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= psy13287
(140 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 216 bits (550), Expect = 4e-57, Method: Compositional matrix adjust.
Identities = 100/133 (75%), Positives = 113/133 (84%)
Query: 1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
+++ ++S LP Q LL+SATFPLTVK FM KHL PYEINLMEELTLKG+TQYYAFV+E
Sbjct: 183 IIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLMEELTLKGITQYYAFVEE 242
Query: 61 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
RQK+HCLNTLFSKLQINQ+IIFCNST RVELLAKKIT+LGY CYY HARM Q RN+VFH
Sbjct: 243 RQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFH 302
Query: 121 DFRSGLCRNLVCS 133
+FR G R LVCS
Sbjct: 303 EFRQGKVRTLVCS 315
>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 = 187 bits (476), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 85/99 (85%), Positives = 95/99 (95%)
Query: 35 KDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAK 94
+DPYEINLMEELTLKGVTQYYA+V ERQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAK
Sbjct: 3 QDPYEINLMEELTLKGVTQYYAYVTERQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAK 62
Query: 95 KITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
KI++LGY C+YIHA+M Q HRNRVFHDFR+GLCRNLVC+
Sbjct: 63 KISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCT 101
>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 = 88.2 bits (217), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 43/132 (32%), Positives = 76/132 (57%), Gaps = 2/132 (1%)
Query: 4 HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQ 62
+ ++LP Q++L SAT P V K +++P I + +ELTL+G+ Q+Y V+E +
Sbjct: 186 QIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEE 245
Query: 63 -KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHD 121
K CL L+ + + Q++IFCN+ ++VE L K+ + I++ + Q R+ + +
Sbjct: 246 YKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKE 305
Query: 122 FRSGLCRNLVCS 133
FRSG R L+ +
Sbjct: 306 FRSGSSRILIST 317
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 87.0 bits (214), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 45/127 (35%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 9 LPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHC 66
LP Q++L SAT P V K + DP I + +ELTL+G+ Q++ V+ E K
Sbjct: 171 LPPATQVVLISATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDT 230
Query: 67 LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
L L+ L I Q++IFCN+ ++V+ L +K+ E + +H M Q R + +FRSG
Sbjct: 231 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGA 290
Query: 127 CRNLVCS 133
R L+ +
Sbjct: 291 SRVLIST 297
>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 = 86.7 bits (213), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 44/127 (34%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 9 LPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHC 66
LP Q++L SAT P + K + DP I + +ELTL+G+ Q++ V+ E K
Sbjct: 208 LPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDT 267
Query: 67 LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
L L+ L I Q++IFCN+ ++V+ L +K+ E + +H M Q R + +FRSG
Sbjct: 268 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGA 327
Query: 127 CRNLVCS 133
R L+ +
Sbjct: 328 SRVLIST 334
>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 = 86.7 bits (213), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 44/127 (34%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 9 LPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHC 66
LP Q++L SAT P + K + DP I + +ELTL+G+ Q++ V+ E K
Sbjct: 207 LPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDT 266
Query: 67 LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
L L+ L I Q++IFCN+ ++V+ L +K+ E + +H M Q R + +FRSG
Sbjct: 267 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGA 326
Query: 127 CRNLVCS 133
R L+ +
Sbjct: 327 SRVLIST 333
>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 = 86.7 bits (213), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 44/127 (34%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 9 LPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHC 66
LP Q++L SAT P + K + DP I + +ELTL+G+ Q++ V+ E K
Sbjct: 208 LPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDT 267
Query: 67 LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
L L+ L I Q++IFCN+ ++V+ L +K+ E + +H M Q R + +FRSG
Sbjct: 268 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGA 327
Query: 127 CRNLVCS 133
R L+ +
Sbjct: 328 SRVLIST 334
>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 = 86.7 bits (213), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 44/127 (34%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 9 LPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHC 66
LP Q++L SAT P + K + DP I + +ELTL+G+ Q++ V+ E K
Sbjct: 186 LPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDT 245
Query: 67 LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
L L+ L I Q++IFCN+ ++V+ L +K+ E + +H M Q R + +FRSG
Sbjct: 246 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGA 305
Query: 127 CRNLVCS 133
R L+ +
Sbjct: 306 SRVLIST 312
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 86.3 bits (212), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 44/127 (34%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 9 LPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHC 66
LP Q++L SAT P + K + DP I + +ELTL+G+ Q++ V+ E K
Sbjct: 171 LPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDT 230
Query: 67 LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
L L+ L I Q++IFCN+ ++V+ L +K+ E + +H M Q R + +FRSG
Sbjct: 231 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGA 290
Query: 127 CRNLVCS 133
R L+ +
Sbjct: 291 SRVLIST 297
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 85.9 bits (211), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 43/132 (32%), Positives = 75/132 (56%), Gaps = 2/132 (1%)
Query: 4 HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQ 62
+ ++LP Q++L SAT P V K ++P I + +ELTL+G+ Q+Y V+E +
Sbjct: 185 QIFTLLPPTTQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEE 244
Query: 63 -KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHD 121
K CL L+ + + Q++IFCN+ ++VE L K+ + I++ + Q R+ + +
Sbjct: 245 YKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKE 304
Query: 122 FRSGLCRNLVCS 133
FRSG R L+ +
Sbjct: 305 FRSGSSRILIST 316
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 80.5 bits (197), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 43/122 (35%), Positives = 70/122 (57%), Gaps = 2/122 (1%)
Query: 14 QILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQ-ERQKVHCLNTLF 71
Q++L SAT P V +K ++DP I + EELTL+G+ Q+Y V+ E K+ L L+
Sbjct: 216 QVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLY 275
Query: 72 SKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLV 131
L I Q++IF N+ ++V+ L +K+ + +H M Q R+ + +FRSG R L+
Sbjct: 276 ETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLI 335
Query: 132 CS 133
+
Sbjct: 336 TT 337
>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 = 80.1 bits (196), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 43/122 (35%), Positives = 70/122 (57%), Gaps = 2/122 (1%)
Query: 14 QILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQ-ERQKVHCLNTLF 71
Q++L SAT P V +K ++DP I + EELTL+G+ Q+Y V+ E K+ L L+
Sbjct: 190 QVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLY 249
Query: 72 SKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLV 131
L I Q++IF N+ ++V+ L +K+ + +H M Q R+ + +FRSG R L+
Sbjct: 250 ETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLI 309
Query: 132 CS 133
+
Sbjct: 310 TT 311
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 75.1 bits (183), Expect = 1e-14, Method: Composition-based stats.
Identities = 44/128 (34%), Positives = 68/128 (53%), Gaps = 2/128 (1%)
Query: 8 ILPHERQILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQ-ERQKVH 65
+LP QI+L+SATF V+ + E+ + EI L EEL+++G+ Q Y Q E K +
Sbjct: 287 LLPRNTQIVLFSATFSERVEKYAERFAPNANEIRLKTEELSVEGIKQLYMDCQSEEHKYN 346
Query: 66 CLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 125
L L+ L I QSIIFC E +A+++T G+ + + A R+ + FR G
Sbjct: 347 VLVELYGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVG 406
Query: 126 LCRNLVCS 133
+ LV +
Sbjct: 407 TSKVLVTT 414
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 74.7 bits (182), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 43/132 (32%), Positives = 69/132 (52%), Gaps = 2/132 (1%)
Query: 4 HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE--LTLKGVTQYYAFVQER 61
+ + PHE+Q++++SAT ++ K ++DP EI + +E LTL G+ QYY +++
Sbjct: 175 EIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDN 234
Query: 62 QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHD 121
+K L L L+ NQ +IF S QR LA+ + E + IH M Q R +
Sbjct: 235 EKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQ 294
Query: 122 FRSGLCRNLVCS 133
F+ R LV +
Sbjct: 295 FKDFQRRILVAT 306
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 74.3 bits (181), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 43/132 (32%), Positives = 69/132 (52%), Gaps = 2/132 (1%)
Query: 4 HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE--LTLKGVTQYYAFVQER 61
+ + PHE+Q++++SAT ++ K ++DP EI + +E LTL G+ QYY +++
Sbjct: 176 EIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDN 235
Query: 62 QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHD 121
+K L L L+ NQ +IF S QR LA+ + E + IH M Q R +
Sbjct: 236 EKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQ 295
Query: 122 FRSGLCRNLVCS 133
F+ R LV +
Sbjct: 296 FKDFQRRILVAT 307
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 74.3 bits (181), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 43/132 (32%), Positives = 69/132 (52%), Gaps = 2/132 (1%)
Query: 4 HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE--LTLKGVTQYYAFVQER 61
+ + PHE+Q++++SAT ++ K ++DP EI + +E LTL G+ QYY +++
Sbjct: 176 EIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDN 235
Query: 62 QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHD 121
+K L L L+ NQ +IF S QR LA+ + E + IH M Q R +
Sbjct: 236 EKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQ 295
Query: 122 FRSGLCRNLVCS 133
F+ R LV +
Sbjct: 296 FKDFQRRILVAT 307
>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 = 68.9 bits (167), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 43/128 (33%), Positives = 66/128 (51%), Gaps = 2/128 (1%)
Query: 8 ILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVH 65
+LP Q+LL+SATF +V F +K + DP I L EE TL + QYY R +K
Sbjct: 263 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQ 322
Query: 66 CLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 125
L L+ + I Q++IFC++ + LA ++++ G+ + M R V FR G
Sbjct: 323 ALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREG 382
Query: 126 LCRNLVCS 133
+ LV +
Sbjct: 383 KEKVLVTT 390
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 68.9 bits (167), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 43/128 (33%), Positives = 66/128 (51%), Gaps = 2/128 (1%)
Query: 8 ILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVH 65
+LP Q+LL+SATF +V F +K + DP I L EE TL + QYY R +K
Sbjct: 212 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQ 271
Query: 66 CLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 125
L L+ + I Q++IFC++ + LA ++++ G+ + M R V FR G
Sbjct: 272 ALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREG 331
Query: 126 LCRNLVCS 133
+ LV +
Sbjct: 332 KEKVLVTT 339
>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 = 68.9 bits (167), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 43/128 (33%), Positives = 66/128 (51%), Gaps = 2/128 (1%)
Query: 8 ILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVH 65
+LP Q+LL+SATF +V F +K + DP I L EE TL + QYY R +K
Sbjct: 233 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQ 292
Query: 66 CLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 125
L L+ + I Q++IFC++ + LA ++++ G+ + M R V FR G
Sbjct: 293 ALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREG 352
Query: 126 LCRNLVCS 133
+ LV +
Sbjct: 353 KEKVLVTT 360
>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 = 68.9 bits (167), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 43/128 (33%), Positives = 66/128 (51%), Gaps = 2/128 (1%)
Query: 8 ILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVH 65
+LP Q+LL+SATF +V F +K + DP I L EE TL + QYY R +K
Sbjct: 196 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQ 255
Query: 66 CLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 125
L L+ + I Q++IFC++ + LA ++++ G+ + M R V FR G
Sbjct: 256 ALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREG 315
Query: 126 LCRNLVCS 133
+ LV +
Sbjct: 316 KEKVLVTT 323
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 51/88 (57%), Gaps = 1/88 (1%)
Query: 48 LKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYI 106
L+G+ Q+Y V+E + K CL L+ + + Q++IFCN+ ++VE L K+ + I
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 107 HARMAQAHRNRVFHDFRSGLCRNLVCSG 134
++ + Q R+ + +FRSG R L+ +
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRILISTD 88
>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 = 59.3 bits (142), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 34/127 (26%), Positives = 62/127 (48%), Gaps = 2/127 (1%)
Query: 9 LPHERQILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQ-ERQKVHC 66
LP + Q++L+SATF V+ + +K + + + L E+ + + Q Y + E K
Sbjct: 174 LPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDV 233
Query: 67 LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
L L+ + I SIIF + + +L K+ G+ +H + R+R+ DFR G
Sbjct: 234 LTELYGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGR 293
Query: 127 CRNLVCS 133
+ L+ +
Sbjct: 294 SKVLITT 300
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 58.9 bits (141), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 34/127 (26%), Positives = 62/127 (48%), Gaps = 2/127 (1%)
Query: 9 LPHERQILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQ-ERQKVHC 66
LP + Q++L+SATF V+ + +K + + + L E+ + + Q Y + E K
Sbjct: 174 LPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDV 233
Query: 67 LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
L L+ + I SIIF + + +L K+ G+ +H + R+R+ DFR G
Sbjct: 234 LTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGR 293
Query: 127 CRNLVCS 133
+ L+ +
Sbjct: 294 SKVLITT 300
>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 = 58.9 bits (141), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 25/41 (60%), Positives = 32/41 (78%)
Query: 1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEIN 41
+++ +I LP RQILLYSATFPL+V+ FM HL+ PYEIN
Sbjct: 166 IMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLEKPYEIN 206
>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 = 48.9 bits (115), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 29/132 (21%), Positives = 64/132 (48%), Gaps = 4/132 (3%)
Query: 2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQER 61
++ +++ +++ILL+SAT P + N +K+ D + ++ + Q Y V E
Sbjct: 168 VEKILNACNKDKRILLFSATXPREILNLAKKYXGD---YSFIKAKINANIEQSYVEVNEN 224
Query: 62 QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHD 121
++ L L + ++FC + + + LA + ++G+ IH ++Q+ R +V
Sbjct: 225 ERFEALCRLLKNKEF-YGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRL 283
Query: 122 FRSGLCRNLVCS 133
F+ R L+ +
Sbjct: 284 FKQKKIRILIAT 295
>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 = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 41/88 (46%)
Query: 46 LTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYY 105
LT + + V+E K L + + IIFC + + V L ++ +LGY C
Sbjct: 5 LTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDK 64
Query: 106 IHARMAQAHRNRVFHDFRSGLCRNLVCS 133
IH M Q R V ++F+ G R LV +
Sbjct: 65 IHGGMIQEDRFDVMNEFKRGEYRYLVAT 92
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 32/124 (25%), Positives = 58/124 (46%), Gaps = 4/124 (3%)
Query: 13 RQILLYSATFPLTVKNFMEKHLKDPYEINLMEEL--TLKGVTQYYAFVQERQK-VHCLNT 69
R +++SATFP ++ + + D Y + + T + +TQ +V+E K L+
Sbjct: 211 RHTMMFSATFPKEIQ-MLARDFLDEYIFLAVGRVGSTSENITQKVVWVEESDKRSFLLDL 269
Query: 70 LFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRN 129
L + + + +++F + + + L + GY C IH +Q R H FRSG
Sbjct: 270 LNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPI 329
Query: 130 LVCS 133
LV +
Sbjct: 330 LVAT 333
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 45.8 bits (107), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 42/87 (48%)
Query: 47 TLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYI 106
+L G+ QYY +++ +K L L L+ NQ +IF S QR LA+ + E + I
Sbjct: 2 SLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI 61
Query: 107 HARMAQAHRNRVFHDFRSGLCRNLVCS 133
H M Q R + F+ R LV +
Sbjct: 62 HRGMPQEERLSRYQQFKDFQRRILVAT 88
>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 = 45.4 bits (106), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 36/73 (49%)
Query: 61 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
R ++ L+ L +++++F + E +A+ + LG+ +H M+Q R RV
Sbjct: 13 RGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMG 72
Query: 121 DFRSGLCRNLVCS 133
FR G R LV +
Sbjct: 73 AFRQGEVRVLVAT 85
>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 = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 36/73 (49%)
Query: 61 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
R ++ L+ L +++++F + E +A+ + LG+ +H ++Q R RV
Sbjct: 16 RGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLG 75
Query: 121 DFRSGLCRNLVCS 133
FR G R LV +
Sbjct: 76 AFRQGEVRVLVAT 88
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 42.7 bits (99), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 1/90 (1%)
Query: 45 ELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCC 103
E+ + + Q Y + E K L L+ + I SIIF + + +L K+ G+
Sbjct: 3 EVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEV 62
Query: 104 YYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
+H + R+R+ DFR G + L+ +
Sbjct: 63 SILHGDLQTQERDRLIDDFREGRSKVLITT 92
>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 = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 40/90 (44%), Gaps = 1/90 (1%)
Query: 45 ELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCC 103
E+ + + Q Y + E K L L+ I SIIF + + +L K+ G+
Sbjct: 4 EVNVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHEV 63
Query: 104 YYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
+H + R+R+ DFR G + L+ +
Sbjct: 64 SILHGDLQTQERDRLIDDFREGRSKVLITT 93
>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 = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 42/89 (47%), Gaps = 1/89 (1%)
Query: 46 LTLKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCY 104
LTL + QYY + R+ K L ++ + I Q+IIFC + + + L ++ + G+
Sbjct: 3 LTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVS 62
Query: 105 YIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
+ + R + FR G + L+ +
Sbjct: 63 LLSGELTVEQRASIIQRFRDGKEKVLITT 91
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 40/90 (44%), Gaps = 1/90 (1%)
Query: 45 ELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCC 103
E+ + + Q Y + E K L L+ I SIIF + + +L K+ G+
Sbjct: 5 EVNVDAIKQLYXDCKNEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHEV 64
Query: 104 YYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
+H + R+R+ DFR G + L+ +
Sbjct: 65 SILHGDLQTQERDRLIDDFREGRSKVLITT 94
>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 = 40.8 bits (94), Expect = 3e-04, Method: Composition-based stats.
Identities = 31/127 (24%), Positives = 60/127 (47%), Gaps = 2/127 (1%)
Query: 12 ERQILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQERQKVHCLNTL 70
E Q L++SATFP ++ + LK+ + + + V Q V + K L +
Sbjct: 236 EHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEI 295
Query: 71 FSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNL 130
S+ Q + +I+F + + + LA ++E + IH Q+ R + DF++G + L
Sbjct: 296 LSE-QADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVL 354
Query: 131 VCSGDSS 137
+ + +S
Sbjct: 355 IATSVAS 361
>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 = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 1/88 (1%)
Query: 47 TLKGVTQYYAFVQERQK-VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYY 105
T + +TQ +V+E K L+ L + + + +++F + + + L + GY C
Sbjct: 16 TSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTS 75
Query: 106 IHARMAQAHRNRVFHDFRSGLCRNLVCS 133
IH +Q R H FRSG LV +
Sbjct: 76 IHGDRSQRDREEALHQFRSGKSPILVAT 103
>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 = 39.3 bits (90), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 28/43 (65%)
Query: 2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME 44
++ ++S P RQ LL+SAT P K E+++K+P IN+++
Sbjct: 165 VEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLINVIK 207
>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 = 39.3 bits (90), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 28/43 (65%)
Query: 2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME 44
++ ++S P RQ LL+SAT P K E+++K+P IN+++
Sbjct: 165 VEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLINVIK 207
>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 = 35.0 bits (79), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 38/91 (41%), Gaps = 2/91 (2%)
Query: 49 KGVTQYYAFVQE-RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIH 107
K + Q+Y + K L L + + +SI+F +RV LA + E G Y+
Sbjct: 2 KKIHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLE 61
Query: 108 ARMAQAHRNRVFHDFRSGLCRNLVCSGDSSA 138
M Q RN G N++ + D +A
Sbjct: 62 GEMVQGKRNEAIKRLTEGRV-NVLVATDVAA 91
>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 = 34.3 bits (77), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 24/39 (61%)
Query: 2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEI 40
+ + + PHE+Q++++SAT ++ K ++DP EI
Sbjct: 180 VQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEI 218
>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 = 33.5 bits (75), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 29/43 (67%)
Query: 2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME 44
+D + + P + Q L++SAT P +K F++K+ ++P ++++E
Sbjct: 171 VDQIAARXPKDLQXLVFSATIPEKLKPFLKKYXENPTFVHVLE 213
>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 = 33.1 bits (74), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 26/41 (63%)
Query: 2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINL 42
++ + S LP +Q+L SAT+P + N + K+++DP + L
Sbjct: 188 INWIYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVRL 228
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 33.1 bits (74), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 23/36 (63%)
Query: 2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDP 37
++ VI LP +RQ LL+SAT +VK+ LK+P
Sbjct: 192 MNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNP 227
>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 = 32.7 bits (73), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 20/31 (64%)
Query: 12 ERQILLYSATFPLTVKNFMEKHLKDPYEINL 42
+RQ L++SAT+P V+ E LKD IN+
Sbjct: 207 DRQTLMWSATWPKEVRQLAEDFLKDYIHINI 237
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 32.3 bits (72), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 23/38 (60%)
Query: 8 ILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE 45
+LP Q+LL+SATF +V F +K + DP I L E
Sbjct: 263 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 32.3 bits (72), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 23/38 (60%)
Query: 5 VISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINL 42
++ + +RQ L++SAT+P V+ E LKD IN+
Sbjct: 214 IVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINI 251
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 32.3 bits (72), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 23/38 (60%)
Query: 8 ILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE 45
+LP Q+LL+SATF +V F +K + DP I L E
Sbjct: 196 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 233
>pdb|1M4J|A Chain A, Crystal Structure Of The N-Terminal Adf-H Domain Of Mouse
Twinfilin Isoform-1
pdb|1M4J|B Chain B, Crystal Structure Of The N-Terminal Adf-H Domain Of Mouse
Twinfilin Isoform-1
Length = 142
Score = 31.2 bits (69), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%)
Query: 11 HERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQY 54
H RQ +LY+AT K F H+KD + E+++L G +Y
Sbjct: 94 HVRQKMLYAATRATLKKEFGGGHIKDEVFGTVKEDVSLHGYKKY 137
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 30.8 bits (68), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 22/38 (57%)
Query: 2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYE 39
+D ++ ++P +R+ L+SAT V+ LK+P +
Sbjct: 207 VDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVK 244
>pdb|1WCX|A Chain A, Crystal Structure Of Mutant Uroporphyrinogen Iii Synthase
From An Extremely Thermophilic Bacterium Thermus
Thermophilus Hb8 (L75mI193ML248M, SEMET DERIVATIVE,
FORM-1 Crystal)
Length = 261
Score = 30.4 bits (67), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 29/122 (23%), Positives = 47/122 (38%), Gaps = 23/122 (18%)
Query: 5 VISILPHERQIL---LYSATFPLTVKNFMEK-----------HLKDPYEINLMEELTLKG 50
++ +LP R + LY PL E+ HL DP I +EE L+G
Sbjct: 123 LLPLLPQGRGVAALQLYGKPLPLLENALAERGYRVLPLXPYRHLPDPEGILRLEEALLRG 182
Query: 51 VTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKIT-----ELGYCCYY 105
AFV Q + LF + +++ +T+ L ++T E G +Y
Sbjct: 183 EVDALAFVAAXQ----VEFLFEGAKDPKALREALNTRVKALAVGRVTADALREWGVKPFY 238
Query: 106 IH 107
+
Sbjct: 239 VD 240
>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 = 30.4 bits (67), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 12 ERQILLYSATFPLTVKNFMEKHLKDP 37
+RQ ++ SAT+P TV+ +LKDP
Sbjct: 198 DRQTVMTSATWPDTVRQLALSYLKDP 223
>pdb|2K0Z|A Chain A, Solution Nmr Structure Of Protein Hp1203 From Helicobacter
Pylori 26695. Northeast Structural Genomics Consortium
(Nesg) Target Pt1ONTARIO CENTER FOR STRUCTURAL
PROTEOMICS TARGET HP1203
Length = 110
Score = 30.0 bits (66), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 5/83 (6%)
Query: 28 NFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQ 87
NF + + D E++ EEL L T QE+ L S+ + + ++ C + +
Sbjct: 13 NFNDFIVVDVRELDEYEELHLPNATLISVNDQEK-----LADFLSQHKDKKVLLHCRAGR 67
Query: 88 RVELLAKKITELGYCCYYIHARM 110
R AK + ELGY YY+ +
Sbjct: 68 RALDAAKSMHELGYTPYYLEGNV 90
>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 = 30.0 bits (66), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 4 HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLK 49
+ ++LP Q++L SAT P V K +++P I + +ELTL+
Sbjct: 178 QIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLE 224
>pdb|2BDT|A Chain A, Crystal Structure Of The Putative Gluconate Kinase From
Bacillus Halodurans, Northeast Structural Genomics
Target Bhr61
Length = 189
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 2/80 (2%)
Query: 13 RQILLYSATFPLTVKNFMEKHLKDPYE--INLMEELTLKGVTQYYAFVQERQKVHCLNTL 70
R I+L++ L ++ + K + E + L+EE KG+ + Y + + LN +
Sbjct: 104 RFIILWTNREELLRRDALRKKDEQXGERCLELVEEFESKGIDERYFYNTSHLQPTNLNDI 163
Query: 71 FSKLQINQSIIFCNSTQRVE 90
L+ N IFC + +E
Sbjct: 164 VKNLKTNPRFIFCXAGDPLE 183
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 4 HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEI 40
+ ++LP Q++L SAT P V K +++P I
Sbjct: 185 QIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRI 221
>pdb|2EUG|A Chain A, Crystal Structure Of Escherichia Coli Uracil Dna
Glycosylase And Its Complexes With Uracil And Glycerol:
Structure And Glycosylase Mechanism Revisited
pdb|3EUG|A Chain A, Crystal Structure Of Escherichia Coli Uracil Dna
Glycosylase And Its Complexes With Uracil And Glycerol:
Structure And Glycosylase Mechanism Revisited
Length = 229
Score = 27.3 bits (59), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%)
Query: 51 VTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELG 100
+T + +E+Q+ H LNTL + QS + Q+ A + TELG
Sbjct: 5 LTWHDVLAEEKQQPHFLNTLQTVASERQSGVTIYPPQKDVFNAFRFTELG 54
>pdb|1FLZ|A Chain A, Uracil Dna Glycosylase With Uaap
Length = 228
Score = 27.3 bits (59), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%)
Query: 51 VTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELG 100
+T + +E+Q+ H LNTL + QS + Q+ A + TELG
Sbjct: 4 LTWHDVLAEEKQQPHFLNTLQTVASERQSGVTIYPPQKDVFNAFRFTELG 53
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 26.9 bits (58), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEE 45
Q++L SAT P V +K ++DP I + +E
Sbjct: 206 QVVLLSATMPTDVLEVTKKFMRDPIRILVKKE 237
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 26.6 bits (57), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLK 35
L +I +LP RQ +L+SAT V++ LK
Sbjct: 222 LKQIIKLLPTRRQTMLFSATQTRKVEDLARISLK 255
>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 = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 27/120 (22%), Positives = 53/120 (44%), Gaps = 18/120 (15%)
Query: 23 PLTVKNFMEKHLKD---------PYEINLMEELTLK-----GVTQYYAFVQ--ERQKVHC 66
PL + F EKH+ + PYEI +E+ + G+ V+ E Q
Sbjct: 382 PLRFEEF-EKHMHNIVYVSATPGPYEIEHTDEMVEQIIRPTGLLDPLIDVRPIEGQIDDL 440
Query: 67 LNTLFSKLQINQSIIFCNSTQRV-ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 125
+ + ++++ N+ ++ T+++ E L + E+G Y+H+ + R + D R G
Sbjct: 441 IGEIQARIERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLG 500
>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 = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 27/120 (22%), Positives = 53/120 (44%), Gaps = 18/120 (15%)
Query: 23 PLTVKNFMEKHLKD---------PYEINLMEELTLK-----GVTQYYAFVQ--ERQKVHC 66
PL + F EKH+ + PYEI +E+ + G+ V+ E Q
Sbjct: 376 PLRFEEF-EKHMHNIVYVSATPGPYEIEHTDEMVEQIIRPTGLLDPLIDVRPIEGQIDDL 434
Query: 67 LNTLFSKLQINQSIIFCNSTQRV-ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 125
+ + ++++ N+ ++ T+++ E L + E+G Y+H+ + R + D R G
Sbjct: 435 IGEIQARIERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLG 494
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
0.328 0.137 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,630,674
Number of Sequences: 62578
Number of extensions: 118964
Number of successful extensions: 506
Number of sequences better than 100.0: 61
Number of HSP's better than 100.0 without gapping: 56
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 420
Number of HSP's gapped (non-prelim): 61
length of query: 140
length of database: 14,973,337
effective HSP length: 89
effective length of query: 51
effective length of database: 9,403,895
effective search space: 479598645
effective search space used: 479598645
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 46 (22.3 bits)