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= 014486
(423 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 = 589 bits (1518), Expect = e-168, Method: Compositional matrix adjust.
Identities = 280/367 (76%), Positives = 320/367 (87%)
Query: 39 GYVGIHSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTA 98
G G SSGFRDFLLKPELLRAIVD GFEHPSEVQHECIPQAILGMDV+CQAKSGMGKTA
Sbjct: 1 GSPGHMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTA 60
Query: 99 VFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIH 158
VFVL+TLQQ EP GQV+ LV+CHTRELA+QI E+ERFS Y+P++KVAVF+GG++IK
Sbjct: 61 VFVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKD 120
Query: 159 KDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKM 218
+++LK CP IVVGTPGRILALAR+K L+LK+++HFILDECDKMLE LDMRRDVQEIF+M
Sbjct: 121 EEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRM 180
Query: 219 TPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRK 278
TPH+KQVMMFSATLSKEIRPVC+KFMQDPMEI+VDDE KLTLHGL Q+Y+KL + EKNRK
Sbjct: 181 TPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRK 240
Query: 279 LNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGN 338
L DLLD L+FNQVVIFVKSV R L +LLVE NFP+I IH GM QEERL+RY+ FK+
Sbjct: 241 LFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQ 300
Query: 339 KRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDS 398
+RILVAT+L GRG+DIERVNI NYDMP+ +DTYLHRV RAGRFGTKGLAITFVS +D+
Sbjct: 301 RRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDA 360
Query: 399 DILNQVS 405
ILN V
Sbjct: 361 KILNDVQ 367
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 588 bits (1517), Expect = e-168, Method: Compositional matrix adjust.
Identities = 280/367 (76%), Positives = 320/367 (87%)
Query: 39 GYVGIHSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTA 98
G G SSGFRDFLLKPELLRAIVD GFEHPSEVQHECIPQAILGMDV+CQAKSGMGKTA
Sbjct: 1 GSPGHMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTA 60
Query: 99 VFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIH 158
VFVL+TLQQ EP GQV+ LV+CHTRELA+QI E+ERFS Y+P++KVAVF+GG++IK
Sbjct: 61 VFVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKD 120
Query: 159 KDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKM 218
+++LK CP IVVGTPGRILALAR+K L+LK+++HFILDECDKMLE LDMRRDVQEIF+M
Sbjct: 121 EEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRM 180
Query: 219 TPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRK 278
TPH+KQVMMFSATLSKEIRPVC+KFMQDPMEI+VDDE KLTLHGL Q+Y+KL + EKNRK
Sbjct: 181 TPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRK 240
Query: 279 LNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGN 338
L DLLD L+FNQVVIFVKSV R L +LLVE NFP+I IH GM QEERL+RY+ FK+
Sbjct: 241 LFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQ 300
Query: 339 KRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDS 398
+RILVAT+L GRG+DIERVNI NYDMP+ +DTYLHRV RAGRFGTKGLAITFVS +D+
Sbjct: 301 RRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDA 360
Query: 399 DILNQVS 405
ILN V
Sbjct: 361 KILNDVQ 367
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 585 bits (1509), Expect = e-167, Method: Compositional matrix adjust.
Identities = 277/362 (76%), Positives = 317/362 (87%)
Query: 44 HSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLS 103
H SGFRDFLLKPELLRAIVD GFEHPSEVQHECIPQAILGMDV+CQAKSGMGKTAVFVL+
Sbjct: 5 HMSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLA 64
Query: 104 TLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLK 163
TLQQ EP GQV+ LV+CHTRELA+QI E+ERFS Y+P++KVAVF+GG++IK +++LK
Sbjct: 65 TLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLK 124
Query: 164 NECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDK 223
CP IVVGTPGRILALAR+K L+LK+++HFILDE DKMLE LDMRRDVQEIF+MTPH+K
Sbjct: 125 KNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEK 184
Query: 224 QVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLL 283
QVMMFSATLSKEIRPVC+KFMQDPMEI+VDDE KLTLHGL Q+Y+KL + EKNRKL DLL
Sbjct: 185 QVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL 244
Query: 284 DALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILV 343
D L+FNQVVIFVKSV R L +LLVE NFP+I IH GM QEERL+RY+ FK+ +RILV
Sbjct: 245 DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILV 304
Query: 344 ATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQ 403
AT+L GRG+DIERVNI NYDMP+ +DTYLHRV RAGRFGTKGLAITFVS +D+ ILN
Sbjct: 305 ATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILND 364
Query: 404 VS 405
V
Sbjct: 365 VQ 366
>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 = 377 bits (969), Expect = e-105, Method: Compositional matrix adjust.
Identities = 175/220 (79%), Positives = 199/220 (90%)
Query: 33 GEAAKKGYVGIHSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKS 92
G K YV IHSSGFRDFLLKPELLRAIVD GFEHPSEVQHECIPQAILGMDV+CQAKS
Sbjct: 1 GSDVKGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKS 60
Query: 93 GMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGG 152
GMGKTAVFVL+TLQQ EP GQV+ LV+CHTRELA+QI E+ERFS Y+P++KVAVF+GG
Sbjct: 61 GMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGG 120
Query: 153 VNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDV 212
++IK +++LK CP IVVGTPGRILALAR+K L+LK+++HFILDECDKMLE LDMRRDV
Sbjct: 121 LSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDV 180
Query: 213 QEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYV 252
QEIF+MTPH+KQVMMFSATLSKEIRPVC+KFMQDPMEI+V
Sbjct: 181 QEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFV 220
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 261 bits (668), Expect = 4e-70, Method: Compositional matrix adjust.
Identities = 145/347 (41%), Positives = 205/347 (59%), Gaps = 7/347 (2%)
Query: 48 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 107
F DF LK ELL I ++GFE PS +Q E IP AI G D++ +AK+G GKTA FV+ TL++
Sbjct: 23 FEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEK 82
Query: 108 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLK-NEC 166
+P ++ AL++ TRELA Q + I V GG N++ D+L+ NE
Sbjct: 83 VKPKLNKIQALIMVPTRELALQTSQVVRTLGKHC-GISCMVTTGGTNLR--DDILRLNET 139
Query: 167 PQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVM 226
I+VGTPGR+L LA K L + FI+DE DKML S D + +++I P Q +
Sbjct: 140 VHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKML-SRDFKTIIEQILSFLPPTHQSL 198
Query: 227 MFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDAL 286
+FSAT ++ K + P EI + +E LTL G+ Q+Y + E +K LN L L
Sbjct: 199 LFSATFPLTVKEFMVKHLHKPYEINLMEE--LTLKGITQYYAFVEERQKLHCLNTLFSKL 256
Query: 287 DFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 346
NQ +IF S +R L K + + + H+ M Q+ER + F++G R LV +D
Sbjct: 257 QINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSD 316
Query: 347 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVS 393
L+ RGIDI+ VN+VIN+D P +A+TYLHR+GR+GRFG GLAI ++
Sbjct: 317 LLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLIN 363
>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 = 238 bits (607), Expect = 4e-63, Method: Compositional matrix adjust.
Identities = 134/357 (37%), Positives = 207/357 (57%), Gaps = 8/357 (2%)
Query: 53 LKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP 112
L+ +LLR I GFE PS +Q I Q I G DVI Q++SG GKTA F +S LQ +
Sbjct: 45 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQV 104
Query: 113 GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVV 171
+ AL+L TRELA QI Y+ +++ GG N+ +D+ K + Q +V
Sbjct: 105 RETQALILAPTRELAVQIQKGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVA 161
Query: 172 GTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSAT 231
GTPGR+ + R + L + ++ +LDE D+ML + + ++++ P QV++ SAT
Sbjct: 162 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISAT 220
Query: 232 LSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQ 290
L EI + KFM DP+ I V + +LTL G+ Q ++ + E K L DL D L Q
Sbjct: 221 LPHEILEMTNKFMTDPIRILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ 279
Query: 291 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 350
VIF + + L + + E NF +H M Q+ER + K F+ G R+L++TD+ R
Sbjct: 280 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 339
Query: 351 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVSKF 407
G+D+ +V+++INYD+P++ + Y+HR+GR+GR+G KG+AI FV + D IL + ++
Sbjct: 340 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN-DDIRILRDIEQY 395
>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 = 238 bits (607), Expect = 5e-63, Method: Compositional matrix adjust.
Identities = 134/357 (37%), Positives = 207/357 (57%), Gaps = 8/357 (2%)
Query: 53 LKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP 112
L+ +LLR I GFE PS +Q I Q I G DVI Q++SG GKTA F +S LQ +
Sbjct: 45 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQV 104
Query: 113 GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVV 171
+ AL+L TRELA QI Y+ +++ GG N+ +D+ K + Q +V
Sbjct: 105 RETQALILAPTRELAVQIQKGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVA 161
Query: 172 GTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSAT 231
GTPGR+ + R + L + ++ +LDE D+ML + + ++++ P QV++ SAT
Sbjct: 162 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISAT 220
Query: 232 LSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQ 290
L EI + KFM DP+ I V + +LTL G+ Q ++ + E K L DL D L Q
Sbjct: 221 LPHEILEMTNKFMTDPIRILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ 279
Query: 291 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 350
VIF + + L + + E NF +H M Q+ER + K F+ G R+L++TD+ R
Sbjct: 280 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 339
Query: 351 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVSKF 407
G+D+ +V+++INYD+P++ + Y+HR+GR+GR+G KG+AI FV + D IL + ++
Sbjct: 340 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN-DDIRILRDIEQY 395
>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 = 238 bits (607), Expect = 5e-63, Method: Compositional matrix adjust.
Identities = 134/357 (37%), Positives = 207/357 (57%), Gaps = 8/357 (2%)
Query: 53 LKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP 112
L+ +LLR I GFE PS +Q I Q I G DVI Q++SG GKTA F +S LQ +
Sbjct: 44 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQV 103
Query: 113 GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVV 171
+ AL+L TRELA QI Y+ +++ GG N+ +D+ K + Q +V
Sbjct: 104 RETQALILAPTRELAVQIQKGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVA 160
Query: 172 GTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSAT 231
GTPGR+ + R + L + ++ +LDE D+ML + + ++++ P QV++ SAT
Sbjct: 161 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISAT 219
Query: 232 LSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQ 290
L EI + KFM DP+ I V + +LTL G+ Q ++ + E K L DL D L Q
Sbjct: 220 LPHEILEMTNKFMTDPIRILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ 278
Query: 291 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 350
VIF + + L + + E NF +H M Q+ER + K F+ G R+L++TD+ R
Sbjct: 279 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 338
Query: 351 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVSKF 407
G+D+ +V+++INYD+P++ + Y+HR+GR+GR+G KG+AI FV + D IL + ++
Sbjct: 339 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN-DDIRILRDIEQY 394
>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 = 238 bits (606), Expect = 6e-63, Method: Compositional matrix adjust.
Identities = 134/357 (37%), Positives = 207/357 (57%), Gaps = 8/357 (2%)
Query: 53 LKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP 112
L+ +LLR I GFE PS +Q I Q I G DVI Q++SG GKTA F +S LQ +
Sbjct: 23 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQV 82
Query: 113 GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVV 171
+ AL+L TRELA QI Y+ +++ GG N+ +D+ K + Q +V
Sbjct: 83 RETQALILAPTRELAVQIQKGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVA 139
Query: 172 GTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSAT 231
GTPGR+ + R + L + ++ +LDE D+ML + + ++++ P QV++ SAT
Sbjct: 140 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISAT 198
Query: 232 LSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQ 290
L EI + KFM DP+ I V + +LTL G+ Q ++ + E K L DL D L Q
Sbjct: 199 LPHEILEMTNKFMTDPIRILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ 257
Query: 291 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 350
VIF + + L + + E NF +H M Q+ER + K F+ G R+L++TD+ R
Sbjct: 258 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 317
Query: 351 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVSKF 407
G+D+ +V+++INYD+P++ + Y+HR+GR+GR+G KG+AI FV + D IL + ++
Sbjct: 318 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN-DDIRILRDIEQY 373
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 235 bits (600), Expect = 3e-62, Method: Compositional matrix adjust.
Identities = 131/357 (36%), Positives = 207/357 (57%), Gaps = 8/357 (2%)
Query: 53 LKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP 112
L+ +LLR I GFE PS +Q I Q I G DVI Q++SG GKTA F +S LQ +
Sbjct: 8 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQV 67
Query: 113 GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVV 171
+ AL+L TRELA Q+ Y+ +++ GG N+ +D+ K + Q +V
Sbjct: 68 RETQALILAPTRELAVQVQKGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVA 124
Query: 172 GTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSAT 231
GTPGR+ + R + L + ++ +LDE D+ML + + ++++ P QV++ SAT
Sbjct: 125 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISAT 183
Query: 232 LSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQ 290
L EI + KFM DP+ I V + +LTL G+ Q ++ + E K L DL D L Q
Sbjct: 184 LPHEILEMTNKFMTDPIRILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ 242
Query: 291 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 350
VIF + + L + + E NF +H M Q+ER + K F+ G R+L++TD+ R
Sbjct: 243 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 302
Query: 351 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVSKF 407
G+D+ +V+++INYD+P++ + Y+HR+GR+GR+G KG+A+ FV + D +L + ++
Sbjct: 303 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKN-DDIRVLRDIEQY 358
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 235 bits (599), Expect = 4e-62, Method: Compositional matrix adjust.
Identities = 130/357 (36%), Positives = 207/357 (57%), Gaps = 8/357 (2%)
Query: 53 LKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP 112
L+ +LLR I GFE PS +Q I Q I G DVI Q++SG GKTA F +S LQ +
Sbjct: 8 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQV 67
Query: 113 GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVV 171
+ AL+L TRELA Q+ Y+ +++ GG N+ +D+ K + Q +V
Sbjct: 68 RETQALILAPTRELAVQVQKGLLALGDYM-NVQSHACIGGTNV--GEDIRKLDYGQHVVA 124
Query: 172 GTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSAT 231
GTPGR+ + R + L + ++ +LDE D+ML + + ++++ P QV++ SAT
Sbjct: 125 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISAT 183
Query: 232 LSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQ 290
L E+ + KFM DP+ I V + +LTL G+ Q ++ + E K L DL D L Q
Sbjct: 184 LPHEVLEMTNKFMTDPIRILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ 242
Query: 291 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 350
VIF + + L + + E NF +H M Q+ER + K F+ G R+L++TD+ R
Sbjct: 243 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 302
Query: 351 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVSKF 407
G+D+ +V+++INYD+P++ + Y+HR+GR+GR+G KG+A+ FV + D +L + ++
Sbjct: 303 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKN-DDIRVLRDIEQY 358
>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 = 226 bits (575), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 146/362 (40%), Positives = 205/362 (56%), Gaps = 5/362 (1%)
Query: 47 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQ 106
F D L LLR I GFE PS +Q I I G DVI QA+SG GKTA F +S LQ
Sbjct: 15 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQ 74
Query: 107 QTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNEC 166
Q E + ALVL TRELA QI Y+ A GG N++ L+ E
Sbjct: 75 QIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACI-GGTNVRAEVQKLQMEA 133
Query: 167 PQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVM 226
P I+VGTPGR+ + + LS K ++ F+LDE D+ML S + + +IF+ + QV+
Sbjct: 134 PHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEML-SRGFKDQIYDIFQKLNSNTQVV 192
Query: 227 MFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDA 285
+ SAT+ ++ V KKFM+DP+ I V E +LTL G+ Q YI + E K L DL +
Sbjct: 193 LLSATMPSDVLEVTKKFMRDPIRILVKKE-ELTLEGIRQFYINVEREEWKLDTLCDLYET 251
Query: 286 LDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVAT 345
L Q VIF+ + + L + + +F +H M Q+ER + F+ G+ R+L+ T
Sbjct: 252 LTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITT 311
Query: 346 DLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVS 405
DL+ RGID+++V++VINYD+P + + Y+HR+GR GRFG KG+AI V+ D L +
Sbjct: 312 DLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTE-EDKRTLRDIE 370
Query: 406 KF 407
F
Sbjct: 371 TF 372
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 225 bits (574), Expect = 3e-59, Method: Compositional matrix adjust.
Identities = 145/362 (40%), Positives = 204/362 (56%), Gaps = 5/362 (1%)
Query: 47 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQ 106
F D L LLR I GFE PS +Q I I G DVI QA+SG GKTA F +S LQ
Sbjct: 41 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQ 100
Query: 107 QTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNEC 166
Q E + ALVL TRELA QI Y+ GG N++ L+ E
Sbjct: 101 QIELDLKATQALVLAPTRELAQQIQKVVMALGDYM-GASCHACIGGTNVRAEVQKLQMEA 159
Query: 167 PQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVM 226
P I+VGTPGR+ + + LS K ++ F+LDE D+ML S + + +IF+ + QV+
Sbjct: 160 PHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEML-SRGFKDQIYDIFQKLNSNTQVV 218
Query: 227 MFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDA 285
+ SAT+ ++ V KKFM+DP+ I V E +LTL G+ Q YI + E K L DL +
Sbjct: 219 LLSATMPSDVLEVTKKFMRDPIRILVKKE-ELTLEGIRQFYINVEREEWKLDTLCDLYET 277
Query: 286 LDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVAT 345
L Q VIF+ + + L + + +F +H M Q+ER + F+ G+ R+L+ T
Sbjct: 278 LTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITT 337
Query: 346 DLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVS 405
DL+ RGID+++V++VINYD+P + + Y+HR+GR GRFG KG+AI V+ D L +
Sbjct: 338 DLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTE-EDKRTLRDIE 396
Query: 406 KF 407
F
Sbjct: 397 TF 398
>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 = 219 bits (557), Expect = 3e-57, Method: Compositional matrix adjust.
Identities = 142/361 (39%), Positives = 210/361 (58%), Gaps = 7/361 (1%)
Query: 48 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 107
F D L LLR + GFE PS +Q I I G DV+ QA+SG GKT F ++ LQ+
Sbjct: 24 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 83
Query: 108 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 167
+ + AL+L TRELA QI + ++ DIKV GG + + L++
Sbjct: 84 IDTSVKAPQALMLAPTRELALQIQKVVMALAFHM-DIKVHACIGGTSFVEDAEGLRD--A 140
Query: 168 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 227
QIVVGTPGR+ + + ++ FILDE D+ML S + + +IF + P QV++
Sbjct: 141 QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSS-GFKEQIYQIFTLLPPTTQVVL 199
Query: 228 FSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDAL 286
SAT+ ++ V KFM++P+ I V + +LTL G+ Q Y+ + E E K L DL D++
Sbjct: 200 LSATMPNDVLEVTTKFMRNPVRILVKKD-ELTLEGIKQFYVNVEEEEYKYECLTDLYDSI 258
Query: 287 DFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 346
Q VIF + + EL L F I+S + Q+ER T K F+ G+ RIL++TD
Sbjct: 259 SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTD 318
Query: 347 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVSK 406
L+ RGID+++V++VINYD+P + + Y+HR+GR GRFG KG+AI FV++ D + ++ K
Sbjct: 319 LLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTN-EDVGAMRELEK 377
Query: 407 F 407
F
Sbjct: 378 F 378
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 214 bits (546), Expect = 6e-56, Method: Compositional matrix adjust.
Identities = 103/147 (70%), Positives = 120/147 (81%)
Query: 259 TLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICI 318
+LHGL Q+Y+KL + EKNRKL DLLD L+FNQVVIFVKSV R L +LLVE NFP+I I
Sbjct: 2 SLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI 61
Query: 319 HSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 378
H GM QEERL+RY+ FK+ +RILVAT+L GRG+DIERVNI NYDMP+ +DTYLHRV R
Sbjct: 62 HRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVAR 121
Query: 379 AGRFGTKGLAITFVSSASDSDILNQVS 405
AGRFGTKGLAITFVS +D+ ILN V
Sbjct: 122 AGRFGTKGLAITFVSDENDAKILNDVQ 148
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 210 bits (535), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 140/361 (38%), Positives = 204/361 (56%), Gaps = 7/361 (1%)
Query: 48 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 107
F D L LLR + GFE PS +Q I I G DV+ QA+SG GKT F ++ LQ+
Sbjct: 23 FDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 108 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 167
+ + AL L TRELA QI + + DIKV GG + + L++
Sbjct: 83 IDTSVKAPQALXLAPTRELALQIQKVVXALA-FHXDIKVHACIGGTSFVEDAEGLRD--A 139
Query: 168 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 227
QIVVGTPGR+ + + ++ FILDE D+ L S + + +IF + P QV++
Sbjct: 140 QIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSS-GFKEQIYQIFTLLPPTTQVVL 198
Query: 228 FSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDAL 286
SAT ++ V KF ++P+ I V + +LTL G+ Q Y+ + E E K L DL D++
Sbjct: 199 LSATXPNDVLEVTTKFXRNPVRILVKKD-ELTLEGIKQFYVNVEEEEYKYECLTDLYDSI 257
Query: 287 DFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 346
Q VIF + + EL L F I+S + Q+ER T K F+ G+ RIL++TD
Sbjct: 258 SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTD 317
Query: 347 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVSK 406
L+ RGID+++V++VINYD+P + + Y+HR+GR GRFG KG+AI FV++ D ++ K
Sbjct: 318 LLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTN-EDVGAXRELEK 376
Query: 407 F 407
F
Sbjct: 377 F 377
>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 = 209 bits (531), Expect = 3e-54, Method: Compositional matrix adjust.
Identities = 130/352 (36%), Positives = 199/352 (56%), Gaps = 12/352 (3%)
Query: 43 IHSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILG-MDVICQAKSGMGKTAVFV 101
+ F + L +L AI + GFE P+++Q + IP + +++ QA++G GKTA F
Sbjct: 3 VEYXNFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFA 62
Query: 102 LSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDL 161
+ ++ N G + A++L TRELA Q+ E E ++K+A YGG I
Sbjct: 63 IPLIELVNENNG-IEAIILTPTRELAIQVADEIESLKGN-KNLKIAKIYGGKAIYPQIKA 120
Query: 162 LKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPH 221
LKN IVVGTPGRIL L+LKNV++FILDE D+ L + +DV++I
Sbjct: 121 LKN--ANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXL-NXGFIKDVEKILNACNK 177
Query: 222 DKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLND 281
DK++++FSAT +EI + KK+ D Y +AK+ + + Q Y++++E E+ L
Sbjct: 178 DKRILLFSATXPREILNLAKKYXGD----YSFIKAKINAN-IEQSYVEVNENERFEALCR 232
Query: 282 LLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRI 341
LL +F +V F K+ EL L + F + IH +SQ +R + FK+ RI
Sbjct: 233 LLKNKEFYGLV-FCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRI 291
Query: 342 LVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVS 393
L+ATD+ RGID+ +N VINY +P + ++Y HR+GR GR G KG AI+ ++
Sbjct: 292 LIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIIN 343
>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 = 200 bits (509), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 124/370 (33%), Positives = 199/370 (53%), Gaps = 15/370 (4%)
Query: 47 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAIL--GMDVICQAKSGMGKTAVFVLST 104
F + LKP+LL+ + GF PS++Q +P + ++I Q++SG GKTA FVL+
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 152
Query: 105 LQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKN 164
L Q EP L L T ELA Q E+ + P++K+A G ++ + +
Sbjct: 153 LSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI--- 209
Query: 165 ECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDK 223
QIV+GTPG +L ++ K + K ++ F+LDE D M+ + + I +M P +
Sbjct: 210 -SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 268
Query: 224 QVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSEL-EKNRKLNDL 282
Q+++FSAT + +K + DP I + E + TL + Q+Y+ S EK + L +L
Sbjct: 269 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEE-TLDTIKQYYVLCSSRDEKFQALCNL 327
Query: 283 LDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRIL 342
A+ Q +IF + A+ L L + + M E+R + F+EG +++L
Sbjct: 328 YGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVL 387
Query: 343 VATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFGTKGLAITFVSSAS 396
V T++ RGID+E+V++VIN+D+P D TYLHR+GR GRFG +GLA+ V S
Sbjct: 388 VTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKH 447
Query: 397 DSDILNQVSK 406
+ILN++ +
Sbjct: 448 SMNILNRIQE 457
>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 = 200 bits (508), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 124/370 (33%), Positives = 199/370 (53%), Gaps = 15/370 (4%)
Query: 47 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAIL--GMDVICQAKSGMGKTAVFVLST 104
F + LKP+LL+ + GF PS++Q +P + ++I Q++SG GKTA FVL+
Sbjct: 63 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 122
Query: 105 LQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKN 164
L Q EP L L T ELA Q E+ + P++K+A G ++ + +
Sbjct: 123 LSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI--- 179
Query: 165 ECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDK 223
QIV+GTPG +L ++ K + K ++ F+LDE D M+ + + I +M P +
Sbjct: 180 -SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 238
Query: 224 QVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSEL-EKNRKLNDL 282
Q+++FSAT + +K + DP I + E + TL + Q+Y+ S EK + L +L
Sbjct: 239 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEE-TLDTIKQYYVLCSSRDEKFQALCNL 297
Query: 283 LDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRIL 342
A+ Q +IF + A+ L L + + M E+R + F+EG +++L
Sbjct: 298 YGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVL 357
Query: 343 VATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFGTKGLAITFVSSAS 396
V T++ RGID+E+V++VIN+D+P D TYLHR+GR GRFG +GLA+ V S
Sbjct: 358 VTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKH 417
Query: 397 DSDILNQVSK 406
+ILN++ +
Sbjct: 418 SMNILNRIQE 427
>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 = 200 bits (508), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 124/370 (33%), Positives = 200/370 (54%), Gaps = 15/370 (4%)
Query: 47 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAIL--GMDVICQAKSGMGKTAVFVLST 104
F + LKP+LL+ + GF PS++Q +P + ++I Q++SG GKTA FVL+
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 85
Query: 105 LQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKN 164
L Q EP L L T ELA Q E+ + P++K+A G ++ + + +
Sbjct: 86 LSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISE- 144
Query: 165 ECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDK 223
QIV+GTPG +L ++ K + K ++ F+LDE D M+ + + I +M P +
Sbjct: 145 ---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 201
Query: 224 QVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSEL-EKNRKLNDL 282
Q+++FSAT + +K + DP I + E + TL + Q+Y+ S EK + L +L
Sbjct: 202 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEE-TLDTIKQYYVLCSSRDEKFQALCNL 260
Query: 283 LDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRIL 342
A+ Q +IF + A+ L L + + M E+R + F+EG +++L
Sbjct: 261 YGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVL 320
Query: 343 VATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFGTKGLAITFVSSAS 396
V T++ RGID+E+V++VIN+D+P D TYLHR+GR GRFG +GLA+ V S
Sbjct: 321 VTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKH 380
Query: 397 DSDILNQVSK 406
+ILN++ +
Sbjct: 381 SMNILNRIQE 390
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 199 bits (507), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 124/370 (33%), Positives = 199/370 (53%), Gaps = 15/370 (4%)
Query: 47 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAIL--GMDVICQAKSGMGKTAVFVLST 104
F + LKP+LL+ + GF PS++Q +P + ++I Q++SG GKTA FVL+
Sbjct: 42 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 101
Query: 105 LQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKN 164
L Q EP L L T ELA Q E+ + P++K+A G ++ + +
Sbjct: 102 LSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI--- 158
Query: 165 ECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDK 223
QIV+GTPG +L ++ K + K ++ F+LDE D M+ + + I +M P +
Sbjct: 159 -SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 217
Query: 224 QVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSEL-EKNRKLNDL 282
Q+++FSAT + +K + DP I + E + TL + Q+Y+ S EK + L +L
Sbjct: 218 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEE-TLDTIKQYYVLCSSRDEKFQALCNL 276
Query: 283 LDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRIL 342
A+ Q +IF + A+ L L + + M E+R + F+EG +++L
Sbjct: 277 YGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVL 336
Query: 343 VATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFGTKGLAITFVSSAS 396
V T++ RGID+E+V++VIN+D+P D TYLHR+GR GRFG +GLA+ V S
Sbjct: 337 VTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKH 396
Query: 397 DSDILNQVSK 406
+ILN++ +
Sbjct: 397 SMNILNRIQE 406
>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 = 185 bits (469), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 120/379 (31%), Positives = 200/379 (52%), Gaps = 24/379 (6%)
Query: 42 GIHSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILG--MDVICQAKSGMGKTAV 99
G + F + L PELL+ I F+ PS++Q +P + ++I Q++SG GKTA
Sbjct: 1 GAMAKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAA 60
Query: 100 FVLSTLQQTEPNPGQVTALVLCHTRELAYQ---ICHEFERFSTYLPDIKVAVFYGGVNIK 156
F L+ L + P A+ L +RELA Q + E +F+ + V + N +
Sbjct: 61 FSLTMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEK-NKQ 119
Query: 157 IHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIF 216
I+ Q++VGTPG +L L R K + L+ ++ F+LDE D ML+ + +
Sbjct: 120 INA--------QVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVK 171
Query: 217 KMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKL-SELEK 275
+ P D Q+++FSAT + +R KK + + + + ++ + + Q Y+ +E +K
Sbjct: 172 RFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTN-EVNVDAIKQLYMDCKNEADK 230
Query: 276 NRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIHSGMSQEERLTRYKGF 334
L +L + +IFV + A L KL E + SI +H + +ER F
Sbjct: 231 FDVLTELYGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LHGDLQTQERDRLIDDF 289
Query: 335 KEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFGTKGLA 388
+EG ++L+ T+++ RGIDI V++V+NYD+P A+ TY+HR+GR GRFG KG+A
Sbjct: 290 REGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVA 349
Query: 389 ITFVSSASDSDILNQVSKF 407
I+FV + +IL+ + K+
Sbjct: 350 ISFVHDKNSFNILSAIQKY 368
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 184 bits (467), Expect = 7e-47, Method: Compositional matrix adjust.
Identities = 120/379 (31%), Positives = 200/379 (52%), Gaps = 24/379 (6%)
Query: 42 GIHSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILG--MDVICQAKSGMGKTAV 99
G + F + L PELL+ I F+ PS++Q +P + ++I Q++SG GKTA
Sbjct: 1 GAMAKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAA 60
Query: 100 FVLSTLQQTEPNPGQVTALVLCHTRELAYQ---ICHEFERFSTYLPDIKVAVFYGGVNIK 156
F L+ L + P A+ L +RELA Q + E +F+ + V + N +
Sbjct: 61 FSLTMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEK-NKQ 119
Query: 157 IHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIF 216
I+ Q++VGTPG +L L R K + L+ ++ F+LDE D ML+ + +
Sbjct: 120 INA--------QVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVK 171
Query: 217 KMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKL-SELEK 275
+ P D Q+++FSAT + +R KK + + + + ++ + + Q Y+ +E +K
Sbjct: 172 RFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTN-EVNVDAIKQLYMDCKNEADK 230
Query: 276 NRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIHSGMSQEERLTRYKGF 334
L +L + +IFV + A L KL E + SI +H + +ER F
Sbjct: 231 FDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LHGDLQTQERDRLIDDF 289
Query: 335 KEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFGTKGLA 388
+EG ++L+ T+++ RGIDI V++V+NYD+P A+ TY+HR+GR GRFG KG+A
Sbjct: 290 REGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVA 349
Query: 389 ITFVSSASDSDILNQVSKF 407
I+FV + +IL+ + K+
Sbjct: 350 ISFVHDKNSFNILSAIQKY 368
>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 = 182 bits (461), Expect = 4e-46, Method: Compositional matrix adjust.
Identities = 123/410 (30%), Positives = 211/410 (51%), Gaps = 38/410 (9%)
Query: 25 DSVATKANGEAAKKGYVGIHSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGM 84
+++ K G + S+ RD ++ + SG++ P+ +Q IP G
Sbjct: 40 NNIPVKVTGSDVPQPIQHFTSADLRDIIID-----NVNKSGYKIPTPIQKCSIPVISSGR 94
Query: 85 DVICQAKSGMGKTAVFVLSTLQQTEPNP-----GQVTALVLCHTRELAYQICHEFERFS- 138
D++ A++G GKTA F+L L + +P G+ +++ TRELA QI +E +F+
Sbjct: 95 DLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAF 154
Query: 139 -TYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILD 197
+YL K+ + YGG + + + + C +V+ TPGR+L ++ ++ R +LD
Sbjct: 155 ESYL---KIGIVYGGTSFRHQNECITRGC-HVVIATPGRLLDFVDRTFITFEDTRFVVLD 210
Query: 198 ECDKMLE---SLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVD- 253
E D+ML+ S DMRR + + M P + Q +MFSAT +EI+ + +F+++ + + +
Sbjct: 211 EADRMLDMGFSEDMRRIMTHV-TMRP-EHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGI 268
Query: 254 -----DEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLL 308
+ K T++ ++++ K KL ++L + ++FV++ A L L
Sbjct: 269 VGGACSDVKQTIY-------EVNKYAKRSKLIEILSE-QADGTIVFVETKRGADFLASFL 320
Query: 309 VECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDS 368
E FP+ IH Q +R + FK G+ ++L+AT + RG+DI+ + VINYDMP
Sbjct: 321 SEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSK 380
Query: 369 ADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVSKFMFLLIGSFQCL 418
D Y+HR+GR GR G G A +F D I + K +L GS Q +
Sbjct: 381 IDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVK---ILEGSGQTV 427
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 171 bits (434), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 105/330 (31%), Positives = 175/330 (53%), Gaps = 14/330 (4%)
Query: 85 DVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDI 144
++I Q++SG GKTA F L+ L + + + + A+ L +RELA QI Y ++
Sbjct: 160 NMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELARQIMDVVTEMGKYT-EV 218
Query: 145 KVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLE 204
K A G+ + K + QIV+GTPG ++ L + + L ++++ F+LDE D ML+
Sbjct: 219 KTAF---GIKDSVPKGAKID--AQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLD 273
Query: 205 SLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLV 264
+ I + P + Q+++FSAT S+ + ++F + EI + E +L++ G+
Sbjct: 274 QQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEIRLKTE-ELSVEGIK 332
Query: 265 QHYIKL-SELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMS 323
Q Y+ SE K L +L L Q +IF K A E+ + + C+ +
Sbjct: 333 QLYMDCQSEEHKYNVLVELYGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLE 392
Query: 324 QEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMP-DSA-----DTYLHRVG 377
+R F+ G ++LV T+++ RGID+ +VN+V+NYDMP D A TYLHR+G
Sbjct: 393 GAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIG 452
Query: 378 RAGRFGTKGLAITFVSSASDSDILNQVSKF 407
R GRFG G++I FV + +N + ++
Sbjct: 453 RTGRFGRVGVSINFVHDKKSWEEMNAIQEY 482
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 170 bits (430), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 115/343 (33%), Positives = 184/343 (53%), Gaps = 26/343 (7%)
Query: 53 LKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP 112
+ ++ +AI + GF++ +EVQ + IP + G +V+ +AK+G GKTA + + L+
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILELG---- 56
Query: 113 GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVG 172
+ +LV+ TREL Q+ Y+ D KVA YGG+ K + ++N IVV
Sbjct: 57 --MKSLVVTPTRELTRQVASHIRDIGRYM-DTKVAEVYGGMPYKAQINRVRN--ADIVVA 111
Query: 173 TPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATL 232
TPGR+L L + L + I+DE D M E + D++ I T + K +FSAT+
Sbjct: 112 TPGRLLDLWSKGVIDLSSFEIVIIDEADLMFE-MGFIDDIKIILAQTSNRKITGLFSATI 170
Query: 233 SKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQ-- 290
+EIR V K F+ + EI EA + L + ++ + + +++ + AL N+
Sbjct: 171 PEEIRKVVKDFITNYEEI----EACIGLANVEHKFVHVKDDWRSK-----VQALRENKDK 221
Query: 291 -VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVG 349
V++FV++ +R A+L +L +I + + Q R F+EG +L+ TD+
Sbjct: 222 GVIVFVRTRNRVAKLVRLFDN----AIELRGDLPQSVRNRNIDAFREGEYDMLITTDVAS 277
Query: 350 RGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFV 392
RG+DI V VIN+D P TY+HR+GR GR G KG AITF+
Sbjct: 278 RGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFI 320
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 165 bits (418), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 117/370 (31%), Positives = 180/370 (48%), Gaps = 25/370 (6%)
Query: 44 HSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLS 103
H F D + ++ I + + P+ VQ IP D++ A++G GKTA F+L
Sbjct: 13 HIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLP 72
Query: 104 TLQQTEPN-PGQV-----------------TALVLCHTRELAYQICHEFERFSTYLPDIK 145
L Q + PG+ +LVL TRELA QI E +FS Y ++
Sbjct: 73 ILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFS-YRSRVR 131
Query: 146 VAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLE- 204
V YGG +I L+ C ++V TPGR++ + + L ++ +LDE D+ML+
Sbjct: 132 PCVVYGGADIGQQIRDLERGC-HLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDM 190
Query: 205 --SLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHG 262
+RR V++ + MMFSAT KEI+ + + F+ + + + V T
Sbjct: 191 GFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVG-RVGSTSEN 249
Query: 263 LVQHYIKLSELEKNRKLNDLLDALDFNQV-VIFVKSVSRAAELNKLLVECNFPSICIHSG 321
+ Q + + E +K L DLL+A + + ++FV++ A L L + IH
Sbjct: 250 ITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGD 309
Query: 322 MSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGR 381
SQ +R F+ G ILVAT + RG+DI V VIN+D+P + Y+HR+GR GR
Sbjct: 310 RSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGR 369
Query: 382 FGTKGLAITF 391
G GLA +F
Sbjct: 370 VGNLGLATSF 379
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 149 bits (377), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 90/208 (43%), Positives = 115/208 (55%), Gaps = 2/208 (0%)
Query: 48 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 107
F D LK LLR I GFE PS +Q I I G DVI QA+SG GKTA F +S LQQ
Sbjct: 32 FDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQ 91
Query: 108 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 167
E + ALVL TRELA QI Y+ A GG N++ L+ E P
Sbjct: 92 LEIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACI-GGTNVRNEMQKLQAEAP 150
Query: 168 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 227
IVVGTPGR+ + + LS K ++ F+LDE D+ML S + + EIF+ QV++
Sbjct: 151 HIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEML-SRGFKDQIYEIFQKLNTSIQVVL 209
Query: 228 FSATLSKEIRPVCKKFMQDPMEIYVDDE 255
SAT+ ++ V KKFM+DP+ I V E
Sbjct: 210 LSATMPTDVLEVTKKFMRDPIRILVKKE 237
>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 = 136 bits (343), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 81/205 (39%), Positives = 107/205 (52%), Gaps = 2/205 (0%)
Query: 48 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 107
F D L LLR I GFE PS +Q I I G DVI QA+SG G TA F +S LQQ
Sbjct: 17 FDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQ 76
Query: 108 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 167
E + ALVL TRELA QI Y+ GG N++ L+ E P
Sbjct: 77 IELDLXATQALVLAPTRELAQQIQXVVMALGDYM-GASCHACIGGTNVRAEVQXLQMEAP 135
Query: 168 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 227
I+VGTPGR+ + + LS + F+LDE D+ML S + +IF+ + QV++
Sbjct: 136 HIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEML-SRGFXDQIYDIFQXLNSNTQVVL 194
Query: 228 FSATLSKEIRPVCKKFMQDPMEIYV 252
SAT+ ++ V FM+DP+ I V
Sbjct: 195 LSATMPSDVLEVTXXFMRDPIRILV 219
>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 = 130 bits (328), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 76/208 (36%), Positives = 111/208 (53%), Gaps = 8/208 (3%)
Query: 48 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 107
F+DF LKPE+L A+ G P+ +Q +P A+ G D+I QA++G GKT F L ++
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 108 TEPNPG---QVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKN 164
P+ + ALVL TRELA Q+ E + P +KV YGG K+ L
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASE---LTAVAPHLKVVAVYGGTGYGKQKEALLR 119
Query: 165 ECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQ 224
VV TPGR L R L L V +LDE D+ML S+ +V+ + TP +Q
Sbjct: 120 GA-DAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEML-SMGFEEEVEALLSATPPSRQ 177
Query: 225 VMMFSATLSKEIRPVCKKFMQDPMEIYV 252
++FSATL + + +++M++P+ I V
Sbjct: 178 TLLFSATLPSWAKRLAERYMKNPVLINV 205
>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWJ|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWK|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWK|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWL|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3MWL|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3NBF|A Chain A, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|B Chain B, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|C Chain C, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|D Chain D, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NEJ|A Chain A, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
pdb|3NEJ|B Chain B, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
Length = 207
Score = 129 bits (324), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 75/208 (36%), Positives = 111/208 (53%), Gaps = 8/208 (3%)
Query: 48 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 107
F+DF LKPE+L A+ G P+ ++ +P A+ G D+I QA++G GKT F L ++
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 108 TEPNPG---QVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKN 164
P+ + ALVL TRELA Q+ E + P +KV YGG K+ L
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASE---LTAVAPHLKVVAVYGGTGYGKQKEALLR 119
Query: 165 ECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQ 224
VV TPGR L R L L V +LDE D+ML S+ +V+ + TP +Q
Sbjct: 120 GA-DAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEML-SMGFEEEVEALLSATPPSRQ 177
Query: 225 VMMFSATLSKEIRPVCKKFMQDPMEIYV 252
++FSATL + + +++M++P+ I V
Sbjct: 178 TLLFSATLPSWAKRLAERYMKNPVLINV 205
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 128 bits (322), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 77/205 (37%), Positives = 113/205 (55%), Gaps = 4/205 (1%)
Query: 48 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 107
F D L +LLR + GFE PS +Q I I G DV+ QA+SG GKT F ++ LQ+
Sbjct: 23 FDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 108 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 167
+ + AL+L TRELA QI + ++ DIKV GG + + L++
Sbjct: 83 IDTSVKAPQALMLAPTRELALQIQKVVMALAFHM-DIKVHACIGGTSFVEDAEGLRD--A 139
Query: 168 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 227
QIVVGTPGR+ + + ++ FILDE D+ML S + + +IF + P QV++
Sbjct: 140 QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSS-GFKEQIYQIFTLLPPTTQVVL 198
Query: 228 FSATLSKEIRPVCKKFMQDPMEIYV 252
SAT+ ++ V KFM++P+ I V
Sbjct: 199 LSATMPNDVLEVTTKFMRNPVRILV 223
>pdb|1QDE|A Chain A, Crystal Structure Of The Atpase Domain Of Translation
Initiation Factor 4a From Saccharomyces Cerevisiae-The
Prototype Of The Dead Box Protein Family
Length = 224
Score = 127 bits (320), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 80/214 (37%), Positives = 117/214 (54%), Gaps = 5/214 (2%)
Query: 48 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 107
F D L LLR + GFE PS +Q I I G DV+ QA+SG GKT F ++ LQ+
Sbjct: 16 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 75
Query: 108 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 167
+ + AL+L TRELA QI + ++ DIKV GG + + L++
Sbjct: 76 IDTSVKAPQALMLAPTRELALQIQKVVMALAFHM-DIKVHACIGGTSFVEDAEGLRD--A 132
Query: 168 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 227
QIVVGTPGR+ + + ++ FILDE D+ML S + + +IF + P QV++
Sbjct: 133 QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSS-GFKEQIYQIFTLLPPTTQVVL 191
Query: 228 FSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLH 261
SAT+ ++ V KFM++P+ I V + +LTL
Sbjct: 192 LSATMPNDVLEVTTKFMRNPVRILVKKD-ELTLE 224
>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 = 126 bits (317), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 68/149 (45%), Positives = 90/149 (60%), Gaps = 2/149 (1%)
Query: 245 QDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAEL 304
QDP EI + +E LTL G+ Q+Y ++E +K LN L L NQ +IF S R L
Sbjct: 3 QDPYEINLMEE--LTLKGVTQYYAYVTERQKVHCLNTLFSRLQINQSIIFCNSSQRVELL 60
Query: 305 NKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYD 364
K + + + IH+ M QE R + F+ G R LV TDL RGIDI+ VN+VIN+D
Sbjct: 61 AKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFD 120
Query: 365 MPDSADTYLHRVGRAGRFGTKGLAITFVS 393
P A+TYLHR+GR+GRFG GLAI ++
Sbjct: 121 FPKLAETYLHRIGRSGRFGHLGLAINLIT 149
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 125 bits (314), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 67/210 (31%), Positives = 124/210 (59%), Gaps = 4/210 (1%)
Query: 44 HSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLS 103
+ F+D + L A G+ P+++Q E IP A+ G D+I A++G GKT F L
Sbjct: 41 ETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALP 100
Query: 104 TLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLK 163
L P ++ ALVL TRELA+QI +FE + + ++ AV GG++ + + L
Sbjct: 101 ILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSI-GVQSAVIVGGID-SMSQSLAL 158
Query: 164 NECPQIVVGTPGRILA-LARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHD 222
+ P I++ TPGR++ L K +L+ +++ ++DE D++L ++D +V +I K+ P D
Sbjct: 159 AKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRIL-NMDFETEVDKILKVIPRD 217
Query: 223 KQVMMFSATLSKEIRPVCKKFMQDPMEIYV 252
++ +FSAT++K+++ + + +++P++ V
Sbjct: 218 RKTFLFSATMTKKVQKLQRAALKNPVKCAV 247
>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 = 122 bits (305), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 66/204 (32%), Positives = 118/204 (57%), Gaps = 4/204 (1%)
Query: 48 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 107
F D+ LK ELL I + G+E PS +Q E IP A+ G D++ +AK+G GK+ +++ L++
Sbjct: 5 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLER 64
Query: 108 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLK-NEC 166
+ + A+V+ TRELA Q+ + S ++ KV GG N++ D+++ ++
Sbjct: 65 LDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLR--DDIMRLDDT 122
Query: 167 PQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVM 226
+V+ TPGRIL L + + +V+ +LDE DK+L S D + +++I P ++Q++
Sbjct: 123 VHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLL-SQDFVQIMEDIILTLPKNRQIL 181
Query: 227 MFSATLSKEIRPVCKKFMQDPMEI 250
++SAT ++ ++ P EI
Sbjct: 182 LYSATFPLSVQKFMNSHLEKPYEI 205
>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 = 115 bits (287), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 69/212 (32%), Positives = 114/212 (53%), Gaps = 7/212 (3%)
Query: 45 SSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLST 104
+ F F +P ++ AI F P+E+Q IP A+ G + Q+++G GKT ++L
Sbjct: 3 ETQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPI 62
Query: 105 LQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAV---FYGGVNIKIHKDL 161
++ +P +V A++ TRELA QI HE + + + P + V GG + + K L
Sbjct: 63 XEKIKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQ--KAL 120
Query: 162 LK-NECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTP 220
K N P IV+GTPGRI R++ L + ++DE D L+ DV +I P
Sbjct: 121 EKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDX-GFITDVDQIAARXP 179
Query: 221 HDKQVMMFSATLSKEIRPVCKKFMQDPMEIYV 252
D Q ++FSAT+ ++++P KK+ ++P ++V
Sbjct: 180 KDLQXLVFSATIPEKLKPFLKKYXENPTFVHV 211
>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 = 114 bits (285), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 73/200 (36%), Positives = 100/200 (50%), Gaps = 2/200 (1%)
Query: 48 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 107
F LL +L + +GFE PS VQ + IP G+D+I QAKSG GKT VF L
Sbjct: 26 FESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDS 85
Query: 108 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 167
L+L TRE+A QI + ++ VF GG + K LK +C
Sbjct: 86 LVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLK-KC- 143
Query: 168 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 227
I VG+PGRI L L+ ++R FILDE DK+LE + + I+ P KQ++
Sbjct: 144 HIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLA 203
Query: 228 FSATLSKEIRPVCKKFMQDP 247
SAT + + K+M+DP
Sbjct: 204 VSATYPEFLANALTKYMRDP 223
>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 = 111 bits (277), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 97/371 (26%), Positives = 175/371 (47%), Gaps = 32/371 (8%)
Query: 52 LLKPELLRAIVDSGFEHPSEVQHECIPQAILGM---DVICQAKSGMGKTAVFVLSTLQQ- 107
+L E+ +AI F + VQ + I + IL DVI +AK+G GKT F++ Q
Sbjct: 78 VLDKEIHKAITRMEFPGLTPVQQKTI-KPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL 136
Query: 108 ---TEPNPGQVTALVLCHTRELAYQICHEFERFSTY---LPDIKVAVFYGGVNIKIHKDL 161
+ V A+++ TR+LA QI E ++ L GG + + +
Sbjct: 137 INTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNK 196
Query: 162 LKNECPQIVVGTPGRIL-ALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKM-- 218
+ P IV+ TPGR++ L + + + V + +LDE D++LE + R D++ I +
Sbjct: 197 MNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLE-IGFRDDLETISGILN 255
Query: 219 -----TPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVD--DEAKLTLHGLVQHYIKLS 271
+ + + ++FSATL +++ + M +++D D+ + H + + +S
Sbjct: 256 EKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVIS 315
Query: 272 ELEKN------RKLNDLLDALDFN-QVVIFVKSVSRAAELNKLL---VECNFPSICIHSG 321
E N + + D N + +IF +V + L +L + + P + H
Sbjct: 316 EKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 375
Query: 322 MSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGR 381
++Q +R + K FK+ ILV TD+ RG+D V+ V+ +P Y+HR+GR R
Sbjct: 376 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 435
Query: 382 FGTKGLAITFV 392
G +G ++ F+
Sbjct: 436 SGKEGSSVLFI 446
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 110 bits (276), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 97/371 (26%), Positives = 175/371 (47%), Gaps = 32/371 (8%)
Query: 52 LLKPELLRAIVDSGFEHPSEVQHECIPQAILGM---DVICQAKSGMGKTAVFVLSTLQQ- 107
+L E+ +AI F + VQ + I + IL DVI +AK+G GKT F++ Q
Sbjct: 27 VLDKEIHKAITRMEFPGLTPVQQKTI-KPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL 85
Query: 108 ---TEPNPGQVTALVLCHTRELAYQICHEFERFSTY---LPDIKVAVFYGGVNIKIHKDL 161
+ V A+++ TR+LA QI E ++ L GG + + +
Sbjct: 86 INTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNK 145
Query: 162 LKNECPQIVVGTPGRIL-ALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKM-- 218
+ P IV+ TPGR++ L + + + V + +LDE D++LE + R D++ I +
Sbjct: 146 MNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLE-IGFRDDLETISGILN 204
Query: 219 -----TPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVD--DEAKLTLHGLVQHYIKLS 271
+ + + ++FSATL +++ + M +++D D+ + H + + +S
Sbjct: 205 EKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVIS 264
Query: 272 ELEKN------RKLNDLLDALDFN-QVVIFVKSVSRAAELNKLL---VECNFPSICIHSG 321
E N + + D N + +IF +V + L +L + + P + H
Sbjct: 265 EKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 324
Query: 322 MSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGR 381
++Q +R + K FK+ ILV TD+ RG+D V+ V+ +P Y+HR+GR R
Sbjct: 325 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 384
Query: 382 FGTKGLAITFV 392
G +G ++ F+
Sbjct: 385 SGKEGSSVLFI 395
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 110 bits (276), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 97/371 (26%), Positives = 175/371 (47%), Gaps = 32/371 (8%)
Query: 52 LLKPELLRAIVDSGFEHPSEVQHECIPQAILGM---DVICQAKSGMGKTAVFVLSTLQQ- 107
+L E+ +AI F + VQ + I + IL DVI +AK+G GKT F++ Q
Sbjct: 27 VLDKEIHKAITRMEFPGLTPVQQKTI-KPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL 85
Query: 108 ---TEPNPGQVTALVLCHTRELAYQICHEFERFSTY---LPDIKVAVFYGGVNIKIHKDL 161
+ V A+++ TR+LA QI E ++ L GG + + +
Sbjct: 86 INTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNK 145
Query: 162 LKNECPQIVVGTPGRIL-ALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKM-- 218
+ P IV+ TPGR++ L + + + V + +LDE D++LE + R D++ I +
Sbjct: 146 MNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLE-IGFRDDLETISGILN 204
Query: 219 -----TPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVD--DEAKLTLHGLVQHYIKLS 271
+ + + ++FSATL +++ + M +++D D+ + H + + +S
Sbjct: 205 EKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVIS 264
Query: 272 ELEKN------RKLNDLLDALDFN-QVVIFVKSVSRAAELNKLL---VECNFPSICIHSG 321
E N + + D N + +IF +V + L +L + + P + H
Sbjct: 265 EKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 324
Query: 322 MSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGR 381
++Q +R + K FK+ ILV TD+ RG+D V+ V+ +P Y+HR+GR R
Sbjct: 325 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 384
Query: 382 FGTKGLAITFV 392
G +G ++ F+
Sbjct: 385 SGKEGSSVLFI 395
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 110 bits (276), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 68/212 (32%), Positives = 111/212 (52%), Gaps = 7/212 (3%)
Query: 47 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAIL--GMDVICQAKSGMGKTAVFVLST 104
F + LKP+LL+ + GF PS++Q +P + ++I Q++SG GKTA FVL+
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 152
Query: 105 LQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKN 164
L Q EP L L T ELA Q E+ + P++K+A G ++ + + +
Sbjct: 153 LSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISE- 211
Query: 165 ECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDK 223
QIV+GTPG +L ++ K + K ++ F+LDE D M+ + + I +M P +
Sbjct: 212 ---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 268
Query: 224 QVMMFSATLSKEIRPVCKKFMQDPMEIYVDDE 255
Q+++FSAT + +K + DP I + E
Sbjct: 269 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 109 bits (273), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 68/212 (32%), Positives = 111/212 (52%), Gaps = 7/212 (3%)
Query: 47 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAIL--GMDVICQAKSGMGKTAVFVLST 104
F + LKP+LL+ + GF PS++Q +P + ++I Q++SG GKTA FVL+
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 85
Query: 105 LQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKN 164
L Q EP L L T ELA Q E+ + P++K+A G ++ + + +
Sbjct: 86 LSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISE- 144
Query: 165 ECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDK 223
QIV+GTPG +L ++ K + K ++ F+LDE D M+ + + I +M P +
Sbjct: 145 ---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 201
Query: 224 QVMMFSATLSKEIRPVCKKFMQDPMEIYVDDE 255
Q+++FSAT + +K + DP I + E
Sbjct: 202 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 233
>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 = 106 bits (264), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 56/139 (40%), Positives = 80/139 (57%)
Query: 256 AKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPS 315
A LT + I++ E K L D+L + + +IF ++ +L L + +P
Sbjct: 3 AGLTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPC 62
Query: 316 ICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHR 375
IH GM QE+R FK G R LVATD+ RGIDIE +++VINYD+P ++Y+HR
Sbjct: 63 DKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHR 122
Query: 376 VGRAGRFGTKGLAITFVSS 394
GR GR G KG AI+FV++
Sbjct: 123 TGRTGRAGNKGKAISFVTA 141
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 103 bits (256), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 64/205 (31%), Positives = 105/205 (51%), Gaps = 14/205 (6%)
Query: 45 SSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILG--MDVICQAKSGMGKTAVFVL 102
+ F + L PELL+ I F+ PS++Q +P + ++I Q++SG GKTA F L
Sbjct: 21 AKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL 80
Query: 103 STLQQTEPNPGQVTALVLCHTRELAYQ---ICHEFERFSTYLPDIKVAVFYGGVNIKIHK 159
+ L + P A+ L +RELA Q + E +F+ + V + N +I+
Sbjct: 81 TMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEK-NKQINA 139
Query: 160 DLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMT 219
Q++VGTPG +L L R K + L+ ++ F+LDE D ML+ + + +
Sbjct: 140 --------QVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL 191
Query: 220 PHDKQVMMFSATLSKEIRPVCKKFM 244
P D Q+++FSAT + +R KK +
Sbjct: 192 PKDTQLVLFSATFADAVRQYAKKIV 216
>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 = 97.8 bits (242), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 61/210 (29%), Positives = 107/210 (50%), Gaps = 14/210 (6%)
Query: 47 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTL- 105
F + L P + I+ + ++ P+ +Q IP + D++ A++G GKTA F++ +
Sbjct: 24 NFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIIN 83
Query: 106 --------QQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKI 157
QQ L+L TRELA QI E ++FS P ++ V YGG +
Sbjct: 84 HLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTP-LRSCVVYGGADTHS 142
Query: 158 HKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLE---SLDMRRDVQE 214
++ C ++V TPGR++ +SL+ ++ +LDE D+ML+ +R+ ++E
Sbjct: 143 QIREVQMGC-HLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEE 201
Query: 215 IFKMTPHDKQVMMFSATLSKEIRPVCKKFM 244
+ ++Q +MFSAT KEI+ + F+
Sbjct: 202 SNMPSGINRQTLMFSATFPKEIQKLAADFL 231
>pdb|3IUY|A Chain A, Crystal Structure Of Ddx53 Dead-Box Domain
pdb|3IUY|B Chain B, Crystal Structure Of Ddx53 Dead-Box Domain
Length = 228
Score = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 64/227 (28%), Positives = 118/227 (51%), Gaps = 13/227 (5%)
Query: 34 EAAKKGYVGIHSSGFRD-FLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKS 92
++ +K + + F+D F P+LL++I+ G P+ +Q + P + G+D+I A++
Sbjct: 7 KSGEKRLIPKPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQT 66
Query: 93 GMGKTAVFVLSTLQQTEPNP------GQVTALVLCHTRELAYQICHEFERFSTYLPDIKV 146
G GKT +++ + P LVL TRELA + E ++S +K
Sbjct: 67 GTGKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYS--YKGLKS 124
Query: 147 AVFYGGVNIKIH-KDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLES 205
YGG N +D+ K I++ TPGR+ L + ++L+++ + ++DE DKML+
Sbjct: 125 ICIYGGRNRNGQIEDISKGV--DIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLD- 181
Query: 206 LDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYV 252
++ +++I D+Q +M SAT +R + +++DPM +YV
Sbjct: 182 MEFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 96.7 bits (239), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 63/149 (42%), Positives = 94/149 (63%), Gaps = 2/149 (1%)
Query: 260 LHGLVQHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICI 318
L G+ Q Y+ + E E K L DL D++ Q VIF + + EL L F I
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 319 HSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 378
+S + Q+ER T K F+ G+ RIL++TDL+ RGID+++V++VINYD+P + + Y+HR+GR
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 120
Query: 379 AGRFGTKGLAITFVSSASDSDILNQVSKF 407
GRFG KG+AI FV++ D + ++ KF
Sbjct: 121 GGRFGRKGVAINFVTN-EDVGAMRELEKF 148
>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 = 96.3 bits (238), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 43/119 (36%), Positives = 69/119 (57%)
Query: 291 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 350
V+IF + + +++ L+ ++ IH G QEER + F+EG K +LVATD+ +
Sbjct: 57 VLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASK 116
Query: 351 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVSKFMF 409
G+D + VINYDMP+ + Y+HR+GR G G G+A TF++ A D +L + +
Sbjct: 117 GLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFINKACDESVLMDLKALLL 175
>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 = 95.9 bits (237), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 57/145 (39%), Positives = 78/145 (53%), Gaps = 2/145 (1%)
Query: 265 QHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMS 323
Q Y + +LE K L LL + + ++FV+ R EL L E + + M
Sbjct: 6 QWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMV 65
Query: 324 QEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFG 383
Q +R K EG +LVATD+ RGIDI V+ V N+DMP S DTYLHR+GR R G
Sbjct: 66 QGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAG 125
Query: 384 TKGLAITFVSSASDSDILNQVSKFM 408
KG AI+ V A D +L +V +++
Sbjct: 126 RKGTAISLV-EAHDHLLLGKVGRYI 149
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 90.5 bits (223), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 53/144 (36%), Positives = 84/144 (58%), Gaps = 8/144 (5%)
Query: 271 SELEKNRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIHSGMSQEERLT 329
+E +K L +L + +IFV + A L KL E + SI +H + +ER
Sbjct: 18 NEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LHGDLQTQERDR 76
Query: 330 RYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFG 383
F+EG ++L+ T+++ RGIDI V++V+NYD+P A+ TY+HR+GR GRFG
Sbjct: 77 LIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFG 136
Query: 384 TKGLAITFVSSASDSDILNQVSKF 407
KG+AI+FV + +IL+ + K+
Sbjct: 137 RKGVAISFVHDKNSFNILSAIQKY 160
>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 = 88.6 bits (218), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 53/145 (36%), Positives = 82/145 (56%), Gaps = 8/145 (5%)
Query: 271 SELEKNRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIHSGMSQEERLT 329
+E +K L +L +IFV + A L KL E + SI +H + +ER
Sbjct: 19 NEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LHGDLQTQERDR 77
Query: 330 RYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFG 383
F+EG ++L+ T+++ RGIDI V+ V+NYD+P A+ TY+HR+GR GRFG
Sbjct: 78 LIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFG 137
Query: 384 TKGLAITFVSSASDSDILNQVSKFM 408
KG+AI+FV + +IL+ + K+
Sbjct: 138 RKGVAISFVHDKNSFNILSAIQKYF 162
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 53/145 (36%), Positives = 82/145 (56%), Gaps = 8/145 (5%)
Query: 271 SELEKNRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIHSGMSQEERLT 329
+E +K L +L +IFV + A L KL E + SI +H + +ER
Sbjct: 20 NEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LHGDLQTQERDR 78
Query: 330 RYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFG 383
F+EG ++L+ T+++ RGIDI V+ V+NYD+P A+ TY+HR+GR GRFG
Sbjct: 79 LIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFG 138
Query: 384 TKGLAITFVSSASDSDILNQVSKFM 408
KG+AI+FV + +IL+ + K+
Sbjct: 139 RKGVAISFVHDKNSFNILSAIQKYF 163
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 86.3 bits (212), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 59/216 (27%), Positives = 113/216 (52%), Gaps = 13/216 (6%)
Query: 48 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQ- 106
F DF L + L+ + ++ + +E+Q + I A+ G DV+ AK+G GKT F++ L+
Sbjct: 27 FSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEA 86
Query: 107 ----QTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLL 162
Q G + L++ TRELAYQ + D + GG ++K + +
Sbjct: 87 LYRLQWTSTDG-LGVLIISPTRELAYQTFEVLRKVGKN-HDFSAGLIIGGKDLKHEAERI 144
Query: 163 KNECPQIVVGTPGRILALARDKDLSL--KNVRHFILDECDKMLESLDMRRDVQEIFKMTP 220
N I+V TPGR+L D+ +S +++ +LDE D++L+ + + + + P
Sbjct: 145 NN--INILVCTPGRLLQ-HMDETVSFHATDLQMLVLDEADRILD-MGFADTMNAVIENLP 200
Query: 221 HDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEA 256
+Q ++FSAT +K ++ + + +++P ++V ++A
Sbjct: 201 KKRQTLLFSATQTKSVKDLARLSLKNPEYVWVHEKA 236
>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 = 86.3 bits (212), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 45/143 (31%), Positives = 84/143 (58%), Gaps = 9/143 (6%)
Query: 258 LTLHGLVQHYIKLSELEKNR--KLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPS 315
LTL+ + Q+Y+ L E K++ L ++ ++ Q +IF ++ A L +++
Sbjct: 3 LTLNNIRQYYV-LCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQV 61
Query: 316 ICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMP------DSA 369
+ ++ E+R + + F++G +++L+ T++ RGID+++V IV+N+D+P
Sbjct: 62 SLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDY 121
Query: 370 DTYLHRVGRAGRFGTKGLAITFV 392
+TYLHR+GR GRFG KGLA +
Sbjct: 122 ETYLHRIGRTGRFGKKGLAFNMI 144
>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 = 84.7 bits (208), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 48/134 (35%), Positives = 70/134 (52%), Gaps = 1/134 (0%)
Query: 259 TLHGLVQHYIKLSELEKNRKLNDLLDALDFNQV-VIFVKSVSRAAELNKLLVECNFPSIC 317
T + Q + + E +K L DLL+A + + ++FV++ A L L +
Sbjct: 16 TSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTS 75
Query: 318 IHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVG 377
IH SQ +R F+ G ILVAT + RG+DI V VIN+D+P + Y+HR+G
Sbjct: 76 IHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIG 135
Query: 378 RAGRFGTKGLAITF 391
R GR G GLA +F
Sbjct: 136 RTGRVGNLGLATSF 149
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 84.0 bits (206), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 57/196 (29%), Positives = 101/196 (51%), Gaps = 10/196 (5%)
Query: 52 LLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQ----- 106
L+ L+AI + GF + +E+QH+ I + G D++ AK+G GKT F++ ++
Sbjct: 60 LVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKL 119
Query: 107 QTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNEC 166
+ P G L+L TRELA Q + T+ + GG N L N
Sbjct: 120 RFMPRNG-TGVLILSPTRELAMQTFGVLKELMTHHVHT-YGLIMGGSNRSAEAQKLGNGI 177
Query: 167 PQIVVGTPGRIL-ALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQV 225
I+V TPGR+L + KN++ ++DE D++L+ + ++++I K+ P +Q
Sbjct: 178 -NIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILD-VGFEEELKQIIKLLPTRRQT 235
Query: 226 MMFSATLSKEIRPVCK 241
M+FSAT ++++ + +
Sbjct: 236 MLFSATQTRKVEDLAR 251
>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 = 82.8 bits (203), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 56/203 (27%), Positives = 100/203 (49%), Gaps = 12/203 (5%)
Query: 57 LLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP---- 112
++ I F P+ +Q + P A+ G+D++ A++G GKT ++L + P
Sbjct: 40 VMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLER 99
Query: 113 --GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIH-KDLLKNECPQI 169
G + LVL TRELA Q+ + +K YGG +DL + +I
Sbjct: 100 GDGPI-CLVLAPTRELAQQVQQVAAEYCRAC-RLKSTCIYGGAPKGPQIRDLERGV--EI 155
Query: 170 VVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFS 229
+ TPGR++ +L+ + +LDE D+ML+ + +++I D+Q +M+S
Sbjct: 156 CIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLD-MGFEPQIRKIVDQIRPDRQTLMWS 214
Query: 230 ATLSKEIRPVCKKFMQDPMEIYV 252
AT KE+R + + F++D + I +
Sbjct: 215 ATWPKEVRQLAEDFLKDYIHINI 237
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 82.4 bits (202), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 56/203 (27%), Positives = 100/203 (49%), Gaps = 12/203 (5%)
Query: 57 LLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP---- 112
++ I F P+ +Q + P A+ G+D++ A++G GKT ++L + P
Sbjct: 54 VMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLER 113
Query: 113 --GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIH-KDLLKNECPQI 169
G + LVL TRELA Q+ + +K YGG +DL + +I
Sbjct: 114 GDGPI-CLVLAPTRELAQQVQQVAAEYCRAC-RLKSTCIYGGAPKGPQIRDLERGV--EI 169
Query: 170 VVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFS 229
+ TPGR++ +L+ + +LDE D+ML+ + +++I D+Q +M+S
Sbjct: 170 CIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLD-MGFEPQIRKIVDQIRPDRQTLMWS 228
Query: 230 ATLSKEIRPVCKKFMQDPMEIYV 252
AT KE+R + + F++D + I +
Sbjct: 229 ATWPKEVRQLAEDFLKDYIHINI 251
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 80.5 bits (197), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 63/207 (30%), Positives = 101/207 (48%), Gaps = 23/207 (11%)
Query: 49 RDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ- 107
+++ + LL+ I+D+GF+ P+ +Q + IP + G +++ A +G GKT F + L Q
Sbjct: 32 QEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQL 91
Query: 108 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLL--KNE 165
+P AL++ TRELA QI E IK++ G IHK + K
Sbjct: 92 KQPANKGFRALIISPTRELASQIHREL---------IKISEGTGFRIHMIHKAAVAAKKF 142
Query: 166 CPQ------IVVGTPGRILALARD--KDLSLKNVRHFILDECDKMLE--SLDMRRDVQEI 215
P+ I+V TP R++ L + + L +V ++DE DK+ E R + I
Sbjct: 143 GPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASI 202
Query: 216 F-KMTPHDKQVMMFSATLSKEIRPVCK 241
F T H + MFSAT + ++ CK
Sbjct: 203 FLACTSHKVRRAMFSATFAYDVEQWCK 229
>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: 279 LNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGN 338
L+DLL ++ ++F ++ + E+ + L+ P+ +H MSQ ER F++G
Sbjct: 19 LSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGE 78
Query: 339 KRILVATDLVGRGIDIERVNIVINYDMPDSADTYLH 374
R+LVATD+ RG+DI +V++V++Y MPD A+ Y H
Sbjct: 79 VRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQH 114
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 75.5 bits (184), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 33/96 (34%), Positives = 59/96 (61%)
Query: 279 LNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGN 338
L+DLL ++ ++F ++ + E+ + L+ P+ +H +SQ ER F++G
Sbjct: 22 LSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGE 81
Query: 339 KRILVATDLVGRGIDIERVNIVINYDMPDSADTYLH 374
R+LVATD+ RG+DI +V++V++Y +PD A+ Y H
Sbjct: 82 VRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>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 = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 56/106 (52%), Gaps = 3/106 (2%)
Query: 290 QVVIFVKSVSRAAELNKLL---VECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 346
+ +IF +V + L +L + + P + H ++Q +R + K FK+ ILV TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 347 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFV 392
+ 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 = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 56/106 (52%), Gaps = 3/106 (2%)
Query: 290 QVVIFVKSVSRAAELNKLL---VECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 346
+ +IF +V + L +L + + P + H ++Q +R + K FK+ ILV TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 347 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFV 392
+ 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 = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 56/106 (52%), Gaps = 3/106 (2%)
Query: 290 QVVIFVKSVSRAAELNKLL---VECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 346
+ +IF +V + L +L + + P + H ++Q +R + K FK+ ILV TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 347 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFV 392
+ 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 = 7e-07, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 50/104 (48%)
Query: 292 VIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRG 351
+I+ S ++ + L + H+G+ R + F+ + +I+VAT G G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMG 299
Query: 352 IDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSA 395
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: 292 VIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRG 351
+I+ S ++ + L + H+G+ R + F+ + +I+VAT G G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXG 299
Query: 352 IDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSA 395
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 = 89/340 (26%), Positives = 140/340 (41%), Gaps = 54/340 (15%)
Query: 84 MDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQ-ICHEFERFSTYLP 142
M+ + Q G GKT V L+ L E G TA + T LA Q E FS +
Sbjct: 390 MNRLLQGDVGSGKTVVAQLAILDNYEA--GFQTAF-MVPTSILAIQHYRRTVESFSKF-- 444
Query: 143 DIKVAVFYGGVNIKIHKDL---LKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDEC 199
+I VA+ G + + L+N +V+GT I +D+ KN+ I+DE
Sbjct: 445 NIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTHALI-----QEDVHFKNLGLVIIDEQ 499
Query: 200 D----KMLESLDMRRDVQEIFKM--TPHDKQVMM-----FSATLSKEIRPVCKKF--MQD 246
K E+L + + + M TP + + + T+ E+ P K+ M
Sbjct: 500 HRFGVKQREALMNKGKMVDTLVMSATPIPRSMALAFYGDLDVTVIDEMPPGRKEVQTMLV 559
Query: 247 PM----EIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAA 302
PM E+Y ++ G Q +I +E++ KLN V A
Sbjct: 560 PMDRVNEVYEFVRQEVMRGG--QAFIVYPLIEESDKLN-----------------VKSAV 600
Query: 303 ELNKLLVECNFPSI---CIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNI 359
E+ + L + FP +H +SQEE+ F EG ILV+T ++ GID+ R N+
Sbjct: 601 EMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANV 660
Query: 360 VINYDMPDSADTYLHRV-GRAGRFGTKGLAITFVSSASDS 398
++ + LH++ GR GR G + V +
Sbjct: 661 MVIENPERFGLAQLHQLRGRVGRGGQEAYCFLVVGDVGEE 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 = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 58/111 (52%), Gaps = 5/111 (4%)
Query: 268 IKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEER 327
I + K RKL ++L+ ++++IF + ++K+ + P+I + S+EER
Sbjct: 329 IAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVFL---IPAITHRT--SREER 383
Query: 328 LTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 378
+GF+ G R +V++ ++ GID+ N+ + SA Y+ R+GR
Sbjct: 384 EEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 434
>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 = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 37/73 (50%)
Query: 319 HSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 378
H+ + E++ T ++ + +++VAT G GID V VI++ M S + Y GR
Sbjct: 298 HANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGR 357
Query: 379 AGRFGTKGLAITF 391
AGR K I +
Sbjct: 358 AGRDDMKADCILY 370
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 56/104 (53%), Gaps = 5/104 (4%)
Query: 275 KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGF 334
K RKL ++L+ ++++IF + ++K+ + P+I + S+EER +GF
Sbjct: 101 KIRKLREILERHRKDKIIIFTRHNELVYRISKVFL---IPAITHRT--SREEREEILEGF 155
Query: 335 KEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 378
+ G R +V++ ++ GID+ N+ + SA Y+ R+GR
Sbjct: 156 RTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 199
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 33/61 (54%)
Query: 321 GMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAG 380
G+SQ E+ F G +LVAT + G+D+ V++V+ Y+ SA + R GR G
Sbjct: 402 GLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTG 461
Query: 381 R 381
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 = 0.005, Method: Compositional matrix adjust.
Identities = 39/160 (24%), Positives = 74/160 (46%), Gaps = 24/160 (15%)
Query: 272 ELEKNRKLNDLL----DALDFN---QVVIFVKSVSRAAELNKLLVE---CNF--PSICIH 319
E +N KL +L+ DA +N + ++F K+ + + L K + E N+ P + +
Sbjct: 608 ETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMG 667
Query: 320 SGM----------SQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 369
G SQ+ L +K K+ R+L+AT + GIDI + N+V+ Y+ +
Sbjct: 668 RGRRDQTTGMTLPSQKGVLDAFKTSKDN--RLLIATSVADEGIDIVQCNLVVLYEYSGNV 725
Query: 370 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVSKFMF 409
+ GR G+K + +T + +++ N+ + M
Sbjct: 726 TKMIQVRGRGRAAGSKCILVTSKTEVVENEKCNRYKEEMM 765
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 39/160 (24%), Positives = 74/160 (46%), Gaps = 24/160 (15%)
Query: 272 ELEKNRKLNDLL----DALDFN---QVVIFVKSVSRAAELNKLLVE---CNF--PSICIH 319
E +N KL +L+ DA +N + ++F K+ + + L K + E N+ P + +
Sbjct: 608 ETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMG 667
Query: 320 SGM----------SQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 369
G SQ+ L +K K+ R+L+AT + GIDI + N+V+ Y+ +
Sbjct: 668 RGRRDQTTGMTLPSQKGVLDAFKTSKDN--RLLIATSVADEGIDIVQCNLVVLYEYSGNV 725
Query: 370 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVSKFMF 409
+ GR G+K + +T + +++ N+ + M
Sbjct: 726 TKMIQVRGRGRAAGSKCILVTSKTEVVENEKCNRYKEEMM 765
>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 = 0.006, Method: Compositional matrix adjust.
Identities = 39/160 (24%), Positives = 74/160 (46%), Gaps = 24/160 (15%)
Query: 272 ELEKNRKLNDLL----DALDFN---QVVIFVKSVSRAAELNKLLVE---CNF--PSICIH 319
E +N KL +L+ DA +N + ++F K+ + + L K + E N+ P + +
Sbjct: 367 ETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMG 426
Query: 320 SGM----------SQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 369
G SQ+ L +K K+ R+L+AT + GIDI + N+V+ Y+ +
Sbjct: 427 RGRRDQTTGMTLPSQKGVLDAFKTSKDN--RLLIATSVADEGIDIVQCNLVVLYEYSGNV 484
Query: 370 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVSKFMF 409
+ GR G+K + +T + +++ N+ + M
Sbjct: 485 TKMIQVRGRGRAAGSKCILVTSKTEVVENEKCNRYKEEMM 524
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 40/153 (26%), Positives = 65/153 (42%), Gaps = 30/153 (19%)
Query: 249 EIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLL 308
E+ V D +LT ++ H + E N + D + N + SVSR E+ L
Sbjct: 294 EVEVRDYKRLTPISVLDHAL---ESLDNLRPGDCIVCFSKNDIY----SVSRQIEIRGL- 345
Query: 309 VECNFPSICIHSGMSQEERLTRYKGFKEGNK--RILVATDLVGRGIDIERVNIVINYDM- 365
S I+ + +L + K F + N +ILVATD +G G+++ + +I Y +
Sbjct: 346 -----ESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGLNLS-IRRIIFYSLI 399
Query: 366 -------------PDSADTYLHRVGRAGRFGTK 385
P + L GRAGRF ++
Sbjct: 400 KPSINEKGERELEPITTSQALQIAGRAGRFSSR 432
>pdb|3RC3|A Chain A, Human Mitochondrial Helicase Suv3
Length = 677
Score = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 40/153 (26%), Positives = 65/153 (42%), Gaps = 30/153 (19%)
Query: 249 EIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLL 308
E+ V D +LT ++ H + E N + D + N + SVSR E+ L
Sbjct: 294 EVEVRDYKRLTPISVLDHAL---ESLDNLRPGDCIVCFSKNDIY----SVSRQIEIRGL- 345
Query: 309 VECNFPSICIHSGMSQEERLTRYKGFKEGNK--RILVATDLVGRGIDIERVNIVINYDM- 365
S I+ + +L + K F + N +ILVATD +G G+++ + +I Y +
Sbjct: 346 -----ESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGXGLNLS-IRRIIFYSLI 399
Query: 366 -------------PDSADTYLHRVGRAGRFGTK 385
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 = 37.4 bits (85), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 46/102 (45%), Gaps = 14/102 (13%)
Query: 292 VIFVKSVSRAAELNKLLVEC-NFPSICI---------HSG----MSQEERLTRYKGFKEG 337
+IF K+ A L++ + E F + + HS M+Q E+ F+ G
Sbjct: 404 IIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTG 463
Query: 338 NKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRA 379
+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 = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 30/118 (25%), Positives = 52/118 (44%), Gaps = 13/118 (11%)
Query: 302 AELNKLLVECNFPSICIH-SGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 360
E+++ L EC H +G+ +R F+ GN +++VAT + G+++ ++
Sbjct: 285 GEMSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVI 344
Query: 361 I-------NYDMPDSADTYLHRVGRAGRFG--TKGLAITFVSSASDSDILNQVSKFMF 409
+ Y Y GRAGR G +G AI V D +I V +++F
Sbjct: 345 VRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGK-RDREI--AVKRYIF 399
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 43/91 (47%), Gaps = 1/91 (1%)
Query: 319 HSGMSQEERLTRYKGFK-EGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVG 377
++GM+ + FK G+ IL+AT + GIDI + N+VI Y+ + + G
Sbjct: 432 NTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRG 491
Query: 378 RAGRFGTKGLAITFVSSASDSDILNQVSKFM 408
R G+K +T + + + +N + M
Sbjct: 492 RGRARGSKCFLLTSNAGVIEKEQINMYKEKM 522
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 36.2 bits (82), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 43/91 (47%), Gaps = 1/91 (1%)
Query: 319 HSGMSQEERLTRYKGFK-EGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVG 377
++GM+ + FK G+ IL+AT + GIDI + N+VI Y+ + + G
Sbjct: 440 NTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRG 499
Query: 378 RAGRFGTKGLAITFVSSASDSDILNQVSKFM 408
R G+K +T + + + +N + M
Sbjct: 500 RGRARGSKCFLLTSNAGVIEKEQINMYKEKM 530
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 36.2 bits (82), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 43/91 (47%), Gaps = 1/91 (1%)
Query: 319 HSGMSQEERLTRYKGFK-EGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVG 377
++GM+ + FK G+ IL+AT + GIDI + N+VI Y+ + + G
Sbjct: 441 NTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRG 500
Query: 378 RAGRFGTKGLAITFVSSASDSDILNQVSKFM 408
R G+K +T + + + +N + M
Sbjct: 501 RGRARGSKCFLLTSNAGVIEKEQINMYKEKM 531
>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 = 35.0 bits (79), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 47/98 (47%), Gaps = 11/98 (11%)
Query: 158 HKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECD-KMLESLDMRRDV---- 212
+D+ + E I+ T +++A R L F L C +M+ S D R D+
Sbjct: 8 ERDVQELEREGILFTTLEKLVAWGRSNSLWPAT---FGLACCAIEMMASTDARNDLARFG 64
Query: 213 QEIFKMTPHDKQVMMFSATLSKEIRPVCKKF---MQDP 247
E+F+ +P VM+ + LSK++ PV ++ M DP
Sbjct: 65 SEVFRASPRQADVMIVAGRLSKKMAPVMRRVWEQMPDP 102
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 33/139 (23%), Positives = 62/139 (44%), Gaps = 26/139 (18%)
Query: 277 RKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIH-SGMSQEERLTRYKGFK 335
R LN+L D+L+ N N+ L + + H +G+ ++ER+ + F+
Sbjct: 271 RALNELADSLEENPT-------------NEKLAKAIRGGVAFHHAGLGRDERVLVEENFR 317
Query: 336 EGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRV---------GRAGR--FGT 384
+G + +VAT + GI+ ++I D+ +D + R+ GRAGR +
Sbjct: 318 KGIIKAVVATPTLSAGINTPAFRVIIR-DIWRYSDFGMERIPIIEVHQMLGRAGRPKYDE 376
Query: 385 KGLAITFVSSASDSDILNQ 403
G I +S +++N
Sbjct: 377 VGEGIIVSTSDDPREVMNH 395
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 92/414 (22%), Positives = 159/414 (38%), Gaps = 77/414 (18%)
Query: 50 DFLLKPELLRAIVDSGFEHPSEVQHECIPQAIL-GMDVICQAKSGMGKTAVFVLSTLQQT 108
D L ++ I G + + Q E + + +L G ++ + +G GKT + + +
Sbjct: 12 DLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFL 71
Query: 109 EPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ 168
N G+ A+ + R L + F+ + L KVA+ G + LKN
Sbjct: 72 LKNGGK--AIYVTPLRALTNEKYLTFKDWE--LIGFKVAMTSGDYDT--DDAWLKNY--D 123
Query: 169 IVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMF 228
I++ T ++ +L R + L V +F+LDE + + R V E + + ++
Sbjct: 124 IIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDP--ERGPVVESVTIRAKRRNLLAL 181
Query: 229 SATLS--KEI------RPVCKKFMQDPM--------------EIYVDDEAKLTLHG--LV 264
SAT+S K+I PV + P+ + D +HG +
Sbjct: 182 SATISNYKQIAKWLGAEPVATNWRPVPLIEGVIYPERKKKEYNVIFKDNTTKKVHGDDAI 241
Query: 265 QHYIKLSELEKN---------RKLNDLLD----------ALDFNQVVIFVKSV------- 298
Y L L KN RK+ + +LD N + +K +
Sbjct: 242 IAYT-LDSLSKNGQVLVFRNSRKMAESTALKIANYMNFVSLDENALSEILKQLDDIEEGG 300
Query: 299 SRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVN 358
S EL K L+ H+G+S+ R +GF++ +++VAT + G+++
Sbjct: 301 SDEKELLKSLISKGVA--YHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPART 358
Query: 359 IVI------NYDMPDSAD-----TYLHRVGRAGR--FGTKGLAITFVSSASDSD 399
++I N + D Y GRAGR F G +I V D D
Sbjct: 359 VIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQIGESIVVVRDKEDVD 412
>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 = 0.28, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 301 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 360
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 361 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 398
D S + + +GRA R G I + + + S
Sbjct: 518 AILDADKEGFLRSERSLIQTIGRAAR-NANGHVIMYADTITKS 559
>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 = 0.29, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 301 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 360
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 361 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 398
D S + + +GRA R G I + + + S
Sbjct: 518 AILDADKEGFLRSERSLIQTIGRAAR-NANGHVIMYADTITKS 559
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 301 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 360
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 361 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 398
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 = 0.29, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 301 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 360
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 457 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 516
Query: 361 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 398
D S + + +GRA R G I + + + S
Sbjct: 517 AILDADKEGFLRSERSLIQTIGRAAR-NANGHVIMYADTITKS 558
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 301 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 360
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 483 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 542
Query: 361 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 398
D S + + +GRA R G I + + + S
Sbjct: 543 AILDADKEGFLRSERSLIQTIGRAAR-NANGHVIMYADTITKS 584
>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 = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 76/312 (24%), Positives = 128/312 (41%), Gaps = 29/312 (9%)
Query: 76 CIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEF- 134
C P L MD + G GKT V + + + N QV VL T LA Q F
Sbjct: 620 CQP---LAMDRLVCGDVGFGKTEVAMRAAFLAVD-NHKQVA--VLVPTTLLAQQHYDNFR 673
Query: 135 ERFSTYLPDIKVAVFYGGV--NIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVR 192
+RF+ + I++ + +I ++ + + I++GT + + + KDL L
Sbjct: 674 DRFANWPVRIEMISRFRSAKEQTQILAEVAEGKI-DILIGTHKLLQSDVKFKDLGL---- 728
Query: 193 HFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYV 252
I+DE + +R +E K + ++ +AT + M+D I
Sbjct: 729 -LIVDEEHR----FGVRH--KERIKAMRANVDILTLTATPIPRTLNMAMSGMRDLSIIAT 781
Query: 253 DDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAE-LNKLLVEC 311
+L + V+ Y + + + L ++L + V+++ +AAE L +L+ E
Sbjct: 782 PPARRLAVKTFVREYDSM--VVREAILREILRGGQVYYLYNDVENIQKAAERLAELVPEA 839
Query: 312 NFPSICIHSGMSQEERLTR-YKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD 370
I I G +E L R F +LV T ++ GIDI N +I
Sbjct: 840 R---IAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGL 896
Query: 371 TYLHRV-GRAGR 381
LH++ GR GR
Sbjct: 897 AQLHQLRGRVGR 908
>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 = 0.84, Method: Compositional matrix adjust.
Identities = 32/153 (20%), Positives = 63/153 (41%), Gaps = 31/153 (20%)
Query: 227 MFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDAL 286
+F TL + + KK ++P Y +++ + + +H+ + E +
Sbjct: 106 IFLXTLFLRNKKILKKLAENPE--YENEKLTKLRNTIXEHFTRTEESARG---------- 153
Query: 287 DFNQVVIFVKSVSRAAELNKLLVECN-FPSICI---------HSG----MSQEERLTRYK 332
+IF K+ A L++ + + F + + HS +Q E+
Sbjct: 154 -----IIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAGHSSEFKPXTQNEQREVIS 208
Query: 333 GFKEGNKRILVATDLVGRGIDIERVNIVINYDM 365
F+ G +L+AT + G+DI+ NIVI Y +
Sbjct: 209 KFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>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 = 31.6 bits (70), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 28/119 (23%), Positives = 51/119 (42%), Gaps = 7/119 (5%)
Query: 286 LDFNQVVIFVKSVSRAAE-LNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVA 344
++ N+ V+ + +E L L E +HS + ER+ + + G +LV
Sbjct: 448 IERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVG 507
Query: 345 TDLVGRGIDIERVNIVINYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 398
+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 = 31.6 bits (70), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 28/119 (23%), Positives = 51/119 (42%), Gaps = 7/119 (5%)
Query: 286 LDFNQVVIFVKSVSRAAE-LNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVA 344
++ N+ V+ + +E L L E +HS + ER+ + + G +LV
Sbjct: 442 IERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVG 501
Query: 345 TDLVGRGIDIERVNIVINYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 398
+L+ G+DI V++V D S + + +GRA R +G I + + S
Sbjct: 502 INLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR-NAEGRVIMYADKITKS 559
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 32/70 (45%)
Query: 337 GNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSAS 396
G+ IL+AT + GIDI N+VI Y+ + + GR +K +T +
Sbjct: 451 GDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGRGRARDSKCFLLTSSADVI 510
Query: 397 DSDILNQVSK 406
+ + N + +
Sbjct: 511 EKEKANXIKE 520
>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
Maritima
Length = 822
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 53/115 (46%), Gaps = 10/115 (8%)
Query: 291 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 350
V++ S+ ++ L+ +L + P +++ ++E K ++G + +AT++ GR
Sbjct: 477 VLVGTTSIEKSELLSSMLKKKGIPHQVLNAKYHEKEAEIVAKAGQKG--MVTIATNMAGR 534
Query: 351 GIDIERVN--------IVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASD 397
G DI+ +I + +S GRAGR G G +I F+S D
Sbjct: 535 GTDIKLGPGVAELGGLCIIGTERHESRRIDNQLRGRAGRQGDPGESIFFLSLEDD 589
>pdb|2EPG|A Chain A, Crystal Structure Of Ttha1785
pdb|2EPG|B Chain B, Crystal Structure Of Ttha1785
Length = 487
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 24/40 (60%), Gaps = 7/40 (17%)
Query: 113 GQVTALVLCHTRELAYQICHEF-ERFSTYLPDIKVAVFYG 151
GQVT L+ +R L +Q+C ++ ERF +KVA YG
Sbjct: 239 GQVTVLIHTGSRGLGHQVCQDYVERF------LKVAPRYG 272
>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 = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 53/115 (46%), Gaps = 10/115 (8%)
Query: 291 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 350
V++ S+ ++ L+ +L + P +++ ++E K ++G + +AT++ GR
Sbjct: 477 VLVGTTSIEKSELLSSMLKKKGIPHQVLNAKYHEKEAEIVAKAGQKG--MVTIATNMAGR 534
Query: 351 GIDIERVN--------IVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASD 397
G DI+ +I + +S GRAGR G G +I F+S D
Sbjct: 535 GTDIKLGPGVAELGGLCIIGTERHESRRIDNQLRGRAGRQGDPGESIFFLSLEDD 589
>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 = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/97 (19%), Positives = 46/97 (47%), Gaps = 3/97 (3%)
Query: 290 QVVIFVKSVSRAAELNKLLVECN-FPSICIHSGMS--QEERLTRYKGFKEGNKRILVATD 346
+V++ + A +L ++L E + H G S + +R + ++ ++L+ ++
Sbjct: 505 KVLVICAKAATALQLEQVLREREGIRAAVFHEGXSIIERDRAAAWFAEEDTGAQVLLCSE 564
Query: 347 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFG 383
+ G + + + + +D+P + D R+GR R G
Sbjct: 565 IGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIG 601
>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 = 2.3, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 19/89 (21%)
Query: 112 PGQVTALVLC----HTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 167
PG L + ++ ++ Q+CH+FE+ + D+ + +N+ D+ NE P
Sbjct: 36 PGYFNILYITMRGTNSNGMSCQLCHDFEKTYHAVADVIRSQAPQSLNLFFTVDV--NEVP 93
Query: 168 QIVVGTPGRILALARDKDLSLKNVRHFIL 196
Q+V KDL L+NV H ++
Sbjct: 94 QLV-------------KDLKLQNVPHLVV 109
>pdb|1Y4T|A Chain A, Ferric Binding Protein From Campylobacter Jejuni
pdb|1Y4T|D Chain D, Ferric Binding Protein From Campylobacter Jejuni
pdb|3E13|X Chain X, Iron Reconstituted Ferric Binding Protein From
Campylobacter Jejuni
Length = 322
Score = 28.9 bits (63), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 9/38 (23%)
Query: 32 NGEAAKKGYVGIHSSGFRDFLLKPELLRAIVDSGFEHP 69
N +AAKK F +F+L PE+ + + DS +E P
Sbjct: 246 NQDAAKK---------FMEFMLSPEIQKILTDSNYEFP 274
>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 = 28.5 bits (62), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 370 DTYLHRVGRAGRFGTKGLAITFVSSASD 397
DTYL V G GT+G+ + SSASD
Sbjct: 43 DTYLTAVENEGNNGTRGMMVINRSSASD 70
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 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,452,274
Number of Sequences: 62578
Number of extensions: 462821
Number of successful extensions: 1360
Number of sequences better than 100.0: 114
Number of HSP's better than 100.0 without gapping: 93
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 1114
Number of HSP's gapped (non-prelim): 117
length of query: 423
length of database: 14,973,337
effective HSP length: 101
effective length of query: 322
effective length of database: 8,652,959
effective search space: 2786252798
effective search space used: 2786252798
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: 53 (25.0 bits)