NIVI Y + + + GRA
Sbjct: 464 KINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARGRA 505
>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 = 36.6 bits (83), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 44/102 (43%), Gaps = 10/102 (9%)
Query: 231 AELNKLLVECNFPSICIH-SGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 289
E+++ L EC H +G+ +R F+ GN +++VAT + G+++ ++
Sbjct: 285 GEMSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVI 344
Query: 290 I-------NYDMPDSADTYLHRVGRAGRFG--TKGLAITFVS 322
+ Y Y GRAGR G +G AI V
Sbjct: 345 VRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVG 386
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 36.2 bits (82), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 44/94 (46%), Gaps = 1/94 (1%)
Query: 248 HSGMSQEERLTRYKGFK-EGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVG 306
++GM+ + FK G+ IL+AT + GIDI + N+VI Y+ + + G
Sbjct: 432 NTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRG 491
Query: 307 RAGRFGTKGLAITFVSSASDSDILNQVQARFEVD 340
R G+K +T + + + +N + + D
Sbjct: 492 RGRARGSKCFLLTSNAGVIEKEQINMYKEKMMND 525
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 36.2 bits (82), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 44/94 (46%), Gaps = 1/94 (1%)
Query: 248 HSGMSQEERLTRYKGFK-EGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVG 306
++GM+ + FK G+ IL+AT + GIDI + N+VI Y+ + + G
Sbjct: 441 NTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRG 500
Query: 307 RAGRFGTKGLAITFVSSASDSDILNQVQARFEVD 340
R G+K +T + + + +N + + D
Sbjct: 501 RGRARGSKCFLLTSNAGVIEKEQINMYKEKMMND 534
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 36.2 bits (82), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 44/94 (46%), Gaps = 1/94 (1%)
Query: 248 HSGMSQEERLTRYKGFK-EGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVG 306
++GM+ + FK G+ IL+AT + GIDI + N+VI Y+ + + G
Sbjct: 440 NTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRG 499
Query: 307 RAGRFGTKGLAITFVSSASDSDILNQVQARFEVD 340
R G+K +T + + + +N + + D
Sbjct: 500 RGRARGSKCFLLTSNAGVIEKEQINMYKEKMMND 533
>pdb|2FUG|6 Chain 6, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|F Chain F, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|O Chain O, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|X Chain X, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|3I9V|6 Chain 6, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3I9V|F Chain F, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3IAM|6 Chain 6, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAM|F Chain F, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAS|6 Chain 6, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|F Chain F, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|O Chain O, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|X Chain X, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3M9S|6 Chain 6, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|3M9S|F Chain F, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|2YBB|6 Chain 6, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
pdb|4HEA|6 Chain 6, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
pdb|4HEA|G Chain G, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
Length = 181
Score = 35.4 bits (80), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 55/119 (46%), Gaps = 12/119 (10%)
Query: 86 IHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECD-KMLESLDMRRDV--- 141
+D+ + E I+ T +++A R L F L C +M+ S D R D+
Sbjct: 7 FERDVQELEREGILFTTLEKLVAWGRSNSLWPAT---FGLACCAIEMMASTDARNDLARF 63
Query: 142 -QEIFKMTPHDKQVMMFSATLSKEIRPVCKKF---MQDPMEIYVDDEAKLTLHGLVQHY 196
E+F+ +P VM+ + LSK++ PV ++ M DP + + A + G+ +Y
Sbjct: 64 GSEVFRASPRQADVMIVAGRLSKKMAPVMRRVWEQMPDPKWV-ISMGACASSGGMFNNY 121
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 35.0 bits (79), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 33/139 (23%), Positives = 62/139 (44%), Gaps = 26/139 (18%)
Query: 206 RKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIH-SGMSQEERLTRYKGFK 264
R LN+L D+L+ N N+ L + + H +G+ ++ER+ + F+
Sbjct: 271 RALNELADSLEENPT-------------NEKLAKAIRGGVAFHHAGLGRDERVLVEENFR 317
Query: 265 EGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRV---------GRAGR--FGT 313
+G + +VAT + GI+ ++I D+ +D + R+ GRAGR +
Sbjct: 318 KGIIKAVVATPTLSAGINTPAFRVIIR-DIWRYSDFGMERIPIIEVHQMLGRAGRPKYDE 376
Query: 314 KGLAITFVSSASDSDILNQ 332
G I +S +++N
Sbjct: 377 VGEGIIVSTSDDPREVMNH 395
>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 = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 230 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 289
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 290 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 327
D S + + +GRA R G I + + + S
Sbjct: 518 AILDADKEGFLRSERSLIQTIGRAAR-NANGHVIMYADTITKS 559
>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 = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 230 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 289
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 290 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 327
D S + + +GRA R G I + + + S
Sbjct: 518 AILDADKEGFLRSERSLIQTIGRAAR-NANGHVIMYADTITKS 559
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 230 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 289
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 457 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 516
Query: 290 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 327
D S + + +GRA R G I + + + S
Sbjct: 517 AILDADKEGFLRSERSLIQTIGRAAR-NANGHVIMYADTITKS 558
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 230 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 289
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 290 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 327
D S + + +GRA R G I + + + S
Sbjct: 518 AILDADKEGFLRSERSLIQTIGRAAR-NANGHVIMYADTITKS 559
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 32.7 bits (73), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 230 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 289
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 483 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 542
Query: 290 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 327
D S + + +GRA R G I + + + S
Sbjct: 543 AILDADKEGFLRSERSLIQTIGRAAR-NANGHVIMYADTITKS 584
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 32.3 bits (72), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 57/130 (43%), Gaps = 18/130 (13%)
Query: 219 QVVIFVKSVSRAAELNKLLVE---CNFPSICIHSGMSQEERLTR---------YKGFK-E 265
+ ++FVK+ + L K + E +F I +G + R T + F+
Sbjct: 391 KTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGXTLPAQKCVLEAFRAS 450
Query: 266 GNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSAS 325
G+ IL+AT + GIDI N+VI Y+ + + GR +K +T S
Sbjct: 451 GDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGRGRARDSKCFLLT-----S 505
Query: 326 DSDILNQVQA 335
+D++ + +A
Sbjct: 506 SADVIEKEKA 515
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 32.3 bits (72), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 76/312 (24%), Positives = 128/312 (41%), Gaps = 29/312 (9%)
Query: 5 CIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEF- 63
C P L MD + G GKT V + + + N QV VL T LA Q F
Sbjct: 620 CQP---LAMDRLVCGDVGFGKTEVAMRAAFLAVD-NHKQVA--VLVPTTLLAQQHYDNFR 673
Query: 64 ERFSTYLPDIKVAVFYGGV--NIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVR 121
+RF+ + I++ + +I ++ + + I++GT + + + KDL L
Sbjct: 674 DRFANWPVRIEMISRFRSAKEQTQILAEVAEGKI-DILIGTHKLLQSDVKFKDLGL---- 728
Query: 122 HFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYV 181
I+DE + +R +E K + ++ +AT + M+D I
Sbjct: 729 -LIVDEEHR----FGVRH--KERIKAMRANVDILTLTATPIPRTLNMAMSGMRDLSIIAT 781
Query: 182 DDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAE-LNKLLVEC 240
+L + V+ Y + + + L ++L + V+++ +AAE L +L+ E
Sbjct: 782 PPARRLAVKTFVREYDSM--VVREAILREILRGGQVYYLYNDVENIQKAAERLAELVPEA 839
Query: 241 NFPSICIHSGMSQEERLTR-YKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD 299
I I G +E L R F +LV T ++ GIDI N +I
Sbjct: 840 R---IAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGL 896
Query: 300 TYLHRV-GRAGR 310
LH++ GR GR
Sbjct: 897 AQLHQLRGRVGR 908
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 32.0 bits (71), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 87/391 (22%), Positives = 152/391 (38%), Gaps = 77/391 (19%)
Query: 2 QHECIPQAIL-GMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQIC 60
Q E + + +L G ++ + +G GKT + + + N G+ A+ + R L +
Sbjct: 35 QTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLKNGGK--AIYVTPLRALTNEKY 92
Query: 61 HEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNV 120
F+ + L KVA+ G + LKN I++ T ++ +L R + L V
Sbjct: 93 LTFKDWE--LIGFKVAMTSG--DYDTDDAWLKNY--DIIITTYEKLDSLWRHRPEWLNEV 146
Query: 121 RHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLS--KEI------RPVCKKF 172
+F+LDE + + R V E + + ++ SAT+S K+I PV +
Sbjct: 147 NYFVLDELHYLNDP--ERGPVVESVTIRAKRRNLLALSATISNYKQIAKWLGAEPVATNW 204
Query: 173 MQDPM--------------EIYVDDEAKLTLHG--LVQHYIKLSELEKNR---------- 206
P+ + D +HG + Y L L KN
Sbjct: 205 RPVPLIEGVIYPERKKKEYNVIFKDNTTKKVHGDDAIIAYT-LDSLSKNGQVLVFRNSRK 263
Query: 207 -------KLNDLLD--ALDFNQVVIFVKSV-------SRAAELNKLLVECNFPSICIHSG 250
K+ + ++ +LD N + +K + S EL K L+ H+G
Sbjct: 264 MAESTALKIANYMNFVSLDENALSEILKQLDDIEEGGSDEKELLKSLISKGVA--YHHAG 321
Query: 251 MSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVI------NYDMPDSAD----- 299
+S+ R +GF++ +++VAT + G+++ ++I N + D
Sbjct: 322 LSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIM 381
Query: 300 TYLHRVGRAGR--FGTKGLAITFVSSASDSD 328
Y GRAGR F G +I V D D
Sbjct: 382 EYKQMSGRAGRPGFDQIGESIVVVRDKEDVD 412
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 31.6 bits (70), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 32/153 (20%), Positives = 63/153 (41%), Gaps = 31/153 (20%)
Query: 156 MFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDAL 215
+F TL + + KK ++P Y +++ + + +H+ + E +
Sbjct: 106 IFLXTLFLRNKKILKKLAENPE--YENEKLTKLRNTIXEHFTRTEESARG---------- 153
Query: 216 DFNQVVIFVKSVSRAAELNKLLVECN-FPSICI---------HSG----MSQEERLTRYK 261
+IF K+ A L++ + + F + + HS +Q E+
Sbjct: 154 -----IIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAGHSSEFKPXTQNEQREVIS 208
Query: 262 GFKEGNKRILVATDLVGRGIDIERVNIVINYDM 294
F+ G +L+AT + G+DI+ NIVI Y +
Sbjct: 209 KFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
Maritima
Length = 822
Score = 31.6 bits (70), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 53/115 (46%), Gaps = 10/115 (8%)
Query: 220 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 279
V++ S+ ++ L+ +L + P +++ ++E K ++G + +AT++ GR
Sbjct: 477 VLVGTTSIEKSELLSSMLKKKGIPHQVLNAKYHEKEAEIVAKAGQKG--MVTIATNMAGR 534
Query: 280 GIDIERVNIV--------INYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASD 326
G DI+ V I + +S GRAGR G G +I F+S D
Sbjct: 535 GTDIKLGPGVAELGGLCIIGTERHESRRIDNQLRGRAGRQGDPGESIFFLSLEDD 589
>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 = 31.2 bits (69), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 53/115 (46%), Gaps = 10/115 (8%)
Query: 220 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 279
V++ S+ ++ L+ +L + P +++ ++E K ++G + +AT++ GR
Sbjct: 477 VLVGTTSIEKSELLSSMLKKKGIPHQVLNAKYHEKEAEIVAKAGQKG--MVTIATNMAGR 534
Query: 280 GIDIERVNIV--------INYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASD 326
G DI+ V I + +S GRAGR G G +I F+S D
Sbjct: 535 GTDIKLGPGVAELGGLCIIGTERHESRRIDNQLRGRAGRQGDPGESIFFLSLEDD 589
>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 = 31.2 bits (69), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 28/119 (23%), Positives = 51/119 (42%), Gaps = 7/119 (5%)
Query: 215 LDFNQVVIFVKSVSRAAE-LNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVA 273
++ N+ V+ + +E L L E +HS + ER+ + + G +LV
Sbjct: 448 IERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVG 507
Query: 274 TDLVGRGIDIERVNIVINYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 327
+L+ G+DI V++V D S + + +GRA R +G I + + S
Sbjct: 508 INLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR-NAEGRVIMYADKITKS 565
>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 = 31.2 bits (69), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 28/119 (23%), Positives = 51/119 (42%), Gaps = 7/119 (5%)
Query: 215 LDFNQVVIFVKSVSRAAE-LNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVA 273
++ N+ V+ + +E L L E +HS + ER+ + + G +LV
Sbjct: 442 IERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVG 501
Query: 274 TDLVGRGIDIERVNIVINYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 327
+L+ G+DI V++V D S + + +GRA R +G I + + S
Sbjct: 502 INLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR-NAEGRVIMYADKITKS 559
>pdb|2EPG|A Chain A, Crystal Structure Of Ttha1785
pdb|2EPG|B Chain B, Crystal Structure Of Ttha1785
Length = 487
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 24/40 (60%), Gaps = 7/40 (17%)
Query: 42 GQVTALVLCHTRELAYQICHEF-ERFSTYLPDIKVAVFYG 80
GQVT L+ +R L +Q+C ++ ERF +KVA YG
Sbjct: 239 GQVTVLIHTGSRGLGHQVCQDYVERF------LKVAPRYG 272
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/97 (19%), Positives = 46/97 (47%), Gaps = 3/97 (3%)
Query: 219 QVVIFVKSVSRAAELNKLLVEC-NFPSICIHSGMS--QEERLTRYKGFKEGNKRILVATD 275
+V++ + A +L ++L E + H G S + +R + ++ ++L+ ++
Sbjct: 505 KVLVICAKAATALQLEQVLREREGIRAAVFHEGXSIIERDRAAAWFAEEDTGAQVLLCSE 564
Query: 276 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFG 312
+ G + + + + +D+P + D R+GR R G
Sbjct: 565 IGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIG 601
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 92/418 (22%), Positives = 168/418 (40%), Gaps = 96/418 (22%)
Query: 15 VICQAKSGMGKTAVFVLSTLQQTEP--------NPGQVTALVLCHTRELAYQICHEF-ER 65
++C A +G GKT V ++ L++ N + + R L ++ F +R
Sbjct: 99 LLC-APTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQEMVGSFGKR 157
Query: 66 FSTYLPDIKVAVFYGGVNIKIHKDLLKNE--CPQIVVGTPGRILALARD--KDLSLKNVR 121
+TY I VA G L K E QI+V TP + + R + + VR
Sbjct: 158 LATY--GITVAELTGD------HQLCKEEISATQIIVCTPEKWDIITRKGGERTYTQLVR 209
Query: 122 HFILDEC-------DKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQ 174
ILDE +LE+L + R ++ I +MT D +++ SATL V
Sbjct: 210 LIILDEIHLLHDDRGPVLEAL-VARAIRNI-EMTQEDVRLIGLSATLPN-YEDVATFLRV 266
Query: 175 DPME--IYVDDEAKLTLHGLVQHYIKLSE---LEKNRKLNDL-----LDALDFNQVVIFV 224
DP + Y D+ + L Q Y+ ++E +++ + +N++ ++ NQV++FV
Sbjct: 267 DPAKGLFYFDNSFRPV--PLEQTYVGITEKKAIKRFQIMNEIVYEKIMEHAGKNQVLVFV 324
Query: 225 KS------VSRAAE--------LNKLLVECNFPSICI----------------------- 247
S +RA L L E + + +
Sbjct: 325 HSRKETGKTARAIRDMCLEKDTLGLFLREGSASTEVLRTEAEQCKNLELKDLLPYGFAIH 384
Query: 248 HSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADT------- 300
H+GM++ +R F + + ++LV+T + G+++ ++I S +
Sbjct: 385 HAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELG 444
Query: 301 ---YLHRVGRAGR--FGTKGLAITFVSSASDSDILNQVQARFEVD---IKELPEQIDT 350
L +GRAGR + TKG I S L+ + + ++ + +LP+ ++
Sbjct: 445 ALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQLPIESQMVSKLPDMLNA 502
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 92/418 (22%), Positives = 168/418 (40%), Gaps = 96/418 (22%)
Query: 15 VICQAKSGMGKTAVFVLSTLQQTEP--------NPGQVTALVLCHTRELAYQICHEF-ER 65
++C A +G GKT V ++ L++ N + + R L ++ F +R
Sbjct: 99 LLC-APTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQEMVGSFGKR 157
Query: 66 FSTYLPDIKVAVFYGGVNIKIHKDLLKNE--CPQIVVGTPGRILALARD--KDLSLKNVR 121
+TY I VA G L K E QI+V TP + + R + + VR
Sbjct: 158 LATY--GITVAELTGD------HQLCKEEISATQIIVCTPEKWDIITRKGGERTYTQLVR 209
Query: 122 HFILDEC-------DKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQ 174
ILDE +LE+L + R ++ I +MT D +++ SATL V
Sbjct: 210 LIILDEIHLLHDDRGPVLEAL-VARAIRNI-EMTQEDVRLIGLSATLPN-YEDVATFLRV 266
Query: 175 DPME--IYVDDEAKLTLHGLVQHYIKLSE---LEKNRKLNDL-----LDALDFNQVVIFV 224
DP + Y D+ + L Q Y+ ++E +++ + +N++ ++ NQV++FV
Sbjct: 267 DPAKGLFYFDNSFRPV--PLEQTYVGITEKKAIKRFQIMNEIVYEKIMEHAGKNQVLVFV 324
Query: 225 KS------VSRAAE--------LNKLLVECNFPSICI----------------------- 247
S +RA L L E + + +
Sbjct: 325 HSRKETGKTARAIRDMCLEKDTLGLFLREGSASTEVLRTEAEQCKNLELKDLLPYGFAIH 384
Query: 248 HSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADT------- 300
H+GM++ +R F + + ++LV+T + G+++ ++I S +
Sbjct: 385 HAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELG 444
Query: 301 ---YLHRVGRAGR--FGTKGLAITFVSSASDSDILNQVQARFEVD---IKELPEQIDT 350
L +GRAGR + TKG I S L+ + + ++ + +LP+ ++
Sbjct: 445 ALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQLPIESQMVSKLPDMLNA 502
>pdb|3G7Y|A Chain A, Crystal Structure Of Oxidized Ost6l
pdb|3G9B|A Chain A, Crystal Structure Of Reduced Ost6l
pdb|3GA4|A Chain A, Crystal Structure Of Ost6l (Photoreduced Form)
Length = 178
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 19/89 (21%)
Query: 41 PGQVTALVLC----HTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 96
PG L + ++ ++ Q+CH+FE+ + D+ + +N+ D+ NE P
Sbjct: 36 PGYFNILYITMRGTNSNGMSCQLCHDFEKTYHAVADVIRSQAPQSLNLFFTVDV--NEVP 93
Query: 97 QIVVGTPGRILALARDKDLSLKNVRHFIL 125
Q+V KDL L+NV H ++
Sbjct: 94 QLV-------------KDLKLQNVPHLVV 109
>pdb|2W5F|A Chain A, High Resolution Crystallographic Structure Of The
Clostridium Thermocellum N-Terminal Endo-1,4-Beta-D-
Xylanase 10b (Xyn10b) Cbm22-1-Gh10 Modules Complexed
With Xylohexaose
pdb|2W5F|B Chain B, High Resolution Crystallographic Structure Of The
Clostridium Thermocellum N-Terminal Endo-1,4-Beta-D-
Xylanase 10b (Xyn10b) Cbm22-1-Gh10 Modules Complexed
With Xylohexaose
Length = 540
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 17/29 (58%)
Query: 299 DTYLHRVGRAGRFGTKGLAITFVSSASDS 327
DTYL V G GT+G+ + SSASD
Sbjct: 43 DTYLTAVENEGNNGTRGMMVINRSSASDG 71
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
0.322 0.138 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,830,012
Number of Sequences: 62578
Number of extensions: 391208
Number of successful extensions: 1234
Number of sequences better than 100.0: 110
Number of HSP's better than 100.0 without gapping: 92
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 999
Number of HSP's gapped (non-prelim): 113
length of query: 356
length of database: 14,973,337
effective HSP length: 100
effective length of query: 256
effective length of database: 8,715,537
effective search space: 2231177472
effective search space used: 2231177472
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)