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= psy16633
(540 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 167 bits (424), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 118/363 (32%), Positives = 186/363 (51%), Gaps = 49/363 (13%)
Query: 31 QAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQVQ 90
QAI ++G+ T +Q + IPL+LQ K+V+VRA+TGSGKT A+AIP+++
Sbjct: 7 QAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILE-----------L 55
Query: 91 ETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVAT 150
K+LV++P++EL Q+ +I+++ D K ++ + Q V DIVVAT
Sbjct: 56 GMKSLVVTPTRELTRQVASHIRDIGRYM--DTKVAEVYGGMPYKAQIN-RVRNADIVVAT 112
Query: 151 PARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASATLS 210
P R L +DL SS EIVIIDEADL+F G+ DD+K +L L SAT+
Sbjct: 113 PGRLLDLWSKGVIDL-SSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIP 171
Query: 211 EDVLSLKHLILRNPVILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQGKTI 270
E++ ++++ + E A ++ + H + ++D ++ + L+ N +G I
Sbjct: 172 EEI----RKVVKDFITNYEEIEACIGLANVEHKFVHVKDDWRSKV--QALRENKDKG-VI 224
Query: 271 IFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKALET 330
+FV T ++ KL + + L +LP R + F +G YD++I +D
Sbjct: 225 VFVRTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDV----- 275
Query: 331 PQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQGTAL 390
SRG+D V VINFD P D++ YIHR GRT R +G A+
Sbjct: 276 ------------------ASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAI 317
Query: 391 SFV 393
+F+
Sbjct: 318 TFI 320
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 110/373 (29%), Positives = 185/373 (49%), Gaps = 42/373 (11%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L I + G+ +P+ IQE AIP+ + +D+L RA+ G+GKT AF IP ++K+ ++
Sbjct: 33 LMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKV-----KPKL 87
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVA 149
+ +AL++ P++EL Q + ++ L C + C+ + ++ L E I+V
Sbjct: 88 NKIQALIMVPTRELALQTSQVVRTLGKHCG--ISCMVTTGGTNLRDDILRLNETVHILVG 145
Query: 150 TPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASATL 209
TP R L K DL S + I+DEAD + S ++ ++ +L FLP +Q++L SAT
Sbjct: 146 TPGRVLDLASRKVADL-SDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSATF 204
Query: 210 SEDV--LSLKHLILRNPVILKL-EEPAIAPVSQLAHYHILAQEDEKATILYTLL-KLNLV 265
V +KH L P + L EE + ++Q Y+ +E +K L TL KL +
Sbjct: 205 PLTVKEFMVKH--LHKPYEINLMEELTLKGITQ---YYAFVEERQKLHCLNTLFSKLQIN 259
Query: 266 QGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDE 325
Q IIF N+ ++ L + S ++ + + R ++F QG ++ SD
Sbjct: 260 QA--IIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDL 317
Query: 326 KALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKN 385
++RGID Q V+ VINFDFP + Y+HR GR+ R +
Sbjct: 318 -----------------------LTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGH 354
Query: 386 QGTALSFVSLREQ 398
G A++ ++ ++
Sbjct: 355 LGLAINLINWNDR 367
>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 = 149 bits (376), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 100/366 (27%), Positives = 191/366 (52%), Gaps = 36/366 (9%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+ I G+ +P+ IQ+RAI I++ +DV+ ++++G+GKT F+I ++Q + QV
Sbjct: 49 LRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-----DIQV 103
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVA 149
+ET+AL+L+P++EL Q+ K + L + +V+C +V L +V
Sbjct: 104 RETQALILAPTRELAVQIQKGL--LALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAG 161
Query: 150 TPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASATL 209
TP R ++ ++L ++ ++++++DEAD + + G+++ + V ++LP Q +L SATL
Sbjct: 162 TPGRVFDMIRRRSLRTRA-IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATL 220
Query: 210 SEDVLSLKHLILRNPV--ILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQG 267
++L + + + +P+ ++K +E + + Q + + +E+ K L L L
Sbjct: 221 PHEILEMTNKFMTDPIRILVKRDELTLEGIKQF--FVAVEREEWKFDTLCDLYD-TLTIT 277
Query: 268 KTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKA 327
+ +IF NT K L + + + ++ ++P K R + +F G V+I++D A
Sbjct: 278 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 337
Query: 328 LETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQG 387
RG+D VS +IN+D P + + YIHR GR+ R +G
Sbjct: 338 -----------------------RGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKG 374
Query: 388 TALSFV 393
A++FV
Sbjct: 375 VAINFV 380
>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 = 149 bits (376), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 100/366 (27%), Positives = 191/366 (52%), Gaps = 36/366 (9%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+ I G+ +P+ IQ+RAI I++ +DV+ ++++G+GKT F+I ++Q + QV
Sbjct: 50 LRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-----DIQV 104
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVA 149
+ET+AL+L+P++EL Q+ K + L + +V+C +V L +V
Sbjct: 105 RETQALILAPTRELAVQIQKGL--LALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAG 162
Query: 150 TPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASATL 209
TP R ++ ++L ++ ++++++DEAD + + G+++ + V ++LP Q +L SATL
Sbjct: 163 TPGRVFDMIRRRSLRTRA-IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATL 221
Query: 210 SEDVLSLKHLILRNPV--ILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQG 267
++L + + + +P+ ++K +E + + Q + + +E+ K L L L
Sbjct: 222 PHEILEMTNKFMTDPIRILVKRDELTLEGIKQF--FVAVEREEWKFDTLCDLYD-TLTIT 278
Query: 268 KTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKA 327
+ +IF NT K L + + + ++ ++P K R + +F G V+I++D A
Sbjct: 279 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 338
Query: 328 LETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQG 387
RG+D VS +IN+D P + + YIHR GR+ R +G
Sbjct: 339 -----------------------RGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKG 375
Query: 388 TALSFV 393
A++FV
Sbjct: 376 VAINFV 381
>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 = 149 bits (375), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 100/366 (27%), Positives = 191/366 (52%), Gaps = 36/366 (9%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+ I G+ +P+ IQ+RAI I++ +DV+ ++++G+GKT F+I ++Q + QV
Sbjct: 50 LRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-----DIQV 104
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVA 149
+ET+AL+L+P++EL Q+ K + L + +V+C +V L +V
Sbjct: 105 RETQALILAPTRELAVQIQKGL--LALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAG 162
Query: 150 TPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASATL 209
TP R ++ ++L ++ ++++++DEAD + + G+++ + V ++LP Q +L SATL
Sbjct: 163 TPGRVFDMIRRRSLRTRA-IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATL 221
Query: 210 SEDVLSLKHLILRNPV--ILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQG 267
++L + + + +P+ ++K +E + + Q + + +E+ K L L L
Sbjct: 222 PHEILEMTNKFMTDPIRILVKRDELTLEGIKQF--FVAVEREEWKFDTLCDLYD-TLTIT 278
Query: 268 KTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKA 327
+ +IF NT K L + + + ++ ++P K R + +F G V+I++D A
Sbjct: 279 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 338
Query: 328 LETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQG 387
RG+D VS +IN+D P + + YIHR GR+ R +G
Sbjct: 339 -----------------------RGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKG 375
Query: 388 TALSFV 393
A++FV
Sbjct: 376 VAINFV 381
>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 = 149 bits (375), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 100/366 (27%), Positives = 191/366 (52%), Gaps = 36/366 (9%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+ I G+ +P+ IQ+RAI I++ +DV+ ++++G+GKT F+I ++Q + QV
Sbjct: 28 LRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL-----DIQV 82
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVA 149
+ET+AL+L+P++EL Q+ K + L + +V+C +V L +V
Sbjct: 83 RETQALILAPTRELAVQIQKGL--LALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAG 140
Query: 150 TPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASATL 209
TP R ++ ++L ++ ++++++DEAD + + G+++ + V ++LP Q +L SATL
Sbjct: 141 TPGRVFDMIRRRSLRTRA-IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATL 199
Query: 210 SEDVLSLKHLILRNPV--ILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQG 267
++L + + + +P+ ++K +E + + Q + + +E+ K L L L
Sbjct: 200 PHEILEMTNKFMTDPIRILVKRDELTLEGIKQF--FVAVEREEWKFDTLCDLYD-TLTIT 256
Query: 268 KTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKA 327
+ +IF NT K L + + + ++ ++P K R + +F G V+I++D A
Sbjct: 257 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 316
Query: 328 LETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQG 387
RG+D VS +IN+D P + + YIHR GR+ R +G
Sbjct: 317 -----------------------RGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKG 353
Query: 388 TALSFV 393
A++FV
Sbjct: 354 VAINFV 359
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 147 bits (372), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 99/366 (27%), Positives = 191/366 (52%), Gaps = 36/366 (9%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+ I G+ +P+ IQ+RAI I++ +DV+ ++++G+GKT F++ ++Q + QV
Sbjct: 13 LRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCL-----DIQV 67
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVA 149
+ET+AL+L+P++EL Q+ K + L + +V+C +V L +V
Sbjct: 68 RETQALILAPTRELAVQVQKGL--LALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAG 125
Query: 150 TPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASATL 209
TP R ++ ++L ++ ++++++DEAD + + G+++ + V ++LP Q +L SATL
Sbjct: 126 TPGRVFDMIRRRSLRTRA-IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATL 184
Query: 210 SEDVLSLKHLILRNPV--ILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQG 267
++L + + + +P+ ++K +E + + Q + + +E+ K L L L
Sbjct: 185 PHEILEMTNKFMTDPIRILVKRDELTLEGIKQF--FVAVEREEWKFDTLCDLYD-TLTIT 241
Query: 268 KTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKA 327
+ +IF NT K L + + + ++ ++P K R + +F G V+I++D A
Sbjct: 242 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 301
Query: 328 LETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQG 387
RG+D VS +IN+D P + + YIHR GR+ R +G
Sbjct: 302 -----------------------RGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKG 338
Query: 388 TALSFV 393
A++FV
Sbjct: 339 VAVNFV 344
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 144 bits (363), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 99/366 (27%), Positives = 190/366 (51%), Gaps = 36/366 (9%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+ I G+ +P+ IQ+RAI I++ +DV+ ++++G+GKT F++ ++Q + QV
Sbjct: 13 LRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCL-----DIQV 67
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVA 149
+ET+AL+L+P++EL Q+ K + L + +V+ +V L +V
Sbjct: 68 RETQALILAPTRELAVQVQKGL--LALGDYMNVQSHACIGGTNVGEDIRKLDYGQHVVAG 125
Query: 150 TPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASATL 209
TP R ++ ++L ++ ++++++DEAD + + G+++ + V ++LP Q +L SATL
Sbjct: 126 TPGRVFDMIRRRSLRTRA-IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATL 184
Query: 210 SEDVLSLKHLILRNPV--ILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQG 267
+VL + + + +P+ ++K +E + + Q + + +E+ K L L L
Sbjct: 185 PHEVLEMTNKFMTDPIRILVKRDELTLEGIKQF--FVAVEREEWKFDTLCDLYD-TLTIT 241
Query: 268 KTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKA 327
+ +IF NT K L + + + ++ ++P K R + +F G V+I++D A
Sbjct: 242 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 301
Query: 328 LETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQG 387
RG+D VS +IN+D P + + YIHR GR+ R +G
Sbjct: 302 -----------------------RGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKG 338
Query: 388 TALSFV 393
A++FV
Sbjct: 339 VAVNFV 344
>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 = 144 bits (362), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 110/370 (29%), Positives = 190/370 (51%), Gaps = 43/370 (11%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+ + G+ EP+ IQ+RAI I++ DVL +A++G+GKTG F+I +Q+I V
Sbjct: 34 LRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-----DTSV 88
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVK---CVDISEQVDVSVQEPLLVERPDI 146
+ +AL+L+P++EL Q+ K + L D+K C+ + V++ + I
Sbjct: 89 KAPQALMLAPTRELALQIQKVVMALAFHM--DIKVHACIGGTS----FVEDAEGLRDAQI 142
Query: 147 VVATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILAS 206
VV TP R +++ + +++ I+DEAD + S G+++ + + LP Q +L S
Sbjct: 143 VVGTPGRVFDNIQRRRFR-TDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 201
Query: 207 ATLSEDVLSLKHLILRNPV--ILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNL 264
AT+ DVL + +RNPV ++K +E + + Q +++ +E+E T L ++
Sbjct: 202 ATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQ---FYVNVEEEEYKYECLTDLYDSI 258
Query: 265 VQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASD 324
+ +IF NT K +L L K + + S+LP + R + +F G ++I++D
Sbjct: 259 SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTD 318
Query: 325 EKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGK 384
++RGID Q VS VIN+D P + + YIHR GR R
Sbjct: 319 L-----------------------LARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFG 355
Query: 385 NQGTALSFVS 394
+G A++FV+
Sbjct: 356 RKGVAINFVT 365
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 138 bits (348), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 110/370 (29%), Positives = 184/370 (49%), Gaps = 43/370 (11%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+ + G+ EP+ IQ+RAI I++ DVL +A++G+GKTG F+I +Q+I V
Sbjct: 33 LRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-----DTSV 87
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVK---CVDISEQVDVSVQEPLLVERPDI 146
+ +AL L+P++EL Q+ K + L D+K C+ + V++ + I
Sbjct: 88 KAPQALXLAPTRELALQIQKVVXALAFHX--DIKVHACIGGTS----FVEDAEGLRDAQI 141
Query: 147 VVATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILAS 206
VV TP R +++ + ++ I+DEAD S G+++ + + LP Q +L S
Sbjct: 142 VVGTPGRVFDNIQRRRFR-TDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVLLS 200
Query: 207 ATLSEDVLSLKHLILRNPV--ILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNL 264
AT DVL + RNPV ++K +E + + Q +++ +E+E T L ++
Sbjct: 201 ATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQ---FYVNVEEEEYKYECLTDLYDSI 257
Query: 265 VQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASD 324
+ +IF NT K +L L K + + S+LP + R +F G ++I++D
Sbjct: 258 SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTD 317
Query: 325 EKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGK 384
++RGID Q VS VIN+D P + + YIHR GR R
Sbjct: 318 L-----------------------LARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFG 354
Query: 385 NQGTALSFVS 394
+G A++FV+
Sbjct: 355 RKGVAINFVT 364
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 136 bits (342), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 118/393 (30%), Positives = 197/393 (50%), Gaps = 41/393 (10%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKI-INLKQTAQ 88
L+ I G+ +P+ IQ+RAI ++ DV+ +A++G+GKT FAI ++Q+I ++LK T
Sbjct: 52 LRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKAT-- 109
Query: 89 VQETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVV 148
+ALVL+P++EL Q+ K + L V VQ+ L +E P I+V
Sbjct: 110 ----QALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQK-LQMEAPHIIV 164
Query: 149 ATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASAT 208
TP R L + L K +++ ++DEAD + S G++D + + + L Q +L SAT
Sbjct: 165 GTPGRVFDMLNRRYLSPKY-IKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSAT 223
Query: 209 LSEDVLSLKHLILRNPV--ILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQ 266
+ DVL + +R+P+ ++K EE + + Q Y + +E+ K L L + L
Sbjct: 224 MPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQF--YINVEREEWKLDTLCDLYE-TLTI 280
Query: 267 GKTIIFVNTVDKCYKL--KLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASD 324
+ +IF+NT K L K++ F +S ++ ++ K R + +F G V+I +D
Sbjct: 281 TQAVIFINTRRKVDWLTEKMHARDFTVSA--MHGDMDQKERDVIMREFRSGSSRVLITTD 338
Query: 325 EKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGK 384
++RGID Q VS VIN+D P + + YIHR GR R
Sbjct: 339 L-----------------------LARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFG 375
Query: 385 NQGTALSFVSLREQDLMNDGTALSFVSLREQDL 417
+G A++ V+ ++ + D S+ E L
Sbjct: 376 RKGVAINMVTEEDKRTLRDIETFYNTSIEEMPL 408
>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 = 135 bits (340), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 118/393 (30%), Positives = 197/393 (50%), Gaps = 41/393 (10%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKI-INLKQTAQ 88
L+ I G+ +P+ IQ+RAI ++ DV+ +A++G+GKT FAI ++Q+I ++LK T
Sbjct: 26 LRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKAT-- 83
Query: 89 VQETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVV 148
+ALVL+P++EL Q+ K + L V VQ+ L +E P I+V
Sbjct: 84 ----QALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQK-LQMEAPHIIV 138
Query: 149 ATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASAT 208
TP R L + L K +++ ++DEAD + S G++D + + + L Q +L SAT
Sbjct: 139 GTPGRVFDMLNRRYLSPKY-IKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSAT 197
Query: 209 LSEDVLSLKHLILRNPV--ILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQ 266
+ DVL + +R+P+ ++K EE + + Q Y + +E+ K L L + L
Sbjct: 198 MPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQF--YINVEREEWKLDTLCDLYE-TLTI 254
Query: 267 GKTIIFVNTVDKCYKL--KLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASD 324
+ +IF+NT K L K++ F +S ++ ++ K R + +F G V+I +D
Sbjct: 255 TQAVIFINTRRKVDWLTEKMHARDFTVSA--MHGDMDQKERDVIMREFRSGSSRVLITTD 312
Query: 325 EKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGK 384
++RGID Q VS VIN+D P + + YIHR GR R
Sbjct: 313 L-----------------------LARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFG 349
Query: 385 NQGTALSFVSLREQDLMNDGTALSFVSLREQDL 417
+G A++ V+ ++ + D S+ E L
Sbjct: 350 RKGVAINMVTEEDKRTLRDIETFYNTSIEEMPL 382
>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 = 133 bits (334), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 106/369 (28%), Positives = 181/369 (49%), Gaps = 41/369 (11%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNK-DVLVRARTGSGKTGAFAIPMIQKIINLKQTAQ 88
L AI G+ +PT IQ + IPL L ++ +++ +ARTGSGKT +FAIP+I+ ++N +
Sbjct: 18 LNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE-LVN-----E 71
Query: 89 VQETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVV 148
+A++L+P++EL Q+ I+ ++K ++++K I + Q L + +IVV
Sbjct: 72 NNGIEAIILTPTRELAIQVADEIE--SLKGNKNLKIAKIYGGKAIYPQIKAL-KNANIVV 128
Query: 149 ATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASAT 208
TP R L H+ TL+LK+ ++ I+DEAD + G+ D++ +L K + +L SAT
Sbjct: 129 GTPGRILDHINRGTLNLKN-VKYFILDEADEXLNXGFIKDVEKILNACNKDKRILLFSAT 187
Query: 209 LSEDVLSLKHLILRNPVILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQGK 268
++L+L + +K + A + ++ E+E+ L LLK G
Sbjct: 188 XPREILNLAKKYXGDYSFIKAKINA-----NIEQSYVEVNENERFEALCRLLKNKEFYG- 241
Query: 269 TIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKAL 328
++F T +L L ++ +L R + F Q ++IA+D
Sbjct: 242 -LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDV--- 297
Query: 329 ETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQGT 388
SRGID ++ VIN+ P + + Y HR GRT R +G
Sbjct: 298 --------------------XSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGK 337
Query: 389 ALSFVSLRE 397
A+S ++ RE
Sbjct: 338 AISIINRRE 346
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 128 bits (322), Expect = 7e-30, Method: Compositional matrix adjust.
Identities = 99/383 (25%), Positives = 182/383 (47%), Gaps = 44/383 (11%)
Query: 38 WLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIIN---------LKQTAQ 88
+ PT +Q+ AIP+I + +D++ A+TGSGKT AF +P++ +I + +K+ +
Sbjct: 35 YTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGR 94
Query: 89 VQETK----ALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERP 144
K +LVL+P++EL Q+++ ++ + + SR CV + D+ Q L
Sbjct: 95 YGRRKQYPISLVLAPTRELAVQIYEEARKFSYR-SRVRPCV-VYGGADIGQQIRDLERGC 152
Query: 145 DIVVATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLK---FLPK-LY 200
++VATP R + ++ + L + +++DEAD + G+E ++ +++ PK +
Sbjct: 153 HLLVATPGRLVDMMERGKIGL-DFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVR 211
Query: 201 QAILASATLSEDVLSLKHLILRNPVILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLL 260
++ SAT +++ L L + L + + + + +E +K + L LL
Sbjct: 212 HTMMFSATFPKEIQMLARDFLDEYIFLAVGRVG-STSENITQKVVWVEESDKRSFLLDLL 270
Query: 261 KLNLVQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVI 320
T++FV T L+ +L + ++ + + R A++QF G ++
Sbjct: 271 NATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPIL 330
Query: 321 IASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRT 380
+A+ A RG+D V +VINFD P DI+ Y+HR GRT
Sbjct: 331 VATAVAA-----------------------RGLDISNVKHVINFDLPSDIEEYVHRIGRT 367
Query: 381 ARGKNQGTALSFVSLREQDLMND 403
R N G A SF + R ++ D
Sbjct: 368 GRVGNLGLATSFFNERNINITKD 390
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 128 bits (322), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 97/367 (26%), Positives = 177/367 (48%), Gaps = 33/367 (8%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+AI G+ P+ +Q IP + DVL +A++G GKT F + +Q++ + T QV
Sbjct: 19 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPV--TGQV 76
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVER-PDIVV 148
LV+ ++EL Q+ K + + K +VK + + E +L + P IVV
Sbjct: 77 ---SVLVMCHTRELAFQISKEYERFS-KYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVV 132
Query: 149 ATPARALAHLKAKTLDLKSSLEIVIIDEAD-LVFSFGYEDDMKAVLKFLPKLYQAILASA 207
TP R LA + K+L+LK ++ I+DEAD ++ D++ + + P Q ++ SA
Sbjct: 133 GTPGRILALARNKSLNLK-HIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMMFSA 191
Query: 208 TLSEDVLSLKHLILRNPVILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQG 267
TLS+++ + +++P+ + +++ + L Y++ +++EK L+ LL + L
Sbjct: 192 TLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDV-LEFN 250
Query: 268 KTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKA 327
+ +IFV +V +C L L + ++ +P + R QF +++A++
Sbjct: 251 QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNL-- 308
Query: 328 LETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQG 387
RG+D + V+ N+D P D Y+HR R R +G
Sbjct: 309 ---------------------FGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKG 347
Query: 388 TALSFVS 394
A++FVS
Sbjct: 348 LAITFVS 354
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 126 bits (317), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 96/367 (26%), Positives = 176/367 (47%), Gaps = 33/367 (8%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+AI G+ P+ +Q IP + DVL +A++G GKT F + +Q++ + T QV
Sbjct: 20 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPV--TGQV 77
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVER-PDIVV 148
LV+ ++EL Q+ K + + K +VK + + E +L + P IVV
Sbjct: 78 ---SVLVMCHTRELAFQISKEYERFS-KYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVV 133
Query: 149 ATPARALAHLKAKTLDLKSSLEIVIIDEAD-LVFSFGYEDDMKAVLKFLPKLYQAILASA 207
TP R LA + K+L+LK ++ I+DE D ++ D++ + + P Q ++ SA
Sbjct: 134 GTPGRILALARNKSLNLK-HIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSA 192
Query: 208 TLSEDVLSLKHLILRNPVILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQG 267
TLS+++ + +++P+ + +++ + L Y++ +++EK L+ LL + L
Sbjct: 193 TLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDV-LEFN 251
Query: 268 KTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKA 327
+ +IFV +V +C L L + ++ +P + R QF +++A++
Sbjct: 252 QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNL-- 309
Query: 328 LETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQG 387
RG+D + V+ N+D P D Y+HR R R +G
Sbjct: 310 ---------------------FGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKG 348
Query: 388 TALSFVS 394
A++FVS
Sbjct: 349 LAITFVS 355
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 126 bits (316), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 96/367 (26%), Positives = 176/367 (47%), Gaps = 33/367 (8%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+AI G+ P+ +Q IP + DVL +A++G GKT F + +Q++ + T QV
Sbjct: 20 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPV--TGQV 77
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVER-PDIVV 148
LV+ ++EL Q+ K + + K +VK + + E +L + P IVV
Sbjct: 78 ---SVLVMCHTRELAFQISKEYERFS-KYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVV 133
Query: 149 ATPARALAHLKAKTLDLKSSLEIVIIDEAD-LVFSFGYEDDMKAVLKFLPKLYQAILASA 207
TP R LA + K+L+LK ++ I+DE D ++ D++ + + P Q ++ SA
Sbjct: 134 GTPGRILALARNKSLNLK-HIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSA 192
Query: 208 TLSEDVLSLKHLILRNPVILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQG 267
TLS+++ + +++P+ + +++ + L Y++ +++EK L+ LL + L
Sbjct: 193 TLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDV-LEFN 251
Query: 268 KTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKA 327
+ +IFV +V +C L L + ++ +P + R QF +++A++
Sbjct: 252 QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNL-- 309
Query: 328 LETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQG 387
RG+D + V+ N+D P D Y+HR R R +G
Sbjct: 310 ---------------------FGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKG 348
Query: 388 TALSFVS 394
A++FVS
Sbjct: 349 LAITFVS 355
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 125 bits (313), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 110/380 (28%), Positives = 183/380 (48%), Gaps = 59/380 (15%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQN--KDVLVRARTGSGKTGAFAIPMIQKIINLKQTA 87
L+ I + + +P+ IQERA+PL+L N ++++ ++++G+GKT AF++ M+ ++
Sbjct: 17 LKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTRV-----NP 71
Query: 88 QVQETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVER---- 143
+ +A+ L+PS+EL Q + +QE+ K I+ Q+ V P E+
Sbjct: 72 EDASPQAICLAPSRELARQTLEVVQEMG-------KFTKITSQLIV----PDSFEKNKQI 120
Query: 144 -PDIVVATPARALAHLKAKTLDLKSSLEIVIIDEAD-LVFSFGYEDDMKAVLKFLPKLYQ 201
++V TP L ++ K + L+ ++I ++DEAD ++ G D V +FLPK Q
Sbjct: 121 NAQVIVGTPGTVLDLMRRKLMQLQK-IKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQ 179
Query: 202 AILASATLSEDVLSLKHLILRNPVILKLE--EPAIAPVSQLAHYHILAQEDEKATILYTL 259
+L SAT ++ V I+ N L+L+ E + + QL Y E +K +L L
Sbjct: 180 LVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQL--YMDCKNEADKFDVLTEL 237
Query: 260 LKLNLVQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDV 319
L + G +IIFV T L L+ +L+ +L + R + F +G V
Sbjct: 238 YGLMTI-GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKV 296
Query: 320 IIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPL------DIQCY 373
+I ++ ++RGID VS V+N+D P D Y
Sbjct: 297 LITTNV-----------------------LARGIDIPTVSMVVNYDLPTLANGQADPATY 333
Query: 374 IHRAGRTARGKNQGTALSFV 393
IHR GRT R +G A+SFV
Sbjct: 334 IHRIGRTGRFGRKGVAISFV 353
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 124 bits (311), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 72/196 (36%), Positives = 118/196 (60%), Gaps = 9/196 (4%)
Query: 31 QAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQVQ 90
+A +LGW +PT IQ AIPL LQ +D++ A TGSGKTGAFA+P++ ++ Q
Sbjct: 56 EACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETP-----Q 110
Query: 91 ETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVAT 150
ALVL+P++EL Q+ + + L S V+ I +D Q L ++P I++AT
Sbjct: 111 RLFALVLTPTRELAFQISEQFEAL--GSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIAT 168
Query: 151 PARALAHLK-AKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASATL 209
P R + HL+ K +L+ +L+ +++DEAD + + +E ++ +LK +P+ + L SAT+
Sbjct: 169 PGRLIDHLENTKGFNLR-ALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATM 227
Query: 210 SEDVLSLKHLILRNPV 225
++ V L+ L+NPV
Sbjct: 228 TKKVQKLQRAALKNPV 243
>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 = 124 bits (310), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 109/380 (28%), Positives = 183/380 (48%), Gaps = 59/380 (15%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQN--KDVLVRARTGSGKTGAFAIPMIQKIINLKQTA 87
L+ I + + +P+ IQERA+PL+L N ++++ ++++G+GKT AF++ M+ ++
Sbjct: 17 LKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTRV-----NP 71
Query: 88 QVQETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVER---- 143
+ +A+ L+PS+EL Q + +QE+ K I+ Q+ V P E+
Sbjct: 72 EDASPQAICLAPSRELARQTLEVVQEMG-------KFTKITSQLIV----PDSFEKNKQI 120
Query: 144 -PDIVVATPARALAHLKAKTLDLKSSLEIVIIDEAD-LVFSFGYEDDMKAVLKFLPKLYQ 201
++V TP L ++ K + L+ ++I ++DEAD ++ G D V +FLPK Q
Sbjct: 121 NAQVIVGTPGTVLDLMRRKLMQLQK-IKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQ 179
Query: 202 AILASATLSEDVLSLKHLILRNPVILKLE--EPAIAPVSQLAHYHILAQEDEKATILYTL 259
+L SAT ++ V I+ N L+L+ E + + QL Y E +K +L L
Sbjct: 180 LVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQL--YMDCKNEADKFDVLTEL 237
Query: 260 LKLNLVQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDV 319
+ + G +IIFV T L L+ +L+ +L + R + F +G V
Sbjct: 238 YGVMTI-GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKV 296
Query: 320 IIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPL------DIQCY 373
+I ++ ++RGID VS V+N+D P D Y
Sbjct: 297 LITTNV-----------------------LARGIDIPTVSMVVNYDLPTLANGQADPATY 333
Query: 374 IHRAGRTARGKNQGTALSFV 393
IHR GRT R +G A+SFV
Sbjct: 334 IHRIGRTGRFGRKGVAISFV 353
>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 = 123 bits (309), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 96/366 (26%), Positives = 170/366 (46%), Gaps = 39/366 (10%)
Query: 33 IAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQVQET 92
+ K G+ PT IQ+ +IP+I +D++ A+TGSGKT AF +P++ K++ ++
Sbjct: 71 VNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRP 130
Query: 93 KALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVATPA 152
+ +++SP++EL Q+ ++ + + V Q + +V+ATP
Sbjct: 131 QVVIVSPTRELAIQIFNEARKFAFESYLKIGIV--YGGTSFRHQNECITRGCHVVIATPG 188
Query: 153 RALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFL---PKLYQAILASATL 209
R L + + + + V++DEAD + G+ +DM+ ++ + P+ +Q ++ SAT
Sbjct: 189 RLLDFVDRTFITFEDT-RFVVLDEADRMLDMGFSEDMRRIMTHVTMRPE-HQTLMFSATF 246
Query: 210 SEDVLSLKHLILRNPVILKLE--EPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQG 267
E++ + L+N V + + A + V Q + E K L+++ Q
Sbjct: 247 PEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIY------EVNKYAKRSKLIEILSEQA 300
Query: 268 -KTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEK 326
TI+FV T L +L + + T ++ + R A+ F G V+IA+
Sbjct: 301 DGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIAT--- 357
Query: 327 ALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQ 386
S SRG+D + + +VIN+D P I Y+HR GRT R N
Sbjct: 358 --------------------SVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNN 397
Query: 387 GTALSF 392
G A SF
Sbjct: 398 GRATSF 403
>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 = 119 bits (298), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 74/198 (37%), Positives = 119/198 (60%), Gaps = 7/198 (3%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+A+ G PT IQ A+PL L+ KD++ +ARTG+GKT AFA+P+ +++ ++
Sbjct: 13 LEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERG-- 70
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVA 149
++ +ALVL+P++EL Q+ ELT + +K V + Q+ L+ D VVA
Sbjct: 71 RKPRALVLTPTRELALQVA---SELT-AVAPHLKVVAVYGGTGYGKQKEALLRGADAVVA 126
Query: 150 TPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASATL 209
TP RAL +L+ LDL S +E+ ++DEAD + S G+E++++A+L P Q +L SATL
Sbjct: 127 TPGRALDYLRQGVLDL-SRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSATL 185
Query: 210 SEDVLSLKHLILRNPVIL 227
L ++NPV++
Sbjct: 186 PSWAKRLAERYMKNPVLI 203
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 119 bits (298), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 104/381 (27%), Positives = 181/381 (47%), Gaps = 58/381 (15%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQN--KDVLVRARTGSGKTGAFAIPMIQKIINLKQTA 87
LQ + +G+ P+ IQE A+PL+L ++++ ++++G+GKT AF + M+ ++ +
Sbjct: 53 LQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYP 112
Query: 88 QVQETKALVLSPSKELCNQLHKNIQELT-----MKCSRDVKCVDISEQVDVSVQEPLLVE 142
Q L LSP+ EL Q K I+++ +K + V+ + +S Q
Sbjct: 113 Q-----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ------ 161
Query: 143 RPDIVVATPARALAHL-KAKTLDLKSSLEIVIIDEAD-LVFSFGYEDDMKAVLKFLPKLY 200
IV+ TP L K K +D K +++ ++DEAD ++ + G++D + + LP+
Sbjct: 162 ---IVIGTPGTVLDWCSKLKFIDPKK-IKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 217
Query: 201 QAILASATLSEDVLSLKHLILRNPVILKL--EEPAIAPVSQLAHYHILAQEDEKATILYT 258
Q +L SAT + V ++ +P ++KL EE + + Q +Y + + DEK L
Sbjct: 218 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQ--YYVLCSSRDEKFQALCN 275
Query: 259 LLKLNLVQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYD 318
L + + +IF +T L L + +L+ E+ + R + +F +G
Sbjct: 276 LYGA-ITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREG--- 331
Query: 319 VIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDI------QC 372
EK L T + +RGID + VS VINFD P+D +
Sbjct: 332 -----KEKVLVTTNV---------------CARGIDVEQVSVVINFDLPVDKDGNPDNET 371
Query: 373 YIHRAGRTARGKNQGTALSFV 393
Y+HR GRT R +G A++ V
Sbjct: 372 YLHRIGRTGRFGKRGLAVNMV 392
>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 = 119 bits (297), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 104/381 (27%), Positives = 181/381 (47%), Gaps = 58/381 (15%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQN--KDVLVRARTGSGKTGAFAIPMIQKIINLKQTA 87
LQ + +G+ P+ IQE A+PL+L ++++ ++++G+GKT AF + M+ ++ +
Sbjct: 74 LQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYP 133
Query: 88 QVQETKALVLSPSKELCNQLHKNIQELT-----MKCSRDVKCVDISEQVDVSVQEPLLVE 142
Q L LSP+ EL Q K I+++ +K + V+ + +S Q
Sbjct: 134 Q-----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ------ 182
Query: 143 RPDIVVATPARALAHL-KAKTLDLKSSLEIVIIDEAD-LVFSFGYEDDMKAVLKFLPKLY 200
IV+ TP L K K +D K +++ ++DEAD ++ + G++D + + LP+
Sbjct: 183 ---IVIGTPGTVLDWCSKLKFIDPKK-IKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 238
Query: 201 QAILASATLSEDVLSLKHLILRNPVILKL--EEPAIAPVSQLAHYHILAQEDEKATILYT 258
Q +L SAT + V ++ +P ++KL EE + + Q +Y + + DEK L
Sbjct: 239 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQ--YYVLCSSRDEKFQALCN 296
Query: 259 LLKLNLVQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYD 318
L + + +IF +T L L + +L+ E+ + R + +F +G
Sbjct: 297 LYGA-ITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREG--- 352
Query: 319 VIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDI------QC 372
EK L T + +RGID + VS VINFD P+D +
Sbjct: 353 -----KEKVLVTTNV---------------CARGIDVEQVSVVINFDLPVDKDGNPDNET 392
Query: 373 YIHRAGRTARGKNQGTALSFV 393
Y+HR GRT R +G A++ V
Sbjct: 393 YLHRIGRTGRFGKRGLAVNMV 413
>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 = 119 bits (297), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 104/381 (27%), Positives = 181/381 (47%), Gaps = 58/381 (15%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQN--KDVLVRARTGSGKTGAFAIPMIQKIINLKQTA 87
LQ + +G+ P+ IQE A+PL+L ++++ ++++G+GKT AF + M+ ++ +
Sbjct: 37 LQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYP 96
Query: 88 QVQETKALVLSPSKELCNQLHKNIQELT-----MKCSRDVKCVDISEQVDVSVQEPLLVE 142
Q L LSP+ EL Q K I+++ +K + V+ + +S Q
Sbjct: 97 Q-----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ------ 145
Query: 143 RPDIVVATPARALAHL-KAKTLDLKSSLEIVIIDEAD-LVFSFGYEDDMKAVLKFLPKLY 200
IV+ TP L K K +D K +++ ++DEAD ++ + G++D + + LP+
Sbjct: 146 ---IVIGTPGTVLDWCSKLKFIDPKK-IKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 201
Query: 201 QAILASATLSEDVLSLKHLILRNPVILKL--EEPAIAPVSQLAHYHILAQEDEKATILYT 258
Q +L SAT + V ++ +P ++KL EE + + Q +Y + + DEK L
Sbjct: 202 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQ--YYVLCSSRDEKFQALCN 259
Query: 259 LLKLNLVQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYD 318
L + + +IF +T L L + +L+ E+ + R + +F +G
Sbjct: 260 LYGA-ITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREG--- 315
Query: 319 VIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDI------QC 372
EK L T + +RGID + VS VINFD P+D +
Sbjct: 316 -----KEKVLVTTNV---------------CARGIDVEQVSVVINFDLPVDKDGNPDNET 355
Query: 373 YIHRAGRTARGKNQGTALSFV 393
Y+HR GRT R +G A++ V
Sbjct: 356 YLHRIGRTGRFGKRGLAVNMV 376
>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 = 118 bits (296), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 104/381 (27%), Positives = 181/381 (47%), Gaps = 58/381 (15%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQN--KDVLVRARTGSGKTGAFAIPMIQKIINLKQTA 87
LQ + +G+ P+ IQE A+PL+L ++++ ++++G+GKT AF + M+ ++ +
Sbjct: 104 LQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYP 163
Query: 88 QVQETKALVLSPSKELCNQLHKNIQELT-----MKCSRDVKCVDISEQVDVSVQEPLLVE 142
Q L LSP+ EL Q K I+++ +K + V+ + +S Q
Sbjct: 164 Q-----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ------ 212
Query: 143 RPDIVVATPARALAHL-KAKTLDLKSSLEIVIIDEAD-LVFSFGYEDDMKAVLKFLPKLY 200
IV+ TP L K K +D K +++ ++DEAD ++ + G++D + + LP+
Sbjct: 213 ---IVIGTPGTVLDWCSKLKFIDPKK-IKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 268
Query: 201 QAILASATLSEDVLSLKHLILRNPVILKL--EEPAIAPVSQLAHYHILAQEDEKATILYT 258
Q +L SAT + V ++ +P ++KL EE + + Q +Y + + DEK L
Sbjct: 269 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQ--YYVLCSSRDEKFQALCN 326
Query: 259 LLKLNLVQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYD 318
L + + +IF +T L L + +L+ E+ + R + +F +G
Sbjct: 327 LYGA-ITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREG--- 382
Query: 319 VIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDI------QC 372
EK L T + +RGID + VS VINFD P+D +
Sbjct: 383 -----KEKVLVTTNV---------------CARGIDVEQVSVVINFDLPVDKDGNPDNET 422
Query: 373 YIHRAGRTARGKNQGTALSFV 393
Y+HR GRT R +G A++ V
Sbjct: 423 YLHRIGRTGRFGKRGLAVNMV 443
>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 = 118 bits (295), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 73/198 (36%), Positives = 119/198 (60%), Gaps = 7/198 (3%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+A+ G PT I+ A+PL L+ KD++ +ARTG+GKT AFA+P+ +++ ++
Sbjct: 13 LEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERG-- 70
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVA 149
++ +ALVL+P++EL Q+ ELT + +K V + Q+ L+ D VVA
Sbjct: 71 RKPRALVLTPTRELALQVA---SELT-AVAPHLKVVAVYGGTGYGKQKEALLRGADAVVA 126
Query: 150 TPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASATL 209
TP RAL +L+ LDL S +E+ ++DEAD + S G+E++++A+L P Q +L SATL
Sbjct: 127 TPGRALDYLRQGVLDL-SRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSATL 185
Query: 210 SEDVLSLKHLILRNPVIL 227
L ++NPV++
Sbjct: 186 PSWAKRLAERYMKNPVLI 203
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 115 bits (289), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 100/366 (27%), Positives = 170/366 (46%), Gaps = 59/366 (16%)
Query: 44 IQERAIPLILQN--KDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQVQETKALVLSPSK 101
IQE+A+PL+L N ++++ ++++G+GKT AFA+ M+ ++ A V + +A+ L+PS+
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRV-----DASVPKPQAICLAPSR 199
Query: 102 ELCNQLHKNIQELT----MKCSRDVK-CVDISEQVDVSVQEPLLVERPDIVVATPARALA 156
EL Q+ + E+ +K + +K V ++D IV+ TP +
Sbjct: 200 ELARQIMDVVTEMGKYTEVKTAFGIKDSVPKGAKIDAQ-----------IVIGTPGTVMD 248
Query: 157 HLKAKTLDLKSSLEIVIIDEAD-LVFSFGYEDDMKAVLKFLPKLYQAILASATLSEDVLS 215
+K + LD + +++ ++DEAD ++ G D + LP+ Q +L SAT SE V
Sbjct: 249 LMKRRQLDARD-IKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEK 307
Query: 216 LKHLIL--RNPVILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQGKTIIFV 273
N + LK EE ++ + QL Y E+ K +L L L L G++IIF
Sbjct: 308 YAERFAPNANEIRLKTEELSVEGIKQL--YMDCQSEEHKYNVLVELYGL-LTIGQSIIFC 364
Query: 274 NTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKALETPQI 333
D ++ + + L L R + F G V++ ++
Sbjct: 365 KKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNV-------- 416
Query: 334 NSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPL------DIQCYIHRAGRTARGKNQG 387
++RGID V+ V+N+D PL D Q Y+HR GRT R G
Sbjct: 417 ---------------IARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVG 461
Query: 388 TALSFV 393
+++FV
Sbjct: 462 VSINFV 467
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 105 bits (263), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 102/392 (26%), Positives = 178/392 (45%), Gaps = 59/392 (15%)
Query: 31 QAIAKLGWLEPTLIQERAIPLIL--QNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQ 88
+AI ++ + T +Q++ I IL ++ DV+ RA+TG+GKT AF IP+ Q +IN K +Q
Sbjct: 34 KAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 93
Query: 89 VQETKALVLSPSKELCNQLH---KNIQELTMKCSRDVKCVDISEQVDV-SVQEPLLVERP 144
KA++++P+++L Q+ K I ++ + CV + D + + RP
Sbjct: 94 YM-VKAVIVAPTRDLALQIEAEVKKIHDMNYGLKK-YACVSLVGGTDFRAAMNKMNKLRP 151
Query: 145 DIVVATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKL----- 199
+IV+ATP R + L+ + ++ ++DEAD + G+ DD++ + L +
Sbjct: 152 NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSA 211
Query: 200 --YQAILASATLSEDVLSLKHLILRNPVILKLE-----EP--------AIAPVSQLAHYH 244
+ +L SATL + V L + I+ L L+ EP ++ + A+
Sbjct: 212 DNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSI 271
Query: 245 ILAQEDEKATILYTLLKLNLVQGKTIIFVNTVD-KCYKLKLYLEQFKISTCVL--NSELP 301
A E K I K K IIF TV + + +FK +L + ++
Sbjct: 272 FAAVEHIKKQI-----KERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKIT 326
Query: 302 AKARCHAVYQFNQGLYDVIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNV 361
R V +F + +++ +D A RG+DF V V
Sbjct: 327 QNKRTSLVKRFKKDESGILVCTDVGA-----------------------RGMDFPNVHEV 363
Query: 362 INFDFPLDIQCYIHRAGRTARGKNQGTALSFV 393
+ P ++ YIHR GRTAR +G+++ F+
Sbjct: 364 LQIGVPSELANYIHRIGRTARSGKEGSSVLFI 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 = 105 bits (262), Expect = 6e-23, Method: Compositional matrix adjust.
Identities = 102/392 (26%), Positives = 178/392 (45%), Gaps = 59/392 (15%)
Query: 31 QAIAKLGWLEPTLIQERAIPLIL--QNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQ 88
+AI ++ + T +Q++ I IL ++ DV+ RA+TG+GKT AF IP+ Q +IN K +Q
Sbjct: 85 KAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 144
Query: 89 VQETKALVLSPSKELCNQLH---KNIQELTMKCSRDVKCVDISEQVDV-SVQEPLLVERP 144
KA++++P+++L Q+ K I ++ + CV + D + + RP
Sbjct: 145 YM-VKAVIVAPTRDLALQIEAEVKKIHDMNYGLKK-YACVSLVGGTDFRAAMNKMNKLRP 202
Query: 145 DIVVATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKL----- 199
+IV+ATP R + L+ + ++ ++DEAD + G+ DD++ + L +
Sbjct: 203 NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSA 262
Query: 200 --YQAILASATLSEDVLSLKHLILRNPVILKLE-----EP--------AIAPVSQLAHYH 244
+ +L SATL + V L + I+ L L+ EP ++ + A+
Sbjct: 263 DNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSI 322
Query: 245 ILAQEDEKATILYTLLKLNLVQGKTIIFVNTVD-KCYKLKLYLEQFKISTCVL--NSELP 301
A E K I K K IIF TV + + +FK +L + ++
Sbjct: 323 FAAVEHIKKQI-----KERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKIT 377
Query: 302 AKARCHAVYQFNQGLYDVIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNV 361
R V +F + +++ +D A RG+DF V V
Sbjct: 378 QNKRTSLVKRFKKDESGILVCTDVGA-----------------------RGMDFPNVHEV 414
Query: 362 INFDFPLDIQCYIHRAGRTARGKNQGTALSFV 393
+ P ++ YIHR GRTAR +G+++ F+
Sbjct: 415 LQIGVPSELANYIHRIGRTARSGKEGSSVLFI 446
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 105 bits (261), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 64/193 (33%), Positives = 107/193 (55%), Gaps = 3/193 (1%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+AI ++G+ T IQ ++I +L+ +D+L A+TGSGKT AF IP ++ I+ L+ +
Sbjct: 66 LKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPR- 124
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVA 149
T L+LSP++EL Q ++EL + Q+ L +I+VA
Sbjct: 125 NGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQK--LGNGINIIVA 182
Query: 150 TPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASATL 209
TP R L H++ + +L+ ++IDEAD + G+E+++K ++K LP Q +L SAT
Sbjct: 183 TPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSATQ 242
Query: 210 SEDVLSLKHLILR 222
+ V L + L+
Sbjct: 243 TRKVEDLARISLK 255
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 104 bits (260), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 64/199 (32%), Positives = 110/199 (55%), Gaps = 15/199 (7%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+ + G+ EP+ IQ+RAI I++ DVL +A++G+GKTG F+I +Q+I V
Sbjct: 33 LRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-----DTSV 87
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVK---CVDISEQVDVSVQEPLLVERPDI 146
+ +AL+L+P++EL Q+ K + L D+K C+ + V++ + I
Sbjct: 88 KAPQALMLAPTRELALQIQKVVMALAFHM--DIKVHACIGGTS----FVEDAEGLRDAQI 141
Query: 147 VVATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILAS 206
VV TP R +++ + +++ I+DEAD + S G+++ + + LP Q +L S
Sbjct: 142 VVGTPGRVFDNIQRRRFR-TDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 200
Query: 207 ATLSEDVLSLKHLILRNPV 225
AT+ DVL + +RNPV
Sbjct: 201 ATMPNDVLEVTTKFMRNPV 219
>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 = 104 bits (260), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 64/199 (32%), Positives = 110/199 (55%), Gaps = 15/199 (7%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+ + G+ EP+ IQ+RAI I++ DVL +A++G+GKTG F+I +Q+I V
Sbjct: 26 LRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI-----DTSV 80
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVK---CVDISEQVDVSVQEPLLVERPDI 146
+ +AL+L+P++EL Q+ K + L D+K C+ + V++ + I
Sbjct: 81 KAPQALMLAPTRELALQIQKVVMALAFHM--DIKVHACIGGTS----FVEDAEGLRDAQI 134
Query: 147 VVATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILAS 206
VV TP R +++ + +++ I+DEAD + S G+++ + + LP Q +L S
Sbjct: 135 VVGTPGRVFDNIQRRRFR-TDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 193
Query: 207 ATLSEDVLSLKHLILRNPV 225
AT+ DVL + +RNPV
Sbjct: 194 ATMPNDVLEVTTKFMRNPV 212
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 104 bits (259), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 102/392 (26%), Positives = 178/392 (45%), Gaps = 59/392 (15%)
Query: 31 QAIAKLGWLEPTLIQERAIPLIL--QNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQ 88
+AI ++ + T +Q++ I IL ++ DV+ RA+TG+GKT AF IP+ Q +IN K +Q
Sbjct: 34 KAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 93
Query: 89 VQETKALVLSPSKELCNQLH---KNIQELTMKCSRDVKCVDISEQVDV-SVQEPLLVERP 144
KA++++P+++L Q+ K I ++ + CV + D + + RP
Sbjct: 94 YM-VKAVIVAPTRDLALQIEAEVKKIHDMNYGLKK-YACVSLVGGTDFRAAMNKMNKLRP 151
Query: 145 DIVVATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKL----- 199
+IV+ATP R + L+ + ++ ++DEAD + G+ DD++ + L +
Sbjct: 152 NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSA 211
Query: 200 --YQAILASATLSEDVLSLKHLILRNPVILKLE-----EP--------AIAPVSQLAHYH 244
+ +L SATL + V L + I+ L L+ EP ++ + A+
Sbjct: 212 DNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSI 271
Query: 245 ILAQEDEKATILYTLLKLNLVQGKTIIFVNTVD-KCYKLKLYLEQFKISTCVL--NSELP 301
A E K I K K IIF TV + + +FK +L + ++
Sbjct: 272 FAAVEHIKKQI-----KERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKIT 326
Query: 302 AKARCHAVYQFNQGLYDVIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNV 361
R V +F + +++ +D A RG+DF V V
Sbjct: 327 QNKRTSLVKRFKKDESGILVCTDVGA-----------------------RGMDFPNVHEV 363
Query: 362 INFDFPLDIQCYIHRAGRTARGKNQGTALSFV 393
+ P ++ YIHR GRTAR +G+++ F+
Sbjct: 364 LQIGVPSELANYIHRIGRTARSGKEGSSVLFI 395
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 103 bits (258), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 64/200 (32%), Positives = 111/200 (55%), Gaps = 15/200 (7%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+ I G+ +P+ IQ+RAI ++ DV+ +A++G+GKT FAI ++Q++ +
Sbjct: 42 LRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQL-----EIEF 96
Query: 90 QETKALVLSPSKELCNQLHKNIQEL----TMKCSRDVKCVDISEQVDVSVQEPLLVERPD 145
+ET+ALVL+P++EL Q+ K I L C + ++ ++ + L E P
Sbjct: 97 KETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEM-----QKLQAEAPH 151
Query: 146 IVVATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILA 205
IVV TP R L + L K +++ ++DEAD + S G++D + + + L Q +L
Sbjct: 152 IVVGTPGRVFDMLNRRYLSPK-WIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVLL 210
Query: 206 SATLSEDVLSLKHLILRNPV 225
SAT+ DVL + +R+P+
Sbjct: 211 SATMPTDVLEVTKKFMRDPI 230
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 100 bits (249), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 69/197 (35%), Positives = 107/197 (54%), Gaps = 14/197 (7%)
Query: 42 TLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQVQETKALVLSPSK 101
T IQ++ I L LQ KDVL A+TGSGKT AF +P+++ + L+ T+ L++SP++
Sbjct: 49 TEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTS-TDGLGVLIISPTR 107
Query: 102 ELCNQLHKNIQELTMKCSRDV-KCVDISEQVDVSVQ----EPLLVERPDIVVATPARALA 156
EL Q T + R V K D S + + + E + +I+V TP R L
Sbjct: 108 ELAYQ--------TFEVLRKVGKNHDFSAGLIIGGKDLKHEAERINNINILVCTPGRLLQ 159
Query: 157 HLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASATLSEDVLSL 216
H+ + L+++++DEAD + G+ D M AV++ LPK Q +L SAT ++ V L
Sbjct: 160 HMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFSATQTKSVKDL 219
Query: 217 KHLILRNPVILKLEEPA 233
L L+NP + + E A
Sbjct: 220 ARLSLKNPEYVWVHEKA 236
>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 = 95.9 bits (237), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 60/200 (30%), Positives = 103/200 (51%), Gaps = 15/200 (7%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+ I G+ P+ IQ+RAI + DV+ +A++G+G T FAI ++Q+I +
Sbjct: 27 LRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQI-----ELDL 81
Query: 90 QETKALVLSPSKELCNQLHKNIQEL----TMKCSRDVKCVDISEQVDVSVQEPLLVERPD 145
T+ALVL+P++EL Q+ + L C + ++ +V + L +E P
Sbjct: 82 XATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEV-----QXLQMEAPH 136
Query: 146 IVVATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILA 205
I+V TP R L + L + + ++DEAD + S G+ D + + + L Q +L
Sbjct: 137 IIVGTPGRVFDMLNRRYLS-PXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQVVLL 195
Query: 206 SATLSEDVLSLKHLILRNPV 225
SAT+ DVL + +R+P+
Sbjct: 196 SATMPSDVLEVTXXFMRDPI 215
>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 = 93.6 bits (231), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 64/213 (30%), Positives = 111/213 (52%), Gaps = 10/213 (4%)
Query: 21 FTFTLFCIPLQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKI 80
F F F I +AI L + +PT IQER IP L+ + + +++TG+GKT A+ +P+ +KI
Sbjct: 9 FPFQPFII--EAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKI 66
Query: 81 INLKQTAQVQETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPL- 139
+ E +A++ +P++EL Q++ ++T C +D V Q+ L
Sbjct: 67 -----KPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALE 121
Query: 140 -LVERPDIVVATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPK 198
L +P IV+ TP R ++ + LD+ ++ I+++DEADL G+ D+ + PK
Sbjct: 122 KLNVQPHIVIGTPGRINDFIREQALDVHTA-HILVVDEADLXLDXGFITDVDQIAARXPK 180
Query: 199 LYQAILASATLSEDVLSLKHLILRNPVILKLEE 231
Q ++ SAT+ E + NP + + E
Sbjct: 181 DLQXLVFSATIPEKLKPFLKKYXENPTFVHVLE 213
>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 = 86.3 bits (212), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 63/213 (29%), Positives = 113/213 (53%), Gaps = 26/213 (12%)
Query: 23 FTLFCIP---LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQK 79
F +C+ L I ++GW +P+ IQE +IP+ L +D+L RA+ G+GK+GA+ IP++++
Sbjct: 5 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLER 64
Query: 80 IINLKQTAQVQETKALVLSPSKEL-------CNQLHKNIQEL-TMKCSRDVKCVDISEQV 131
++LK+ +A+V+ P++EL C Q+ K++ M + D ++
Sbjct: 65 -LDLKK----DNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRL 119
Query: 132 DVSVQEPLLVERPDIVVATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKA 191
D +V +V+ATP R L +K K + ++++++DEAD + S + M+
Sbjct: 120 DDTVH---------VVIATPGRILDLIK-KGVAKVDHVQMIVLDEADKLLSQDFVQIMED 169
Query: 192 VLKFLPKLYQAILASATLSEDVLSLKHLILRNP 224
++ LPK Q +L SAT V + L P
Sbjct: 170 IILTLPKNRQILLYSATFPLSVQKFMNSHLEKP 202
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 83.6 bits (205), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 65/193 (33%), Positives = 111/193 (57%), Gaps = 18/193 (9%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
LQ I G+ PT IQ +AIP++L +++L A TGSGKT AF+IP+ ++ LKQ A
Sbjct: 41 LQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPI---LMQLKQPAN- 96
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVA 149
+ +AL++SP++EL +Q+H+ + +++ + + V P ++ DI+V
Sbjct: 97 KGFRALIISPTRELASQIHRELIKISEGTGFRIHMIH-KAAVAAKKFGPKSSKKFDILVT 155
Query: 150 TPARALAHLK--AKTLDLKSSLEIVIIDEADLVF---SFGYEDDMKAVLKFLP----KLY 200
TP R + LK +DL +S+E +++DE+D +F G+ D + ++ FL K+
Sbjct: 156 TPNRLIYLLKQDPPGIDL-ASVEWLVVDESDKLFEDGKTGFRDQLASI--FLACTSHKVR 212
Query: 201 QAILASATLSEDV 213
+A+ SAT + DV
Sbjct: 213 RAMF-SATFAYDV 224
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 79.7 bits (195), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 62/209 (29%), Positives = 113/209 (54%), Gaps = 25/209 (11%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQN--KDVLVRARTGSGKTGAFAIPMIQKIINLKQTA 87
L+ I + + +P+ IQERA+PL+L N ++++ ++++G+GKT AF++ M+ ++
Sbjct: 34 LKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTRV-----NP 88
Query: 88 QVQETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVER---- 143
+ +A+ L+PS+EL Q + +QE+ K I+ Q+ V P E+
Sbjct: 89 EDASPQAICLAPSRELARQTLEVVQEMG-------KFTKITSQLIV----PDSFEKNKQI 137
Query: 144 -PDIVVATPARALAHLKAKTLDLKSSLEIVIIDEAD-LVFSFGYEDDMKAVLKFLPKLYQ 201
++V TP L ++ K + L+ ++I ++DEAD ++ G D V +FLPK Q
Sbjct: 138 NAQVIVGTPGTVLDLMRRKLMQLQK-IKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQ 196
Query: 202 AILASATLSEDVLSLKHLILRNPVILKLE 230
+L SAT ++ V I+ N L+L+
Sbjct: 197 LVLFSATFADAVRQYAKKIVPNANTLELQ 225
>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 = 79.0 bits (193), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 53/201 (26%), Positives = 108/201 (53%), Gaps = 11/201 (5%)
Query: 37 GWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKII----NLKQTAQVQET 92
+ PT IQ+ AIP IL+++D++ A+TGSGKT AF IP+I ++ N ++ ++
Sbjct: 42 SYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYP 101
Query: 93 KALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVATPA 152
K L+L+P++EL Q+ Q+ ++ + ++ + D Q + ++VATP
Sbjct: 102 KCLILAPTRELAIQILSESQKFSL--NTPLRSCVVYGGADTHSQIREVQMGCHLLVATPG 159
Query: 153 RALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLK--FLPKLY--QAILASAT 208
R + ++ + L+ + +++DEAD + G+E ++ +++ +P Q ++ SAT
Sbjct: 160 RLVDFIEKNKISLEFC-KYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSAT 218
Query: 209 LSEDVLSLKHLILRNPVILKL 229
+++ L L N + + +
Sbjct: 219 FPKEIQKLAADFLYNYIFMTV 239
>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 = 78.6 bits (192), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 57/202 (28%), Positives = 111/202 (54%), Gaps = 11/202 (5%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L++I ++G L+PT IQ +A P+ILQ D++V A+TG+GKT ++ +P I+L
Sbjct: 32 LKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMP---GFIHLDSQPIS 88
Query: 90 QETK----ALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPD 145
+E + LVL+P++EL + + + K + + C+ + +++ + + D
Sbjct: 89 REQRNGPGMLVLTPTRELALHVEAECSKYSYKGLKSI-CIYGGRNRNGQIED--ISKGVD 145
Query: 146 IVVATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILA 205
I++ATP R +++L+ S+ ++IDEAD + +E ++ +L + Q ++
Sbjct: 146 IIIATPGRLNDLQMNNSVNLR-SITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMT 204
Query: 206 SATLSEDVLSLKHLILRNPVIL 227
SAT + V L L++P+I+
Sbjct: 205 SATWPDTVRQLALSYLKDPMIV 226
>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 = 77.8 bits (190), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 58/198 (29%), Positives = 104/198 (52%), Gaps = 9/198 (4%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
L+AI G+ P+ +Q IP + DVL +A++G GKT F + +Q++ + T QV
Sbjct: 26 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPV--TGQV 83
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVER-PDIVV 148
LV+ ++EL Q+ K + + K +VK + + E +L + P IVV
Sbjct: 84 S---VLVMCHTRELAFQISKEYERFS-KYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVV 139
Query: 149 ATPARALAHLKAKTLDLKSSLEIVIIDEAD-LVFSFGYEDDMKAVLKFLPKLYQAILASA 207
TP R LA + K+L+LK ++ I+DE D ++ D++ + + P Q ++ SA
Sbjct: 140 GTPGRILALARNKSLNLK-HIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSA 198
Query: 208 TLSEDVLSLKHLILRNPV 225
TLS+++ + +++P+
Sbjct: 199 TLSKEIRPVCRKFMQDPM 216
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 53/195 (27%), Positives = 98/195 (50%), Gaps = 5/195 (2%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
+ IA+ + EPT IQ + P+ L D++ A+TGSGKT ++ +P I I + +
Sbjct: 55 MDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERG 114
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERP-DIVV 148
LVL+P++EL Q+ + E C C+ +++ +ER +I +
Sbjct: 115 DGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRD---LERGVEICI 171
Query: 149 ATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASAT 208
ATP R + L+ +L+ + +V +DEAD + G+E ++ ++ + Q ++ SAT
Sbjct: 172 ATPGRLIDFLECGKTNLRRTTYLV-LDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSAT 230
Query: 209 LSEDVLSLKHLILRN 223
++V L L++
Sbjct: 231 WPKEVRQLAEDFLKD 245
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 76.6 bits (187), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 58/210 (27%), Positives = 110/210 (52%), Gaps = 24/210 (11%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQN--KDVLVRARTGSGKTGAFAIPMIQKIINLKQTA 87
LQ + +G+ P+ IQE A+PL+L ++++ ++++G+GKT AF + M+ ++ +
Sbjct: 37 LQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYP 96
Query: 88 QVQETKALVLSPSKELCNQLHKNIQELT-----MKCSRDVKCVDISEQVDVSVQEPLLVE 142
Q L LSP+ EL Q K I+++ +K + V+ + +S Q
Sbjct: 97 Q-----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ------ 145
Query: 143 RPDIVVATPARALAHL-KAKTLDLKSSLEIVIIDEAD-LVFSFGYEDDMKAVLKFLPKLY 200
IV+ TP L K K +D K +++ ++DEAD ++ + G++D + + LP+
Sbjct: 146 ---IVIGTPGTVLDWCSKLKFIDPKK-IKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 201
Query: 201 QAILASATLSEDVLSLKHLILRNPVILKLE 230
Q +L SAT + V ++ +P ++KL+
Sbjct: 202 QMLLFSATFEDSVWKFAQKVVPDPNVIKLK 231
>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 = 76.3 bits (186), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 53/195 (27%), Positives = 98/195 (50%), Gaps = 5/195 (2%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQV 89
+ IA+ + EPT IQ + P+ L D++ A+TGSGKT ++ +P I I + +
Sbjct: 41 MDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERG 100
Query: 90 QETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERP-DIVV 148
LVL+P++EL Q+ + E C C+ +++ +ER +I +
Sbjct: 101 DGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRD---LERGVEICI 157
Query: 149 ATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASAT 208
ATP R + L+ +L+ + +V +DEAD + G+E ++ ++ + Q ++ SAT
Sbjct: 158 ATPGRLIDFLECGKTNLRRTTYLV-LDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSAT 216
Query: 209 LSEDVLSLKHLILRN 223
++V L L++
Sbjct: 217 WPKEVRQLAEDFLKD 231
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 75.9 bits (185), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 58/210 (27%), Positives = 110/210 (52%), Gaps = 24/210 (11%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQN--KDVLVRARTGSGKTGAFAIPMIQKIINLKQTA 87
LQ + +G+ P+ IQE A+PL+L ++++ ++++G+GKT AF + M+ ++ +
Sbjct: 104 LQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYP 163
Query: 88 QVQETKALVLSPSKELCNQLHKNIQELT-----MKCSRDVKCVDISEQVDVSVQEPLLVE 142
Q L LSP+ EL Q K I+++ +K + V+ + +S Q
Sbjct: 164 Q-----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ------ 212
Query: 143 RPDIVVATPARALAHL-KAKTLDLKSSLEIVIIDEAD-LVFSFGYEDDMKAVLKFLPKLY 200
IV+ TP L K K +D K +++ ++DEAD ++ + G++D + + LP+
Sbjct: 213 ---IVIGTPGTVLDWCSKLKFIDPKK-IKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 268
Query: 201 QAILASATLSEDVLSLKHLILRNPVILKLE 230
Q +L SAT + V ++ +P ++KL+
Sbjct: 269 QMLLFSATFEDSVWKFAQKVVPDPNVIKLK 298
>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 = 70.9 bits (172), Expect = 2e-12, Method: Composition-based stats.
Identities = 46/152 (30%), Positives = 72/152 (47%), Gaps = 24/152 (15%)
Query: 250 DEKATILYTLLKLNLVQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAV 309
+ K +L LLK ++I+FV ++ ++L +L + I+ C L E+ R A+
Sbjct: 15 EHKTALLVHLLK-QPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAI 73
Query: 310 YQFNQGLYDVIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLD 369
+ +G +V++A+D A RGID VS+V NFD P
Sbjct: 74 KRLTEGRVNVLVATDVAA-----------------------RGIDIPDVSHVFNFDMPRS 110
Query: 370 IQCYIHRAGRTARGKNQGTALSFVSLREQDLM 401
Y+HR GRTAR +GTA+S V + L+
Sbjct: 111 GDTYLHRIGRTARAGRKGTAISLVEAHDHLLL 142
>pdb|2JGN|A Chain A, Ddx3 Helicase Domain
pdb|2JGN|B Chain B, Ddx3 Helicase Domain
pdb|2JGN|C Chain C, Ddx3 Helicase Domain
Length = 185
Score = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 44/159 (27%), Positives = 70/159 (44%), Gaps = 23/159 (14%)
Query: 245 ILAQEDEKATILYTLLKLNLVQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKA 304
+ +E +K + L LL T++FV T L+ +L + ++ + +
Sbjct: 25 VWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRD 84
Query: 305 RCHAVYQFNQGLYDVIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINF 364
R A++QF G +++A+ A RG+D V +VINF
Sbjct: 85 REEALHQFRSGKSPILVATAVAA-----------------------RGLDISNVKHVINF 121
Query: 365 DFPLDIQCYIHRAGRTARGKNQGTALSFVSLREQDLMND 403
D P DI+ Y+HR GRT R N G A SF + R ++ D
Sbjct: 122 DLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKD 160
>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 = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 45/165 (27%), Positives = 76/165 (46%), Gaps = 24/165 (14%)
Query: 239 QLAHYHILAQEDEKATILYTLLKLNLVQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNS 298
+ H I +E+ K ++L +L + IIF T + +L L+ ++
Sbjct: 9 NIEHAVIQVREENKFSLLKDVL-MTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHG 67
Query: 299 ELPAKARCHAVYQFNQGLYDVIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFV 358
+ + R + +F +G Y ++A+D A RGID + +
Sbjct: 68 GMIQEDRFDVMNEFKRGEYRYLVATDVAA-----------------------RGIDIENI 104
Query: 359 SNVINFDFPLDIQCYIHRAGRTARGKNQGTALSFVSLREQDLMND 403
S VIN+D PL+ + Y+HR GRT R N+G A+SFV+ E+ + D
Sbjct: 105 SLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFEKRFLAD 149
>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 = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 52/203 (25%), Positives = 104/203 (51%), Gaps = 13/203 (6%)
Query: 30 LQAIAKLGWLEPTLIQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKII--NLKQTA 87
L+ + G+ P+ +Q +AIPL D++V+A++G+GKT F+ + ++ NL
Sbjct: 36 LEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVLENL---- 91
Query: 88 QVQETKALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIV 147
T+ L+L+P++E+ Q+H I + +K ++C +S Q+ +++ I
Sbjct: 92 ---STQILILAPTREIAVQIHSVITAIGIKM-EGLECHVFIGGTPLS-QDKTRLKKCHIA 146
Query: 148 VATPARALAHLKAKTLDLKSSLEIVIIDEADLVFSFG-YEDDMKAVLKFLPKLYQAILAS 206
V +P R ++ L+ S+ + I+DEAD + G +++ + + LP Q + S
Sbjct: 147 VGSPGRIKQLIELDYLN-PGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVS 205
Query: 207 ATLSEDVLSLKHLILRNPVILKL 229
AT E + + +R+P ++L
Sbjct: 206 ATYPEFLANALTKYMRDPTFVRL 228
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 44/166 (26%), Positives = 74/166 (44%), Gaps = 27/166 (16%)
Query: 229 LEEPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQGKTIIFVNTVDKCYKLKLYLEQ 288
+EE + V+Q Y+ E +K L TL L ++IIF N+ + L + Q
Sbjct: 11 MEELTLKGVTQ---YYAYVTERQKVHCLNTLFS-RLQINQSIIFCNSSQRVELLAKKISQ 66
Query: 289 FKISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKALETPQINSTNNRKRKRDKESG 348
S +++++ + R + F GL ++ +D
Sbjct: 67 LGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDL----------------------- 103
Query: 349 VSRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQGTALSFVS 394
+RGID Q V+ VINFDFP + Y+HR GR+ R + G A++ ++
Sbjct: 104 FTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLIT 149
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 37/144 (25%), Positives = 62/144 (43%), Gaps = 23/144 (15%)
Query: 251 EKATILYTLLKLNLVQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVY 310
E+A ++Y L L +IF + YL + ++ + R A+
Sbjct: 39 EEAKMVYLLECLQKTPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIE 98
Query: 311 QFNQGLYDVIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDI 370
F +G DV++A+D S+G+DF + +VIN+D P +I
Sbjct: 99 AFREGKKDVLVATDV-----------------------ASKGLDFPAIQHVINYDMPEEI 135
Query: 371 QCYIHRAGRTARGKNQGTALSFVS 394
+ Y+HR GRT N G A +F++
Sbjct: 136 ENYVHRIGRTGCSGNTGIATTFIN 159
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 56.2 bits (134), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 67/155 (43%), Gaps = 24/155 (15%)
Query: 240 LAHYHILAQEDEKATILYTLLKLNLVQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSE 299
L Y++ +++EK L+ LL + L + +IFV +V +C L L + ++
Sbjct: 6 LQQYYVKLKDNEKNRKLFDLLDV-LEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRG 64
Query: 300 LPAKARCHAVYQFNQGLYDVIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVS 359
+P + R QF +++A++ RG+D + V+
Sbjct: 65 MPQEERLSRYQQFKDFQRRILVATNL-----------------------FGRGMDIERVN 101
Query: 360 NVINFDFPLDIQCYIHRAGRTARGKNQGTALSFVS 394
N+D P D Y+HR R R +G A++FVS
Sbjct: 102 IAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVS 136
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 48/169 (28%), Positives = 70/169 (41%), Gaps = 32/169 (18%)
Query: 231 EPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQGKTIIFVNTVDKCYKLKLYLEQFK 290
E + + QL Y E +K +L L L + G +IIFV T L L+
Sbjct: 5 EVNVDAIKQL--YXDCKNEADKFDVLTELYGLXTI-GSSIIFVATKKTANVLYGKLKSEG 61
Query: 291 ISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKALETPQINSTNNRKRKRDKESGVS 350
+L+ +L + R + F +G V+I ++ ++
Sbjct: 62 HEVSILHGDLQTQERDRLIDDFREGRSKVLITTNV-----------------------LA 98
Query: 351 RGIDFQFVSNVINFDFPL------DIQCYIHRAGRTARGKNQGTALSFV 393
RGID VS V+N+D P D YIHR GRT R +G A+SFV
Sbjct: 99 RGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 147
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 43/146 (29%), Positives = 62/146 (42%), Gaps = 33/146 (22%)
Query: 254 TILYTLLKLNLVQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFN 313
T LY L+ + G +IIFV T L L+ +L+ +L + R + F
Sbjct: 27 TELYGLMTI----GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFR 82
Query: 314 QGLYDVIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPL----- 368
+G V+I ++ ++RGID VS V+N+D P
Sbjct: 83 EGRSKVLITTNV-----------------------LARGIDIPTVSMVVNYDLPTLANGQ 119
Query: 369 -DIQCYIHRAGRTARGKNQGTALSFV 393
D YIHR GRT R +G A+SFV
Sbjct: 120 ADPATYIHRIGRTGRFGRKGVAISFV 145
>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 = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 47/169 (27%), Positives = 70/169 (41%), Gaps = 32/169 (18%)
Query: 231 EPAIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQGKTIIFVNTVDKCYKLKLYLEQFK 290
E + + QL Y E +K +L L + + G +IIFV T L L+
Sbjct: 4 EVNVDAIKQL--YXDCKNEADKFDVLTELYGVXTI-GSSIIFVATKKTANVLYGKLKSEG 60
Query: 291 ISTCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKALETPQINSTNNRKRKRDKESGVS 350
+L+ +L + R + F +G V+I ++ ++
Sbjct: 61 HEVSILHGDLQTQERDRLIDDFREGRSKVLITTNV-----------------------LA 97
Query: 351 RGIDFQFVSNVINFDFPL------DIQCYIHRAGRTARGKNQGTALSFV 393
RGID VS V+N+D P D YIHR GRT R +G A+SFV
Sbjct: 98 RGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 146
>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 = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 40/171 (23%), Positives = 72/171 (42%), Gaps = 29/171 (16%)
Query: 233 AIAPVSQLAHYHILAQEDEKATILYTLLKLNLVQGKTIIFVNTVDKCYKLKLYLEQFKIS 292
++ ++ + Y++L + + + ++ G+ IIF T L + + Q
Sbjct: 1 SMLTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQ 60
Query: 293 TCVLNSELPAKARCHAVYQFNQGLYDVIIASDEKALETPQINSTNNRKRKRDKESGVSRG 352
+L+ EL + R + +F G EK L T + +RG
Sbjct: 61 VSLLSGELTVEQRASIIQRFRDG--------KEKVLITTNV---------------CARG 97
Query: 353 IDFQFVSNVINFDFPL------DIQCYIHRAGRTARGKNQGTALSFVSLRE 397
ID + V+ V+NFD P+ D + Y+HR GRT R +G A + + + E
Sbjct: 98 IDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDE 148
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 43/155 (27%), Positives = 73/155 (47%), Gaps = 23/155 (14%)
Query: 240 LAHYHILAQEDEKATILYTLLKLNLVQGKTIIFVNTVDKCYKLKLYLEQFKISTCVLNSE 299
+ +++ +E+E T L ++ + +IF NT K +L L K + + S+
Sbjct: 4 IKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSD 63
Query: 300 LPAKARCHAVYQFNQGLYDVIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVS 359
LP + R + +F G ++I++D ++RGID Q VS
Sbjct: 64 LPQQERDTIMKEFRSGSSRILISTD-----------------------LLARGIDVQQVS 100
Query: 360 NVINFDFPLDIQCYIHRAGRTARGKNQGTALSFVS 394
VIN+D P + + YIHR GR R +G A++FV+
Sbjct: 101 LVINYDLPANKENYIHRIGRGGRFGRKGVAINFVT 135
>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 = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 35/61 (57%), Gaps = 7/61 (11%)
Query: 340 KRKRDKESGV-------SRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQGTALSF 392
KR + ESG+ +RG+DF V V+ P ++ YIHR GRTAR +G+++ F
Sbjct: 80 KRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLF 139
Query: 393 V 393
+
Sbjct: 140 I 140
>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 = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 35/61 (57%), Gaps = 7/61 (11%)
Query: 340 KRKRDKESGV-------SRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQGTALSF 392
KR + ESG+ +RG+DF V V+ P ++ YIHR GRTAR +G+++ F
Sbjct: 80 KRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLF 139
Query: 393 V 393
+
Sbjct: 140 I 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 = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 35/61 (57%), Gaps = 7/61 (11%)
Query: 340 KRKRDKESGV-------SRGIDFQFVSNVINFDFPLDIQCYIHRAGRTARGKNQGTALSF 392
KR + ESG+ +RG+DF V V+ P ++ YIHR GRTAR +G+++ F
Sbjct: 80 KRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLF 139
Query: 393 V 393
+
Sbjct: 140 I 140
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 37.0 bits (84), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 47/168 (27%), Positives = 71/168 (42%), Gaps = 24/168 (14%)
Query: 44 IQERAIPLILQNKDVLVRARTGSGKT--GAFAIPMIQKIINLKQTAQVQETKALVLSPSK 101
Q+ A+ + Q V V A T +GKT +AI M A TK + SP K
Sbjct: 43 FQKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAIAM----------AHRNMTKTIYTSPIK 92
Query: 102 ELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVATPARALAHLKAK 161
L NQ ++ +E DV I+ V ++ L+ +I+ R++ + A
Sbjct: 93 ALSNQKFRDFKE----TFDDVNIGLITGDVQINPDANCLIMTTEIL-----RSMLYRGA- 142
Query: 162 TLDLKSSLEIVIIDEADLVFSFGYEDDMKAVLKFLPKLYQAILASATL 209
DL +E VI DE V + V+ LP+ + IL SAT+
Sbjct: 143 --DLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIMLPQHVKFILLSATV 188
>pdb|2PNQ|A Chain A, Crystal Structure Of Pyruvate Dehydrogenase Phosphatase 1
(Pdp1)
pdb|2PNQ|B Chain B, Crystal Structure Of Pyruvate Dehydrogenase Phosphatase 1
(Pdp1)
Length = 467
Score = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 42/91 (46%), Gaps = 12/91 (13%)
Query: 390 LSFVSLREQD----LMNDGTALSFVSLREQDLMNDVNEYLMTNLHEDDFIIKPYQFNLDE 445
+++ LR QD L DG + ++ QD++ V EYL H+ + Y+ L +
Sbjct: 330 VTYHRLRPQDKFLVLATDGL---WETMHRQDVVRIVGEYLTGMHHQQPIAVGGYKVTLGQ 386
Query: 446 VKGF--EYRAKDAWRSNYFEDNPTDLETLRH 474
+ G E RAK S+ FED +RH
Sbjct: 387 MHGLLTERRAK---MSSVFEDQNAATHLIRH 414
>pdb|3MQ3|A Chain A, Crystal Structure Of Native Bovine Pdp1c
pdb|3N3C|A Chain A, Crystal Structure Of Native Bovine Pdp1c
Length = 467
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 42/91 (46%), Gaps = 12/91 (13%)
Query: 390 LSFVSLREQD----LMNDGTALSFVSLREQDLMNDVNEYLMTNLHEDDFIIKPYQFNLDE 445
+++ LR QD L DG + ++ QD++ V EYL H+ + Y+ L +
Sbjct: 330 VTYHRLRPQDKFLVLATDGL---WETMHRQDVVRIVGEYLTGMHHQQPIAVGGYKVTLGQ 386
Query: 446 VKGF--EYRAKDAWRSNYFEDNPTDLETLRH 474
+ G E RAK S+ FED +RH
Sbjct: 387 MHGLLTERRAK---MSSVFEDQNAATHLIRH 414
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 33.1 bits (74), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 78/374 (20%), Positives = 136/374 (36%), Gaps = 90/374 (24%)
Query: 45 QERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQVQETKALVLSP----S 100
QE I +L +D LV TG GK+ + IP + ++N +V+SP
Sbjct: 30 QEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL--LLN---------GLTVVVSPLISLM 78
Query: 101 KELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVATPARA----LA 156
K+ +QL N C++ ++ + ++ V T R L
Sbjct: 79 KDQVDQLQAN--------GVAAACLNSTQTREQQLE-----------VMTGCRTGQIRLL 119
Query: 157 HLKAKTLDLKSSLE--------IVIIDEADLVFSFGYE--------DDMKAVLKFLPKLY 200
++ + L L + LE ++ +DEA + +G++ ++ LP +
Sbjct: 120 YIAPERLMLDNFLEHLAHWNPVLLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTLPFMA 179
Query: 201 QAILASATLSEDVLSLKHLILRNPVILKLEEPAIAPVSQLAHYHILAQEDEKATILYTLL 260
A T +D++ L L L +P I +S +I EK L L+
Sbjct: 180 LTATADDTTRQDIVRL----------LGLNDPLIQ-ISSFDRPNIRYMLMEKFKPLDQLM 228
Query: 261 KLNLVQ-GKT-IIFVNTVDKCYKLKLYLEQFKISTCVLNSELPAKARCHAVYQFNQGLYD 318
+ Q GK+ II+ N+ K L+ IS ++ L R +F +
Sbjct: 229 RYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQ 288
Query: 319 VIIASDEKALETPQINSTNNRKRKRDKESGVSRGIDFQFVSNVINFDFPLDIQCYIHRAG 378
+++A+ GI+ V V++FD P +I+ Y G
Sbjct: 289 IVVAT-----------------------VAFGMGINKPNVRFVVHFDIPRNIESYYQETG 325
Query: 379 RTARGKNQGTALSF 392
R R A+ F
Sbjct: 326 RAGRDGLPAEAMLF 339
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 63/132 (47%), Gaps = 6/132 (4%)
Query: 46 ERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQVQETKALVLSPSKELCN 105
E A+P ++ K+ ++ A TG GKT F +I + +LK+ Q Q+ K + + +
Sbjct: 19 ELALPA-MKGKNTIICAPTGCGKT--FVSLLICEH-HLKKFPQGQKGKVVFFANQIPVYE 74
Query: 106 QLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVATPARALAHLKAKTLDL 165
Q + + V + + +V V++ +VE DI++ TP + +LK T+
Sbjct: 75 QQKSVFSKYFERHGYRVTGISGATAENVPVEQ--IVENNDIIILTPQILVNNLKKGTIPS 132
Query: 166 KSSLEIVIIDEA 177
S ++I DE
Sbjct: 133 LSIFTLMIFDEC 144
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 63/132 (47%), Gaps = 6/132 (4%)
Query: 46 ERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQVQETKALVLSPSKELCN 105
E A+P ++ K+ ++ A TG GKT F +I + +LK+ Q Q+ K + + +
Sbjct: 11 ELALPA-MKGKNTIICAPTGCGKT--FVSLLICEH-HLKKFPQGQKGKVVFFANQIPVYE 66
Query: 106 QLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVATPARALAHLKAKTLDL 165
Q + + V + + +V V++ +VE DI++ TP + +LK T+
Sbjct: 67 QNKSVFSKYFERHGYRVTGISGATAENVPVEQ--IVENNDIIILTPQILVNNLKKGTIPS 124
Query: 166 KSSLEIVIIDEA 177
S ++I DE
Sbjct: 125 LSIFTLMIFDEC 136
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 63/132 (47%), Gaps = 6/132 (4%)
Query: 46 ERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQVQETKALVLSPSKELCN 105
E A+P ++ K+ ++ A TG GKT F +I + +LK+ Q Q+ K + + +
Sbjct: 20 ELALPA-MKGKNTIICAPTGCGKT--FVSLLICEH-HLKKFPQGQKGKVVFFANQIPVYE 75
Query: 106 QLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVATPARALAHLKAKTLDL 165
Q + + V + + +V V++ +VE DI++ TP + +LK T+
Sbjct: 76 QNKSVFSKYFERHGYRVTGISGATAENVPVEQ--IVENNDIIILTPQILVNNLKKGTIPS 133
Query: 166 KSSLEIVIIDEA 177
S ++I DE
Sbjct: 134 LSIFTLMIFDEC 145
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 34/56 (60%), Gaps = 3/56 (5%)
Query: 55 NKDVLVRARTGSGKTGAFAIPMIQKI---INLKQTAQVQETKALVLSPSKELCNQL 107
++++L+ A TG+GKT + M+++I IN+ T V + K + ++P + L ++
Sbjct: 95 DENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQEM 150
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 34/56 (60%), Gaps = 3/56 (5%)
Query: 55 NKDVLVRARTGSGKTGAFAIPMIQKI---INLKQTAQVQETKALVLSPSKELCNQL 107
++++L+ A TG+GKT + M+++I IN+ T V + K + ++P + L ++
Sbjct: 95 DENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQEM 150
>pdb|3R31|A Chain A, Crystal Structure Of Betaine Aldehyde Dehydrogenase From
Agrobacterium Tumefaciens
pdb|3R31|B Chain B, Crystal Structure Of Betaine Aldehyde Dehydrogenase From
Agrobacterium Tumefaciens
Length = 517
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 40/163 (24%), Positives = 63/163 (38%), Gaps = 22/163 (13%)
Query: 36 LGWLEPTLIQERAIPLILQNKDVLVRARTGSG---KTGAFAIPMIQKIINLKQTAQVQET 92
G + P+ + IPL D R G GA+ P Q+I K +
Sbjct: 124 FGGIAPSALNGDYIPL---GGDFAYTKRVPLGVCVGIGAWNYP--QQIACWKAAPALVAG 178
Query: 93 KALVLSPSKELCNQLHKNIQELTMKCSRDVKCVDISEQVDVSVQEPLLVERPDIVVAT-- 150
A+V PS+ K I E+ ++ ++ Q D PLLV PD+ +
Sbjct: 179 NAMVFKPSENTPLGALK-IAEILIEAGLPKGLFNVI-QGDRDTG-PLLVNHPDVAKVSLT 235
Query: 151 ---------PARALAHLKAKTLDLKSSLEIVIIDEADLVFSFG 184
A A HLK T++L +++ D+AD+ + G
Sbjct: 236 GSVPTGRKVAAAAAGHLKHVTMELGGKSPMIVFDDADIESAVG 278
>pdb|4FID|A Chain A, Crystal Structure Of A Heterotrimeric G-Protein Subunit
From Entamoeba Histolytica, Ehg-Alpha-1
pdb|4FID|B Chain B, Crystal Structure Of A Heterotrimeric G-Protein Subunit
From Entamoeba Histolytica, Ehg-Alpha-1
Length = 340
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 4/51 (7%)
Query: 414 EQDLMNDVNEYLMTNLHEDDFIIKPYQFNLDEVKGFEYRAKDAWRSNYFED 464
E+DL++ N T +HE DF++K F+L +V G + + W S +F D
Sbjct: 138 EEDLIH--NRTKTTGIHEYDFVVKDIPFHLIDVGG-QRSERKXWVS-FFSD 184
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 29.3 bits (64), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 8/67 (11%)
Query: 45 QERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQVQETKALVLSPSKELC 104
Q+ AI I + + VLV A T +GKT + Q + N + + + SP K L
Sbjct: 91 QDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKN--------KQRVIYTSPIKALS 142
Query: 105 NQLHKNI 111
NQ ++ +
Sbjct: 143 NQKYREL 149
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 28.9 bits (63), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 8/68 (11%)
Query: 44 IQERAIPLILQNKDVLVRARTGSGKTGAFAIPMIQKIINLKQTAQVQETKALVLSPSKEL 103
Q+ AI I + + VLV A T +GKT + Q + N + + + SP K L
Sbjct: 188 FQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKN--------KQRVIYTSPIKAL 239
Query: 104 CNQLHKNI 111
NQ ++ +
Sbjct: 240 SNQKYREL 247
>pdb|3U44|A Chain A, Crystal Structure Of Addab-Dna Complex
pdb|3U4Q|A Chain A, Structure Of Addab-Dna Complex At 2.8 Angstroms
Length = 1232
Score = 28.9 bits (63), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 51 LILQNKDVLVRARTGSGKTGAFAIPMIQKI 80
++ +D+LV A GSGKT MI+KI
Sbjct: 19 IVSTGQDILVAAAAGSGKTAVLVERMIRKI 48
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.136 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,790,606
Number of Sequences: 62578
Number of extensions: 602827
Number of successful extensions: 1469
Number of sequences better than 100.0: 90
Number of HSP's better than 100.0 without gapping: 67
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 1238
Number of HSP's gapped (non-prelim): 103
length of query: 540
length of database: 14,973,337
effective HSP length: 104
effective length of query: 436
effective length of database: 8,465,225
effective search space: 3690838100
effective search space used: 3690838100
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: 54 (25.4 bits)