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= 014801
(418 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 = 617 bits (1591), Expect = e-177, Method: Compositional matrix adjust.
Identities = 293/387 (75%), Positives = 338/387 (87%)
Query: 30 GYVGIHSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTA 89
G G SSGFRDFLLKPELLRAIVD GFEHPSEVQHECIPQAILGMDV+CQAKSGMGKTA
Sbjct: 1 GSPGHMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTA 60
Query: 90 VFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIH 149
VFVL+TLQQ EP GQV+ LV+CHTRELA+QI E+ERFS Y+P++KVAVF+GG++IK
Sbjct: 61 VFVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKD 120
Query: 150 KDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKM 209
+++LK CP IVVGTPGRILALAR+K L+LK+++HFILDECDKMLE LDMRRDVQEIF+M
Sbjct: 121 EEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRM 180
Query: 210 TPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRK 269
TPH+KQVMMFSATLSKEIRPVC+KFMQDPMEI+VDDE KLTLHGL Q+Y+KL + EKNRK
Sbjct: 181 TPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRK 240
Query: 270 LNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGN 329
L DLLD L+FNQVVIFVKSV R L +LLVE NFP+I IH GM QEERL+RY+ FK+
Sbjct: 241 LFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQ 300
Query: 330 KRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDS 389
+RILVAT+L GRG+DIERVNI NYDMP+ +DTYLHRV RAGRFGTKGLAITFVS +D+
Sbjct: 301 RRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDA 360
Query: 390 DILNQVQARFEVDIKELPEQIDTSTYM 416
ILN VQ RFEV+I ELP++ID S+Y+
Sbjct: 361 KILNDVQDRFEVNISELPDEIDISSYI 387
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 616 bits (1589), Expect = e-177, Method: Compositional matrix adjust.
Identities = 293/386 (75%), Positives = 337/386 (87%)
Query: 30 GYVGIHSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTA 89
G G SSGFRDFLLKPELLRAIVD GFEHPSEVQHECIPQAILGMDV+CQAKSGMGKTA
Sbjct: 1 GSPGHMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTA 60
Query: 90 VFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIH 149
VFVL+TLQQ EP GQV+ LV+CHTRELA+QI E+ERFS Y+P++KVAVF+GG++IK
Sbjct: 61 VFVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKD 120
Query: 150 KDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKM 209
+++LK CP IVVGTPGRILALAR+K L+LK+++HFILDECDKMLE LDMRRDVQEIF+M
Sbjct: 121 EEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRM 180
Query: 210 TPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRK 269
TPH+KQVMMFSATLSKEIRPVC+KFMQDPMEI+VDDE KLTLHGL Q+Y+KL + EKNRK
Sbjct: 181 TPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRK 240
Query: 270 LNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGN 329
L DLLD L+FNQVVIFVKSV R L +LLVE NFP+I IH GM QEERL+RY+ FK+
Sbjct: 241 LFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQ 300
Query: 330 KRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDS 389
+RILVAT+L GRG+DIERVNI NYDMP+ +DTYLHRV RAGRFGTKGLAITFVS +D+
Sbjct: 301 RRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDA 360
Query: 390 DILNQVQARFEVDIKELPEQIDTSTY 415
ILN VQ RFEV+I ELP++ID S+Y
Sbjct: 361 KILNDVQDRFEVNISELPDEIDISSY 386
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 613 bits (1581), Expect = e-176, Method: Compositional matrix adjust.
Identities = 290/382 (75%), Positives = 335/382 (87%)
Query: 35 HSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLS 94
H SGFRDFLLKPELLRAIVD GFEHPSEVQHECIPQAILGMDV+CQAKSGMGKTAVFVL+
Sbjct: 5 HMSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLA 64
Query: 95 TLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLK 154
TLQQ EP GQV+ LV+CHTRELA+QI E+ERFS Y+P++KVAVF+GG++IK +++LK
Sbjct: 65 TLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLK 124
Query: 155 NECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDK 214
CP IVVGTPGRILALAR+K L+LK+++HFILDE DKMLE LDMRRDVQEIF+MTPH+K
Sbjct: 125 KNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEK 184
Query: 215 QVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLL 274
QVMMFSATLSKEIRPVC+KFMQDPMEI+VDDE KLTLHGL Q+Y+KL + EKNRKL DLL
Sbjct: 185 QVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL 244
Query: 275 DALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILV 334
D L+FNQVVIFVKSV R L +LLVE NFP+I IH GM QEERL+RY+ FK+ +RILV
Sbjct: 245 DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILV 304
Query: 335 ATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQ 394
AT+L GRG+DIERVNI NYDMP+ +DTYLHRV RAGRFGTKGLAITFVS +D+ ILN
Sbjct: 305 ATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILND 364
Query: 395 VQARFEVDIKELPEQIDTSTYM 416
VQ RFEV+I ELP++ID S+Y+
Sbjct: 365 VQDRFEVNISELPDEIDISSYI 386
>pdb|1T6N|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Uap56
pdb|1T6N|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Uap56
Length = 220
Score = 374 bits (961), Expect = e-104, Method: Compositional matrix adjust.
Identities = 173/213 (81%), Positives = 197/213 (92%)
Query: 31 YVGIHSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAV 90
YV IHSSGFRDFLLKPELLRAIVD GFEHPSEVQHECIPQAILGMDV+CQAKSGMGKTAV
Sbjct: 8 YVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAV 67
Query: 91 FVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHK 150
FVL+TLQQ EP GQV+ LV+CHTRELA+QI E+ERFS Y+P++KVAVF+GG++IK +
Sbjct: 68 FVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDE 127
Query: 151 DLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMT 210
++LK CP IVVGTPGRILALAR+K L+LK+++HFILDECDKMLE LDMRRDVQEIF+MT
Sbjct: 128 EVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMT 187
Query: 211 PHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYV 243
PH+KQVMMFSATLSKEIRPVC+KFMQDPMEI+V
Sbjct: 188 PHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFV 220
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 273 bits (698), Expect = 1e-73, Method: Compositional matrix adjust.
Identities = 154/392 (39%), Positives = 225/392 (57%), Gaps = 8/392 (2%)
Query: 26 PRSQGYVGIHSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGM 85
P++ + + F DF LK ELL I ++GFE PS +Q E IP AI G D++ +AK+G
Sbjct: 10 PQTDDVLNTKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGT 69
Query: 86 GKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVN 145
GKTA FV+ TL++ +P ++ AL++ TRELA Q + I V GG N
Sbjct: 70 GKTAAFVIPTLEKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHC-GISCMVTTGGTN 128
Query: 146 IKIHKDLLK-NECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQ 204
++ D+L+ NE I+VGTPGR+L LA K L + FI+DE DKML S D + ++
Sbjct: 129 LR--DDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKML-SRDFKTIIE 185
Query: 205 EIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSEL 264
+I P Q ++FSAT ++ K + P EI + +E LTL G+ Q+Y + E
Sbjct: 186 QILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLMEE--LTLKGITQYYAFVEER 243
Query: 265 EKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKG 324
+K LN L L NQ +IF S +R L K + + + H+ M Q+ER +
Sbjct: 244 QKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHE 303
Query: 325 FKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVS 384
F++G R LV +DL+ RGIDI+ VN+VIN+D P +A+TYLHR+GR+GRFG GLAI +
Sbjct: 304 FRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLI- 362
Query: 385 SASDSDILNQVQARFEVDIKELPEQIDTSTYM 416
+ +D L +++ +I +P ID S Y+
Sbjct: 363 NWNDRFNLYKIEQELGTEIAAIPATIDKSLYV 394
>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 = 244 bits (623), Expect = 7e-65, Method: Compositional matrix adjust.
Identities = 137/366 (37%), Positives = 211/366 (57%), Gaps = 8/366 (2%)
Query: 44 LKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP 103
L+ +LLR I GFE PS +Q I Q I G DVI Q++SG GKTA F +S LQ +
Sbjct: 44 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQV 103
Query: 104 GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVV 162
+ AL+L TRELA QI Y+ +++ GG N+ +D+ K + Q +V
Sbjct: 104 RETQALILAPTRELAVQIQKGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVA 160
Query: 163 GTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSAT 222
GTPGR+ + R + L + ++ +LDE D+ML + + ++++ P QV++ SAT
Sbjct: 161 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISAT 219
Query: 223 LSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQ 281
L EI + KFM DP+ I V + +LTL G+ Q ++ + E K L DL D L Q
Sbjct: 220 LPHEILEMTNKFMTDPIRILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ 278
Query: 282 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 341
VIF + + L + + E NF +H M Q+ER + K F+ G R+L++TD+ R
Sbjct: 279 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 338
Query: 342 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEV 401
G+D+ +V+++INYD+P++ + Y+HR+GR+GR+G KG+AI FV + D IL ++ +
Sbjct: 339 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN-DDIRILRDIEQYYST 397
Query: 402 DIKELP 407
I E+P
Sbjct: 398 QIDEMP 403
>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 = 244 bits (622), Expect = 8e-65, Method: Compositional matrix adjust.
Identities = 137/366 (37%), Positives = 211/366 (57%), Gaps = 8/366 (2%)
Query: 44 LKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP 103
L+ +LLR I GFE PS +Q I Q I G DVI Q++SG GKTA F +S LQ +
Sbjct: 45 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQV 104
Query: 104 GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVV 162
+ AL+L TRELA QI Y+ +++ GG N+ +D+ K + Q +V
Sbjct: 105 RETQALILAPTRELAVQIQKGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVA 161
Query: 163 GTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSAT 222
GTPGR+ + R + L + ++ +LDE D+ML + + ++++ P QV++ SAT
Sbjct: 162 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISAT 220
Query: 223 LSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQ 281
L EI + KFM DP+ I V + +LTL G+ Q ++ + E K L DL D L Q
Sbjct: 221 LPHEILEMTNKFMTDPIRILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ 279
Query: 282 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 341
VIF + + L + + E NF +H M Q+ER + K F+ G R+L++TD+ R
Sbjct: 280 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 339
Query: 342 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEV 401
G+D+ +V+++INYD+P++ + Y+HR+GR+GR+G KG+AI FV + D IL ++ +
Sbjct: 340 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN-DDIRILRDIEQYYST 398
Query: 402 DIKELP 407
I E+P
Sbjct: 399 QIDEMP 404
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 244 bits (622), Expect = 9e-65, Method: Compositional matrix adjust.
Identities = 137/366 (37%), Positives = 211/366 (57%), Gaps = 8/366 (2%)
Query: 44 LKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP 103
L+ +LLR I GFE PS +Q I Q I G DVI Q++SG GKTA F +S LQ +
Sbjct: 45 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQV 104
Query: 104 GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVV 162
+ AL+L TRELA QI Y+ +++ GG N+ +D+ K + Q +V
Sbjct: 105 RETQALILAPTRELAVQIQKGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVA 161
Query: 163 GTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSAT 222
GTPGR+ + R + L + ++ +LDE D+ML + + ++++ P QV++ SAT
Sbjct: 162 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISAT 220
Query: 223 LSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQ 281
L EI + KFM DP+ I V + +LTL G+ Q ++ + E K L DL D L Q
Sbjct: 221 LPHEILEMTNKFMTDPIRILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ 279
Query: 282 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 341
VIF + + L + + E NF +H M Q+ER + K F+ G R+L++TD+ R
Sbjct: 280 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 339
Query: 342 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEV 401
G+D+ +V+++INYD+P++ + Y+HR+GR+GR+G KG+AI FV + D IL ++ +
Sbjct: 340 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN-DDIRILRDIEQYYST 398
Query: 402 DIKELP 407
I E+P
Sbjct: 399 QIDEMP 404
>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 = 243 bits (621), Expect = 1e-64, Method: Compositional matrix adjust.
Identities = 137/366 (37%), Positives = 211/366 (57%), Gaps = 8/366 (2%)
Query: 44 LKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP 103
L+ +LLR I GFE PS +Q I Q I G DVI Q++SG GKTA F +S LQ +
Sbjct: 23 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQV 82
Query: 104 GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVV 162
+ AL+L TRELA QI Y+ +++ GG N+ +D+ K + Q +V
Sbjct: 83 RETQALILAPTRELAVQIQKGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVA 139
Query: 163 GTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSAT 222
GTPGR+ + R + L + ++ +LDE D+ML + + ++++ P QV++ SAT
Sbjct: 140 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISAT 198
Query: 223 LSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQ 281
L EI + KFM DP+ I V + +LTL G+ Q ++ + E K L DL D L Q
Sbjct: 199 LPHEILEMTNKFMTDPIRILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ 257
Query: 282 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 341
VIF + + L + + E NF +H M Q+ER + K F+ G R+L++TD+ R
Sbjct: 258 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 317
Query: 342 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEV 401
G+D+ +V+++INYD+P++ + Y+HR+GR+GR+G KG+AI FV + D IL ++ +
Sbjct: 318 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKN-DDIRILRDIEQYYST 376
Query: 402 DIKELP 407
I E+P
Sbjct: 377 QIDEMP 382
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 243 bits (619), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 116/167 (69%), Positives = 138/167 (82%)
Query: 250 TLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICI 309
+LHGL Q+Y+KL + EKNRKL DLLD L+FNQVVIFVKSV R L +LLVE NFP+I I
Sbjct: 2 SLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI 61
Query: 310 HSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 369
H GM QEERL+RY+ FK+ +RILVAT+L GRG+DIERVNI NYDMP+ +DTYLHRV R
Sbjct: 62 HRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVAR 121
Query: 370 AGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDTSTYM 416
AGRFGTKGLAITFVS +D+ ILN VQ RFEV+I ELP++ID S+Y+
Sbjct: 122 AGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEIDISSYI 168
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 241 bits (615), Expect = 6e-64, Method: Compositional matrix adjust.
Identities = 134/369 (36%), Positives = 212/369 (57%), Gaps = 8/369 (2%)
Query: 44 LKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP 103
L+ +LLR I GFE PS +Q I Q I G DVI Q++SG GKTA F +S LQ +
Sbjct: 8 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQV 67
Query: 104 GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVV 162
+ AL+L TRELA Q+ Y+ +++ GG N+ +D+ K + Q +V
Sbjct: 68 RETQALILAPTRELAVQVQKGLLALGDYM-NVQCHACIGGTNV--GEDIRKLDYGQHVVA 124
Query: 163 GTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSAT 222
GTPGR+ + R + L + ++ +LDE D+ML + + ++++ P QV++ SAT
Sbjct: 125 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISAT 183
Query: 223 LSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQ 281
L EI + KFM DP+ I V + +LTL G+ Q ++ + E K L DL D L Q
Sbjct: 184 LPHEILEMTNKFMTDPIRILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ 242
Query: 282 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 341
VIF + + L + + E NF +H M Q+ER + K F+ G R+L++TD+ R
Sbjct: 243 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 302
Query: 342 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEV 401
G+D+ +V+++INYD+P++ + Y+HR+GR+GR+G KG+A+ FV + D +L ++ +
Sbjct: 303 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKN-DDIRVLRDIEQYYST 361
Query: 402 DIKELPEQI 410
I E+P +
Sbjct: 362 QIDEMPMNV 370
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 241 bits (614), Expect = 6e-64, Method: Compositional matrix adjust.
Identities = 133/369 (36%), Positives = 212/369 (57%), Gaps = 8/369 (2%)
Query: 44 LKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP 103
L+ +LLR I GFE PS +Q I Q I G DVI Q++SG GKTA F +S LQ +
Sbjct: 8 LREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQV 67
Query: 104 GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ-IVV 162
+ AL+L TRELA Q+ Y+ +++ GG N+ +D+ K + Q +V
Sbjct: 68 RETQALILAPTRELAVQVQKGLLALGDYM-NVQSHACIGGTNV--GEDIRKLDYGQHVVA 124
Query: 163 GTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSAT 222
GTPGR+ + R + L + ++ +LDE D+ML + + ++++ P QV++ SAT
Sbjct: 125 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK-GFKEQIYDVYRYLPPATQVVLISAT 183
Query: 223 LSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDALDFNQ 281
L E+ + KFM DP+ I V + +LTL G+ Q ++ + E K L DL D L Q
Sbjct: 184 LPHEVLEMTNKFMTDPIRILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQ 242
Query: 282 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 341
VIF + + L + + E NF +H M Q+ER + K F+ G R+L++TD+ R
Sbjct: 243 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 302
Query: 342 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEV 401
G+D+ +V+++INYD+P++ + Y+HR+GR+GR+G KG+A+ FV + D +L ++ +
Sbjct: 303 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKN-DDIRVLRDIEQYYST 361
Query: 402 DIKELPEQI 410
I E+P +
Sbjct: 362 QIDEMPMNV 370
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 231 bits (589), Expect = 5e-61, Method: Compositional matrix adjust.
Identities = 147/370 (39%), Positives = 210/370 (56%), Gaps = 5/370 (1%)
Query: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 98
F D L LLR I GFE PS +Q I I G DVI QA+SG GKTA F +S LQQ
Sbjct: 42 FDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQ 101
Query: 99 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 158
E + ALVL TRELA QI Y+ GG N++ L+ E P
Sbjct: 102 IELDLKATQALVLAPTRELAQQIQKVVMALGDYM-GASCHACIGGTNVRAEVQKLQMEAP 160
Query: 159 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 218
I+VGTPGR+ + + LS K ++ F+LDE D+ML S + + +IF+ + QV++
Sbjct: 161 HIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEML-SRGFKDQIYDIFQKLNSNTQVVL 219
Query: 219 FSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDAL 277
SAT+ ++ V KKFM+DP+ I V E +LTL G+ Q YI + E K L DL + L
Sbjct: 220 LSATMPSDVLEVTKKFMRDPIRILVKKE-ELTLEGIRQFYINVEREEWKLDTLCDLYETL 278
Query: 278 DFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 337
Q VIF+ + + L + + +F +H M Q+ER + F+ G+ R+L+ TD
Sbjct: 279 TITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTD 338
Query: 338 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQA 397
L+ RGID+++V++VINYD+P + + Y+HR+GR GRFG KG+AI V+ D L ++
Sbjct: 339 LLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTE-EDKRTLRDIET 397
Query: 398 RFEVDIKELP 407
+ I+E+P
Sbjct: 398 FYNTSIEEMP 407
>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|C Chain C, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|D Chain D, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|F Chain F, Crystal Structure Of The Eif4a-Pdcd4 Complex
Length = 388
Score = 231 bits (589), Expect = 6e-61, Method: Compositional matrix adjust.
Identities = 148/371 (39%), Positives = 211/371 (56%), Gaps = 5/371 (1%)
Query: 38 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQ 97
F D L LLR I GFE PS +Q I I G DVI QA+SG GKTA F +S LQ
Sbjct: 15 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQ 74
Query: 98 QTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNEC 157
Q E + ALVL TRELA QI Y+ A GG N++ L+ E
Sbjct: 75 QIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACI-GGTNVRAEVQKLQMEA 133
Query: 158 PQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVM 217
P I+VGTPGR+ + + LS K ++ F+LDE D+ML S + + +IF+ + QV+
Sbjct: 134 PHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEML-SRGFKDQIYDIFQKLNSNTQVV 192
Query: 218 MFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDA 276
+ SAT+ ++ V KKFM+DP+ I V E +LTL G+ Q YI + E K L DL +
Sbjct: 193 LLSATMPSDVLEVTKKFMRDPIRILVKKE-ELTLEGIRQFYINVEREEWKLDTLCDLYET 251
Query: 277 LDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVAT 336
L Q VIF+ + + L + + +F +H M Q+ER + F+ G+ R+L+ T
Sbjct: 252 LTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITT 311
Query: 337 DLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQ 396
DL+ RGID+++V++VINYD+P + + Y+HR+GR GRFG KG+AI V+ D L ++
Sbjct: 312 DLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTE-EDKRTLRDIE 370
Query: 397 ARFEVDIKELP 407
+ I+E+P
Sbjct: 371 TFYNTSIEEMP 381
>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 = 224 bits (572), Expect = 5e-59, Method: Compositional matrix adjust.
Identities = 146/375 (38%), Positives = 217/375 (57%), Gaps = 7/375 (1%)
Query: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 98
F D L LLR + GFE PS +Q I I G DV+ QA+SG GKT F ++ LQ+
Sbjct: 24 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 83
Query: 99 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 158
+ + AL+L TRELA QI + ++ DIKV GG + + L++
Sbjct: 84 IDTSVKAPQALMLAPTRELALQIQKVVMALAFHM-DIKVHACIGGTSFVEDAEGLRD--A 140
Query: 159 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 218
QIVVGTPGR+ + + ++ FILDE D+ML S + + +IF + P QV++
Sbjct: 141 QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSS-GFKEQIYQIFTLLPPTTQVVL 199
Query: 219 FSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDAL 277
SAT+ ++ V KFM++P+ I V + +LTL G+ Q Y+ + E E K L DL D++
Sbjct: 200 LSATMPNDVLEVTTKFMRNPVRILVKKD-ELTLEGIKQFYVNVEEEEYKYECLTDLYDSI 258
Query: 278 DFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 337
Q VIF + + EL L F I+S + Q+ER T K F+ G+ RIL++TD
Sbjct: 259 SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTD 318
Query: 338 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQA 397
L+ RGID+++V++VINYD+P + + Y+HR+GR GRFG KG+AI FV++ D + +++
Sbjct: 319 LLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTN-EDVGAMRELEK 377
Query: 398 RFEVDIKELPEQIDT 412
+ I+ELP I T
Sbjct: 378 FYSTQIEELPSDIAT 392
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 216 bits (551), Expect = 2e-56, Method: Compositional matrix adjust.
Identities = 144/375 (38%), Positives = 211/375 (56%), Gaps = 7/375 (1%)
Query: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 98
F D L LLR + GFE PS +Q I I G DV+ QA+SG GKT F ++ LQ+
Sbjct: 23 FDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 99 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 158
+ + AL L TRELA QI + + DIKV GG + + L++
Sbjct: 83 IDTSVKAPQALXLAPTRELALQIQKVVXALA-FHXDIKVHACIGGTSFVEDAEGLRD--A 139
Query: 159 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 218
QIVVGTPGR+ + + ++ FILDE D+ L S + + +IF + P QV++
Sbjct: 140 QIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSS-GFKEQIYQIFTLLPPTTQVVL 198
Query: 219 FSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELE-KNRKLNDLLDAL 277
SAT ++ V KF ++P+ I V + +LTL G+ Q Y+ + E E K L DL D++
Sbjct: 199 LSATXPNDVLEVTTKFXRNPVRILVKKD-ELTLEGIKQFYVNVEEEEYKYECLTDLYDSI 257
Query: 278 DFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 337
Q VIF + + EL L F I+S + Q+ER T K F+ G+ RIL++TD
Sbjct: 258 SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTD 317
Query: 338 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQA 397
L+ RGID+++V++VINYD+P + + Y+HR+GR GRFG KG+AI FV++ D +++
Sbjct: 318 LLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTN-EDVGAXRELEK 376
Query: 398 RFEVDIKELPEQIDT 412
+ I+ELP I T
Sbjct: 377 FYSTQIEELPSDIAT 391
>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
pdb|1HV8|B Chain B, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
Length = 367
Score = 209 bits (531), Expect = 3e-54, Method: Compositional matrix adjust.
Identities = 130/352 (36%), Positives = 199/352 (56%), Gaps = 12/352 (3%)
Query: 34 IHSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILG-MDVICQAKSGMGKTAVFV 92
+ F + L +L AI + GFE P+++Q + IP + +++ QA++G GKTA F
Sbjct: 3 VEYXNFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFA 62
Query: 93 LSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDL 152
+ ++ N G + A++L TRELA Q+ E E ++K+A YGG I
Sbjct: 63 IPLIELVNENNG-IEAIILTPTRELAIQVADEIESLKGN-KNLKIAKIYGGKAIYPQIKA 120
Query: 153 LKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPH 212
LKN IVVGTPGRIL L+LKNV++FILDE D+ L + +DV++I
Sbjct: 121 LKN--ANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXL-NXGFIKDVEKILNACNK 177
Query: 213 DKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLND 272
DK++++FSAT +EI + KK+ D Y +AK+ + + Q Y++++E E+ L
Sbjct: 178 DKRILLFSATXPREILNLAKKYXGD----YSFIKAKINAN-IEQSYVEVNENERFEALCR 232
Query: 273 LLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRI 332
LL +F +V F K+ EL L + F + IH +SQ +R + FK+ RI
Sbjct: 233 LLKNKEFYGLV-FCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRI 291
Query: 333 LVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVS 384
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 = 206 bits (524), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 128/379 (33%), Positives = 203/379 (53%), Gaps = 15/379 (3%)
Query: 38 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILG--MDVICQAKSGMGKTAVFVLST 95
F + LKP+LL+ + GF PS++Q +P + ++I Q++SG GKTA FVL+
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 152
Query: 96 LQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKN 155
L Q EP L L T ELA Q E+ + P++K+A G ++ + +
Sbjct: 153 LSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI--- 209
Query: 156 ECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDK 214
QIV+GTPG +L ++ K + K ++ F+LDE D M+ + + I +M P +
Sbjct: 210 -SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 268
Query: 215 QVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSEL-EKNRKLNDL 273
Q+++FSAT + +K + DP I + E + TL + Q+Y+ S EK + L +L
Sbjct: 269 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEE-TLDTIKQYYVLCSSRDEKFQALCNL 327
Query: 274 LDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRIL 333
A+ Q +IF + A+ L L + + M E+R + F+EG +++L
Sbjct: 328 YGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVL 387
Query: 334 VATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFGTKGLAITFVSSAS 387
V T++ RGID+E+V++VIN+D+P D TYLHR+GR GRFG +GLA+ V S
Sbjct: 388 VTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKH 447
Query: 388 DSDILNQVQARFEVDIKEL 406
+ILN++Q F I+ L
Sbjct: 448 SMNILNRIQEHFNKKIERL 466
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 206 bits (523), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 128/379 (33%), Positives = 203/379 (53%), Gaps = 15/379 (3%)
Query: 38 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILG--MDVICQAKSGMGKTAVFVLST 95
F + LKP+LL+ + GF PS++Q +P + ++I Q++SG GKTA FVL+
Sbjct: 42 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 101
Query: 96 LQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKN 155
L Q EP L L T ELA Q E+ + P++K+A G ++ + +
Sbjct: 102 LSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI--- 158
Query: 156 ECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDK 214
QIV+GTPG +L ++ K + K ++ F+LDE D M+ + + I +M P +
Sbjct: 159 -SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 217
Query: 215 QVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSEL-EKNRKLNDL 273
Q+++FSAT + +K + DP I + E + TL + Q+Y+ S EK + L +L
Sbjct: 218 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEE-TLDTIKQYYVLCSSRDEKFQALCNL 276
Query: 274 LDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRIL 333
A+ Q +IF + A+ L L + + M E+R + F+EG +++L
Sbjct: 277 YGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVL 336
Query: 334 VATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFGTKGLAITFVSSAS 387
V T++ RGID+E+V++VIN+D+P D TYLHR+GR GRFG +GLA+ V S
Sbjct: 337 VTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKH 396
Query: 388 DSDILNQVQARFEVDIKEL 406
+ILN++Q F I+ L
Sbjct: 397 SMNILNRIQEHFNKKIERL 415
>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 = 206 bits (523), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 128/378 (33%), Positives = 203/378 (53%), Gaps = 15/378 (3%)
Query: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILG--MDVICQAKSGMGKTAVFVLSTL 96
F + LKP+LL+ + GF PS++Q +P + ++I Q++SG GKTA FVL+ L
Sbjct: 64 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 123
Query: 97 QQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNE 156
Q EP L L T ELA Q E+ + P++K+A G ++ + +
Sbjct: 124 SQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI---- 179
Query: 157 CPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQ 215
QIV+GTPG +L ++ K + K ++ F+LDE D M+ + + I +M P + Q
Sbjct: 180 SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQ 239
Query: 216 VMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSEL-EKNRKLNDLL 274
+++FSAT + +K + DP I + E + TL + Q+Y+ S EK + L +L
Sbjct: 240 MLLFSATFEDSVWKFAQKVVPDPNVIKLKREEE-TLDTIKQYYVLCSSRDEKFQALCNLY 298
Query: 275 DALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILV 334
A+ Q +IF + A+ L L + + M E+R + F+EG +++LV
Sbjct: 299 GAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLV 358
Query: 335 ATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFGTKGLAITFVSSASD 388
T++ RGID+E+V++VIN+D+P D TYLHR+GR GRFG +GLA+ V S
Sbjct: 359 TTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHS 418
Query: 389 SDILNQVQARFEVDIKEL 406
+ILN++Q F I+ L
Sbjct: 419 MNILNRIQEHFNKKIERL 436
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 206 bits (523), Expect = 3e-53, Method: Compositional matrix adjust.
Identities = 128/378 (33%), Positives = 203/378 (53%), Gaps = 15/378 (3%)
Query: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILG--MDVICQAKSGMGKTAVFVLSTL 96
F + LKP+LL+ + GF PS++Q +P + ++I Q++SG GKTA FVL+ L
Sbjct: 27 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 86
Query: 97 QQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNE 156
Q EP L L T ELA Q E+ + P++K+A G ++ + +
Sbjct: 87 SQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI---- 142
Query: 157 CPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQ 215
QIV+GTPG +L ++ K + K ++ F+LDE D M+ + + I +M P + Q
Sbjct: 143 SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQ 202
Query: 216 VMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSEL-EKNRKLNDLL 274
+++FSAT + +K + DP I + E + TL + Q+Y+ S EK + L +L
Sbjct: 203 MLLFSATFEDSVWKFAQKVVPDPNVIKLKREEE-TLDTIKQYYVLCSSRDEKFQALCNLY 261
Query: 275 DALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILV 334
A+ Q +IF + A+ L L + + M E+R + F+EG +++LV
Sbjct: 262 GAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLV 321
Query: 335 ATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFGTKGLAITFVSSASD 388
T++ RGID+E+V++VIN+D+P D TYLHR+GR GRFG +GLA+ V S
Sbjct: 322 TTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHS 381
Query: 389 SDILNQVQARFEVDIKEL 406
+ILN++Q F I+ L
Sbjct: 382 MNILNRIQEHFNKKIERL 399
>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 = 186 bits (473), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 123/391 (31%), Positives = 208/391 (53%), Gaps = 29/391 (7%)
Query: 33 GIHSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILG--MDVICQAKSGMGKTAV 90
G + F + L PELL+ I F+ PS++Q +P + ++I Q++SG GKTA
Sbjct: 1 GAMAKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAA 60
Query: 91 FVLSTLQQTEPNPGQVTALVLCHTRELAYQ---ICHEFERFSTYLPDIKVAVFYGGVNIK 147
F L+ L + P A+ L +RELA Q + E +F+ + V + N +
Sbjct: 61 FSLTMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEK-NKQ 119
Query: 148 IHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIF 207
I+ Q++VGTPG +L L R K + L+ ++ F+LDE D ML+ + +
Sbjct: 120 IN--------AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVK 171
Query: 208 KMTPHDKQVMMFSATLSKEIRPVCKKFM--QDPMEIYVDDEAKLTLHGLVQHYIKL-SEL 264
+ P D Q+++FSAT + +R KK + + +E+ ++ + + + Q Y+ +E
Sbjct: 172 RFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNE---VNVDAIKQLYMDCKNEA 228
Query: 265 EKNRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIHSGMSQEERLTRYK 323
+K L +L + +IFV + A L KL E + SI +H + +ER
Sbjct: 229 DKFDVLTELYGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LHGDLQTQERDRLID 287
Query: 324 GFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFGTKG 377
F+EG ++L+ T+++ RGIDI V++V+NYD+P A+ TY+HR+GR GRFG KG
Sbjct: 288 DFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKG 347
Query: 378 LAITFVSSASDSDILNQVQARF-EVDIKELP 407
+AI+FV + +IL+ +Q F ++++ +P
Sbjct: 348 VAISFVHDKNSFNILSAIQKYFGDIEMTRVP 378
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 186 bits (472), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 123/391 (31%), Positives = 208/391 (53%), Gaps = 29/391 (7%)
Query: 33 GIHSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILG--MDVICQAKSGMGKTAV 90
G + F + L PELL+ I F+ PS++Q +P + ++I Q++SG GKTA
Sbjct: 1 GAMAKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAA 60
Query: 91 FVLSTLQQTEPNPGQVTALVLCHTRELAYQ---ICHEFERFSTYLPDIKVAVFYGGVNIK 147
F L+ L + P A+ L +RELA Q + E +F+ + V + N +
Sbjct: 61 FSLTMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEK-NKQ 119
Query: 148 IHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIF 207
I+ Q++VGTPG +L L R K + L+ ++ F+LDE D ML+ + +
Sbjct: 120 IN--------AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVK 171
Query: 208 KMTPHDKQVMMFSATLSKEIRPVCKKFM--QDPMEIYVDDEAKLTLHGLVQHYIKL-SEL 264
+ P D Q+++FSAT + +R KK + + +E+ ++ + + + Q Y+ +E
Sbjct: 172 RFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNE---VNVDAIKQLYMDCKNEA 228
Query: 265 EKNRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIHSGMSQEERLTRYK 323
+K L +L + +IFV + A L KL E + SI +H + +ER
Sbjct: 229 DKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LHGDLQTQERDRLID 287
Query: 324 GFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFGTKG 377
F+EG ++L+ T+++ RGIDI V++V+NYD+P A+ TY+HR+GR GRFG KG
Sbjct: 288 DFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKG 347
Query: 378 LAITFVSSASDSDILNQVQARF-EVDIKELP 407
+AI+FV + +IL+ +Q F ++++ +P
Sbjct: 348 VAISFVHDKNSFNILSAIQKYFGDIEMTRVP 378
>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 = 180 bits (457), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 115/368 (31%), Positives = 195/368 (52%), Gaps = 18/368 (4%)
Query: 55 SGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP-----GQVTAL 109
SG++ P+ +Q IP G D++ A++G GKTA F+L L + +P G+ +
Sbjct: 74 SGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVV 133
Query: 110 VLCHTRELAYQICHEFERFS--TYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVGTPGR 167
++ TRELA QI +E +F+ +YL K+ + YGG + + + + C +V+ TPGR
Sbjct: 134 IVSPTRELAIQIFNEARKFAFESYL---KIGIVYGGTSFRHQNECITRGC-HVVIATPGR 189
Query: 168 ILALARDKDLSLKNVRHFILDECDKMLE---SLDMRRDVQEIFKMTPHDKQVMMFSATLS 224
+L ++ ++ R +LDE D+ML+ S DMRR + + M P + Q +MFSAT
Sbjct: 190 LLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHV-TMRP-EHQTLMFSATFP 247
Query: 225 KEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVI 284
+EI+ + +F+++ + + + + Q ++++ K KL ++L + ++
Sbjct: 248 EEIQRMAGEFLKNYVFVAIGIVGG-ACSDVKQTIYEVNKYAKRSKLIEILSE-QADGTIV 305
Query: 285 FVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGID 344
FV++ A L L E FP+ IH Q +R + FK G+ ++L+AT + RG+D
Sbjct: 306 FVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLD 365
Query: 345 IERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIK 404
I+ + VINYDMP D Y+HR+GR GR G G A +F D I + E +
Sbjct: 366 IKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVKILEGSGQ 425
Query: 405 ELPEQIDT 412
+P+ + T
Sbjct: 426 TVPDFLRT 433
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 177 bits (450), Expect = 7e-45, Method: Compositional matrix adjust.
Identities = 109/339 (32%), Positives = 179/339 (52%), Gaps = 14/339 (4%)
Query: 76 DVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDI 135
++I Q++SG GKTA F L+ L + + + + A+ L +RELA QI Y ++
Sbjct: 160 NMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELARQIMDVVTEMGKYT-EV 218
Query: 136 KVAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLE 195
K A G+ + K + QIV+GTPG ++ L + + L ++++ F+LDE D ML+
Sbjct: 219 KTAF---GIKDSVPKGAKID--AQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLD 273
Query: 196 SLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLV 255
+ I + P + Q+++FSAT S+ + ++F + EI + E +L++ G+
Sbjct: 274 QQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEIRLKTE-ELSVEGIK 332
Query: 256 QHYIKL-SELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMS 314
Q Y+ SE K L +L L Q +IF K A E+ + + C+ +
Sbjct: 333 QLYMDCQSEEHKYNVLVELYGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLE 392
Query: 315 QEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMP-DSA-----DTYLHRVG 368
+R F+ G ++LV T+++ RGID+ +VN+V+NYDMP D A TYLHR+G
Sbjct: 393 GAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIG 452
Query: 369 RAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELP 407
R GRFG G++I FV + +N +Q F+ I +P
Sbjct: 453 RTGRFGRVGVSINFVHDKKSWEEMNAIQEYFQRPITRVP 491
>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 = 115/340 (33%), Positives = 182/340 (53%), Gaps = 20/340 (5%)
Query: 44 LKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP 103
+ ++ +AI + GF++ +EVQ + IP + G +V+ +AK+G GKTA + + L+
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILELG---- 56
Query: 104 GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQIVVG 163
+ +LV+ TREL Q+ Y+ D KVA YGG+ K + ++N IVV
Sbjct: 57 --MKSLVVTPTRELTRQVASHIRDIGRYM-DTKVAEVYGGMPYKAQINRVRN--ADIVVA 111
Query: 164 TPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATL 223
TPGR+L L + L + I+DE D M E + D++ I T + K +FSAT+
Sbjct: 112 TPGRLLDLWSKGVIDLSSFEIVIIDEADLMFE-MGFIDDIKIILAQTSNRKITGLFSATI 170
Query: 224 SKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVV 283
+EIR V K F+ + EI EA + L + ++ + + + K+ L + D V+
Sbjct: 171 PEEIRKVVKDFITNYEEI----EACIGLANVEHKFVHVKD-DWRSKVQALRENKD-KGVI 224
Query: 284 IFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGI 343
+FV++ +R A+L +L +I + + Q R F+EG +L+ TD+ RG+
Sbjct: 225 VFVRTRNRVAKLVRLFDN----AIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGL 280
Query: 344 DIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFV 383
DI V VIN+D P TY+HR+GR GR G KG AITF+
Sbjct: 281 DIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFI 320
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 166 bits (419), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 124/407 (30%), Positives = 197/407 (48%), Gaps = 34/407 (8%)
Query: 35 HSSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLS 94
H F D + ++ I + + P+ VQ IP D++ A++G GKTA F+L
Sbjct: 13 HIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLP 72
Query: 95 TLQQTEPN-PGQV-----------------TALVLCHTRELAYQICHEFERFSTYLPDIK 136
L Q + PG+ +LVL TRELA QI E +FS Y ++
Sbjct: 73 ILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFS-YRSRVR 131
Query: 137 VAVFYGGVNIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLE- 195
V YGG +I L+ C ++V TPGR++ + + L ++ +LDE D+ML+
Sbjct: 132 PCVVYGGADIGQQIRDLERGC-HLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDM 190
Query: 196 --SLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHG 253
+RR V++ + MMFSAT KEI+ + + F+ + + + V T
Sbjct: 191 GFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVG-RVGSTSEN 249
Query: 254 LVQHYIKLSELEKNRKLNDLLDALDFNQV-VIFVKSVSRAAELNKLLVECNFPSICIHSG 312
+ Q + + E +K L DLL+A + + ++FV++ A L L + IH
Sbjct: 250 ITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGD 309
Query: 313 MSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGR 372
SQ +R F+ G ILVAT + RG+DI V VIN+D+P + Y+HR+GR GR
Sbjct: 310 RSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGR 369
Query: 373 FGTKGLAITFVSSAS---DSDILN-QVQARFEVDIKELPEQIDTSTY 415
G GLA +F + + D+L+ V+A+ +E+P ++ Y
Sbjct: 370 VGNLGLATSFFNERNINITKDLLDLLVEAK-----QEVPSWLENMAY 411
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 90/208 (43%), Positives = 115/208 (55%), Gaps = 2/208 (0%)
Query: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 98
F D LK LLR I GFE PS +Q I I G DVI QA+SG GKTA F +S LQQ
Sbjct: 32 FDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQ 91
Query: 99 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 158
E + ALVL TRELA QI Y+ A GG N++ L+ E P
Sbjct: 92 LEIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACI-GGTNVRNEMQKLQAEAP 150
Query: 159 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 218
IVVGTPGR+ + + LS K ++ F+LDE D+ML S + + EIF+ QV++
Sbjct: 151 HIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEML-SRGFKDQIYEIFQKLNTSIQVVL 209
Query: 219 FSATLSKEIRPVCKKFMQDPMEIYVDDE 246
SAT+ ++ V KKFM+DP+ I V E
Sbjct: 210 LSATMPTDVLEVTKKFMRDPIRILVKKE 237
>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAX|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
Length = 193
Score = 138 bits (348), Expect = 5e-33, Method: Compositional matrix adjust.
Identities = 77/181 (42%), Positives = 105/181 (58%), Gaps = 3/181 (1%)
Query: 236 QDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAEL 295
QDP EI + +E LTL G+ Q+Y ++E +K LN L L NQ +IF S R L
Sbjct: 3 QDPYEINLMEE--LTLKGVTQYYAYVTERQKVHCLNTLFSRLQINQSIIFCNSSQRVELL 60
Query: 296 NKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYD 355
K + + + IH+ M QE R + F+ G R LV TDL RGIDI+ VN+VIN+D
Sbjct: 61 AKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFD 120
Query: 356 MPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDTSTY 415
P A+TYLHR+GR+GRFG GLAI + + D L ++ + +IK +P ID S Y
Sbjct: 121 FPKLAETYLHRIGRSGRFGHLGLAINLI-TYDDRFNLKSIEEQLGTEIKPIPSNIDKSLY 179
Query: 416 M 416
+
Sbjct: 180 V 180
>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 = 137 bits (344), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 81/205 (39%), Positives = 107/205 (52%), Gaps = 2/205 (0%)
Query: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 98
F D L LLR I GFE PS +Q I I G DVI QA+SG G TA F +S LQQ
Sbjct: 17 FDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQ 76
Query: 99 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 158
E + ALVL TRELA QI Y+ GG N++ L+ E P
Sbjct: 77 IELDLXATQALVLAPTRELAQQIQXVVMALGDYM-GASCHACIGGTNVRAEVQXLQMEAP 135
Query: 159 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 218
I+VGTPGR+ + + LS + F+LDE D+ML S + +IF+ + QV++
Sbjct: 136 HIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEML-SRGFXDQIYDIFQXLNSNTQVVL 194
Query: 219 FSATLSKEIRPVCKKFMQDPMEIYV 243
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 (327), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 76/208 (36%), Positives = 111/208 (53%), Gaps = 8/208 (3%)
Query: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 98
F+DF LKPE+L A+ G P+ +Q +P A+ G D+I QA++G GKT F L ++
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 99 TEPNPG---QVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKN 155
P+ + ALVL TRELA Q+ E + P +KV YGG K+ L
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASE---LTAVAPHLKVVAVYGGTGYGKQKEALLR 119
Query: 156 ECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQ 215
VV TPGR L R L L V +LDE D+ML S+ +V+ + TP +Q
Sbjct: 120 GA-DAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEML-SMGFEEEVEALLSATPPSRQ 177
Query: 216 VMMFSATLSKEIRPVCKKFMQDPMEIYV 243
++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: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 98
F+DF LKPE+L A+ G P+ ++ +P A+ G D+I QA++G GKT F L ++
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 99 TEPNPG---QVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKN 155
P+ + ALVL TRELA Q+ E + P +KV YGG K+ L
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASE---LTAVAPHLKVVAVYGGTGYGKQKEALLR 119
Query: 156 ECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQ 215
VV TPGR L R L L V +LDE D+ML S+ +V+ + TP +Q
Sbjct: 120 GA-DAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEML-SMGFEEEVEALLSATPPSRQ 177
Query: 216 VMMFSATLSKEIRPVCKKFMQDPMEIYV 243
++FSATL + + +++M++P+ I V
Sbjct: 178 TLLFSATLPSWAKRLAERYMKNPVLINV 205
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 129 bits (323), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 77/205 (37%), Positives = 113/205 (55%), Gaps = 4/205 (1%)
Query: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 98
F D L +LLR + GFE PS +Q I I G DV+ QA+SG GKT F ++ LQ+
Sbjct: 23 FDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 99 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 158
+ + AL+L TRELA QI + ++ DIKV GG + + L++
Sbjct: 83 IDTSVKAPQALMLAPTRELALQIQKVVMALAFHM-DIKVHACIGGTSFVEDAEGLRD--A 139
Query: 159 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 218
QIVVGTPGR+ + + ++ FILDE D+ML S + + +IF + P QV++
Sbjct: 140 QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSS-GFKEQIYQIFTLLPPTTQVVL 198
Query: 219 FSATLSKEIRPVCKKFMQDPMEIYV 243
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 = 128 bits (322), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 80/214 (37%), Positives = 117/214 (54%), Gaps = 5/214 (2%)
Query: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 98
F D L LLR + GFE PS +Q I I G DV+ QA+SG GKT F ++ LQ+
Sbjct: 16 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 75
Query: 99 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 158
+ + AL+L TRELA QI + ++ DIKV GG + + L++
Sbjct: 76 IDTSVKAPQALMLAPTRELALQIQKVVMALAFHM-DIKVHACIGGTSFVEDAEGLRD--A 132
Query: 159 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 218
QIVVGTPGR+ + + ++ FILDE D+ML S + + +IF + P QV++
Sbjct: 133 QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSS-GFKEQIYQIFTLLPPTTQVVL 191
Query: 219 FSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLH 252
SAT+ ++ V KFM++P+ I V + +LTL
Sbjct: 192 LSATMPNDVLEVTTKFMRNPVRILVKKD-ELTLE 224
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 126 bits (316), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 67/206 (32%), Positives = 123/206 (59%), Gaps = 4/206 (1%)
Query: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 98
F+D + L A G+ P+++Q E IP A+ G D+I A++G GKT F L L
Sbjct: 45 FKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNA 104
Query: 99 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 158
P ++ ALVL TRELA+QI +FE + + ++ AV GG++ + + L + P
Sbjct: 105 LLETPQRLFALVLTPTRELAFQISEQFEALGSSI-GVQSAVIVGGID-SMSQSLALAKKP 162
Query: 159 QIVVGTPGRILA-LARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVM 217
I++ TPGR++ L K +L+ +++ ++DE D++L ++D +V +I K+ P D++
Sbjct: 163 HIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRIL-NMDFETEVDKILKVIPRDRKTF 221
Query: 218 MFSATLSKEIRPVCKKFMQDPMEIYV 243
+FSAT++K+++ + + +++P++ V
Sbjct: 222 LFSATMTKKVQKLQRAALKNPVKCAV 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 (306), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 66/204 (32%), Positives = 118/204 (57%), Gaps = 4/204 (1%)
Query: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 98
F D+ LK ELL I + G+E PS +Q E IP A+ G D++ +AK+G GK+ +++ L++
Sbjct: 5 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLER 64
Query: 99 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLK-NEC 157
+ + A+V+ TRELA Q+ + S ++ KV GG N++ D+++ ++
Sbjct: 65 LDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLR--DDIMRLDDT 122
Query: 158 PQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVM 217
+V+ TPGRIL L + + +V+ +LDE DK+L S D + +++I P ++Q++
Sbjct: 123 VHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLL-SQDFVQIMEDIILTLPKNRQIL 181
Query: 218 MFSATLSKEIRPVCKKFMQDPMEI 241
++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 = 114 bits (286), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 69/212 (32%), Positives = 114/212 (53%), Gaps = 7/212 (3%)
Query: 36 SSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLST 95
+ F F +P ++ AI F P+E+Q IP A+ G + Q+++G GKT ++L
Sbjct: 3 ETQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPI 62
Query: 96 LQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAV---FYGGVNIKIHKDL 152
++ +P +V A++ TRELA QI HE + + + P + V GG + + K L
Sbjct: 63 XEKIKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQ--KAL 120
Query: 153 LK-NECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTP 211
K N P IV+GTPGRI R++ L + ++DE D L+ DV +I P
Sbjct: 121 EKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDX-GFITDVDQIAARXP 179
Query: 212 HDKQVMMFSATLSKEIRPVCKKFMQDPMEIYV 243
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 (286), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 73/200 (36%), Positives = 100/200 (50%), Gaps = 2/200 (1%)
Query: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ 98
F LL +L + +GFE PS VQ + IP G+D+I QAKSG GKT VF L
Sbjct: 26 FESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDS 85
Query: 99 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 158
L+L TRE+A QI + ++ VF GG + K LK +C
Sbjct: 86 LVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLK-KC- 143
Query: 159 QIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMM 218
I VG+PGRI L L+ ++R FILDE DK+LE + + I+ P KQ++
Sbjct: 144 HIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLA 203
Query: 219 FSATLSKEIRPVCKKFMQDP 238
SAT + + K+M+DP
Sbjct: 204 VSATYPEFLANALTKYMRDP 223
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 111 bits (278), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 97/371 (26%), Positives = 175/371 (47%), Gaps = 32/371 (8%)
Query: 43 LLKPELLRAIVDSGFEHPSEVQHECIPQAILGM---DVICQAKSGMGKTAVFVLSTLQQ- 98
+L E+ +AI F + VQ + I + IL DVI +AK+G GKT F++ Q
Sbjct: 27 VLDKEIHKAITRMEFPGLTPVQQKTI-KPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL 85
Query: 99 ---TEPNPGQVTALVLCHTRELAYQICHEFERFSTY---LPDIKVAVFYGGVNIKIHKDL 152
+ V A+++ TR+LA QI E ++ L GG + + +
Sbjct: 86 INTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNK 145
Query: 153 LKNECPQIVVGTPGRIL-ALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKM-- 209
+ P IV+ TPGR++ L + + + V + +LDE D++LE + R D++ I +
Sbjct: 146 MNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLE-IGFRDDLETISGILN 204
Query: 210 -----TPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVD--DEAKLTLHGLVQHYIKLS 262
+ + + ++FSATL +++ + M +++D D+ + H + + +S
Sbjct: 205 EKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVIS 264
Query: 263 ELEKN------RKLNDLLDALDFN-QVVIFVKSVSRAAELNKLL---VECNFPSICIHSG 312
E N + + D N + +IF +V + L +L + + P + H
Sbjct: 265 EKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 324
Query: 313 MSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGR 372
++Q +R + K FK+ ILV TD+ RG+D V+ V+ +P Y+HR+GR R
Sbjct: 325 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 384
Query: 373 FGTKGLAITFV 383
G +G ++ F+
Sbjct: 385 SGKEGSSVLFI 395
>pdb|3I5X|A Chain A, Structure Of Mss116p Bound To Ssrna And Amp-Pnp
pdb|3I5Y|A Chain A, Structure Of Mss116p Bound To Ssrna Containing A Single
5-Bru And Amp- Pnp
pdb|3I61|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-beryllium
Fluoride
pdb|3I62|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-aluminum
Fluoride
Length = 563
Score = 111 bits (278), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 97/371 (26%), Positives = 176/371 (47%), Gaps = 32/371 (8%)
Query: 43 LLKPELLRAIVDSGFEHPSEVQHECIPQAILGM---DVICQAKSGMGKTAVFVLSTLQQ- 98
+L E+ +AI F + VQ + I + IL DVI +AK+G GKT F++ Q
Sbjct: 78 VLDKEIHKAITRMEFPGLTPVQQKTI-KPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL 136
Query: 99 ---TEPNPGQVTALVLCHTRELAYQICHEFER---FSTYLPDIKVAVFYGGVNIKIHKDL 152
+ V A+++ TR+LA QI E ++ + L GG + + +
Sbjct: 137 INTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNK 196
Query: 153 LKNECPQIVVGTPGRIL-ALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKM-- 209
+ P IV+ TPGR++ L + + + V + +LDE D++LE + R D++ I +
Sbjct: 197 MNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLE-IGFRDDLETISGILN 255
Query: 210 -----TPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVD--DEAKLTLHGLVQHYIKLS 262
+ + + ++FSATL +++ + M +++D D+ + H + + +S
Sbjct: 256 EKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVIS 315
Query: 263 ELEKN------RKLNDLLDALDFN-QVVIFVKSVSRAAELNKLL---VECNFPSICIHSG 312
E N + + D N + +IF +V + L +L + + P + H
Sbjct: 316 EKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 375
Query: 313 MSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGR 372
++Q +R + K FK+ ILV TD+ RG+D V+ V+ +P Y+HR+GR R
Sbjct: 376 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 435
Query: 373 FGTKGLAITFV 383
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 = 111 bits (277), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 97/371 (26%), Positives = 176/371 (47%), Gaps = 32/371 (8%)
Query: 43 LLKPELLRAIVDSGFEHPSEVQHECIPQAILGM---DVICQAKSGMGKTAVFVLSTLQQ- 98
+L E+ +AI F + VQ + I + IL DVI +AK+G GKT F++ Q
Sbjct: 27 VLDKEIHKAITRMEFPGLTPVQQKTI-KPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL 85
Query: 99 ---TEPNPGQVTALVLCHTRELAYQICHEFER---FSTYLPDIKVAVFYGGVNIKIHKDL 152
+ V A+++ TR+LA QI E ++ + L GG + + +
Sbjct: 86 INTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNK 145
Query: 153 LKNECPQIVVGTPGRIL-ALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKM-- 209
+ P IV+ TPGR++ L + + + V + +LDE D++LE + R D++ I +
Sbjct: 146 MNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLE-IGFRDDLETISGILN 204
Query: 210 -----TPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVD--DEAKLTLHGLVQHYIKLS 262
+ + + ++FSATL +++ + M +++D D+ + H + + +S
Sbjct: 205 EKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVIS 264
Query: 263 ELEKN------RKLNDLLDALDFN-QVVIFVKSVSRAAELNKLL---VECNFPSICIHSG 312
E N + + D N + +IF +V + L +L + + P + H
Sbjct: 265 EKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 324
Query: 313 MSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGR 372
++Q +R + K FK+ ILV TD+ RG+D V+ V+ +P Y+HR+GR R
Sbjct: 325 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 384
Query: 373 FGTKGLAITFV 383
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 = 110/212 (51%), Gaps = 7/212 (3%)
Query: 38 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAIL--GMDVICQAKSGMGKTAVFVLST 95
F + LKP+LL+ + GF PS++Q +P + ++I Q++SG GKTA FVL+
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 152
Query: 96 LQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKN 155
L Q EP L L T ELA Q E+ + P++K+A G ++ + +
Sbjct: 153 LSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI--- 209
Query: 156 ECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDK 214
QIV+GTPG +L ++ K + K ++ F+LDE D M+ + + I +M P +
Sbjct: 210 -SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 268
Query: 215 QVMMFSATLSKEIRPVCKKFMQDPMEIYVDDE 246
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 = 110 bits (274), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 68/212 (32%), Positives = 111/212 (52%), Gaps = 7/212 (3%)
Query: 38 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAIL--GMDVICQAKSGMGKTAVFVLST 95
F + LKP+LL+ + GF PS++Q +P + ++I Q++SG GKTA FVL+
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 85
Query: 96 LQQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKN 155
L Q EP L L T ELA Q E+ + P++K+A G ++ + + +
Sbjct: 86 LSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISE- 144
Query: 156 ECPQIVVGTPGRILAL-ARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDK 214
QIV+GTPG +L ++ K + K ++ F+LDE D M+ + + I +M P +
Sbjct: 145 ---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 201
Query: 215 QVMMFSATLSKEIRPVCKKFMQDPMEIYVDDE 246
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 = 107 bits (267), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 61/159 (38%), Positives = 87/159 (54%), Gaps = 9/159 (5%)
Query: 247 AKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPS 306
A LT + I++ E K L D+L + + +IF ++ +L L + +P
Sbjct: 3 AGLTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPC 62
Query: 307 ICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHR 366
IH GM QE+R FK G R LVATD+ RGIDIE +++VINYD+P ++Y+HR
Sbjct: 63 DKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHR 122
Query: 367 VGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKE 405
GR GR G KG AI+FV++ + RF DI+E
Sbjct: 123 TGRTGRAGNKGKAISFVTA---------FEKRFLADIEE 152
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 103 bits (258), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 64/205 (31%), Positives = 105/205 (51%), Gaps = 14/205 (6%)
Query: 36 SSGFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILG--MDVICQAKSGMGKTAVFVL 93
+ F + L PELL+ I F+ PS++Q +P + ++I Q++SG GKTA F L
Sbjct: 21 AKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL 80
Query: 94 STLQQTEPNPGQVTALVLCHTRELAYQ---ICHEFERFSTYLPDIKVAVFYGGVNIKIHK 150
+ L + P A+ L +RELA Q + E +F+ + V + N +I+
Sbjct: 81 TMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEK-NKQINA 139
Query: 151 DLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMT 210
Q++VGTPG +L L R K + L+ ++ F+LDE D ML+ + + +
Sbjct: 140 --------QVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL 191
Query: 211 PHDKQVMMFSATLSKEIRPVCKKFM 235
P D Q+++FSAT + +R KK +
Sbjct: 192 PKDTQLVLFSATFADAVRQYAKKIV 216
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 102 bits (254), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 67/163 (41%), Positives = 101/163 (61%), Gaps = 2/163 (1%)
Query: 251 LHGLVQHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICI 309
L G+ Q Y+ + E E K L DL D++ Q VIF + + EL L F I
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 310 HSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 369
+S + Q+ER T K F+ G+ RIL++TDL+ RGID+++V++VINYD+P + + Y+HR+GR
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 120
Query: 370 AGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDT 412
GRFG KG+AI FV++ D + +++ + I+ELP I T
Sbjct: 121 GGRFGRKGVAINFVTN-EDVGAMRELEKFYSTQIEELPSDIAT 162
>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain
pdb|2P6N|B Chain B, Human Dead-box Rna Helicase Ddx41, Helicase Domain
Length = 191
Score = 97.4 bits (241), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 44/116 (37%), Positives = 70/116 (60%)
Query: 282 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 341
V+IF + + +++ L+ ++ IH G QEER + F+EG K +LVATD+ +
Sbjct: 57 VLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASK 116
Query: 342 GIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQA 397
G+D + VINYDMP+ + Y+HR+GR G G G+A TF++ A D +L ++A
Sbjct: 117 GLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFINKACDESVLMDLKA 172
>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 = 97.4 bits (241), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 63/213 (29%), Positives = 112/213 (52%), Gaps = 13/213 (6%)
Query: 39 FRD-FLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQ 97
F+D F P+LL++I+ G P+ +Q + P + G+D+I A++G GKT +++
Sbjct: 21 FKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFI 80
Query: 98 QTEPNP------GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIH-K 150
+ P LVL TRELA + E ++S +K YGG N +
Sbjct: 81 HLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYS--YKGLKSICIYGGRNRNGQIE 138
Query: 151 DLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMT 210
D+ K I++ TPGR+ L + ++L+++ + ++DE DKML+ ++ +++I
Sbjct: 139 DISKGV--DIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLD-MEFEPQIRKILLDV 195
Query: 211 PHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYV 243
D+Q +M SAT +R + +++DPM +YV
Sbjct: 196 RPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>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 = 97.4 bits (241), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 61/212 (28%), Positives = 108/212 (50%), Gaps = 14/212 (6%)
Query: 38 GFRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTL- 96
F + L P + I+ + ++ P+ +Q IP + D++ A++G GKTA F++ +
Sbjct: 24 NFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIIN 83
Query: 97 --------QQTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKI 148
QQ L+L TRELA QI E ++FS P ++ V YGG +
Sbjct: 84 HLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTP-LRSCVVYGGADTHS 142
Query: 149 HKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECDKMLE---SLDMRRDVQE 205
++ C ++V TPGR++ +SL+ ++ +LDE D+ML+ +R+ ++E
Sbjct: 143 QIREVQMGC-HLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEE 201
Query: 206 IFKMTPHDKQVMMFSATLSKEIRPVCKKFMQD 237
+ ++Q +MFSAT KEI+ + F+ +
Sbjct: 202 SNMPSGINRQTLMFSATFPKEIQKLAADFLYN 233
>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 = 95.1 bits (235), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 63/165 (38%), Positives = 85/165 (51%), Gaps = 3/165 (1%)
Query: 256 QHYIKLSELE-KNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMS 314
Q Y + +LE K L LL + + ++FV+ R EL L E + + M
Sbjct: 6 QWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMV 65
Query: 315 QEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFG 374
Q +R K EG +LVATD+ RGIDI V+ V N+DMP S DTYLHR+GR R G
Sbjct: 66 QGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAG 125
Query: 375 TKGLAITFVSSASDSDILNQVQARFEVDIK-ELPEQIDTSTYMPS 418
KG AI+ V A D +L +V E IK + +++ T PS
Sbjct: 126 RKGTAISLV-EAHDHLLLGKVGRYIEEPIKARVIDELRPKTRAPS 169
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 92.0 bits (227), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 55/154 (35%), Positives = 90/154 (58%), Gaps = 9/154 (5%)
Query: 262 SELEKNRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIHSGMSQEERLT 320
+E +K L +L + +IFV + A L KL E + SI +H + +ER
Sbjct: 18 NEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LHGDLQTQERDR 76
Query: 321 RYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFG 374
F+EG ++L+ T+++ RGIDI V++V+NYD+P A+ TY+HR+GR GRFG
Sbjct: 77 LIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFG 136
Query: 375 TKGLAITFVSSASDSDILNQVQARF-EVDIKELP 407
KG+AI+FV + +IL+ +Q F ++++ +P
Sbjct: 137 RKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVP 170
>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
H337r And Ip6
pdb|3PEV|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
And Ip6
Length = 188
Score = 89.0 bits (219), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 54/145 (37%), Positives = 82/145 (56%), Gaps = 8/145 (5%)
Query: 262 SELEKNRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIHSGMSQEERLT 320
+E +K L +L +IFV + A L KL E + SI +H + +ER
Sbjct: 19 NEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LHGDLQTQERDR 77
Query: 321 RYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFG 374
F+EG ++L+ T+++ RGIDI V+ V+NYD+P A+ TY+HR+GR GRFG
Sbjct: 78 LIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFG 137
Query: 375 TKGLAITFVSSASDSDILNQVQARF 399
KG+AI+FV + +IL+ +Q F
Sbjct: 138 RKGVAISFVHDKNSFNILSAIQKYF 162
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 89.0 bits (219), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 51/166 (30%), Positives = 94/166 (56%), Gaps = 10/166 (6%)
Query: 249 LTLHGLVQHYIKLSELEKNR--KLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPS 306
LTL+ + Q+Y+ L E K++ L ++ ++ Q +IF ++ A L +++
Sbjct: 3 LTLNNIRQYYV-LCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQV 61
Query: 307 ICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMP------DSA 360
+ ++ E+R + + F++G +++L+ T++ RGID+++V IV+N+D+P
Sbjct: 62 SLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDY 121
Query: 361 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKEL 406
+TYLHR+GR GRFG KGLA + + L ++Q F IK+L
Sbjct: 122 ETYLHRIGRTGRFGKKGLAFNMI-EVDELPSLMKIQDHFNSSIKQL 166
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 88.6 bits (218), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 54/145 (37%), Positives = 82/145 (56%), Gaps = 8/145 (5%)
Query: 262 SELEKNRKLNDLLDALDFNQVVIFVKSVSRAAEL-NKLLVECNFPSICIHSGMSQEERLT 320
+E +K L +L +IFV + A L KL E + SI +H + +ER
Sbjct: 20 NEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHEVSI-LHGDLQTQERDR 78
Query: 321 RYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD------TYLHRVGRAGRFG 374
F+EG ++L+ T+++ RGIDI V+ V+NYD+P A+ TY+HR+GR GRFG
Sbjct: 79 LIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFG 138
Query: 375 TKGLAITFVSSASDSDILNQVQARF 399
KG+AI+FV + +IL+ +Q F
Sbjct: 139 RKGVAISFVHDKNSFNILSAIQKYF 163
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 87.0 bits (214), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 59/216 (27%), Positives = 113/216 (52%), Gaps = 13/216 (6%)
Query: 39 FRDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQ- 97
F DF L + L+ + ++ + +E+Q + I A+ G DV+ AK+G GKT F++ L+
Sbjct: 27 FSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEA 86
Query: 98 ----QTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLL 153
Q G + L++ TRELAYQ + D + GG ++K + +
Sbjct: 87 LYRLQWTSTDG-LGVLIISPTRELAYQTFEVLRKVGKN-HDFSAGLIIGGKDLKHEAERI 144
Query: 154 KNECPQIVVGTPGRILALARDKDLSL--KNVRHFILDECDKMLESLDMRRDVQEIFKMTP 211
N I+V TPGR+L D+ +S +++ +LDE D++L+ + + + + P
Sbjct: 145 NN--INILVCTPGRLLQ-HMDETVSFHATDLQMLVLDEADRILD-MGFADTMNAVIENLP 200
Query: 212 HDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEA 247
+Q ++FSAT +K ++ + + +++P ++V ++A
Sbjct: 201 KKRQTLLFSATQTKSVKDLARLSLKNPEYVWVHEKA 236
>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 = 48/136 (35%), Positives = 71/136 (52%), Gaps = 1/136 (0%)
Query: 250 TLHGLVQHYIKLSELEKNRKLNDLLDALDFNQV-VIFVKSVSRAAELNKLLVECNFPSIC 308
T + Q + + E +K L DLL+A + + ++FV++ A L L +
Sbjct: 16 TSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTS 75
Query: 309 IHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVG 368
IH SQ +R F+ G ILVAT + RG+DI V VIN+D+P + Y+HR+G
Sbjct: 76 IHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIG 135
Query: 369 RAGRFGTKGLAITFVS 384
R GR G GLA +F +
Sbjct: 136 RTGRVGNLGLATSFFN 151
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 84.3 bits (207), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 57/196 (29%), Positives = 101/196 (51%), Gaps = 10/196 (5%)
Query: 43 LLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQ----- 97
L+ L+AI + GF + +E+QH+ I + G D++ AK+G GKT F++ ++
Sbjct: 60 LVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKL 119
Query: 98 QTEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNEC 157
+ P G L+L TRELA Q + T+ + GG N L N
Sbjct: 120 RFMPRNG-TGVLILSPTRELAMQTFGVLKELMTHHVH-TYGLIMGGSNRSAEAQKLGNGI 177
Query: 158 PQIVVGTPGRIL-ALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQV 216
I+V TPGR+L + KN++ ++DE D++L+ + ++++I K+ P +Q
Sbjct: 178 -NIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILD-VGFEEELKQIIKLLPTRRQT 235
Query: 217 MMFSATLSKEIRPVCK 232
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: 48 LLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP---- 103
++ I F P+ +Q + P A+ G+D++ A++G GKT ++L + P
Sbjct: 40 VMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLER 99
Query: 104 --GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIH-KDLLKNECPQI 160
G + LVL TRELA Q+ + +K YGG +DL + +I
Sbjct: 100 GDGPI-CLVLAPTRELAQQVQQVAAEYCRAC-RLKSTCIYGGAPKGPQIRDLERGV--EI 155
Query: 161 VVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFS 220
+ TPGR++ +L+ + +LDE D+ML+ + +++I D+Q +M+S
Sbjct: 156 CIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLD-MGFEPQIRKIVDQIRPDRQTLMWS 214
Query: 221 ATLSKEIRPVCKKFMQDPMEIYV 243
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 = 82.8 bits (203), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 56/203 (27%), Positives = 100/203 (49%), Gaps = 12/203 (5%)
Query: 48 LLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNP---- 103
++ I F P+ +Q + P A+ G+D++ A++G GKT ++L + P
Sbjct: 54 VMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLER 113
Query: 104 --GQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIH-KDLLKNECPQI 160
G + LVL TRELA Q+ + +K YGG +DL + +I
Sbjct: 114 GDGPI-CLVLAPTRELAQQVQQVAAEYCRAC-RLKSTCIYGGAPKGPQIRDLERGV--EI 169
Query: 161 VVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFS 220
+ TPGR++ +L+ + +LDE D+ML+ + +++I D+Q +M+S
Sbjct: 170 CIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLD-MGFEPQIRKIVDQIRPDRQTLMWS 228
Query: 221 ATLSKEIRPVCKKFMQDPMEIYV 243
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: 40 RDFLLKPELLRAIVDSGFEHPSEVQHECIPQAILGMDVICQAKSGMGKTAVFVLSTLQQ- 98
+++ + LL+ I+D+GF+ P+ +Q + IP + G +++ A +G GKT F + L Q
Sbjct: 32 QEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQL 91
Query: 99 TEPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLL--KNE 156
+P AL++ TRELA QI E IK++ G IHK + K
Sbjct: 92 KQPANKGFRALIISPTRELASQIHREL---------IKISEGTGFRIHMIHKAAVAAKKF 142
Query: 157 CPQ------IVVGTPGRILALARDK--DLSLKNVRHFILDECDKMLE--SLDMRRDVQEI 206
P+ I+V TP R++ L + + L +V ++DE DK+ E R + I
Sbjct: 143 GPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASI 202
Query: 207 F-KMTPHDKQVMMFSATLSKEIRPVCK 232
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 = 5e-15, Method: Compositional matrix adjust.
Identities = 35/96 (36%), Positives = 59/96 (61%)
Query: 270 LNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGN 329
L+DLL ++ ++F ++ + E+ + L+ P+ +H MSQ ER F++G
Sbjct: 19 LSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGE 78
Query: 330 KRILVATDLVGRGIDIERVNIVINYDMPDSADTYLH 365
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 = 5e-14, Method: Compositional matrix adjust.
Identities = 33/96 (34%), Positives = 59/96 (61%)
Query: 270 LNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGN 329
L+DLL ++ ++F ++ + E+ + L+ P+ +H +SQ ER F++G
Sbjct: 22 LSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGE 81
Query: 330 KRILVATDLVGRGIDIERVNIVINYDMPDSADTYLH 365
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 = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 56/106 (52%), Gaps = 3/106 (2%)
Query: 281 QVVIFVKSVSRAAELNKLL---VECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 337
+ +IF +V + L +L + + P + H ++Q +R + K FK+ ILV TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 338 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFV 383
+ RG+D V+ V+ +P Y+HR+GR R G +G ++ F+
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 140
>pdb|4DB2|C Chain C, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|D Chain D, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 56/106 (52%), Gaps = 3/106 (2%)
Query: 281 QVVIFVKSVSRAAELNKLL---VECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 337
+ +IF +V + L +L + + P + H ++Q +R + K FK+ ILV TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 338 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFV 383
+ RG+D V+ V+ +P Y+HR+GR R G +G ++ F+
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 140
>pdb|4DB2|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 56/106 (52%), Gaps = 3/106 (2%)
Query: 281 QVVIFVKSVSRAAELNKLL---VECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATD 337
+ +IF +V + L +L + + P + H ++Q +R + K FK+ ILV TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 338 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFV 383
+ 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: 283 VIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRG 342
+I+ S ++ + L + H+G+ R + F+ + +I+VAT G G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMG 299
Query: 343 IDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSA 386
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: 283 VIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRG 342
+I+ S ++ + L + H+G+ R + F+ + +I+VAT G G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXG 299
Query: 343 IDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSA 386
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 = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 89/340 (26%), Positives = 140/340 (41%), Gaps = 54/340 (15%)
Query: 75 MDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQ-ICHEFERFSTYLP 133
M+ + Q G GKT V L+ L E G TA + T LA Q E FS +
Sbjct: 390 MNRLLQGDVGSGKTVVAQLAILDNYEA--GFQTAF-MVPTSILAIQHYRRTVESFSKF-- 444
Query: 134 DIKVAVFYGGVNIKIHKDL---LKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDEC 190
+I VA+ G + + L+N +V+GT I +D+ KN+ I+DE
Sbjct: 445 NIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTHALI-----QEDVHFKNLGLVIIDEQ 499
Query: 191 D----KMLESLDMRRDVQEIFKM--TPHDKQVMM-----FSATLSKEIRPVCKKF--MQD 237
K E+L + + + M TP + + + T+ E+ P K+ M
Sbjct: 500 HRFGVKQREALMNKGKMVDTLVMSATPIPRSMALAFYGDLDVTVIDEMPPGRKEVQTMLV 559
Query: 238 PM----EIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAA 293
PM E+Y ++ G Q +I +E++ KLN V A
Sbjct: 560 PMDRVNEVYEFVRQEVMRGG--QAFIVYPLIEESDKLN-----------------VKSAV 600
Query: 294 ELNKLLVECNFPSI---CIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNI 350
E+ + L + FP +H +SQEE+ F EG ILV+T ++ GID+ R N+
Sbjct: 601 EMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANV 660
Query: 351 VINYDMPDSADTYLHRV-GRAGRFGTKGLAITFVSSASDS 389
++ + 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: 259 IKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEER 318
I + K RKL ++L+ ++++IF + ++K+ + P+I + S+EER
Sbjct: 329 IAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVFL---IPAITHRT--SREER 383
Query: 319 LTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 369
+GF+ G R +V++ ++ GID+ N+ + SA Y+ R+GR
Sbjct: 384 EEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 434
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 45.1 bits (105), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 58/111 (52%), Gaps = 5/111 (4%)
Query: 259 IKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEER 318
I + K RKL ++L+ ++++IF + ++K+ + P+I + S+EER
Sbjct: 94 IAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVFL---IPAITHRT--SREER 148
Query: 319 LTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 369
+GF+ G R +V++ ++ GID+ N+ + SA Y+ R+GR
Sbjct: 149 EEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 199
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 45.1 bits (105), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 37/73 (50%)
Query: 310 HSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGR 369
H+ + E++ T ++ + +++VAT G GID V VI++ M S + Y GR
Sbjct: 298 HANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGR 357
Query: 370 AGRFGTKGLAITF 382
AGR K I +
Sbjct: 358 AGRDDMKADCILY 370
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 41/175 (23%), Positives = 79/175 (45%), Gaps = 24/175 (13%)
Query: 263 ELEKNRKLNDLL----DALDFN---QVVIFVKSVSRAAELNKLLVE---CNF--PSICIH 310
E +N KL +L+ DA +N + ++F K+ + + L K + E N+ P + +
Sbjct: 608 ETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMG 667
Query: 311 SGM----------SQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 360
G SQ+ L +K K+ R+L+AT + GIDI + N+V+ Y+ +
Sbjct: 668 RGRRDQTTGMTLPSQKGVLDAFKTSKDN--RLLIATSVADEGIDIVQCNLVVLYEYSGNV 725
Query: 361 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDTSTY 415
+ GR G+K + +T + +++ N+ + E ++ D T+
Sbjct: 726 TKMIQVRGRGRAAGSKCILVTSKTEVVENEKCNRYKEEMMNKAVEKIQKWDEETF 780
>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 = 0.003, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 33/61 (54%)
Query: 312 GMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAG 371
G+SQ E+ F G +LVAT + G+D+ V++V+ Y+ SA + R GR G
Sbjct: 402 GLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTG 461
Query: 372 R 372
R
Sbjct: 462 R 462
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 41/175 (23%), Positives = 79/175 (45%), Gaps = 24/175 (13%)
Query: 263 ELEKNRKLNDLL----DALDFN---QVVIFVKSVSRAAELNKLLVE---CNF--PSICIH 310
E +N KL +L+ DA +N + ++F K+ + + L K + E N+ P + +
Sbjct: 367 ETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMG 426
Query: 311 SGM----------SQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 360
G SQ+ L +K K+ R+L+AT + GIDI + N+V+ Y+ +
Sbjct: 427 RGRRDQTTGMTLPSQKGVLDAFKTSKDN--RLLIATSVADEGIDIVQCNLVVLYEYSGNV 484
Query: 361 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDTSTY 415
+ GR G+K + +T + +++ N+ + E ++ D T+
Sbjct: 485 TKMIQVRGRGRAAGSKCILVTSKTEVVENEKCNRYKEEMMNKAVEKIQKWDEETF 539
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 41/175 (23%), Positives = 79/175 (45%), Gaps = 24/175 (13%)
Query: 263 ELEKNRKLNDLL----DALDFN---QVVIFVKSVSRAAELNKLLVE---CNF--PSICIH 310
E +N KL +L+ DA +N + ++F K+ + + L K + E N+ P + +
Sbjct: 608 ETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMG 667
Query: 311 SGM----------SQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSA 360
G SQ+ L +K K+ R+L+AT + GIDI + N+V+ Y+ +
Sbjct: 668 RGRRDQTTGMTLPSQKGVLDAFKTSKDN--RLLIATSVADEGIDIVQCNLVVLYEYSGNV 725
Query: 361 DTYLHRVGRAGRFGTKGLAITFVSSASDSDILNQVQARFEVDIKELPEQIDTSTY 415
+ GR G+K + +T + +++ N+ + E ++ D T+
Sbjct: 726 TKMIQVRGRGRAAGSKCILVTSKTEVVENEKCNRYKEEMMNKAVEKIQKWDEETF 780
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 46/102 (45%), Gaps = 14/102 (13%)
Query: 283 VIFVKSVSRAAELNKLLVEC-NFPSICI---------HSG----MSQEERLTRYKGFKEG 328
+IF K+ A L++ + E F + + HS M+Q E+ F+ G
Sbjct: 404 IIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTG 463
Query: 329 NKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRA 370
+L+AT + G+DI+ NIVI Y + + + GRA
Sbjct: 464 KINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARGRA 505
>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: 240 EIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLL 299
E+ V D +LT ++ H + E N + D + N + SVSR E+ L
Sbjct: 294 EVEVRDYKRLTPISVLDHAL---ESLDNLRPGDCIVCFSKNDIY----SVSRQIEIRGL- 345
Query: 300 VECNFPSICIHSGMSQEERLTRYKGFKEGNK--RILVATDLVGRGIDIERVNIVINYDM- 356
S I+ + +L + K F + N +ILVATD +G G+++ + +I Y +
Sbjct: 346 -----ESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGLNLS-IRRIIFYSLI 399
Query: 357 -------------PDSADTYLHRVGRAGRFGTK 376
P + L GRAGRF ++
Sbjct: 400 KPSINEKGERELEPITTSQALQIAGRAGRFSSR 432
>pdb|3RC3|A Chain A, Human Mitochondrial Helicase Suv3
Length = 677
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 40/153 (26%), Positives = 65/153 (42%), Gaps = 30/153 (19%)
Query: 240 EIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLL 299
E+ V D +LT ++ H + E N + D + N + SVSR E+ L
Sbjct: 294 EVEVRDYKRLTPISVLDHAL---ESLDNLRPGDCIVCFSKNDIY----SVSRQIEIRGL- 345
Query: 300 VECNFPSICIHSGMSQEERLTRYKGFKEGNK--RILVATDLVGRGIDIERVNIVINYDM- 356
S I+ + +L + K F + N +ILVATD +G G+++ + +I Y +
Sbjct: 346 -----ESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGXGLNLS-IRRIIFYSLI 399
Query: 357 -------------PDSADTYLHRVGRAGRFGTK 376
P + L GRAGRF ++
Sbjct: 400 KPSINEKGERELEPITTSQALQIAGRAGRFSSR 432
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 44/94 (46%), Gaps = 1/94 (1%)
Query: 310 HSGMSQEERLTRYKGFK-EGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVG 368
++GM+ + FK G+ IL+AT + GIDI + N+VI Y+ + + G
Sbjct: 432 NTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRG 491
Query: 369 RAGRFGTKGLAITFVSSASDSDILNQVQARFEVD 402
R G+K +T + + + +N + + D
Sbjct: 492 RGRARGSKCFLLTSNAGVIEKEQINMYKEKMMND 525
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 44/94 (46%), Gaps = 1/94 (1%)
Query: 310 HSGMSQEERLTRYKGFK-EGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVG 368
++GM+ + FK G+ IL+AT + GIDI + N+VI Y+ + + G
Sbjct: 441 NTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRG 500
Query: 369 RAGRFGTKGLAITFVSSASDSDILNQVQARFEVD 402
R G+K +T + + + +N + + D
Sbjct: 501 RGRARGSKCFLLTSNAGVIEKEQINMYKEKMMND 534
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 44/94 (46%), Gaps = 1/94 (1%)
Query: 310 HSGMSQEERLTRYKGFK-EGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVG 368
++GM+ + FK G+ IL+AT + GIDI + N+VI Y+ + + G
Sbjct: 440 NTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRG 499
Query: 369 RAGRFGTKGLAITFVSSASDSDILNQVQARFEVD 402
R G+K +T + + + +N + + D
Sbjct: 500 RGRARGSKCFLLTSNAGVIEKEQINMYKEKMMND 533
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 44/102 (43%), Gaps = 10/102 (9%)
Query: 293 AELNKLLVECNFPSICIH-SGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 351
E+++ L EC H +G+ +R F+ GN +++VAT + G+++ ++
Sbjct: 285 GEMSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVI 344
Query: 352 I-------NYDMPDSADTYLHRVGRAGRFGT--KGLAITFVS 384
+ Y Y GRAGR G +G AI V
Sbjct: 345 VRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVG 386
>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 = 35.8 bits (81), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 55/119 (46%), Gaps = 12/119 (10%)
Query: 148 IHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVRHFILDECD-KMLESLDMRRDV--- 203
+D+ + E I+ T +++A R L F L C +M+ S D R D+
Sbjct: 7 FERDVQELEREGILFTTLEKLVAWGRSNSLWPAT---FGLACCAIEMMASTDARNDLARF 63
Query: 204 -QEIFKMTPHDKQVMMFSATLSKEIRPVCKKF---MQDPMEIYVDDEAKLTLHGLVQHY 258
E+F+ +P VM+ + LSK++ PV ++ M DP + + A + G+ +Y
Sbjct: 64 GSEVFRASPRQADVMIVAGRLSKKMAPVMRRVWEQMPDPKWV-ISMGACASSGGMFNNY 121
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 35.0 bits (79), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 33/139 (23%), Positives = 62/139 (44%), Gaps = 26/139 (18%)
Query: 268 RKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIH-SGMSQEERLTRYKGFK 326
R LN+L D+L+ N N+ L + + H +G+ ++ER+ + F+
Sbjct: 271 RALNELADSLEENPT-------------NEKLAKAIRGGVAFHHAGLGRDERVLVEENFR 317
Query: 327 EGNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRV---------GRAGR--FGT 375
+G + +VAT + GI+ ++I D+ +D + R+ GRAGR +
Sbjct: 318 KGIIKAVVATPTLSAGINTPAFRVIIR-DIWRYSDFGMERIPIIEVHQMLGRAGRPKYDE 376
Query: 376 KGLAITFVSSASDSDILNQ 394
G I +S +++N
Sbjct: 377 VGEGIIVSTSDDPREVMNH 395
>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 = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 76/312 (24%), Positives = 128/312 (41%), Gaps = 29/312 (9%)
Query: 67 CIPQAILGMDVICQAKSGMGKTAVFVLSTLQQTEPNPGQVTALVLCHTRELAYQICHEF- 125
C P L MD + G GKT V + + + N QV VL T LA Q F
Sbjct: 620 CQP---LAMDRLVCGDVGFGKTEVAMRAAFLAVD-NHKQVA--VLVPTTLLAQQHYDNFR 673
Query: 126 ERFSTYLPDIKVAVFYGGV--NIKIHKDLLKNECPQIVVGTPGRILALARDKDLSLKNVR 183
+RF+ + I++ + +I ++ + + I++GT + + + KDL L
Sbjct: 674 DRFANWPVRIEMISRFRSAKEQTQILAEVAEGKI-DILIGTHKLLQSDVKFKDLGL---- 728
Query: 184 HFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYV 243
I+DE + +R +E K + ++ +AT + M+D I
Sbjct: 729 -LIVDEEHR----FGVRH--KERIKAMRANVDILTLTATPIPRTLNMAMSGMRDLSIIAT 781
Query: 244 DDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDALDFNQVVIFVKSVSRAAE-LNKLLVEC 302
+L + V+ Y + + + L ++L + V+++ +AAE L +L+ E
Sbjct: 782 PPARRLAVKTFVREYDSM--VVREAILREILRGGQVYYLYNDVENIQKAAERLAELVPEA 839
Query: 303 NFPSICIHSGMSQEERLTR-YKGFKEGNKRILVATDLVGRGIDIERVNIVINYDMPDSAD 361
I I G +E L R F +LV T ++ GIDI N +I
Sbjct: 840 R---IAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGL 896
Query: 362 TYLHRV-GRAGR 372
LH++ GR GR
Sbjct: 897 AQLHQLRGRVGR 908
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 292 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 351
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 352 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 389
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 = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 292 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 351
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 457 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 516
Query: 352 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 389
D S + + +GRA R G I + + + S
Sbjct: 517 AILDADKEGFLRSERSLIQTIGRAAR-NANGHVIMYADTITKS 558
>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 = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 292 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 351
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 352 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 389
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 = 33.5 bits (75), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 292 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 351
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 458 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
Query: 352 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 389
D S + + +GRA R G I + + + S
Sbjct: 518 AILDADKEGFLRSERSLIQTIGRAAR-NANGHVIMYADTITKS 559
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 33.5 bits (75), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 44/103 (42%), Gaps = 6/103 (5%)
Query: 292 AAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDIERVNIV 351
A +L L E +HS + ER+ + + G +LV +L+ G+DI V++V
Sbjct: 483 AEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 542
Query: 352 INYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 389
D S + + +GRA R G I + + + S
Sbjct: 543 AILDADKEGFLRSERSLIQTIGRAAR-NANGHVIMYADTITKS 584
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 45/200 (22%), Positives = 86/200 (43%), Gaps = 12/200 (6%)
Query: 41 DFLLKPELLRAIVDSGFEHPSEVQHECIPQAIL-GMDVICQAKSGMGKTAVFVLSTLQQT 99
D L ++ I G + + Q E + + +L G ++ + +G GKT + + +
Sbjct: 12 DLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFL 71
Query: 100 EPNPGQVTALVLCHTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECPQ 159
N G+ A+ + R L + F+ + L KVA+ G + LKN
Sbjct: 72 LKNGGK--AIYVTPLRALTNEKYLTFKDWE--LIGFKVAMTSG--DYDTDDAWLKNY--D 123
Query: 160 IVVGTPGRILALARDKDLSLKNVRHFILDECDKMLESLDMRRDVQEIFKMTPHDKQVMMF 219
I++ T ++ +L R + L V +F+LDE + + R V E + + ++
Sbjct: 124 IIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDP--ERGPVVESVTIRAKRRNLLAL 181
Query: 220 SATLSKEIRPVCKKFMQDPM 239
SAT+S + + K +P+
Sbjct: 182 SATISN-YKQIAKWLGAEPV 200
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 32.7 bits (73), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 34/70 (48%), Gaps = 5/70 (7%)
Query: 328 GNKRILVATDLVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSAS 387
G+ IL+AT + GIDI N+VI Y+ + + GR +K +T S
Sbjct: 451 GDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGRGRARDSKCFLLT-----S 505
Query: 388 DSDILNQVQA 397
+D++ + +A
Sbjct: 506 SADVIEKEKA 515
>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 = 0.78, Method: Compositional matrix adjust.
Identities = 28/119 (23%), Positives = 51/119 (42%), Gaps = 7/119 (5%)
Query: 277 LDFNQVVIFVKSVSRAAE-LNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVA 335
++ N+ V+ + +E L L E +HS + ER+ + + G +LV
Sbjct: 448 IERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVG 507
Query: 336 TDLVGRGIDIERVNIVINYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 389
+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 = 0.78, Method: Compositional matrix adjust.
Identities = 28/119 (23%), Positives = 51/119 (42%), Gaps = 7/119 (5%)
Query: 277 LDFNQVVIFVKSVSRAAE-LNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVA 335
++ N+ V+ + +E L L E +HS + ER+ + + G +LV
Sbjct: 442 IERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVG 501
Query: 336 TDLVGRGIDIERVNIVINYDMPD-----SADTYLHRVGRAGRFGTKGLAITFVSSASDS 389
+L+ G+DI V++V D S + + +GRA R +G I + + S
Sbjct: 502 INLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR-NAEGRVIMYADKITKS 559
>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 = 0.83, Method: Compositional matrix adjust.
Identities = 32/153 (20%), Positives = 63/153 (41%), Gaps = 31/153 (20%)
Query: 218 MFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLSELEKNRKLNDLLDAL 277
+F TL + + KK ++P Y +++ + + +H+ + E +
Sbjct: 106 IFLXTLFLRNKKILKKLAENPE--YENEKLTKLRNTIXEHFTRTEESARG---------- 153
Query: 278 DFNQVVIFVKSVSRAAELNKLLVECN-FPSICI---------HSG----MSQEERLTRYK 323
+IF K+ A L++ + + F + + HS +Q E+
Sbjct: 154 -----IIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAGHSSEFKPXTQNEQREVIS 208
Query: 324 GFKEGNKRILVATDLVGRGIDIERVNIVINYDM 356
F+ G +L+AT + G+DI+ NIVI Y +
Sbjct: 209 KFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 31.6 bits (70), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 98/442 (22%), Positives = 180/442 (40%), Gaps = 100/442 (22%)
Query: 56 GFEHPSEVQHECIPQAILGMD---VICQAKSGMGKTAVFVLSTLQQTEP--------NPG 104
GF+ + +Q + + +A L D ++C A +G GKT V ++ L++ N
Sbjct: 76 GFKTLNRIQSK-LYRAALETDENLLLC-APTGAGKTNVALMCMLREIGKHINMDGTINVD 133
Query: 105 QVTALVLCHTRELAYQICHEF-ERFSTYLPDIKVAVFYGGVNIKIHKDLLKNE--CPQIV 161
+ + R L ++ F +R +TY I VA G L K E QI+
Sbjct: 134 DFKIIYIAPMRSLVQEMVGSFGKRLATY--GITVAELTGD------HQLCKEEISATQII 185
Query: 162 VGTPGRILALARD--KDLSLKNVRHFILDECDKM-------LESLDMRRDVQEIFKMTPH 212
V TP + + R + + VR ILDE + LE+L + R ++ I +MT
Sbjct: 186 VCTPEKWDIITRKGGERTYTQLVRLIILDEIHLLHDDRGPVLEAL-VARAIRNI-EMTQE 243
Query: 213 DKQVMMFSATLSKEIRPVCKKFMQDPME--IYVDDEAKLTLHGLVQHYIKLSE---LEKN 267
D +++ SATL V DP + Y D+ + L Q Y+ ++E +++
Sbjct: 244 DVRLIGLSATLPN-YEDVATFLRVDPAKGLFYFDNSFRPV--PLEQTYVGITEKKAIKRF 300
Query: 268 RKLNDL-----LDALDFNQVVIFVKS------VSRAAE--------LNKLLVECNFPSIC 308
+ +N++ ++ NQV++FV S +RA L L E + +
Sbjct: 301 QIMNEIVYEKIMEHAGKNQVLVFVHSRKETGKTARAIRDMCLEKDTLGLFLREGSASTEV 360
Query: 309 I-----------------------HSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDI 345
+ H+GM++ +R F + + ++LV+T + G+++
Sbjct: 361 LRTEAEQCKNLELKDLLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNL 420
Query: 346 ERVNIVINYDMPDSADT----------YLHRVGRAGR--FGTKGLAITFVSSASDSDILN 393
++I S + L +GRAGR + TKG I S L+
Sbjct: 421 PAHTVIIKGTQVYSPEKGRWTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLS 480
Query: 394 QVQARFEVD---IKELPEQIDT 412
+ + ++ + +LP+ ++
Sbjct: 481 LLNQQLPIESQMVSKLPDMLNA 502
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 98/442 (22%), Positives = 180/442 (40%), Gaps = 100/442 (22%)
Query: 56 GFEHPSEVQHECIPQAILGMD---VICQAKSGMGKTAVFVLSTLQQTEP--------NPG 104
GF+ + +Q + + +A L D ++C A +G GKT V ++ L++ N
Sbjct: 76 GFKTLNRIQSK-LYRAALETDENLLLC-APTGAGKTNVALMCMLREIGKHINMDGTINVD 133
Query: 105 QVTALVLCHTRELAYQICHEF-ERFSTYLPDIKVAVFYGGVNIKIHKDLLKNE--CPQIV 161
+ + R L ++ F +R +TY I VA G L K E QI+
Sbjct: 134 DFKIIYIAPMRSLVQEMVGSFGKRLATY--GITVAELTGD------HQLCKEEISATQII 185
Query: 162 VGTPGRILALARD--KDLSLKNVRHFILDECDKM-------LESLDMRRDVQEIFKMTPH 212
V TP + + R + + VR ILDE + LE+L + R ++ I +MT
Sbjct: 186 VCTPEKWDIITRKGGERTYTQLVRLIILDEIHLLHDDRGPVLEAL-VARAIRNI-EMTQE 243
Query: 213 DKQVMMFSATLSKEIRPVCKKFMQDPME--IYVDDEAKLTLHGLVQHYIKLSE---LEKN 267
D +++ SATL V DP + Y D+ + L Q Y+ ++E +++
Sbjct: 244 DVRLIGLSATLPN-YEDVATFLRVDPAKGLFYFDNSFRPV--PLEQTYVGITEKKAIKRF 300
Query: 268 RKLNDL-----LDALDFNQVVIFVKS------VSRAAE--------LNKLLVECNFPSIC 308
+ +N++ ++ NQV++FV S +RA L L E + +
Sbjct: 301 QIMNEIVYEKIMEHAGKNQVLVFVHSRKETGKTARAIRDMCLEKDTLGLFLREGSASTEV 360
Query: 309 I-----------------------HSGMSQEERLTRYKGFKEGNKRILVATDLVGRGIDI 345
+ H+GM++ +R F + + ++LV+T + G+++
Sbjct: 361 LRTEAEQCKNLELKDLLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNL 420
Query: 346 ERVNIVINYDMPDSADT----------YLHRVGRAGR--FGTKGLAITFVSSASDSDILN 393
++I S + L +GRAGR + TKG I S L+
Sbjct: 421 PAHTVIIKGTQVYSPEKGRWTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLS 480
Query: 394 QVQARFEVD---IKELPEQIDT 412
+ + ++ + +LP+ ++
Sbjct: 481 LLNQQLPIESQMVSKLPDMLNA 502
>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 = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/97 (19%), Positives = 46/97 (47%), Gaps = 3/97 (3%)
Query: 281 QVVIFVKSVSRAAELNKLLVEC-NFPSICIHSGMS--QEERLTRYKGFKEGNKRILVATD 337
+V++ + A +L ++L E + H G S + +R + ++ ++L+ ++
Sbjct: 505 KVLVICAKAATALQLEQVLREREGIRAAVFHEGXSIIERDRAAAWFAEEDTGAQVLLCSE 564
Query: 338 LVGRGIDIERVNIVINYDMPDSADTYLHRVGRAGRFG 374
+ G + + + + +D+P + D R+GR R G
Sbjct: 565 IGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIG 601
>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
Maritima
Length = 822
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 54/115 (46%), Gaps = 10/115 (8%)
Query: 282 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 341
V++ S+ ++ L+ +L + P +++ ++E K ++G + +AT++ GR
Sbjct: 477 VLVGTTSIEKSELLSSMLKKKGIPHQVLNAKYHEKEAEIVAKAGQKG--MVTIATNMAGR 534
Query: 342 GIDI-------ERVNI-VINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASD 388
G DI E + +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: 104 GQVTALVLCHTRELAYQICHEF-ERFSTYLPDIKVAVFYG 142
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 = 29/115 (25%), Positives = 54/115 (46%), Gaps = 10/115 (8%)
Query: 282 VVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGNKRILVATDLVGR 341
V++ S+ ++ L+ +L + P +++ ++E K ++G + +AT++ GR
Sbjct: 477 VLVGTTSIEKSELLSSMLKKKGIPHQVLNAKYHEKEAEIVAKAGQKG--MVTIATNMAGR 534
Query: 342 GIDI-------ERVNI-VINYDMPDSADTYLHRVGRAGRFGTKGLAITFVSSASD 388
G DI E + +I + +S GRAGR G G +I F+S D
Sbjct: 535 GTDIKLGPGVAELGGLCIIGTERHESRRIDNQLRGRAGRQGDPGESIFFLSLEDD 589
>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 = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 19/89 (21%)
Query: 103 PGQVTALVLC----HTRELAYQICHEFERFSTYLPDIKVAVFYGGVNIKIHKDLLKNECP 158
PG L + ++ ++ Q+CH+FE+ + D+ + +N+ D+ NE P
Sbjct: 36 PGYFNILYITMRGTNSNGMSCQLCHDFEKTYHAVADVIRSQAPQSLNLFFTVDV--NEVP 93
Query: 159 QIVVGTPGRILALARDKDLSLKNVRHFIL 187
Q+V KDL L+NV H ++
Sbjct: 94 QLV-------------KDLKLQNVPHLVV 109
>pdb|2W5F|A Chain A, High Resolution Crystallographic Structure Of The
Clostridium Thermocellum N-Terminal Endo-1,4-Beta-D-
Xylanase 10b (Xyn10b) Cbm22-1-Gh10 Modules Complexed
With Xylohexaose
pdb|2W5F|B Chain B, High Resolution Crystallographic Structure Of The
Clostridium Thermocellum N-Terminal Endo-1,4-Beta-D-
Xylanase 10b (Xyn10b) Cbm22-1-Gh10 Modules Complexed
With Xylohexaose
Length = 540
Score = 28.1 bits (61), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 361 DTYLHRVGRAGRFGTKGLAITFVSSASD 388
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
0.321 0.137 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,788,294
Number of Sequences: 62578
Number of extensions: 483122
Number of successful extensions: 1424
Number of sequences better than 100.0: 116
Number of HSP's better than 100.0 without gapping: 93
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 1178
Number of HSP's gapped (non-prelim): 119
length of query: 418
length of database: 14,973,337
effective HSP length: 101
effective length of query: 317
effective length of database: 8,652,959
effective search space: 2742988003
effective search space used: 2742988003
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)