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= 047490
(323 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 150 bits (380), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 88/297 (29%), Positives = 153/297 (51%), Gaps = 14/297 (4%)
Query: 17 RPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTPG 76
RP+ V++ PTREL+ Q+F A+ + + + +V GG R Q + + +V+ TPG
Sbjct: 129 RPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITRGCHVVIATPG 188
Query: 77 RILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVLV 136
R+L ++ + + D +++VLDEAD M D GF D+R+ + + R QT++
Sbjct: 189 RLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEH------QTLMF 242
Query: 137 SATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQVLEPSLS 196
SAT + +Q++ E + + + + + ++ NK +++E
Sbjct: 243 SATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEV----NKYAKRSKLIEILSE 298
Query: 197 KGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLVC 256
+ + +VF T + + FL+E + T + HG+ +R + L FKN G L+
Sbjct: 299 QADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKN--GSMKVLIA 356
Query: 257 TDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLV-AKKDVLLA 311
T +A+RGLD+ ++ HVI +D P DY+HR GRT R+G G+ TS +KD +A
Sbjct: 357 TSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIA 413
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 149 bits (375), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 96/292 (32%), Positives = 153/292 (52%), Gaps = 9/292 (3%)
Query: 18 PRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTPGR 77
P ++VL PTREL+ Q++ A+ S+ +R R +V GG + Q L ++V TPGR
Sbjct: 102 PISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGR 161
Query: 78 ILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVLVS 137
++ +E G + KYLVLDEAD M D GF P IR+ + + + P T++ S
Sbjct: 162 LVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIV----EQDTMPPKGVRHTMMFS 217
Query: 138 ATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQVLEPSLSK 197
AT K +Q L + L + + + + S +K LL +L + K
Sbjct: 218 ATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKVVWVEES-DKRSFLLDLLNAT-GK 275
Query: 198 GNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLVCT 257
+ +VF T + +++ FL + + HG+ ++R E L++F++ G P LV T
Sbjct: 276 DSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRS--GKSPILVAT 333
Query: 258 DLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDV 308
+AARGLD+ +V HVI FD P + +Y+HR GRT R+G G TS ++++
Sbjct: 334 AVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNI 385
>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 = 131 bits (329), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 91/299 (30%), Positives = 153/299 (51%), Gaps = 20/299 (6%)
Query: 20 AVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTPGRIL 79
A++L PTREL+ QV +S+ + + + GG + PQ +L N ++VVGTPGRIL
Sbjct: 77 AIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALKNA-NIVVGTPGRIL 135
Query: 80 QHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVLVSAT 139
HI G + ++KY +LDEAD + GF D+ K L N +K + +L SAT
Sbjct: 136 DHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKIL----NACNKDK----RILLFSAT 187
Query: 140 MTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQVLEPSLSKGN 199
+ + L + + ++ K A+ +++++ +E + EAL ++L+ G
Sbjct: 188 XPREILNLAKKYXGDYSFIKA----KINANIEQSYVEVNENE-RFEALCRLLKNKEFYG- 241
Query: 200 KVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLVCTDL 259
+VFC T ++ + L + HG++ +R + + FK + L+ TD+
Sbjct: 242 --LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQK--KIRILIATDV 297
Query: 260 AARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDVLLADRIEEA 317
+RG+D+ D++ VI + P N Y HR GRT R G KGK S++ +++ IE A
Sbjct: 298 XSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKLRYIERA 356
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 122 bits (307), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 89/287 (31%), Positives = 146/287 (50%), Gaps = 26/287 (9%)
Query: 19 RAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTPGRI 78
+++V+ PTREL+ QV + I + + V GG + Q + + N D+VV TPGR+
Sbjct: 58 KSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNA-DIVVATPGRL 116
Query: 79 LQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVLVSA 138
L G + + +++DEAD MF+ GF DI+ L NR T L SA
Sbjct: 117 LDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKI--------TGLFSA 168
Query: 139 TMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQVLEPSLSKG 198
T+ + ++K+V + + +A+ H F+ + ++ + +Q L + KG
Sbjct: 169 TIPEEIRKVVKDFITNYEEIEACI---GLANVEHKFVHV---KDDWRSKVQALRENKDKG 222
Query: 199 NKVMVFCNTLNS-SRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLVCT 257
V+VF T N ++ V F N + G++P R N++ F+ +G+ L+ T
Sbjct: 223 --VIVFVRTRNRVAKLVRLFDN-----AIELRGDLPQSVRNRNIDAFR--EGEYDMLITT 273
Query: 258 DLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLV 303
D+A+RGLD+ V+ VI FD P + Y+HR GRT RMG KG+ + +
Sbjct: 274 DVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFI 320
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 120 bits (300), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 87/308 (28%), Positives = 148/308 (48%), Gaps = 19/308 (6%)
Query: 13 MKPRRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVV 72
++ R +A++L PTREL+ QV + ++ + +S GG + L+ +V
Sbjct: 65 IQVRETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYGQHVVA 124
Query: 73 GTPGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGP---DIRKFLVPLKNRASKPNGQ 129
GTPGR+ I ++ IK LVLDEAD M ++GF D+ ++L P
Sbjct: 125 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPP----------- 173
Query: 130 GFQTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQ 189
Q VL+SAT+ V ++ ++ + + + F+ + E K + L
Sbjct: 174 ATQVVLISATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCD 233
Query: 190 VLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDG 249
+ + +L+ V +FCNT + + E + + HG++P +ER + +F++ G
Sbjct: 234 LYD-TLTITQAV-IFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRS--G 289
Query: 250 DCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDV 308
L+ TD+ ARGLD+ V +I +D P N Y+HR GR+ R G KG + V D+
Sbjct: 290 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDI 349
Query: 309 LLADRIEE 316
+ IE+
Sbjct: 350 RVLRDIEQ 357
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 118 bits (296), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 88/310 (28%), Positives = 145/310 (46%), Gaps = 19/310 (6%)
Query: 13 MKPR--RPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDM 70
+KP+ + +A+++ PTREL+ Q +V +++ H + +GG LR LN + +
Sbjct: 83 VKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETVHI 142
Query: 71 VVGTPGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQG 130
+VGTPGR+L D ++DEAD M R F I + L L
Sbjct: 143 LVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLP--------PT 194
Query: 131 FQTVLVSATMTKAVQKLVDEECQGIAHLR-TSTLHKKIASARHDFIKLSGSENKLEALLQ 189
Q++L SAT V++ + + + L K + + F++ + L L
Sbjct: 195 HQSLLFSATFPLTVKEFMVKHLHKPYEINLMEELTLKGITQYYAFVEERQKLHCLNTLFS 254
Query: 190 VLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDG 249
L+ N+ ++FCN+ N + + + S H + QER + ++F+ G
Sbjct: 255 KLQI-----NQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQ--G 307
Query: 250 DCPTLVCTDLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDV 308
TLVC+DL RG+D+ V+ VI FDFP + YLHR GR+ R G G +L+ D
Sbjct: 308 KVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDR 367
Query: 309 LLADRIEEAI 318
+IE+ +
Sbjct: 368 FNLYKIEQEL 377
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 117 bits (294), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 85/308 (27%), Positives = 147/308 (47%), Gaps = 19/308 (6%)
Query: 13 MKPRRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVV 72
++ R +A++L PTREL+ QV + ++ + + GG + L+ +V
Sbjct: 65 IQVRETQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVA 124
Query: 73 GTPGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGP---DIRKFLVPLKNRASKPNGQ 129
GTPGR+ I ++ IK LVLDEAD M ++GF D+ ++L P
Sbjct: 125 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPP----------- 173
Query: 130 GFQTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQ 189
Q VL+SAT+ + ++ ++ + + + F+ + E K + L
Sbjct: 174 ATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCD 233
Query: 190 VLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDG 249
+ + +L+ V +FCNT + + E + + HG++P +ER + +F++ G
Sbjct: 234 LYD-TLTITQAV-IFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRS--G 289
Query: 250 DCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDV 308
L+ TD+ ARGLD+ V +I +D P N Y+HR GR+ R G KG + V D+
Sbjct: 290 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDI 349
Query: 309 LLADRIEE 316
+ IE+
Sbjct: 350 RVLRDIEQ 357
>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 = 117 bits (294), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 84/308 (27%), Positives = 147/308 (47%), Gaps = 19/308 (6%)
Query: 13 MKPRRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVV 72
++ R +A++L PTREL+ Q+ + ++ + + GG + L+ +V
Sbjct: 80 IQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVA 139
Query: 73 GTPGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGP---DIRKFLVPLKNRASKPNGQ 129
GTPGR+ I ++ IK LVLDEAD M ++GF D+ ++L P
Sbjct: 140 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPP----------- 188
Query: 130 GFQTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQ 189
Q VL+SAT+ + ++ ++ + + + F+ + E K + L
Sbjct: 189 ATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCD 248
Query: 190 VLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDG 249
+ + +L+ V +FCNT + + E + + HG++P +ER + +F++ G
Sbjct: 249 LYD-TLTITQAV-IFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRS--G 304
Query: 250 DCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDV 308
L+ TD+ ARGLD+ V +I +D P N Y+HR GR+ R G KG + V D+
Sbjct: 305 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 364
Query: 309 LLADRIEE 316
+ IE+
Sbjct: 365 RILRDIEQ 372
>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 = 117 bits (293), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 84/308 (27%), Positives = 147/308 (47%), Gaps = 19/308 (6%)
Query: 13 MKPRRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVV 72
++ R +A++L PTREL+ Q+ + ++ + + GG + L+ +V
Sbjct: 101 IQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVA 160
Query: 73 GTPGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGP---DIRKFLVPLKNRASKPNGQ 129
GTPGR+ I ++ IK LVLDEAD M ++GF D+ ++L P
Sbjct: 161 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPP----------- 209
Query: 130 GFQTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQ 189
Q VL+SAT+ + ++ ++ + + + F+ + E K + L
Sbjct: 210 ATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCD 269
Query: 190 VLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDG 249
+ + +L+ V +FCNT + + E + + HG++P +ER + +F++ G
Sbjct: 270 LYD-TLTITQAV-IFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRS--G 325
Query: 250 DCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDV 308
L+ TD+ ARGLD+ V +I +D P N Y+HR GR+ R G KG + V D+
Sbjct: 326 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 385
Query: 309 LLADRIEE 316
+ IE+
Sbjct: 386 RILRDIEQ 393
>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 = 117 bits (293), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 84/308 (27%), Positives = 147/308 (47%), Gaps = 19/308 (6%)
Query: 13 MKPRRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVV 72
++ R +A++L PTREL+ Q+ + ++ + + GG + L+ +V
Sbjct: 102 IQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVA 161
Query: 73 GTPGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGP---DIRKFLVPLKNRASKPNGQ 129
GTPGR+ I ++ IK LVLDEAD M ++GF D+ ++L P
Sbjct: 162 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPP----------- 210
Query: 130 GFQTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQ 189
Q VL+SAT+ + ++ ++ + + + F+ + E K + L
Sbjct: 211 ATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCD 270
Query: 190 VLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDG 249
+ + +L+ V +FCNT + + E + + HG++P +ER + +F++ G
Sbjct: 271 LYD-TLTITQAV-IFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRS--G 326
Query: 250 DCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDV 308
L+ TD+ ARGLD+ V +I +D P N Y+HR GR+ R G KG + V D+
Sbjct: 327 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 386
Query: 309 LLADRIEE 316
+ IE+
Sbjct: 387 RILRDIEQ 394
>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 = 117 bits (293), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 84/308 (27%), Positives = 147/308 (47%), Gaps = 19/308 (6%)
Query: 13 MKPRRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVV 72
++ R +A++L PTREL+ Q+ + ++ + + GG + L+ +V
Sbjct: 102 IQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVA 161
Query: 73 GTPGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGP---DIRKFLVPLKNRASKPNGQ 129
GTPGR+ I ++ IK LVLDEAD M ++GF D+ ++L P
Sbjct: 162 GTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPP----------- 210
Query: 130 GFQTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQ 189
Q VL+SAT+ + ++ ++ + + + F+ + E K + L
Sbjct: 211 ATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCD 270
Query: 190 VLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDG 249
+ + +L+ V +FCNT + + E + + HG++P +ER + +F++ G
Sbjct: 271 LYD-TLTITQAV-IFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRS--G 326
Query: 250 DCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDV 308
L+ TD+ ARGLD+ V +I +D P N Y+HR GR+ R G KG + V D+
Sbjct: 327 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 386
Query: 309 LLADRIEE 316
+ IE+
Sbjct: 387 RILRDIEQ 394
>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 = 106 bits (265), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 86/294 (29%), Positives = 139/294 (47%), Gaps = 14/294 (4%)
Query: 16 RRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTP 75
+ P+A++L PTREL+ Q+ +V +++ H + GG + L + +VVGTP
Sbjct: 89 KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDA-QIVVGTP 147
Query: 76 GRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVL 135
GR+ +I+ IK +LDEAD M GF I + L Q VL
Sbjct: 148 GRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTT--------QVVL 199
Query: 136 VSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQVLEPSL 195
+SATM V ++ + + + + + ++ + E K E L + + S+
Sbjct: 200 LSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYD-SI 258
Query: 196 SKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLV 255
S V +FCNT + L ++ + + ++P QER + +F++ G L+
Sbjct: 259 SVTQAV-IFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRS--GSSRILI 315
Query: 256 CTDLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDV 308
TDL ARG+D+ V VI +D P N +Y+HR GR R G KG + V +DV
Sbjct: 316 STDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDV 369
>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 = 102 bits (255), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 86/318 (27%), Positives = 152/318 (47%), Gaps = 24/318 (7%)
Query: 19 RAVVLCPTRELSEQVFRVAKSISHH----ARFRSTMVSGGGRLRPQEDSLNN--PIDMVV 72
+AV++ PTR+L+ Q+ K I ++ + GG R + +N P ++V+
Sbjct: 148 KAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRP-NIVI 206
Query: 73 GTPGRILQHIED-GNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGF 131
TPGR++ +E N + + Y VLDEAD + + GF D+ L + SK +
Sbjct: 207 ATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSK-SADNI 265
Query: 132 QTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLS-----GSENKLEA 186
+T+L SAT+ VQKL + L T+ K A H+ I S N + A
Sbjct: 266 KTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEA-HERIDQSVVISEKFANSIFA 324
Query: 187 LLQVLEPSLSKGN---KVMVFCNTLNSSRAVDHFLN---ENQISTVNYHGEVPAQERVEN 240
++ ++ + + + K ++F T+ + + L + + + +HG++ +R
Sbjct: 325 AVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSL 384
Query: 241 LNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKV 299
+ +FK ++ LVCTD+ ARG+D +V V+ P +Y+HR GRTAR G +G
Sbjct: 385 VKRFKKDESGI--LVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSS 442
Query: 300 TSLVAKKDVLLADRIEEA 317
+ K ++ +E+A
Sbjct: 443 VLFICKDELPFVRELEDA 460
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 102 bits (255), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 86/318 (27%), Positives = 152/318 (47%), Gaps = 24/318 (7%)
Query: 19 RAVVLCPTRELSEQVFRVAKSISHH----ARFRSTMVSGGGRLRPQEDSLNN--PIDMVV 72
+AV++ PTR+L+ Q+ K I ++ + GG R + +N P ++V+
Sbjct: 97 KAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRP-NIVI 155
Query: 73 GTPGRILQHIED-GNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGF 131
TPGR++ +E N + + Y VLDEAD + + GF D+ L + SK +
Sbjct: 156 ATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSK-SADNI 214
Query: 132 QTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLS-----GSENKLEA 186
+T+L SAT+ VQKL + L T+ K A H+ I S N + A
Sbjct: 215 KTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEA-HERIDQSVVISEKFANSIFA 273
Query: 187 LLQVLEPSLSKGN---KVMVFCNTLNSSRAVDHFLN---ENQISTVNYHGEVPAQERVEN 240
++ ++ + + + K ++F T+ + + L + + + +HG++ +R
Sbjct: 274 AVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSL 333
Query: 241 LNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKV 299
+ +FK ++ LVCTD+ ARG+D +V V+ P +Y+HR GRTAR G +G
Sbjct: 334 VKRFKKDESGI--LVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSS 391
Query: 300 TSLVAKKDVLLADRIEEA 317
+ K ++ +E+A
Sbjct: 392 VLFICKDELPFVRELEDA 409
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 102 bits (254), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 85/301 (28%), Positives = 146/301 (48%), Gaps = 34/301 (11%)
Query: 20 AVVLCPTRELSEQVFRVAKSISHHARF----RSTMVSGGGRLRPQEDSLN-NPIDMVVGT 74
+V+C TREL+ F+++K +++ + + GG ++ E+ L N +VVGT
Sbjct: 78 VLVMCHTRELA---FQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGT 134
Query: 75 PGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTV 134
PGRIL + ++ IK+ +LDEAD M ++ D+R+ + + Q +
Sbjct: 135 PGRILALARNKSLNLKHIKHFILDEADKMLEQ---LDMRRDVQEIFRMTPHEK----QVM 187
Query: 135 LVSATMTKAVQKLVDEECQGIAHLRTS-----TLHKKIASARHDFIKLSGSEN--KLEAL 187
+ SAT++K ++ + + Q + TLH + ++KL +E KL L
Sbjct: 188 MFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLH----GLQQYYVKLKDNEKNRKLFDL 243
Query: 188 LQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNE 247
L VLE N+V++F ++ A+ L E + H +P +ER+ +FK
Sbjct: 244 LDVLE-----FNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFK-- 296
Query: 248 DGDCPTLVCTDLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKK 306
D LV T+L RG+D++ V+ +D P +S YLHR R R G KG + V+ +
Sbjct: 297 DFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDE 356
Query: 307 D 307
+
Sbjct: 357 N 357
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 102 bits (254), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 86/318 (27%), Positives = 152/318 (47%), Gaps = 24/318 (7%)
Query: 19 RAVVLCPTRELSEQVFRVAKSISHH----ARFRSTMVSGGGRLRPQEDSLNN--PIDMVV 72
+AV++ PTR+L+ Q+ K I ++ + GG R + +N P ++V+
Sbjct: 97 KAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRP-NIVI 155
Query: 73 GTPGRILQHIED-GNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGF 131
TPGR++ +E N + + Y VLDEAD + + GF D+ L + SK +
Sbjct: 156 ATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSK-SADNI 214
Query: 132 QTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLS-----GSENKLEA 186
+T+L SAT+ VQKL + L T+ K A H+ I S N + A
Sbjct: 215 KTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEA-HERIDQSVVISEKFANSIFA 273
Query: 187 LLQVLEPSLSKGN---KVMVFCNTLNSSRAVDHFLN---ENQISTVNYHGEVPAQERVEN 240
++ ++ + + + K ++F T+ + + L + + + +HG++ +R
Sbjct: 274 AVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSL 333
Query: 241 LNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKV 299
+ +FK ++ LVCTD+ ARG+D +V V+ P +Y+HR GRTAR G +G
Sbjct: 334 VKRFKKDESGI--LVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSS 391
Query: 300 TSLVAKKDVLLADRIEEA 317
+ K ++ +E+A
Sbjct: 392 VLFICKDELPFVRELEDA 409
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 100 bits (249), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 84/301 (27%), Positives = 145/301 (48%), Gaps = 34/301 (11%)
Query: 20 AVVLCPTRELSEQVFRVAKSISHHARF----RSTMVSGGGRLRPQEDSLN-NPIDMVVGT 74
+V+C TREL+ F+++K +++ + + GG ++ E+ L N +VVGT
Sbjct: 79 VLVMCHTRELA---FQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGT 135
Query: 75 PGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTV 134
PGRIL + ++ IK+ +LDE D M ++ D+R+ + + Q +
Sbjct: 136 PGRILALARNKSLNLKHIKHFILDECDKMLEQ---LDMRRDVQEIFRMTPHEK----QVM 188
Query: 135 LVSATMTKAVQKLVDEECQGIAHLRTS-----TLHKKIASARHDFIKLSGSEN--KLEAL 187
+ SAT++K ++ + + Q + TLH + ++KL +E KL L
Sbjct: 189 MFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLH----GLQQYYVKLKDNEKNRKLFDL 244
Query: 188 LQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNE 247
L VLE N+V++F ++ A+ L E + H +P +ER+ +FK
Sbjct: 245 LDVLE-----FNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFK-- 297
Query: 248 DGDCPTLVCTDLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKK 306
D LV T+L RG+D++ V+ +D P +S YLHR R R G KG + V+ +
Sbjct: 298 DFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDE 357
Query: 307 D 307
+
Sbjct: 358 N 358
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 100 bits (249), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 84/301 (27%), Positives = 145/301 (48%), Gaps = 34/301 (11%)
Query: 20 AVVLCPTRELSEQVFRVAKSISHHARF----RSTMVSGGGRLRPQEDSLN-NPIDMVVGT 74
+V+C TREL+ F+++K +++ + + GG ++ E+ L N +VVGT
Sbjct: 79 VLVMCHTRELA---FQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGT 135
Query: 75 PGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTV 134
PGRIL + ++ IK+ +LDE D M ++ D+R+ + + Q +
Sbjct: 136 PGRILALARNKSLNLKHIKHFILDECDKMLEQ---LDMRRDVQEIFRMTPHEK----QVM 188
Query: 135 LVSATMTKAVQKLVDEECQGIAHLRTS-----TLHKKIASARHDFIKLSGSEN--KLEAL 187
+ SAT++K ++ + + Q + TLH + ++KL +E KL L
Sbjct: 189 MFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLH----GLQQYYVKLKDNEKNRKLFDL 244
Query: 188 LQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNE 247
L VLE N+V++F ++ A+ L E + H +P +ER+ +FK
Sbjct: 245 LDVLE-----FNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFK-- 297
Query: 248 DGDCPTLVCTDLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKK 306
D LV T+L RG+D++ V+ +D P +S YLHR R R G KG + V+ +
Sbjct: 298 DFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDE 357
Query: 307 D 307
+
Sbjct: 358 N 358
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 99.0 bits (245), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 83/294 (28%), Positives = 136/294 (46%), Gaps = 14/294 (4%)
Query: 16 RRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTP 75
+ P+A+ L PTREL+ Q+ +V +++ H + GG + L + +VVGTP
Sbjct: 88 KAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGLRDA-QIVVGTP 146
Query: 76 GRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVL 135
GR+ +I+ IK +LDEAD GF I + L Q VL
Sbjct: 147 GRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTT--------QVVL 198
Query: 136 VSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQVLEPSL 195
+SAT V ++ + + + + + ++ + E K E L + + S+
Sbjct: 199 LSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYD-SI 257
Query: 196 SKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLV 255
S + ++FCNT + L ++ + + ++P QER +F++ G L+
Sbjct: 258 SV-TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRS--GSSRILI 314
Query: 256 CTDLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDV 308
TDL ARG+D+ V VI +D P N +Y+HR GR R G KG + V +DV
Sbjct: 315 STDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDV 368
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 95.9 bits (237), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 85/291 (29%), Positives = 137/291 (47%), Gaps = 14/291 (4%)
Query: 19 RAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLN-NPIDMVVGTPGR 77
+A+VL PTREL++Q+ +V ++ + GG +R + L ++VGTPGR
Sbjct: 110 QALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGR 169
Query: 78 ILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVLVS 137
+ + + IK VLDEAD M RGF I L + Q VL+S
Sbjct: 170 VFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNT--------QVVLLS 221
Query: 138 ATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQVLEPSLSK 197
ATM V ++ + + + + R +I + E KL+ L + E +L+
Sbjct: 222 ATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYE-TLTI 280
Query: 198 GNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLVCT 257
V +F NT + ++ + HG++ +ER + +F++ G L+ T
Sbjct: 281 TQAV-IFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRS--GSSRVLITT 337
Query: 258 DLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKD 307
DL ARG+D+ V VI +D P N +Y+HR GR R G KG ++V ++D
Sbjct: 338 DLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEED 388
>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 = 95.9 bits (237), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 85/291 (29%), Positives = 137/291 (47%), Gaps = 14/291 (4%)
Query: 19 RAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLN-NPIDMVVGTPGR 77
+A+VL PTREL++Q+ +V ++ + GG +R + L ++VGTPGR
Sbjct: 84 QALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGR 143
Query: 78 ILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVLVS 137
+ + + IK VLDEAD M RGF I L + Q VL+S
Sbjct: 144 VFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNT--------QVVLLS 195
Query: 138 ATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQVLEPSLSK 197
ATM V ++ + + + + R +I + E KL+ L + E +L+
Sbjct: 196 ATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYE-TLTI 254
Query: 198 GNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLVCT 257
V +F NT + ++ + HG++ +ER + +F++ G L+ T
Sbjct: 255 TQAV-IFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRS--GSSRVLITT 311
Query: 258 DLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKD 307
DL ARG+D+ V VI +D P N +Y+HR GR R G KG ++V ++D
Sbjct: 312 DLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEED 362
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 95.5 bits (236), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 80/305 (26%), Positives = 139/305 (45%), Gaps = 38/305 (12%)
Query: 17 RPRAVVLCPTRELSEQVFRVAKSISHHARFRSTM-----VSGGGRLRPQEDSLNNPIDMV 71
+P+A+ L P+REL+ Q+ V + + ++ V G ++ Q +V
Sbjct: 189 KPQAICLAPSRELARQIMDVVTEMGKYTEVKTAFGIKDSVPKGAKIDAQ---------IV 239
Query: 72 VGTPGRILQHIEDGNMVYGDIKYLVLDEADTMFD-RGFG-PDIR-KFLVPLKNRASKPNG 128
+GTPG ++ ++ + DIK VLDEAD M D +G G +R K L+P
Sbjct: 240 IGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLP---------- 289
Query: 129 QGFQTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALL 188
+ Q VL SAT ++ V+K + +R T + + ++ E+K L+
Sbjct: 290 RNTQIVLFSATFSERVEKYAERFAPNANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLV 349
Query: 189 QVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNED 248
+ L L+ G + +FC +++ + + + + G + +R ++ F+
Sbjct: 350 E-LYGLLTIGQSI-IFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRV-- 405
Query: 249 GDCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSI------DYLHRTGRTARMGAKGKVTS 301
G LV T++ ARG+D+ V+ V+ +D PL+ YLHR GRT R G G +
Sbjct: 406 GTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSIN 465
Query: 302 LVAKK 306
V K
Sbjct: 466 FVHDK 470
>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 = 94.7 bits (234), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 81/303 (26%), Positives = 135/303 (44%), Gaps = 34/303 (11%)
Query: 18 PRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPID--MVVGTP 75
P+A+ L P+REL+ Q V + + + S ++ P N I+ ++VGTP
Sbjct: 76 PQAICLAPSRELARQTLEVVQEMGKFTKITSQLIV------PDSFEKNKQINAQVIVGTP 129
Query: 76 GRILQHIEDGNMVYGDIKYLVLDEADTMFD-RGFGPD---IRKFLVPLKNRASKPNGQGF 131
G +L + M IK VLDEAD M D +G G +++FL +
Sbjct: 130 GTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL-----------PKDT 178
Query: 132 QTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQVL 191
Q VL SAT AV++ + L T + + + ++ +K + L + L
Sbjct: 179 QLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTE-L 237
Query: 192 EPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDC 251
++ G+ + +F T ++ + L HG++ QER ++ F+ +G
Sbjct: 238 YGVMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFR--EGRS 294
Query: 252 PTLVCTDLAARGLDL-DVDHVIMFDFPL------NSIDYLHRTGRTARMGAKGKVTSLVA 304
L+ T++ ARG+D+ V V+ +D P + Y+HR GRT R G KG S V
Sbjct: 295 KVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVH 354
Query: 305 KKD 307
K+
Sbjct: 355 DKN 357
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 94.4 bits (233), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 81/303 (26%), Positives = 135/303 (44%), Gaps = 34/303 (11%)
Query: 18 PRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPID--MVVGTP 75
P+A+ L P+REL+ Q V + + + S ++ P N I+ ++VGTP
Sbjct: 76 PQAICLAPSRELARQTLEVVQEMGKFTKITSQLIV------PDSFEKNKQINAQVIVGTP 129
Query: 76 GRILQHIEDGNMVYGDIKYLVLDEADTMFD-RGFGPD---IRKFLVPLKNRASKPNGQGF 131
G +L + M IK VLDEAD M D +G G +++FL +
Sbjct: 130 GTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL-----------PKDT 178
Query: 132 QTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQVL 191
Q VL SAT AV++ + L T + + + ++ +K + L + L
Sbjct: 179 QLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTE-L 237
Query: 192 EPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDC 251
++ G+ + +F T ++ + L HG++ QER ++ F+ +G
Sbjct: 238 YGLMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFR--EGRS 294
Query: 252 PTLVCTDLAARGLDL-DVDHVIMFDFPL------NSIDYLHRTGRTARMGAKGKVTSLVA 304
L+ T++ ARG+D+ V V+ +D P + Y+HR GRT R G KG S V
Sbjct: 295 KVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVH 354
Query: 305 KKD 307
K+
Sbjct: 355 DKN 357
>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 = 91.7 bits (226), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 50/134 (37%), Positives = 73/134 (54%), Gaps = 4/134 (2%)
Query: 14 KPRRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVG 73
K P+ ++L PTREL+ Q+ ++ S + RS +V GG Q + ++V
Sbjct: 97 KTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVA 156
Query: 74 TPGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQT 133
TPGR++ IE + KY+VLDEAD M D GF P IRK + ++ P+G QT
Sbjct: 157 TPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKII----EESNMPSGINRQT 212
Query: 134 VLVSATMTKAVQKL 147
++ SAT K +QKL
Sbjct: 213 LMFSATFPKEIQKL 226
>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 = 90.9 bits (224), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 53/147 (36%), Positives = 78/147 (53%), Gaps = 8/147 (5%)
Query: 18 PRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTPGR 77
P +VL PTREL++QV +VA R +ST + GG PQ L +++ + TPGR
Sbjct: 103 PICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGR 162
Query: 78 ILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVLVS 137
++ +E G YLVLDEAD M D GF P IRK + + +P+ QT++ S
Sbjct: 163 LIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQI-----RPDR---QTLMWS 214
Query: 138 ATMTKAVQKLVDEECQGIAHLRTSTLH 164
AT K V++L ++ + H+ L
Sbjct: 215 ATWPKEVRQLAEDFLKDYIHINIGALE 241
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 89.7 bits (221), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 52/141 (36%), Positives = 77/141 (54%), Gaps = 8/141 (5%)
Query: 18 PRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTPGR 77
P +VL PTREL++QV +VA R +ST + GG PQ L +++ + TPGR
Sbjct: 117 PICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGR 176
Query: 78 ILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVLVS 137
++ +E G YLVLDEAD M D GF P IRK + + +P+ QT++ S
Sbjct: 177 LIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQI-----RPDR---QTLMWS 228
Query: 138 ATMTKAVQKLVDEECQGIAHL 158
AT K V++L ++ + H+
Sbjct: 229 ATWPKEVRQLAEDFLKDYIHI 249
>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 = 82.4 bits (202), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 81/316 (25%), Positives = 145/316 (45%), Gaps = 26/316 (8%)
Query: 16 RRPRAVVLCPTRELSEQVFRVAKSI-SHHARFRSTMVSGGGRL-RPQEDSLNNPIDMVVG 73
+ P+ + L PT EL+ Q +V + + + + G +L R Q+ S +V+G
Sbjct: 94 KYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ----IVIG 149
Query: 74 TPGRILQHIEDGNMV-YGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQ 132
TPG +L + IK VLDEAD M D R + + Q
Sbjct: 150 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQD-------QSIRIQRMLPRNCQ 202
Query: 133 TVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQVLE 192
+L SAT +V K + ++ + + + + ++ S + K +AL L
Sbjct: 203 MLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCN-LY 261
Query: 193 PSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCP 252
+++ + M+FC+T ++ + L++ GE+ ++R + +F+ +G
Sbjct: 262 GAITIA-QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFR--EGKEK 318
Query: 253 TLVCTDLAARGLDLD-VDHVIMFDFPLN------SIDYLHRTGRTARMGAKGKVTSLV-A 304
LV T++ ARG+D++ V VI FD P++ + YLHR GRT R G +G ++V +
Sbjct: 319 VLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDS 378
Query: 305 KKDVLLADRIEEAIRK 320
K + + +RI+E K
Sbjct: 379 KHSMNILNRIQEHFNK 394
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 82.4 bits (202), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 81/316 (25%), Positives = 145/316 (45%), Gaps = 26/316 (8%)
Query: 16 RRPRAVVLCPTRELSEQVFRVAKSI-SHHARFRSTMVSGGGRL-RPQEDSLNNPIDMVVG 73
+ P+ + L PT EL+ Q +V + + + + G +L R Q+ S +V+G
Sbjct: 110 KYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ----IVIG 165
Query: 74 TPGRILQHIEDGNMV-YGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQ 132
TPG +L + IK VLDEAD M D R + + Q
Sbjct: 166 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQD-------QSIRIQRMLPRNCQ 218
Query: 133 TVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQVLE 192
+L SAT +V K + ++ + + + + ++ S + K +AL L
Sbjct: 219 MLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCN-LY 277
Query: 193 PSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCP 252
+++ + M+FC+T ++ + L++ GE+ ++R + +F+ +G
Sbjct: 278 GAITIA-QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFR--EGKEK 334
Query: 253 TLVCTDLAARGLDLD-VDHVIMFDFPLN------SIDYLHRTGRTARMGAKGKVTSLV-A 304
LV T++ ARG+D++ V VI FD P++ + YLHR GRT R G +G ++V +
Sbjct: 335 VLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDS 394
Query: 305 KKDVLLADRIEEAIRK 320
K + + +RI+E K
Sbjct: 395 KHSMNILNRIQEHFNK 410
>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 = 82.0 bits (201), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 81/316 (25%), Positives = 145/316 (45%), Gaps = 26/316 (8%)
Query: 16 RRPRAVVLCPTRELSEQVFRVAKSI-SHHARFRSTMVSGGGRL-RPQEDSLNNPIDMVVG 73
+ P+ + L PT EL+ Q +V + + + + G +L R Q+ S +V+G
Sbjct: 131 KYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ----IVIG 186
Query: 74 TPGRILQHIEDGNMV-YGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQ 132
TPG +L + IK VLDEAD M D R + + Q
Sbjct: 187 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQD-------QSIRIQRMLPRNCQ 239
Query: 133 TVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQVLE 192
+L SAT +V K + ++ + + + + ++ S + K +AL L
Sbjct: 240 MLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCN-LY 298
Query: 193 PSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCP 252
+++ + M+FC+T ++ + L++ GE+ ++R + +F+ +G
Sbjct: 299 GAITIA-QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFR--EGKEK 355
Query: 253 TLVCTDLAARGLDLD-VDHVIMFDFPLN------SIDYLHRTGRTARMGAKGKVTSLV-A 304
LV T++ ARG+D++ V VI FD P++ + YLHR GRT R G +G ++V +
Sbjct: 356 VLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDS 415
Query: 305 KKDVLLADRIEEAIRK 320
K + + +RI+E K
Sbjct: 416 KHSMNILNRIQEHFNK 431
>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 = 82.0 bits (201), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 83/319 (26%), Positives = 149/319 (46%), Gaps = 32/319 (10%)
Query: 16 RRPRAVVLCPTRELSEQVFRVAKSISH-HARFRSTMVSGGGRL-RPQEDSLNNPIDMVVG 73
+ P+ + L PT EL+ Q +V + + + + G +L R Q+ S +V+G
Sbjct: 161 KYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ----IVIG 216
Query: 74 TPGRILQHIEDGNMV-YGDIKYLVLDEADTMFDRGFGPD--IR-KFLVPLKNRASKPNGQ 129
TPG +L + IK VLDEAD M D IR + ++P +
Sbjct: 217 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLP----------R 266
Query: 130 GFQTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGSENKLEALLQ 189
Q +L SAT +V K + ++ + + + + ++ S + K +AL
Sbjct: 267 NCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCN 326
Query: 190 VLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDG 249
L +++ + M+FC+T ++ + L++ GE+ ++R + +F+ +G
Sbjct: 327 -LYGAITIA-QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFR--EG 382
Query: 250 DCPTLVCTDLAARGLDLD-VDHVIMFDFPLN------SIDYLHRTGRTARMGAKGKVTSL 302
LV T++ ARG+D++ V VI FD P++ + YLHR GRT R G +G ++
Sbjct: 383 KEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 442
Query: 303 V-AKKDVLLADRIEEAIRK 320
V +K + + +RI+E K
Sbjct: 443 VDSKHSMNILNRIQEHFNK 461
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 79.7 bits (195), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 47/135 (34%), Positives = 74/135 (54%), Gaps = 10/135 (7%)
Query: 15 PRRPRAV-VLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVG 73
PR V +L PTREL+ Q F V K + H ++ GG + L N I+++V
Sbjct: 123 PRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVA 182
Query: 74 TPGRILQHIEDG-NMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQ 132
TPGR+L H+++ +Y +++ LV+DEAD + D GF ++++ + L R Q
Sbjct: 183 TPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRR--------Q 234
Query: 133 TVLVSATMTKAVQKL 147
T+L SAT T+ V+ L
Sbjct: 235 TMLFSATQTRKVEDL 249
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 79.3 bits (194), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 45/128 (35%), Positives = 76/128 (59%), Gaps = 10/128 (7%)
Query: 21 VVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTPGRILQ 80
+++ PTREL+ Q F V + + + F + ++ GG L+ + + +NN I+++V TPGR+LQ
Sbjct: 101 LIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERINN-INILVCTPGRLLQ 159
Query: 81 HIEDGNMVYG-DIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVLVSAT 139
H+++ + D++ LVLDEAD + D GF + + L + QT+L SAT
Sbjct: 160 HMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKR--------QTLLFSAT 211
Query: 140 MTKAVQKL 147
TK+V+ L
Sbjct: 212 QTKSVKDL 219
>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 = 76.3 bits (186), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 45/128 (35%), Positives = 74/128 (57%), Gaps = 4/128 (3%)
Query: 182 NKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENL 241
+K LL +L + K + +VF T + +++ FL + + HG+ ++R E L
Sbjct: 31 DKRSFLLDLLNAT-GKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEAL 89
Query: 242 NKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVT 300
++F++ G P LV T +AARGLD+ +V HVI FD P + +Y+HR GRT R+G G T
Sbjct: 90 HQFRS--GKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLAT 147
Query: 301 SLVAKKDV 308
S ++++
Sbjct: 148 SFFNERNI 155
>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 = 75.1 bits (183), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 52/144 (36%), Positives = 74/144 (51%), Gaps = 9/144 (6%)
Query: 181 ENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVEN 240
E+K L+ +L+ + + +VF + ++L E I+ GE+ +R E
Sbjct: 15 EHKTALLVHLLKQP--EATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEA 72
Query: 241 LNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKV 299
+ + +G LV TD+AARG+D+ DV HV FD P + YLHR GRTAR G KG
Sbjct: 73 IKRLT--EGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTA 130
Query: 300 TSLVAKKDVLLADR----IEEAIR 319
SLV D LL + IEE I+
Sbjct: 131 ISLVEAHDHLLLGKVGRYIEEPIK 154
>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 = 74.3 bits (181), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 47/134 (35%), Positives = 71/134 (52%), Gaps = 10/134 (7%)
Query: 16 RRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTP 75
R+PRA+VL PTREL+ QV +++ H + V GG Q+++L D VV TP
Sbjct: 71 RKPRALVLTPTRELALQVASELTAVAPH--LKVVAVYGGTGYGKQKEALLRGADAVVATP 128
Query: 76 GRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVL 135
GR L ++ G + ++ VLDEAD M GF ++ L A+ P+ QT+L
Sbjct: 129 GRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALL-----SATPPS---RQTLL 180
Query: 136 VSATMTKAVQKLVD 149
SAT+ ++L +
Sbjct: 181 FSATLPSWAKRLAE 194
>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 = 74.3 bits (181), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 47/134 (35%), Positives = 71/134 (52%), Gaps = 10/134 (7%)
Query: 16 RRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTP 75
R+PRA+VL PTREL+ QV +++ H + V GG Q+++L D VV TP
Sbjct: 71 RKPRALVLTPTRELALQVASELTAVAPH--LKVVAVYGGTGYGKQKEALLRGADAVVATP 128
Query: 76 GRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVL 135
GR L ++ G + ++ VLDEAD M GF ++ L A+ P+ QT+L
Sbjct: 129 GRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALL-----SATPPS---RQTLL 180
Query: 136 VSATMTKAVQKLVD 149
SAT+ ++L +
Sbjct: 181 FSATLPSWAKRLAE 194
>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 = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 53/141 (37%), Positives = 74/141 (52%), Gaps = 7/141 (4%)
Query: 180 SENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVE 239
ENK L VL + ++FC T + L++ HG + ++R +
Sbjct: 19 EENKFSLLKDVL--MTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFD 76
Query: 240 NLNKFKNEDGDCPTLVCTDLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRTARMGAKGK 298
+N+FK G+ LV TD+AARG+D++ + VI +D PL Y+HRTGRT R G KGK
Sbjct: 77 VMNEFKR--GEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGK 134
Query: 299 VTSLV-AKKDVLLADRIEEAI 318
S V A + LAD IEE I
Sbjct: 135 AISFVTAFEKRFLAD-IEEYI 154
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 71.2 bits (173), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 48/141 (34%), Positives = 77/141 (54%), Gaps = 13/141 (9%)
Query: 10 GVLMKPRRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPID 69
+L P+R A+VL PTREL+ Q+ +++ +S ++ GG Q +L
Sbjct: 104 ALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPH 163
Query: 70 MVVGTPGRILQHIEDG-NMVYGDIKYLVLDEADTMFDRGFGPDIRKFL--VPLKNRASKP 126
+++ TPGR++ H+E+ +KYLV+DEAD + + F ++ K L +P ++R
Sbjct: 164 IIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIP-RDR---- 218
Query: 127 NGQGFQTVLVSATMTKAVQKL 147
+T L SATMTK VQKL
Sbjct: 219 -----KTFLFSATMTKKVQKL 234
>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 = 69.3 bits (168), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 47/126 (37%), Positives = 67/126 (53%), Gaps = 13/126 (10%)
Query: 199 NKVMVFCNTLNSSRAVDHFLNENQISTVNY-----HGEVPAQERVENLNKFKNEDGDCPT 253
N+ ++FCN SS+ V+ L +IS + Y H ++ + R + F+N G C
Sbjct: 45 NQSIIFCN---SSQRVE--LLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRN--GLCRN 97
Query: 254 LVCTDLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDVLLAD 312
LVCTDL RG+D+ V+ VI FDFP + YLHR GR+ R G G +L+ D
Sbjct: 98 LVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLITYDDRFNLK 157
Query: 313 RIEEAI 318
IEE +
Sbjct: 158 SIEEQL 163
>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 = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 45/137 (32%), Positives = 72/137 (52%), Gaps = 11/137 (8%)
Query: 19 RAVVLCPTRELSEQVFRVAKSISHHARFRSTM-VSGGGRLRPQEDSLNNPIDMVVGTPGR 77
+A+V+ PTREL+ QV ++ +S H M +GG LR L++ + +V+ TPGR
Sbjct: 73 QAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATPGR 132
Query: 78 ILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPL-KNRASKPNGQGFQTVLV 136
IL I+ G ++ +VLDEAD + + F + ++ L KNR Q +L
Sbjct: 133 ILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNR---------QILLY 183
Query: 137 SATMTKAVQKLVDEECQ 153
SAT +VQK ++ +
Sbjct: 184 SATFPLSVQKFMNSHLE 200
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 44/137 (32%), Positives = 69/137 (50%), Gaps = 10/137 (7%)
Query: 174 FIKLSGSEN--KLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGE 231
++KL +E KL LL VLE N+V++F ++ A+ L E + H
Sbjct: 10 YVKLKDNEKNRKLFDLLDVLE-----FNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRG 64
Query: 232 VPAQERVENLNKFKNEDGDCPTLVCTDLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRT 290
+P +ER+ +FK D LV T+L RG+D++ V+ +D P +S YLHR R
Sbjct: 65 MPQEERLSRYQQFK--DFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARA 122
Query: 291 ARMGAKGKVTSLVAKKD 307
R G KG + V+ ++
Sbjct: 123 GRFGTKGLAITFVSDEN 139
>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 = 65.9 bits (159), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 41/125 (32%), Positives = 61/125 (48%), Gaps = 9/125 (7%)
Query: 16 RRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTP 75
+ P+A++L PTREL+ Q+ +V +++ H + GG + L + +VVGTP
Sbjct: 81 KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDA-QIVVGTP 139
Query: 76 GRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVL 135
GR+ +I+ IK +LDEAD M GF I + L Q VL
Sbjct: 140 GRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTT--------QVVL 191
Query: 136 VSATM 140
+SATM
Sbjct: 192 LSATM 196
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 65.5 bits (158), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 41/125 (32%), Positives = 61/125 (48%), Gaps = 9/125 (7%)
Query: 16 RRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTP 75
+ P+A++L PTREL+ Q+ +V +++ H + GG + L + +VVGTP
Sbjct: 88 KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDA-QIVVGTP 146
Query: 76 GRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVL 135
GR+ +I+ IK +LDEAD M GF I + L Q VL
Sbjct: 147 GRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTT--------QVVL 198
Query: 136 VSATM 140
+SATM
Sbjct: 199 LSATM 203
>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 = 65.1 bits (157), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 45/130 (34%), Positives = 66/130 (50%), Gaps = 9/130 (6%)
Query: 18 PRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTPGR 77
P +VL PTREL+ V S+ +S + GG Q + ++ +D+++ TPGR
Sbjct: 95 PGMLVLTPTRELALHVEAECSKYSYKG-LKSICIYGGRNRNGQIEDISKGVDIIIATPGR 153
Query: 78 ILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVLVS 137
+ + ++ I YLV+DEAD M D F P IRK L L R + QTV+ S
Sbjct: 154 LNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKIL--LDVRPDR------QTVMTS 205
Query: 138 ATMTKAVQKL 147
AT V++L
Sbjct: 206 ATWPDTVRQL 215
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 62.0 bits (149), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 42/126 (33%), Positives = 60/126 (47%), Gaps = 9/126 (7%)
Query: 16 RRPRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPID-MVVGT 74
+ +A+VL PTREL++Q+ +V ++ + GG +R + L +VVGT
Sbjct: 97 KETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGT 156
Query: 75 PGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTV 134
PGR+ + + IK VLDEAD M RGF I + L Q V
Sbjct: 157 PGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNT--------SIQVV 208
Query: 135 LVSATM 140
L+SATM
Sbjct: 209 LLSATM 214
>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 = 62.0 bits (149), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 62/122 (50%), Gaps = 6/122 (4%)
Query: 200 KVMVFCNTLNSSRAVDHFLN---ENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLVC 256
K ++F T+ + + L + + + +HG++ +R + +FK ++ LVC
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESG--ILVC 92
Query: 257 TDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDVLLADRIE 315
TD+ ARG+D +V V+ P +Y+HR GRTAR G +G + K ++ +E
Sbjct: 93 TDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELE 152
Query: 316 EA 317
+A
Sbjct: 153 DA 154
>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 = 62.0 bits (149), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 62/122 (50%), Gaps = 6/122 (4%)
Query: 200 KVMVFCNTLNSSRAVDHFLN---ENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLVC 256
K ++F T+ + + L + + + +HG++ +R + +FK ++ LVC
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESG--ILVC 92
Query: 257 TDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDVLLADRIE 315
TD+ ARG+D +V V+ P +Y+HR GRTAR G +G + K ++ +E
Sbjct: 93 TDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELE 152
Query: 316 EA 317
+A
Sbjct: 153 DA 154
>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 = 62.0 bits (149), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 62/122 (50%), Gaps = 6/122 (4%)
Query: 200 KVMVFCNTLNSSRAVDHFLN---ENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLVC 256
K ++F T+ + + L + + + +HG++ +R + +FK ++ LVC
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESG--ILVC 92
Query: 257 TDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDVLLADRIE 315
TD+ ARG+D +V V+ P +Y+HR GRTAR G +G + K ++ +E
Sbjct: 93 TDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELE 152
Query: 316 EA 317
+A
Sbjct: 153 DA 154
>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 = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 39/126 (30%), Positives = 62/126 (49%), Gaps = 6/126 (4%)
Query: 181 ENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVEN 240
E K+ LL+ L+ + V++F A+ +L + V HG +ER +
Sbjct: 40 EAKMVYLLECLQKTPPP---VLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKA 96
Query: 241 LNKFKNEDGDCPTLVCTDLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRTARMGAKGKV 299
+ F+ +G LV TD+A++GLD + HVI +D P +Y+HR GRT G G
Sbjct: 97 IEAFR--EGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIA 154
Query: 300 TSLVAK 305
T+ + K
Sbjct: 155 TTFINK 160
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 58.5 bits (140), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 40/142 (28%), Positives = 77/142 (54%), Gaps = 15/142 (10%)
Query: 171 RHDFIKLSGSENKLEALLQVLEPSLSKGNKVMVFCNTLNSSR--AVDHFLNENQISTVNY 228
R ++ ++K +AL + S++ G + ++FC T +++ V+ + +Q+S ++
Sbjct: 9 RQYYVLCEHRKDKYQALCNIY-GSITIG-QAIIFCQTRRNAKWLTVEMIQDGHQVSLLS- 65
Query: 229 HGEVPAQERVENLNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSID----- 282
GE+ ++R + +F+ DG L+ T++ ARG+D+ V V+ FD P+ +
Sbjct: 66 -GELTVEQRASIIQRFR--DGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYE 122
Query: 283 -YLHRTGRTARMGAKGKVTSLV 303
YLHR GRT R G KG +++
Sbjct: 123 TYLHRIGRTGRFGKKGLAFNMI 144
>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 = 57.8 bits (138), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 41/127 (32%), Positives = 58/127 (45%), Gaps = 9/127 (7%)
Query: 19 RAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLN-NPIDMVVGTPGR 77
+A+VL PTREL++Q+ V ++ + GG +R + L ++VGTPGR
Sbjct: 85 QALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQXLQMEAPHIIVGTPGR 144
Query: 78 ILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRKFLVPLKNRASKPNGQGFQTVLVS 137
+ + + I VLDEAD M RGF I L + Q VL+S
Sbjct: 145 VFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNT--------QVVLLS 196
Query: 138 ATMTKAV 144
ATM V
Sbjct: 197 ATMPSDV 203
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 42/135 (31%), Positives = 63/135 (46%), Gaps = 23/135 (17%)
Query: 18 PRAVVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPID--MVVGTP 75
P+A+ L P+REL+ Q V + + + S ++ P N I+ ++VGTP
Sbjct: 93 PQAICLAPSRELARQTLEVVQEMGKFTKITSQLIV------PDSFEKNKQINAQVIVGTP 146
Query: 76 GRILQHIEDGNMVYGDIKYLVLDEADTMFD-RGFGPD---IRKFLVPLKNRASKPNGQGF 131
G +L + M IK VLDEAD M D +G G +++FL +
Sbjct: 147 GTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL-----------PKDT 195
Query: 132 QTVLVSATMTKAVQK 146
Q VL SAT AV++
Sbjct: 196 QLVLFSATFADAVRQ 210
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 51.6 bits (122), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 45/136 (33%), Positives = 69/136 (50%), Gaps = 5/136 (3%)
Query: 174 FIKLSGSENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVP 233
++ + E K E L L S+S V +FCNT + L ++ + + ++P
Sbjct: 8 YVNVEEEEYKYECLTD-LYDSISVTQAV-IFCNTRRKVEELTTKLRNDKFTVSAIYSDLP 65
Query: 234 AQERVENLNKFKNEDGDCPTLVCTDLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRTAR 292
QER + +F++ G L+ TDL ARG+D+ V VI +D P N +Y+HR GR R
Sbjct: 66 QQERDTIMKEFRS--GSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGR 123
Query: 293 MGAKGKVTSLVAKKDV 308
G KG + V +DV
Sbjct: 124 FGRKGVAINFVTNEDV 139
>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 = 51.2 bits (121), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 46/86 (53%), Gaps = 9/86 (10%)
Query: 229 HGEVPAQERVENLNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFDFPL------NSI 281
HG++ QER ++ F+ +G L+ T++ ARG+D+ V V+ +D P +
Sbjct: 67 HGDLQTQERDRLIDDFR--EGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPA 124
Query: 282 DYLHRTGRTARMGAKGKVTSLVAKKD 307
Y+HR GRT R G KG S V K+
Sbjct: 125 TYIHRIGRTGRFGRKGVAISFVHDKN 150
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 51.2 bits (121), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 46/86 (53%), Gaps = 9/86 (10%)
Query: 229 HGEVPAQERVENLNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFDFPL------NSI 281
HG++ QER ++ F+ +G L+ T++ ARG+D+ V V+ +D P +
Sbjct: 66 HGDLQTQERDRLIDDFR--EGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPA 123
Query: 282 DYLHRTGRTARMGAKGKVTSLVAKKD 307
Y+HR GRT R G KG S V K+
Sbjct: 124 TYIHRIGRTGRFGRKGVAISFVHDKN 149
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 46/86 (53%), Gaps = 9/86 (10%)
Query: 229 HGEVPAQERVENLNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFDFPL------NSI 281
HG++ QER ++ F+ +G L+ T++ ARG+D+ V V+ +D P +
Sbjct: 68 HGDLQTQERDRLIDDFR--EGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPA 125
Query: 282 DYLHRTGRTARMGAKGKVTSLVAKKD 307
Y+HR GRT R G KG S V K+
Sbjct: 126 TYIHRIGRTGRFGRKGVAISFVHDKN 151
>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 = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 35/106 (33%), Positives = 52/106 (49%), Gaps = 6/106 (5%)
Query: 13 MKPRRP--RAVVLCPTRELSEQVFRVAKSISHHARFRSTMVS----GGGRLRPQEDSLNN 66
+KP R +AV+ PTREL+ Q++ I+ +V+ GG + + LN
Sbjct: 66 IKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLNV 125
Query: 67 PIDMVVGTPGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDI 112
+V+GTPGRI I + + LV+DEAD D GF D+
Sbjct: 126 QPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDV 171
>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 = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 44/87 (50%)
Query: 21 VVLCPTRELSEQVFRVAKSISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTPGRILQ 80
++L PTRE++ Q+ V +I V GG Q+ + + VG+PGRI Q
Sbjct: 96 LILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKKCHIAVGSPGRIKQ 155
Query: 81 HIEDGNMVYGDIKYLVLDEADTMFDRG 107
IE + G I+ +LDEAD + + G
Sbjct: 156 LIELDYLNPGSIRLFILDEADKLLEEG 182
>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 = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 51/92 (55%), Gaps = 8/92 (8%)
Query: 20 AVVLCPTRELSEQVFRVAKSISHHARF----RSTMVSGGGRLRPQEDSLN-NPIDMVVGT 74
+V+C TREL+ F+++K +++ + + GG ++ E+ L N +VVGT
Sbjct: 85 VLVMCHTRELA---FQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGT 141
Query: 75 PGRILQHIEDGNMVYGDIKYLVLDEADTMFDR 106
PGRIL + ++ IK+ +LDE D M ++
Sbjct: 142 PGRILALARNKSLNLKHIKHFILDECDKMLEQ 173
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 48.1 bits (113), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 30/108 (27%), Positives = 57/108 (52%), Gaps = 14/108 (12%)
Query: 11 VLMKPRRP-----RAVVLCPTRELSEQVFRVAKSISHHARFRSTMVS----GGGRLRPQE 61
+LM+ ++P RA+++ PTREL+ Q+ R IS FR M+ + P+
Sbjct: 87 ILMQLKQPANKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKS 146
Query: 62 DSLNNPIDMVVGTPGRILQHIEDG--NMVYGDIKYLVLDEADTMFDRG 107
+ D++V TP R++ ++ + +++LV+DE+D +F+ G
Sbjct: 147 ---SKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDG 191
>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 = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 42/100 (42%), Gaps = 2/100 (2%)
Query: 197 KGNKVMVFCNTLNSSRAVDHFLNENQ-ISTVNYHGEVPAQERVENLNKFKNEDGDCPTLV 255
+ KV+V C ++ ++ L E + I +H ER F ED L+
Sbjct: 502 RSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGXSIIERDRAAAWFAEEDTGAQVLL 561
Query: 256 CTDLAARGLDLD-VDHVIMFDFPLNSIDYLHRTGRTARMG 294
C+++ + G + H + FD P N R GR R+G
Sbjct: 562 CSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIG 601
>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 = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 52/108 (48%), Gaps = 5/108 (4%)
Query: 182 NKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENL 241
+LE L +L ++ ++ MVF T + + L HG++ ER +
Sbjct: 14 GRLEVLSDLL--YVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVM 71
Query: 242 NKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTG 288
F+ G+ LV TD+AARGLD+ VD V+ + P + Y HR+G
Sbjct: 72 GAFRQ--GEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSG 117
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 34/108 (31%), Positives = 52/108 (48%), Gaps = 5/108 (4%)
Query: 182 NKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENL 241
+LE L +L ++ ++ MVF T + + L HG++ ER L
Sbjct: 17 GRLEVLSDLL--YVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVL 74
Query: 242 NKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTG 288
F+ G+ LV TD+AARGLD+ VD V+ + P + Y HR+G
Sbjct: 75 GAFRQ--GEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSG 120
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 39/153 (25%), Positives = 72/153 (47%), Gaps = 17/153 (11%)
Query: 174 FIKLSGSENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVP 233
+++ +EN++ L++ + ++G + +V T+ + + FL E+ I H E+
Sbjct: 416 LVRVKPTENQILDLMEGIRERAARGERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELD 475
Query: 234 AQERVENLNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFD-----FPLNSIDYLHRT 287
A +R + + DC LV +L GLD+ +V V + D F + +
Sbjct: 476 AFKRQALIRDLRLGHYDC--LVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTI 533
Query: 288 GRTARMGAKGKVTSLVAKKDVLLADRIEEAIRK 320
GR AR A+G+V L ADR+ EA+++
Sbjct: 534 GRAAR-NARGEVW--------LYADRVSEAMQR 557
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 39/153 (25%), Positives = 72/153 (47%), Gaps = 17/153 (11%)
Query: 174 FIKLSGSENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVP 233
+++ +EN++ L++ + ++G + +V T+ + + FL E+ I H E+
Sbjct: 415 LVRVKPTENQILDLMEGIRERAARGERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELD 474
Query: 234 AQERVENLNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFD-----FPLNSIDYLHRT 287
A +R + + DC LV +L GLD+ +V V + D F + +
Sbjct: 475 AFKRQALIRDLRLGHYDC--LVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTI 532
Query: 288 GRTARMGAKGKVTSLVAKKDVLLADRIEEAIRK 320
GR AR A+G+V L ADR+ EA+++
Sbjct: 533 GRAAR-NARGEVW--------LYADRVSEAMQR 556
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 33/132 (25%), Positives = 67/132 (50%), Gaps = 10/132 (7%)
Query: 183 KLEALLQVLEPSLSK--GNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQ----- 235
K++ L +++ L + +K++VF N +++ + + L ++ I + G+ +
Sbjct: 344 KMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGL 403
Query: 236 -ERVENLNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARM 293
+R + L + G+ LV T + GLD+ +VD V+ ++ ++I + R GRT R
Sbjct: 404 SQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGRH 463
Query: 294 GAKGKVTSLVAK 305
G+V L+AK
Sbjct: 464 -MPGRVIILMAK 474
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 41/100 (41%), Gaps = 3/100 (3%)
Query: 196 SKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLV 255
+G +++CN+ L IS YH + R + KF+ +D +V
Sbjct: 234 QRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDD--LQIVV 291
Query: 256 CTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMG 294
T G++ +V V+ FD P N Y TGR R G
Sbjct: 292 ATVAFGXGINKPNVRFVVHFDIPRNIESYYQETGRAGRDG 331
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 30/122 (24%), Positives = 46/122 (37%), Gaps = 3/122 (2%)
Query: 196 SKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLV 255
+G +++CN+ L IS YH + R + KF+ +D +V
Sbjct: 234 QRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDD--LQIVV 291
Query: 256 CTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKGKVTSLVAKKDVLLADRI 314
T G++ +V V+ FD P N Y TGR R G + D+ R
Sbjct: 292 ATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLRRC 351
Query: 315 EE 316
E
Sbjct: 352 LE 353
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 37/144 (25%), Positives = 65/144 (45%), Gaps = 3/144 (2%)
Query: 180 SENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVE 239
S K+ L Q+L G++V++F + + +L+ I+ G VP+ +R
Sbjct: 554 SSGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRI 613
Query: 240 NLNKFKNEDG-DCPTLVCTDLAARGLDL-DVDHVIMFDFPLNSIDYLHRTGRTARMGAKG 297
+++ F + D D L+ T G++L D V++FD N L R R+G K
Sbjct: 614 SIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIGQKN 673
Query: 298 KVTSL-VAKKDVLLADRIEEAIRK 320
V + KD + + +E A +K
Sbjct: 674 HVMVYRLVSKDTVEEEVLERARKK 697
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 24/117 (20%), Positives = 47/117 (40%), Gaps = 17/117 (14%)
Query: 203 VFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLVCTDLAAR 262
+ C + N +V + + + +G +P ++ KF + + C LV TD
Sbjct: 325 IVCFSKNDIYSVSRQIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGM 384
Query: 263 GLDLDVDHVIMFDF--------------PLNSIDYLHRTGRTARMGAK---GKVTSL 302
GL+L + +I + P+ + L GR R ++ G+VT++
Sbjct: 385 GLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGRFSSRFKEGEVTTM 441
>pdb|3RC3|A Chain A, Human Mitochondrial Helicase Suv3
Length = 677
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 24/116 (20%), Positives = 46/116 (39%), Gaps = 17/116 (14%)
Query: 203 VFCNTLNSSRAVDHFLNENQISTVNYHGEVPAQERVENLNKFKNEDGDCPTLVCTDLAAR 262
+ C + N +V + + + +G +P ++ KF + + C LV TD
Sbjct: 325 IVCFSKNDIYSVSRQIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGX 384
Query: 263 GLDLDVDHVIMFDF--------------PLNSIDYLHRTGRTARMGAK---GKVTS 301
GL+L + +I + P+ + L GR R ++ G+VT+
Sbjct: 385 GLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGRFSSRFKEGEVTT 440
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 36.2 bits (82), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 43/92 (46%), Gaps = 7/92 (7%)
Query: 16 RRPRAVVLCPTRELSEQVFRVAKSI-SHHARFRSTMVSGGGRL-RPQEDSLNNPIDMVVG 73
+ P+ + L PT EL+ Q +V + + + + G +L R Q+ S +V+G
Sbjct: 161 KYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ----IVIG 216
Query: 74 TPGRILQHIEDGNMV-YGDIKYLVLDEADTMF 104
TPG +L + IK VLDEAD M
Sbjct: 217 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 248
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 43/92 (46%), Gaps = 7/92 (7%)
Query: 16 RRPRAVVLCPTRELSEQVFRVAKSI-SHHARFRSTMVSGGGRL-RPQEDSLNNPIDMVVG 73
+ P+ + L PT EL+ Q +V + + + + G +L R Q+ S +V+G
Sbjct: 94 KYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ----IVIG 149
Query: 74 TPGRILQHIEDGNMV-YGDIKYLVLDEADTMF 104
TPG +L + IK VLDEAD M
Sbjct: 150 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 181
>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 = 35.0 bits (79), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 65/265 (24%), Positives = 110/265 (41%), Gaps = 43/265 (16%)
Query: 73 GTPGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRK-------FLVP--LKNRA 123
TP +L + D M+ D ++ + + MF+ G RK F +P L NR
Sbjct: 326 STPYTLLDYFPDDFMIVVDESHVTIPQVRGMFN---GDQARKQVLVDHGFRLPSALDNRP 382
Query: 124 ---SKPNGQGFQTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGS 180
+ V VSAT + DE + I +R + L + R
Sbjct: 383 LRFEEFEKHMHNIVYVSATPGPYEIEHTDEMVEQI--IRPTGLLDPLIDVR-------PI 433
Query: 181 ENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNY-HGEVPAQERVE 239
E +++ L+ ++ + + +V+V T S + +L E I VNY H E+ ER+E
Sbjct: 434 EGQIDDLIGEIQARIERNERVLVTTLTKKMSEDLTDYLKEIGIK-VNYLHSEIKTLERIE 492
Query: 240 NLNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFD-----FPLNSIDYLHRTGRTARM 293
+ + G LV +L GLD+ +V V + D F + + GR AR
Sbjct: 493 IIRDLRL--GKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR- 549
Query: 294 GAKGKVTSLVAKKDVLLADRIEEAI 318
A+G+V ++ AD+I +++
Sbjct: 550 NAEGRV--------IMYADKITKSM 566
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 35.0 bits (79), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 65/265 (24%), Positives = 110/265 (41%), Gaps = 43/265 (16%)
Query: 73 GTPGRILQHIEDGNMVYGDIKYLVLDEADTMFDRGFGPDIRK-------FLVP--LKNRA 123
TP +L + D M+ D ++ + + MF+ G RK F +P L NR
Sbjct: 320 STPYTLLDYFPDDFMIVVDESHVTIPQVRGMFN---GDQARKQVLVDHGFRLPSALDNRP 376
Query: 124 ---SKPNGQGFQTVLVSATMTKAVQKLVDEECQGIAHLRTSTLHKKIASARHDFIKLSGS 180
+ V VSAT + DE + I +R + L + R
Sbjct: 377 LRFEEFEKHMHNIVYVSATPGPYEIEHTDEMVEQI--IRPTGLLDPLIDVR-------PI 427
Query: 181 ENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNY-HGEVPAQERVE 239
E +++ L+ ++ + + +V+V T S + +L E I VNY H E+ ER+E
Sbjct: 428 EGQIDDLIGEIQARIERNERVLVTTLTKKMSEDLTDYLKEIGIK-VNYLHSEIKTLERIE 486
Query: 240 NLNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFD-----FPLNSIDYLHRTGRTARM 293
+ + G LV +L GLD+ +V V + D F + + GR AR
Sbjct: 487 IIRDLRL--GKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR- 543
Query: 294 GAKGKVTSLVAKKDVLLADRIEEAI 318
A+G+V ++ AD+I +++
Sbjct: 544 NAEGRV--------IMYADKITKSM 560
>pdb|3P0R|A Chain A, Crystal Structure Of Azoreductase From Bacillus Anthracis
Str. Sterne
Length = 211
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 28/58 (48%), Gaps = 11/58 (18%)
Query: 266 LDVDHVIMFDFPL----------NSIDYLHRTGRTARMGAKGKVTSLVAKKDVLLADR 313
L+ D V+ F FPL IDYL+R G+T + +G V + KK LL R
Sbjct: 91 LEADKVV-FGFPLWNLTIPAVLHTYIDYLNRAGKTFKYTPEGPVGLIGDKKIALLNAR 147
>pdb|1ESC|A Chain A, The Molecular Mechanism Of Enantiorecognition By Esterases
pdb|1ESD|A Chain A, The Molecular Mechanism Of Enantiorecognition By Esterases
pdb|1ESE|A Chain A, The Molecular Mechanism Of Enantiorecognition By Esterases
Length = 306
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 7/53 (13%)
Query: 39 SISHHARFRSTMVSGGGRLRPQEDSLNNPIDMVVGTPG-------RILQHIED 84
++ HH + + G G L PQ+D+L + VG+ G RIL+ D
Sbjct: 67 ALIHHFWEKQELPFGAGELPPQQDALKQDTQLTVGSLGGNTLGFNRILKQCSD 119
>pdb|1T5L|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
pdb|1T5L|B Chain B, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
Length = 658
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 30/131 (22%), Positives = 55/131 (41%), Gaps = 9/131 (6%)
Query: 175 IKLSGSENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPA 234
I + ++ +++ L+ + + + + +V T + + +L E I H E+
Sbjct: 422 IDVRPTKGQIDDLIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKT 481
Query: 235 QERVENLNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFD-----FPLNSIDYLHRTG 288
ER+E + + G LV +L GLD+ +V V + D F + + G
Sbjct: 482 LERIEIIRDLRL--GKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIG 539
Query: 289 RTARMGAKGKV 299
R AR A G V
Sbjct: 540 RAAR-NANGHV 549
>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 = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 23/110 (20%), Positives = 45/110 (40%), Gaps = 18/110 (16%)
Query: 164 HKKIASARHDFIKLSGSENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNE--- 220
HK + HD + + K E +++ +E KG V+V ++ S + L +
Sbjct: 440 HKPMIRKDHDDLVFRTQKEKYEKIVEEIEKRYKKGQPVLVGTTSIEKSELLSSMLKKKGI 499
Query: 221 -NQISTVNYH---GEVPAQERVENLNKFKNEDGDCPTLVCTDLAARGLDL 266
+Q+ YH E+ A+ + + + T++A RG D+
Sbjct: 500 PHQVLNAKYHEKEAEIVAKAGQKGM-----------VTIATNMAGRGTDI 538
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 30/131 (22%), Positives = 55/131 (41%), Gaps = 9/131 (6%)
Query: 175 IKLSGSENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPA 234
I + ++ +++ L+ + + + + +V T + + +L E I H E+
Sbjct: 422 IDVRPTKGQIDDLIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKT 481
Query: 235 QERVENLNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFD-----FPLNSIDYLHRTG 288
ER+E + + G LV +L GLD+ +V V + D F + + G
Sbjct: 482 LERIEIIRDLRL--GKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIG 539
Query: 289 RTARMGAKGKV 299
R AR A G V
Sbjct: 540 RAAR-NANGHV 549
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 30/131 (22%), Positives = 55/131 (41%), Gaps = 9/131 (6%)
Query: 175 IKLSGSENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPA 234
I + ++ +++ L+ + + + + +V T + + +L E I H E+
Sbjct: 422 IDVRPTKGQIDDLIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKT 481
Query: 235 QERVENLNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFD-----FPLNSIDYLHRTG 288
ER+E + + G LV +L GLD+ +V V + D F + + G
Sbjct: 482 LERIEIIRDLRL--GKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIG 539
Query: 289 RTARMGAKGKV 299
R AR A G V
Sbjct: 540 RAAR-NANGHV 549
>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
Maritima
Length = 822
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 23/110 (20%), Positives = 45/110 (40%), Gaps = 18/110 (16%)
Query: 164 HKKIASARHDFIKLSGSENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNE--- 220
HK + HD + + K E +++ +E KG V+V ++ S + L +
Sbjct: 440 HKPMIRKDHDDLVFRTQKEKYEKIVEEIEKRYKKGQPVLVGTTSIEKSELLSSMLKKKGI 499
Query: 221 -NQISTVNYH---GEVPAQERVENLNKFKNEDGDCPTLVCTDLAARGLDL 266
+Q+ YH E+ A+ + + + T++A RG D+
Sbjct: 500 PHQVLNAKYHEKEAEIVAKAGQKGM-----------VTIATNMAGRGTDI 538
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 30/131 (22%), Positives = 55/131 (41%), Gaps = 9/131 (6%)
Query: 175 IKLSGSENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPA 234
I + ++ +++ L+ + + + + +V T + + +L E I H E+
Sbjct: 421 IDVRPTKGQIDDLIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKT 480
Query: 235 QERVENLNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFD-----FPLNSIDYLHRTG 288
ER+E + + G LV +L GLD+ +V V + D F + + G
Sbjct: 481 LERIEIIRDLRL--GKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIG 538
Query: 289 RTARMGAKGKV 299
R AR A G V
Sbjct: 539 RAAR-NANGHV 548
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 30/131 (22%), Positives = 55/131 (41%), Gaps = 9/131 (6%)
Query: 175 IKLSGSENKLEALLQVLEPSLSKGNKVMVFCNTLNSSRAVDHFLNENQISTVNYHGEVPA 234
I + ++ +++ L+ + + + + +V T + + +L E I H E+
Sbjct: 447 IDVRPTKGQIDDLIGEIHERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKT 506
Query: 235 QERVENLNKFKNEDGDCPTLVCTDLAARGLDL-DVDHVIMFD-----FPLNSIDYLHRTG 288
ER+E + + G LV +L GLD+ +V V + D F + + G
Sbjct: 507 LERIEIIRDLRL--GKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIG 564
Query: 289 RTARMGAKGKV 299
R AR A G V
Sbjct: 565 RAAR-NANGHV 574
>pdb|3HKZ|C Chain C, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
pdb|3HKZ|M Chain M, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
Length = 395
Score = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 9/50 (18%)
Query: 259 LAARGLDLDVDHVIMFDFPLNSIDYLHRTG---RTARMGAKGKVTSLVAK 305
LA +GLD+D+ H+++ D + RTG + R G G+ S++A+
Sbjct: 301 LAEQGLDVDIRHILLIA------DVMTRTGIVRQIGRHGVTGEKNSVLAR 344
>pdb|2PMZ|C Chain C, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|2PMZ|G Chain G, Archaeal Rna Polymerase From Sulfolobus Solfataricus
Length = 392
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 9/50 (18%)
Query: 259 LAARGLDLDVDHVIMFDFPLNSIDYLHRTG---RTARMGAKGKVTSLVAK 305
LA +GLD+D+ H+++ D + RTG + R G G+ S++A+
Sbjct: 298 LAEQGLDVDIRHILLIA------DVMTRTGIVRQIGRHGVTGEKNSVLAR 341
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.135 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,315,377
Number of Sequences: 62578
Number of extensions: 382061
Number of successful extensions: 1053
Number of sequences better than 100.0: 89
Number of HSP's better than 100.0 without gapping: 75
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 846
Number of HSP's gapped (non-prelim): 92
length of query: 323
length of database: 14,973,337
effective HSP length: 99
effective length of query: 224
effective length of database: 8,778,115
effective search space: 1966297760
effective search space used: 1966297760
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)