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= psy15524
(930 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 199 bits (505), Expect = 7e-51, Method: Compositional matrix adjust.
Identities = 129/384 (33%), Positives = 201/384 (52%), Gaps = 30/384 (7%)
Query: 410 MNITQVTTVQQLSIQPIL--DGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGI 467
M +T VQQ +I+PIL + DV+ R++TG+GKT A+ IPI Q L + K + +
Sbjct: 39 MEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL--INTKFDSQYMV 96
Query: 468 YAVIILPTRELALQTLEIFTKLCKSFTWIVPSW----LTGGEKMKSEKARIRK-GISILV 522
AVI+ PTR+LALQ +E K + + + L GG ++ ++ K +I++
Sbjct: 97 KAVIVAPTRDLALQ-IEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVI 155
Query: 523 ATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILK----KQKPQFQ 578
ATPGRL+D + F V++ VLDEADR+L+ G+ D+ IL K +
Sbjct: 156 ATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIK 215
Query: 579 SILLSATLTPAVQRLAG--MTLQNPIQIDAADSTD--IHNTTD-SLVIPDSLKQHFIVTP 633
++L SATL VQ+LA M + + +D D + H D S+VI +
Sbjct: 216 TLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAV 275
Query: 634 PKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGS 693
+ K Q D K ++F T + +L +++ + HG
Sbjct: 276 EHI-----------KKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 324
Query: 694 MSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTAR 753
++Q++RT + K F+ +SG+L+CTDV ARG+D P V ++Q PS +Y+HR+GRTAR
Sbjct: 325 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 384
Query: 754 VGHEGSSLLFLIPSEVKLVEELQN 777
G EGSS+LF+ E+ V EL++
Sbjct: 385 SGKEGSSVLFICKDELPFVRELED 408
Score = 101 bits (251), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 76/224 (33%), Positives = 117/224 (52%), Gaps = 17/224 (7%)
Query: 1 MNITQVTTVQQLSIQPIL--DGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGI 58
M +T VQQ +I+PIL + DV+ R++TG+GKT A+ IPI Q L + K + +
Sbjct: 39 MEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL--INTKFDSQYMV 96
Query: 59 YAVIILPTRELALQTLEIFTKLCKSFTWIVPSW----LTGGEKMKSEKARIRK-GISILV 113
AVI+ PTR+LALQ +E K + + + L GG ++ ++ K +I++
Sbjct: 97 KAVIVAPTRDLALQ-IEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVI 155
Query: 114 ATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILK----KQKPQFQ 169
ATPGRL+D + F V++ VLDEADR+L+ G+ D+ IL K +
Sbjct: 156 ATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIK 215
Query: 170 SILLSATLTPATCWCKHTETLKFSKVEHLVLDEADRILDQGYER 213
++L SATL + +K E L LD D+ + +ER
Sbjct: 216 TLLFSATLDDKVQKLANN---IMNKKECLFLDTVDKNEPEAHER 256
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 198 bits (504), Expect = 9e-51, Method: Compositional matrix adjust.
Identities = 129/386 (33%), Positives = 202/386 (52%), Gaps = 30/386 (7%)
Query: 410 MNITQVTTVQQLSIQPIL--DGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGI 467
M +T VQQ +I+PIL + DV+ R++TG+GKT A+ IPI Q L + K + +
Sbjct: 39 MEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL--INTKFDSQYMV 96
Query: 468 YAVIILPTRELALQTLEIFTKLCKSFTWIVPSW----LTGGEKMKSEKARIRK-GISILV 522
AVI+ PTR+LALQ +E K + + + L GG ++ ++ K +I++
Sbjct: 97 KAVIVAPTRDLALQ-IEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVI 155
Query: 523 ATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILK----KQKPQFQ 578
ATPGRL+D + F V++ VLDEADR+L+ G+ D+ IL K +
Sbjct: 156 ATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIK 215
Query: 579 SILLSATLTPAVQRLAG--MTLQNPIQIDAADSTD--IHNTTD-SLVIPDSLKQHFIVTP 633
++L SATL VQ+LA M + + +D D + H D S+VI +
Sbjct: 216 TLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAV 275
Query: 634 PKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGS 693
+ K Q D K ++F T + +L +++ + HG
Sbjct: 276 EHI-----------KKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 324
Query: 694 MSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTAR 753
++Q++RT + K F+ +SG+L+CTDV ARG+D P V ++Q PS +Y+HR+GRTAR
Sbjct: 325 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 384
Query: 754 VGHEGSSLLFLIPSEVKLVEELQNRR 779
G EGSS+LF+ E+ V EL++ +
Sbjct: 385 SGKEGSSVLFICKDELPFVRELEDAK 410
Score = 100 bits (248), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 76/224 (33%), Positives = 117/224 (52%), Gaps = 17/224 (7%)
Query: 1 MNITQVTTVQQLSIQPIL--DGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGI 58
M +T VQQ +I+PIL + DV+ R++TG+GKT A+ IPI Q L + K + +
Sbjct: 39 MEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL--INTKFDSQYMV 96
Query: 59 YAVIILPTRELALQTLEIFTKLCKSFTWIVPSW----LTGGEKMKSEKARIRK-GISILV 113
AVI+ PTR+LALQ +E K + + + L GG ++ ++ K +I++
Sbjct: 97 KAVIVAPTRDLALQ-IEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVI 155
Query: 114 ATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILK----KQKPQFQ 169
ATPGRL+D + F V++ VLDEADR+L+ G+ D+ IL K +
Sbjct: 156 ATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIK 215
Query: 170 SILLSATLTPATCWCKHTETLKFSKVEHLVLDEADRILDQGYER 213
++L SATL + +K E L LD D+ + +ER
Sbjct: 216 TLLFSATLDDKVQKLANN---IMNKKECLFLDTVDKNEPEAHER 256
>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 = 198 bits (504), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 129/384 (33%), Positives = 201/384 (52%), Gaps = 30/384 (7%)
Query: 410 MNITQVTTVQQLSIQPIL--DGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGI 467
M +T VQQ +I+PIL + DV+ R++TG+GKT A+ IPI Q L + K + +
Sbjct: 90 MEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL--INTKFDSQYMV 147
Query: 468 YAVIILPTRELALQTLEIFTKLCKSFTWIVPSW----LTGGEKMKSEKARIRK-GISILV 522
AVI+ PTR+LALQ +E K + + + L GG ++ ++ K +I++
Sbjct: 148 KAVIVAPTRDLALQ-IEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVI 206
Query: 523 ATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILK----KQKPQFQ 578
ATPGRL+D + F V++ VLDEADR+L+ G+ D+ IL K +
Sbjct: 207 ATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIK 266
Query: 579 SILLSATLTPAVQRLAG--MTLQNPIQIDAADSTD--IHNTTD-SLVIPDSLKQHFIVTP 633
++L SATL VQ+LA M + + +D D + H D S+VI +
Sbjct: 267 TLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAV 326
Query: 634 PKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGS 693
+ K Q D K ++F T + +L +++ + HG
Sbjct: 327 EHI-----------KKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 375
Query: 694 MSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTAR 753
++Q++RT + K F+ +SG+L+CTDV ARG+D P V ++Q PS +Y+HR+GRTAR
Sbjct: 376 ITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 435
Query: 754 VGHEGSSLLFLIPSEVKLVEELQN 777
G EGSS+LF+ E+ V EL++
Sbjct: 436 SGKEGSSVLFICKDELPFVRELED 459
Score = 100 bits (249), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 76/224 (33%), Positives = 117/224 (52%), Gaps = 17/224 (7%)
Query: 1 MNITQVTTVQQLSIQPIL--DGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGI 58
M +T VQQ +I+PIL + DV+ R++TG+GKT A+ IPI Q L + K + +
Sbjct: 90 MEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHL--INTKFDSQYMV 147
Query: 59 YAVIILPTRELALQTLEIFTKLCKSFTWIVPSW----LTGGEKMKSEKARIRK-GISILV 113
AVI+ PTR+LALQ +E K + + + L GG ++ ++ K +I++
Sbjct: 148 KAVIVAPTRDLALQ-IEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVI 206
Query: 114 ATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILK----KQKPQFQ 169
ATPGRL+D + F V++ VLDEADR+L+ G+ D+ IL K +
Sbjct: 207 ATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIK 266
Query: 170 SILLSATLTPATCWCKHTETLKFSKVEHLVLDEADRILDQGYER 213
++L SATL + +K E L LD D+ + +ER
Sbjct: 267 TLLFSATLDDKVQKLANN---IMNKKECLFLDTVDKNEPEAHER 307
>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 = 169 bits (428), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 116/368 (31%), Positives = 184/368 (50%), Gaps = 46/368 (12%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQE-------MRPKISRKDGIY 468
T +Q+ SI I G D++ +QTGSGKT A+ +PI+ KL E RP++
Sbjct: 80 TPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQV------- 132
Query: 469 AVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRL 528
VI+ PTRELA+Q K +++ + GG + + I +G +++ATPGRL
Sbjct: 133 -VIVSPTRELAIQIFNEARKFAFE-SYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRL 190
Query: 529 LDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTP 588
LD T + F +VLDEADR+LD G+ D+ + + +P+ Q+++ SAT
Sbjct: 191 LDFVDRT-FITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHV-TMRPEHQTLMFSATFPE 248
Query: 589 AVQRLAGMTLQN----PIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASF 644
+QR+AG L+N I I +D+ T I + K + +L+ + S
Sbjct: 249 EIQRMAGEFLKNYVFVAIGIVGGACSDVKQT-----IYEVNKY-----AKRSKLIEILS- 297
Query: 645 ILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFK 704
++ +VF+ T+ AD+ LS + +HG QS+R + +
Sbjct: 298 ----------EQADGTIVFVETKRGADFLASFLSE---KEFPTTSIHGDRLQSQREQALR 344
Query: 705 TFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFL 764
F++ VLI T VA+RGLD+ + ++ Y PS DYVHR+GRT RVG+ G + F
Sbjct: 345 DFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFF 404
Query: 765 IPSEVKLV 772
P + + +
Sbjct: 405 DPEKDRAI 412
Score = 100 bits (249), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 62/178 (34%), Positives = 96/178 (53%), Gaps = 18/178 (10%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQE-------MRPKISRKDGIY 59
T +Q+ SI I G D++ +QTGSGKT A+ +PI+ KL E RP++
Sbjct: 80 TPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQV------- 132
Query: 60 AVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRL 119
VI+ PTRELA+Q K +++ + GG + + I +G +++ATPGRL
Sbjct: 133 -VIVSPTRELAIQIFNEARKFAFE-SYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRL 190
Query: 120 LDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
LD T + F +VLDEADR+LD G+ D+ + + +P+ Q+++ SAT
Sbjct: 191 LDFVDRT-FITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHV-TMRPEHQTLMFSATF 246
>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 = 156 bits (395), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 107/363 (29%), Positives = 188/363 (51%), Gaps = 33/363 (9%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQ-EMRPKISRKDGIYAVIILP 474
+ +QQ +I+ I+ G DV+ +SQ+G+GKT ++I ++Q L ++R A+I+ P
Sbjct: 61 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRET-------QALILAP 113
Query: 475 TRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKH 534
TRELA+Q + L + + GG + + ++ G ++ TPGR+ D +
Sbjct: 114 TRELAVQIQKGLLAL-GDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRR 172
Query: 535 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLA 594
+L+ ++ LVLDEAD +L++G++ I + L P Q +L+SATL + +
Sbjct: 173 -RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLP---PATQVVLISATLPHEILEMT 228
Query: 595 GMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFI-VTPPKLRLVALASFILGKCQNVN 653
+ +PI+I D L + + +KQ F+ V + + L C +
Sbjct: 229 NKFMTDPIRILVK--------RDELTL-EGIKQFFVAVEREEWKFDTL-------CDLYD 272
Query: 654 EDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGV 713
++ ++F T+ D+ TE + N +HG M Q ER + K FRS S V
Sbjct: 273 TLTITQAVIFCNTKRKVDWLTEKMREA---NFTVSSMHGDMPQKERESIMKEFRSGASRV 329
Query: 714 LICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVE 773
LI TDV ARGLD+P V I+ Y P++ Y+HR+GR+ R G +G ++ F+ +++++
Sbjct: 330 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 389
Query: 774 ELQ 776
+++
Sbjct: 390 DIE 392
Score = 81.3 bits (199), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 54/172 (31%), Positives = 95/172 (55%), Gaps = 13/172 (7%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQ-EMRPKISRKDGIYAVIILP 65
+ +QQ +I+ I+ G DV+ +SQ+G+GKT ++I ++Q L ++R A+I+ P
Sbjct: 61 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRET-------QALILAP 113
Query: 66 TRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKH 125
TRELA+Q + L + + GG + + ++ G ++ TPGR+ D +
Sbjct: 114 TRELAVQIQKGLLAL-GDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRR 172
Query: 126 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
+L+ ++ LVLDEAD +L++G++ I + L P Q +L+SATL
Sbjct: 173 -RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL---PPATQVVLISATL 220
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 39/68 (57%), Gaps = 3/68 (4%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGM 248
+L+ ++ LVLDEAD +L++G++ I + L P Q VL+SATL + +
Sbjct: 174 SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL---PPATQVVLISATLPHEILEMTNK 230
Query: 249 TLQNPIQI 256
+ +PI+I
Sbjct: 231 FMTDPIRI 238
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 156 bits (395), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 107/363 (29%), Positives = 188/363 (51%), Gaps = 33/363 (9%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQ-EMRPKISRKDGIYAVIILP 474
+ +QQ +I+ I+ G DV+ +SQ+G+GKT +++ ++Q L ++R A+I+ P
Sbjct: 25 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQVRET-------QALILAP 77
Query: 475 TRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKH 534
TRELA+Q + L + + GG + + ++ G ++ TPGR+ D +
Sbjct: 78 TRELAVQVQKGLLAL-GDYMNVQSHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRR 136
Query: 535 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLA 594
+L+ ++ LVLDEAD +L++G++ I + L P Q +L+SATL V +
Sbjct: 137 -RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLP---PATQVVLISATLPHEVLEMT 192
Query: 595 GMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFI-VTPPKLRLVALASFILGKCQNVN 653
+ +PI+I D L + + +KQ F+ V + + L C +
Sbjct: 193 NKFMTDPIRILVK--------RDELTL-EGIKQFFVAVEREEWKFDTL-------CDLYD 236
Query: 654 EDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGV 713
++ ++F T+ D+ TE + N +HG M Q ER + K FRS S V
Sbjct: 237 TLTITQAVIFCNTKRKVDWLTEKMREA---NFTVSSMHGDMPQKERESIMKEFRSGASRV 293
Query: 714 LICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVE 773
LI TDV ARGLD+P V I+ Y P++ Y+HR+GR+ R G +G ++ F+ +++++
Sbjct: 294 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLR 353
Query: 774 ELQ 776
+++
Sbjct: 354 DIE 356
Score = 81.6 bits (200), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 53/172 (30%), Positives = 95/172 (55%), Gaps = 13/172 (7%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQ-EMRPKISRKDGIYAVIILP 65
+ +QQ +I+ I+ G DV+ +SQ+G+GKT +++ ++Q L ++R A+I+ P
Sbjct: 25 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQVRET-------QALILAP 77
Query: 66 TRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKH 125
TRELA+Q + L + + GG + + ++ G ++ TPGR+ D +
Sbjct: 78 TRELAVQVQKGLLAL-GDYMNVQSHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRR 136
Query: 126 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
+L+ ++ LVLDEAD +L++G++ I + L P Q +L+SATL
Sbjct: 137 -RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL---PPATQVVLISATL 184
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 39/68 (57%), Gaps = 3/68 (4%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGM 248
+L+ ++ LVLDEAD +L++G++ I + L P Q VL+SATL V +
Sbjct: 138 SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL---PPATQVVLISATLPHEVLEMTNK 194
Query: 249 TLQNPIQI 256
+ +PI+I
Sbjct: 195 FMTDPIRI 202
>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 = 156 bits (395), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 107/363 (29%), Positives = 188/363 (51%), Gaps = 33/363 (9%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQ-EMRPKISRKDGIYAVIILP 474
+ +QQ +I+ I+ G DV+ +SQ+G+GKT ++I ++Q L ++R A+I+ P
Sbjct: 62 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRET-------QALILAP 114
Query: 475 TRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKH 534
TRELA+Q + L + + GG + + ++ G ++ TPGR+ D +
Sbjct: 115 TRELAVQIQKGLLAL-GDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRR 173
Query: 535 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLA 594
+L+ ++ LVLDEAD +L++G++ I + L P Q +L+SATL + +
Sbjct: 174 -RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLP---PATQVVLISATLPHEILEMT 229
Query: 595 GMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFI-VTPPKLRLVALASFILGKCQNVN 653
+ +PI+I D L + + +KQ F+ V + + L C +
Sbjct: 230 NKFMTDPIRILVK--------RDELTL-EGIKQFFVAVEREEWKFDTL-------CDLYD 273
Query: 654 EDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGV 713
++ ++F T+ D+ TE + N +HG M Q ER + K FRS S V
Sbjct: 274 TLTITQAVIFCNTKRKVDWLTEKMREA---NFTVSSMHGDMPQKERESIMKEFRSGASRV 330
Query: 714 LICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVE 773
LI TDV ARGLD+P V I+ Y P++ Y+HR+GR+ R G +G ++ F+ +++++
Sbjct: 331 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 390
Query: 774 ELQ 776
+++
Sbjct: 391 DIE 393
Score = 81.3 bits (199), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 54/172 (31%), Positives = 95/172 (55%), Gaps = 13/172 (7%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQ-EMRPKISRKDGIYAVIILP 65
+ +QQ +I+ I+ G DV+ +SQ+G+GKT ++I ++Q L ++R A+I+ P
Sbjct: 62 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRET-------QALILAP 114
Query: 66 TRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKH 125
TRELA+Q + L + + GG + + ++ G ++ TPGR+ D +
Sbjct: 115 TRELAVQIQKGLLAL-GDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRR 173
Query: 126 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
+L+ ++ LVLDEAD +L++G++ I + L P Q +L+SATL
Sbjct: 174 -RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL---PPATQVVLISATL 221
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 39/68 (57%), Gaps = 3/68 (4%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGM 248
+L+ ++ LVLDEAD +L++G++ I + L P Q VL+SATL + +
Sbjct: 175 SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL---PPATQVVLISATLPHEILEMTNK 231
Query: 249 TLQNPIQI 256
+ +PI+I
Sbjct: 232 FMTDPIRI 239
>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 = 156 bits (395), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 107/363 (29%), Positives = 188/363 (51%), Gaps = 33/363 (9%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQ-EMRPKISRKDGIYAVIILP 474
+ +QQ +I+ I+ G DV+ +SQ+G+GKT ++I ++Q L ++R A+I+ P
Sbjct: 40 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRET-------QALILAP 92
Query: 475 TRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKH 534
TRELA+Q + L + + GG + + ++ G ++ TPGR+ D +
Sbjct: 93 TRELAVQIQKGLLAL-GDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRR 151
Query: 535 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLA 594
+L+ ++ LVLDEAD +L++G++ I + L P Q +L+SATL + +
Sbjct: 152 -RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLP---PATQVVLISATLPHEILEMT 207
Query: 595 GMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFI-VTPPKLRLVALASFILGKCQNVN 653
+ +PI+I D L + + +KQ F+ V + + L C +
Sbjct: 208 NKFMTDPIRILVK--------RDELTL-EGIKQFFVAVEREEWKFDTL-------CDLYD 251
Query: 654 EDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGV 713
++ ++F T+ D+ TE + N +HG M Q ER + K FRS S V
Sbjct: 252 TLTITQAVIFCNTKRKVDWLTEKMREA---NFTVSSMHGDMPQKERESIMKEFRSGASRV 308
Query: 714 LICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVE 773
LI TDV ARGLD+P V I+ Y P++ Y+HR+GR+ R G +G ++ F+ +++++
Sbjct: 309 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 368
Query: 774 ELQ 776
+++
Sbjct: 369 DIE 371
Score = 81.3 bits (199), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 54/172 (31%), Positives = 95/172 (55%), Gaps = 13/172 (7%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQ-EMRPKISRKDGIYAVIILP 65
+ +QQ +I+ I+ G DV+ +SQ+G+GKT ++I ++Q L ++R A+I+ P
Sbjct: 40 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRET-------QALILAP 92
Query: 66 TRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKH 125
TRELA+Q + L + + GG + + ++ G ++ TPGR+ D +
Sbjct: 93 TRELAVQIQKGLLAL-GDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRR 151
Query: 126 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
+L+ ++ LVLDEAD +L++G++ I + L P Q +L+SATL
Sbjct: 152 -RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL---PPATQVVLISATL 199
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 39/68 (57%), Gaps = 3/68 (4%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGM 248
+L+ ++ LVLDEAD +L++G++ I + L P Q VL+SATL + +
Sbjct: 153 SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL---PPATQVVLISATLPHEILEMTNK 209
Query: 249 TLQNPIQI 256
+ +PI+I
Sbjct: 210 FMTDPIRI 217
>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 = 156 bits (394), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 107/363 (29%), Positives = 188/363 (51%), Gaps = 33/363 (9%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQ-EMRPKISRKDGIYAVIILP 474
+ +QQ +I+ I+ G DV+ +SQ+G+GKT ++I ++Q L ++R A+I+ P
Sbjct: 62 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRET-------QALILAP 114
Query: 475 TRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKH 534
TRELA+Q + L + + GG + + ++ G ++ TPGR+ D +
Sbjct: 115 TRELAVQIQKGLLAL-GDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRR 173
Query: 535 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLA 594
+L+ ++ LVLDEAD +L++G++ I + L P Q +L+SATL + +
Sbjct: 174 -RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLP---PATQVVLISATLPHEILEMT 229
Query: 595 GMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFI-VTPPKLRLVALASFILGKCQNVN 653
+ +PI+I D L + + +KQ F+ V + + L C +
Sbjct: 230 NKFMTDPIRILVK--------RDELTL-EGIKQFFVAVEREEWKFDTL-------CDLYD 273
Query: 654 EDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGV 713
++ ++F T+ D+ TE + N +HG M Q ER + K FRS S V
Sbjct: 274 TLTITQAVIFCNTKRKVDWLTEKMREA---NFTVSSMHGDMPQKERESIMKEFRSGASRV 330
Query: 714 LICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVE 773
LI TDV ARGLD+P V I+ Y P++ Y+HR+GR+ R G +G ++ F+ +++++
Sbjct: 331 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 390
Query: 774 ELQ 776
+++
Sbjct: 391 DIE 393
Score = 81.3 bits (199), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 54/172 (31%), Positives = 95/172 (55%), Gaps = 13/172 (7%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQ-EMRPKISRKDGIYAVIILP 65
+ +QQ +I+ I+ G DV+ +SQ+G+GKT ++I ++Q L ++R A+I+ P
Sbjct: 62 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRET-------QALILAP 114
Query: 66 TRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKH 125
TRELA+Q + L + + GG + + ++ G ++ TPGR+ D +
Sbjct: 115 TRELAVQIQKGLLAL-GDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRR 173
Query: 126 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
+L+ ++ LVLDEAD +L++G++ I + L P Q +L+SATL
Sbjct: 174 -RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL---PPATQVVLISATL 221
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 39/68 (57%), Gaps = 3/68 (4%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGM 248
+L+ ++ LVLDEAD +L++G++ I + L P Q VL+SATL + +
Sbjct: 175 SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL---PPATQVVLISATLPHEILEMTNK 231
Query: 249 TLQNPIQI 256
+ +PI+I
Sbjct: 232 FMTDPIRI 239
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 155 bits (393), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 123/379 (32%), Positives = 190/379 (50%), Gaps = 39/379 (10%)
Query: 413 TQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRP----KISRKDGIY 468
T+ T VQ+ +I I + D++ +QTGSGKT A+ +PI+ ++ P + +++G Y
Sbjct: 36 TRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGRY 95
Query: 469 --------AVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISI 520
++++ PTRELA+Q E K + + P + GG + + + +G +
Sbjct: 96 GRRKQYPISLVLAPTRELAVQIYEEARKFSYR-SRVRPCVVYGGADIGQQIRDLERGCHL 154
Query: 521 LVATPGRLLDHCKHTET-LKFSKVEHLVLDEADRILDQGYERDIAEFLE-ILKKQKPQFQ 578
LVATPGRL+D + + L F K +LVLDEADR+LD G+E I +E K
Sbjct: 155 LVATPGRLVDMMERGKIGLDFCK--YLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRH 212
Query: 579 SILLSATLTPAVQRLAGMTLQNPI--QIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKL 636
+++ SAT +Q LA L I + ST + T + + +S K+
Sbjct: 213 TMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKVVWVEESDKR--------- 263
Query: 637 RLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQ 696
SF+L +D S LVF+ T+ AD + L E A +HG SQ
Sbjct: 264 ------SFLLDLLNATGKD--SLTLVFVETKKGADSLEDFLYH---EGYACTSIHGDRSQ 312
Query: 697 SERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGH 756
+R E FRS KS +L+ T VAARGLD+ V ++ + PS +YVHR+GRT RVG+
Sbjct: 313 RDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGN 372
Query: 757 EGSSLLFLIPSEVKLVEEL 775
G + F + + ++L
Sbjct: 373 LGLATSFFNERNINITKDL 391
Score = 87.0 bits (214), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 59/169 (34%), Positives = 95/169 (56%), Gaps = 16/169 (9%)
Query: 4 TQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRP----KISRKDGIY 59
T+ T VQ+ +I I + D++ +QTGSGKT A+ +PI+ ++ P + +++G Y
Sbjct: 36 TRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGRY 95
Query: 60 --------AVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISI 111
++++ PTRELA+Q E K + + P + GG + + + +G +
Sbjct: 96 GRRKQYPISLVLAPTRELAVQIYEEARKFSYR-SRVRPCVVYGGADIGQQIRDLERGCHL 154
Query: 112 LVATPGRLLDHCKHTET-LKFSKVEHLVLDEADRILDQGYERDIAEFLE 159
LVATPGRL+D + + L F K +LVLDEADR+LD G+E I +E
Sbjct: 155 LVATPGRLVDMMERGKIGLDFCK--YLVLDEADRMLDMGFEPQIRRIVE 201
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 155 bits (392), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 106/363 (29%), Positives = 188/363 (51%), Gaps = 33/363 (9%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQ-EMRPKISRKDGIYAVIILP 474
+ +QQ +I+ I+ G DV+ +SQ+G+GKT +++ ++Q L ++R A+I+ P
Sbjct: 25 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQVRET-------QALILAP 77
Query: 475 TRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKH 534
TRELA+Q + L + + GG + + ++ G ++ TPGR+ D +
Sbjct: 78 TRELAVQVQKGLLAL-GDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRR 136
Query: 535 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLA 594
+L+ ++ LVLDEAD +L++G++ I + L P Q +L+SATL + +
Sbjct: 137 -RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLP---PATQVVLISATLPHEILEMT 192
Query: 595 GMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFI-VTPPKLRLVALASFILGKCQNVN 653
+ +PI+I D L + + +KQ F+ V + + L C +
Sbjct: 193 NKFMTDPIRILVK--------RDELTL-EGIKQFFVAVEREEWKFDTL-------CDLYD 236
Query: 654 EDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGV 713
++ ++F T+ D+ TE + N +HG M Q ER + K FRS S V
Sbjct: 237 TLTITQAVIFCNTKRKVDWLTEKMREA---NFTVSSMHGDMPQKERESIMKEFRSGASRV 293
Query: 714 LICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVE 773
LI TDV ARGLD+P V I+ Y P++ Y+HR+GR+ R G +G ++ F+ +++++
Sbjct: 294 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLR 353
Query: 774 ELQ 776
+++
Sbjct: 354 DIE 356
Score = 80.9 bits (198), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 53/172 (30%), Positives = 95/172 (55%), Gaps = 13/172 (7%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQ-EMRPKISRKDGIYAVIILP 65
+ +QQ +I+ I+ G DV+ +SQ+G+GKT +++ ++Q L ++R A+I+ P
Sbjct: 25 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQVRET-------QALILAP 77
Query: 66 TRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKH 125
TRELA+Q + L + + GG + + ++ G ++ TPGR+ D +
Sbjct: 78 TRELAVQVQKGLLAL-GDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRR 136
Query: 126 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
+L+ ++ LVLDEAD +L++G++ I + L P Q +L+SATL
Sbjct: 137 -RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL---PPATQVVLISATL 184
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 39/68 (57%), Gaps = 3/68 (4%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGM 248
+L+ ++ LVLDEAD +L++G++ I + L P Q VL+SATL + +
Sbjct: 138 SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL---PPATQVVLISATLPHEILEMTNK 194
Query: 249 TLQNPIQI 256
+ +PI+I
Sbjct: 195 FMTDPIRI 202
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 154 bits (388), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 107/376 (28%), Positives = 193/376 (51%), Gaps = 41/376 (10%)
Query: 390 TSYEEFPGIHPFMKKNLNEGM---NITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAY 446
++E+F ++K+ L G+ + + +Q+ +I + G D+L R++ G+GKT A+
Sbjct: 21 NTFEDF-----YLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAF 75
Query: 447 AIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEK 506
IP ++K ++PK+++ I A+I++PTRELALQT ++ L K I TGG
Sbjct: 76 VIPTLEK---VKPKLNK---IQALIMVPTRELALQTSQVVRTLGKH-CGISCMVTTGGTN 128
Query: 507 MKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEF 566
++ + R+ + + ILV TPGR+LD + S ++DEAD++L + ++ I +
Sbjct: 129 LRDDILRLNETVHILVGTPGRVLDLASR-KVADLSDCSLFIMDEADKMLSRDFKTIIEQI 187
Query: 567 LEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLK 626
L L P QS+L SAT V+ L P +I+ + + T
Sbjct: 188 LSFLP---PTHQSLLFSATFPLTVKEFMVKHLHKPYEINLMEELTLKGIT---------- 234
Query: 627 QHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGE-NI 685
Q++ + +L L + + K Q +N+ ++F + + ELL+ + +
Sbjct: 235 QYYAFVEERQKLHCLNT-LFSKLQ-INQ-----AIIFCNSTN----RVELLAKKITDLGY 283
Query: 686 AFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYV 745
+ + H M Q ER +VF FR K L+C+D+ RG+D+ V+ ++ + P ++ Y+
Sbjct: 284 SCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYL 343
Query: 746 HRVGRTARVGHEGSSL 761
HR+GR+ R GH G ++
Sbjct: 344 HRIGRSGRFGHLGLAI 359
Score = 96.7 bits (239), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 64/180 (35%), Positives = 102/180 (56%), Gaps = 13/180 (7%)
Query: 9 VQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRE 68
+Q+ +I + G D+L R++ G+GKT A+ IP ++K ++PK+++ I A+I++PTRE
Sbjct: 47 IQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEK---VKPKLNK---IQALIMVPTRE 100
Query: 69 LALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTET 128
LALQT ++ L K I TGG ++ + R+ + + ILV TPGR+LD +
Sbjct: 101 LALQTSQVVRTLGKH-CGISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLASR-KV 158
Query: 129 LKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSAT--LTPATCWCKH 186
S ++DEAD++L + ++ I + L L P QS+L SAT LT KH
Sbjct: 159 ADLSDCSLFIMDEADKMLSRDFKTIIEQILSFL---PPTHQSLLFSATFPLTVKEFMVKH 215
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 145 bits (367), Expect = 9e-35, Method: Compositional matrix adjust.
Identities = 104/356 (29%), Positives = 174/356 (48%), Gaps = 46/356 (12%)
Query: 410 MNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYA 469
M T VQ +I +L G +V+VR++TGSGKT AYAIPI++ G+ +
Sbjct: 12 MGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL------------GMKS 59
Query: 470 VIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLL 529
+++ PTREL Q + + V + GG K++ R+R I+VATPGRLL
Sbjct: 60 LVVTPTRELTRQVASHIRDIGRYMDTKVAE-VYGGMPYKAQINRVRNA-DIVVATPGRLL 117
Query: 530 DHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 589
D + S E +++DEAD + + G+ DI L +K + L SAT+
Sbjct: 118 DLWSKG-VIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKI---TGLFSATIPEE 173
Query: 590 VQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKC 649
++++ + N +I+A + +++ F+ R K
Sbjct: 174 IRKVVKDFITNYEEIEAC------------IGLANVEHKFVHVKDDWR---------SKV 212
Query: 650 QNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSV 709
Q + E+++ ++VF+ T++ L + +L G + QS R FR
Sbjct: 213 QALRENKDKGVIVFVRTRNRVAKLVRLFDNAI-------ELRGDLPQSVRNRNIDAFREG 265
Query: 710 KSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLI 765
+ +LI TDVA+RGLD+PLV+ ++ + AP Y+HR+GRT R+G +G ++ F++
Sbjct: 266 EYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFIL 321
Score = 80.1 bits (196), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 54/154 (35%), Positives = 81/154 (52%), Gaps = 15/154 (9%)
Query: 1 MNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYA 60
M T VQ +I +L G +V+VR++TGSGKT AYAIPI++ G+ +
Sbjct: 12 MGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL------------GMKS 59
Query: 61 VIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLL 120
+++ PTREL Q + + V + GG K++ R+R I+VATPGRLL
Sbjct: 60 LVVTPTRELTRQVASHIRDIGRYMDTKVAE-VYGGMPYKAQINRVRNA-DIVVATPGRLL 117
Query: 121 DHCKHTETLKFSKVEHLVLDEADRILDQGYERDI 154
D + S E +++DEAD + + G+ DI
Sbjct: 118 DLWSKG-VIDLSSFEIVIIDEADLMFEMGFIDDI 150
>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 = 145 bits (366), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 106/355 (29%), Positives = 180/355 (50%), Gaps = 43/355 (12%)
Query: 420 QLSIQPIL--DGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRE 477
Q + P+ D +++ +++TGSGKT ++AIP+I+ + E +GI A+I+ PTRE
Sbjct: 33 QXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIELVNE-------NNGIEAIILTPTRE 85
Query: 478 LALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTET 537
LA+Q + L K + + + GG+ + + + K +I+V TPGR+LDH T
Sbjct: 86 LAIQVADEIESL-KGNKNLKIAKIYGGKAIYPQ-IKALKNANIVVGTPGRILDHINRG-T 142
Query: 538 LKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMT 597
L V++ +LDEAD L+ G+ +D+ + L K K + +L SAT + LA
Sbjct: 143 LNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDK---RILLFSATXPREILNLAKKY 199
Query: 598 LQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEE 657
+ I A I +++Q ++ R AL + +++E
Sbjct: 200 XGDYSFIKAK-------------INANIEQSYVEVNENERFEALCRLL--------KNKE 238
Query: 658 SKMLVFMATQDMADYHTELLSTVLGENIAF--FKLHGSMSQSERTEVFKTFRSVKSGVLI 715
LVF T+ T+ L++ L +I F +HG +SQS+R +V + F+ K +LI
Sbjct: 239 FYGLVFCKTKR----DTKELASXL-RDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILI 293
Query: 716 CTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVK 770
TDV +RG+D+ ++ ++ Y P + Y HR+GRT R G +G ++ + E K
Sbjct: 294 ATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYK 348
Score = 88.2 bits (217), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 57/168 (33%), Positives = 95/168 (56%), Gaps = 15/168 (8%)
Query: 11 QLSIQPIL--DGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRE 68
Q + P+ D +++ +++TGSGKT ++AIP+I+ + E +GI A+I+ PTRE
Sbjct: 33 QXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIELVNE-------NNGIEAIILTPTRE 85
Query: 69 LALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTET 128
LA+Q + L K + + + GG+ + + + K +I+V TPGR+LDH T
Sbjct: 86 LAIQVADEIESL-KGNKNLKIAKIYGGKAIYPQ-IKALKNANIVVGTPGRILDHINRG-T 142
Query: 129 LKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSAT 176
L V++ +LDEAD L+ G+ +D+ + L K K + +L SAT
Sbjct: 143 LNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDK---RILLFSAT 187
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 31/58 (53%), Gaps = 3/58 (5%)
Query: 189 TLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLA 246
TL V++ +LDEAD L+ G+ +D+ + L K K + +L SAT + LA
Sbjct: 142 TLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDK---RILLFSATXPREILNLA 196
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 137 bits (345), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 73/190 (38%), Positives = 121/190 (63%), Gaps = 6/190 (3%)
Query: 410 MNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYA 469
M T +T +Q SI+P+L+G D+L ++TGSGKTLA+ IP ++ + ++R ++G
Sbjct: 72 MGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLR--FMPRNGTGV 129
Query: 470 VIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLL 529
+I+ PTRELA+QT + +L + GG +E ++ GI+I+VATPGRLL
Sbjct: 130 LILSPTRELAMQTFGVLKELMTHHVHTY-GLIMGGSNRSAEAQKLGNGINIIVATPGRLL 188
Query: 530 DHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 589
DH ++T + ++ LV+DEADRILD G+E ++ + +++L ++ Q++L SAT T
Sbjct: 189 DHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRR---QTMLFSATQTRK 245
Query: 590 VQRLAGMTLQ 599
V+ LA ++L+
Sbjct: 246 VEDLARISLK 255
Score = 132 bits (332), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 69/178 (38%), Positives = 113/178 (63%), Gaps = 6/178 (3%)
Query: 1 MNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYA 60
M T +T +Q SI+P+L+G D+L ++TGSGKTLA+ IP ++ + ++R ++G
Sbjct: 72 MGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLR--FMPRNGTGV 129
Query: 61 VIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLL 120
+I+ PTRELA+QT + +L + GG +E ++ GI+I+VATPGRLL
Sbjct: 130 LILSPTRELAMQTFGVLKELMTHHVHTY-GLIMGGSNRSAEAQKLGNGINIIVATPGRLL 188
Query: 121 DHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLT 178
DH ++T + ++ LV+DEADRILD G+E ++ + +++L ++ Q++L SAT T
Sbjct: 189 DHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRR---QTMLFSATQT 243
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 136 bits (342), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 88/215 (40%), Positives = 130/215 (60%), Gaps = 15/215 (6%)
Query: 390 TSYEEFPGIHPFMKKNLNEGMNITQ---VTTVQQLSIQPILDGGDVLVRSQTGSGKTLAY 446
T + +FP KK L +G+ Q VT +Q+ +I L G DVL ++TGSGKTLA+
Sbjct: 25 TRFSDFP----LSKKTL-KGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAF 79
Query: 447 AIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEK 506
+P+++ L R + + DG+ +II PTRELA QT E+ K+ K+ + + GG+
Sbjct: 80 LVPVLEAL--YRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDF-SAGLIIGGKD 136
Query: 507 MKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEF 566
+K E RI I+ILV TPGRLL H T + + ++ LVLDEADRILD G+ +
Sbjct: 137 LKHEAERI-NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAV 195
Query: 567 LEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNP 601
+E L K++ Q++L SAT T +V+ LA ++L+NP
Sbjct: 196 IENLPKKR---QTLLFSATQTKSVKDLARLSLKNP 227
Score = 122 bits (306), Expect = 8e-28, Method: Compositional matrix adjust.
Identities = 74/175 (42%), Positives = 108/175 (61%), Gaps = 7/175 (4%)
Query: 6 VTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILP 65
VT +Q+ +I L G DVL ++TGSGKTLA+ +P+++ L R + + DG+ +II P
Sbjct: 48 VTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEAL--YRLQWTSTDGLGVLIISP 105
Query: 66 TRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKH 125
TRELA QT E+ K+ K+ + + GG+ +K E RI I+ILV TPGRLL H
Sbjct: 106 TRELAYQTFEVLRKVGKNHDF-SAGLIIGGKDLKHEAERI-NNINILVCTPGRLLQHMDE 163
Query: 126 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
T + + ++ LVLDEADRILD G+ + +E L K++ Q++L SAT T +
Sbjct: 164 TVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKR---QTLLFSATQTKS 215
Score = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 48/78 (61%), Gaps = 5/78 (6%)
Query: 178 TPATCWCKHTETLKF--SKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLS 235
TP ET+ F + ++ LVLDEADRILD G+ + +E L K++ Q++L S
Sbjct: 153 TPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKR---QTLLFS 209
Query: 236 ATLTPAVQRLAGMTLQNP 253
AT T +V+ LA ++L+NP
Sbjct: 210 ATQTKSVKDLARLSLKNP 227
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 127 bits (319), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 90/366 (24%), Positives = 184/366 (50%), Gaps = 31/366 (8%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ VQ I + G DVL ++++G GKT + + +Q+L+ + ++S +++ T
Sbjct: 31 SEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVS------VLVMCHT 84
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGI-SILVATPGRLLDHCKH 534
RELA Q + + + K + + GG +K ++ ++K I+V TPGR+L ++
Sbjct: 85 RELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARN 144
Query: 535 TETLKFSKVEHLVLDEADRILDQ-GYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRL 593
++L ++H +LDEAD++L+Q RD+ E + +K Q ++ SATL+ ++ +
Sbjct: 145 -KSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEK---QVMMFSATLSKEIRPV 200
Query: 594 AGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVN 653
+Q+P++I D T + L+Q+++ + L + +
Sbjct: 201 CRKFMQDPMEIFVDDETKL--------TLHGLQQYYVKLKDNEKNRKLFDLL-------D 245
Query: 654 EDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGV 713
E +++++F+ + +LL + +N +H M Q ER ++ F+ + +
Sbjct: 246 VLEFNQVVIFVKSVQRCIALAQLL---VEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRI 302
Query: 714 LICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLI-PSEVKLV 772
L+ T++ RG+D+ V+ Y P S Y+HRV R R G +G ++ F+ ++ K++
Sbjct: 303 LVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 362
Query: 773 EELQNR 778
++Q+R
Sbjct: 363 NDVQDR 368
Score = 76.6 bits (187), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 50/174 (28%), Positives = 95/174 (54%), Gaps = 12/174 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ VQ I + G DVL ++++G GKT + + +Q+L+ + ++S +++ T
Sbjct: 31 SEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVS------VLVMCHT 84
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGI-SILVATPGRLLDHCKH 125
RELA Q + + + K + + GG +K ++ ++K I+V TPGR+L ++
Sbjct: 85 RELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARN 144
Query: 126 TETLKFSKVEHLVLDEADRILDQ-GYERDIAEFLEILKKQKPQFQSILLSATLT 178
++L ++H +LDEAD++L+Q RD+ E + +K Q ++ SATL+
Sbjct: 145 -KSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEK---QVMMFSATLS 194
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 126 bits (316), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 89/366 (24%), Positives = 183/366 (50%), Gaps = 31/366 (8%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ VQ I + G DVL ++++G GKT + + +Q+L+ + ++S +++ T
Sbjct: 32 SEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVS------VLVMCHT 85
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGI-SILVATPGRLLDHCKH 534
RELA Q + + + K + + GG +K ++ ++K I+V TPGR+L ++
Sbjct: 86 RELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARN 145
Query: 535 TETLKFSKVEHLVLDEADRILDQ-GYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRL 593
++L ++H +LDE D++L+Q RD+ E + +K Q ++ SATL+ ++ +
Sbjct: 146 -KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEK---QVMMFSATLSKEIRPV 201
Query: 594 AGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVN 653
+Q+P++I D T + L+Q+++ + L + +
Sbjct: 202 CRKFMQDPMEIFVDDETKL--------TLHGLQQYYVKLKDNEKNRKLFDLL-------D 246
Query: 654 EDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGV 713
E +++++F+ + +LL + +N +H M Q ER ++ F+ + +
Sbjct: 247 VLEFNQVVIFVKSVQRCIALAQLL---VEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRI 303
Query: 714 LICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLI-PSEVKLV 772
L+ T++ RG+D+ V+ Y P S Y+HRV R R G +G ++ F+ ++ K++
Sbjct: 304 LVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 363
Query: 773 EELQNR 778
++Q+R
Sbjct: 364 NDVQDR 369
Score = 75.5 bits (184), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 49/174 (28%), Positives = 94/174 (54%), Gaps = 12/174 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ VQ I + G DVL ++++G GKT + + +Q+L+ + ++S +++ T
Sbjct: 32 SEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVS------VLVMCHT 85
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGI-SILVATPGRLLDHCKH 125
RELA Q + + + K + + GG +K ++ ++K I+V TPGR+L ++
Sbjct: 86 RELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARN 145
Query: 126 TETLKFSKVEHLVLDEADRILDQ-GYERDIAEFLEILKKQKPQFQSILLSATLT 178
++L ++H +LDE D++L+Q RD+ E + +K Q ++ SATL+
Sbjct: 146 -KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEK---QVMMFSATLS 195
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 125 bits (315), Expect = 8e-29, Method: Compositional matrix adjust.
Identities = 89/366 (24%), Positives = 183/366 (50%), Gaps = 31/366 (8%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ VQ I + G DVL ++++G GKT + + +Q+L+ + ++S +++ T
Sbjct: 32 SEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVS------VLVMCHT 85
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGI-SILVATPGRLLDHCKH 534
RELA Q + + + K + + GG +K ++ ++K I+V TPGR+L ++
Sbjct: 86 RELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARN 145
Query: 535 TETLKFSKVEHLVLDEADRILDQ-GYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRL 593
++L ++H +LDE D++L+Q RD+ E + +K Q ++ SATL+ ++ +
Sbjct: 146 -KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEK---QVMMFSATLSKEIRPV 201
Query: 594 AGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVN 653
+Q+P++I D T + L+Q+++ + L + +
Sbjct: 202 CRKFMQDPMEIFVDDETKL--------TLHGLQQYYVKLKDNEKNRKLFDLL-------D 246
Query: 654 EDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGV 713
E +++++F+ + +LL + +N +H M Q ER ++ F+ + +
Sbjct: 247 VLEFNQVVIFVKSVQRCIALAQLL---VEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRI 303
Query: 714 LICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLI-PSEVKLV 772
L+ T++ RG+D+ V+ Y P S Y+HRV R R G +G ++ F+ ++ K++
Sbjct: 304 LVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 363
Query: 773 EELQNR 778
++Q+R
Sbjct: 364 NDVQDR 369
Score = 75.5 bits (184), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 49/174 (28%), Positives = 94/174 (54%), Gaps = 12/174 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ VQ I + G DVL ++++G GKT + + +Q+L+ + ++S +++ T
Sbjct: 32 SEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVS------VLVMCHT 85
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGI-SILVATPGRLLDHCKH 125
RELA Q + + + K + + GG +K ++ ++K I+V TPGR+L ++
Sbjct: 86 RELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARN 145
Query: 126 TETLKFSKVEHLVLDEADRILDQ-GYERDIAEFLEILKKQKPQFQSILLSATLT 178
++L ++H +LDE D++L+Q RD+ E + +K Q ++ SATL+
Sbjct: 146 -KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEK---QVMMFSATLS 195
>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 = 124 bits (311), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 102/382 (26%), Positives = 183/382 (47%), Gaps = 58/382 (15%)
Query: 409 GMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIY 468
G + + +QQ +I PI++G DVL ++Q+G+GKT ++I +Q++ +
Sbjct: 39 GYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRID------TSVKAPQ 92
Query: 469 AVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRL 528
A+++ PTRELALQ ++ L V + + GG + +R I+V TPGR+
Sbjct: 93 ALMLAPTRELALQIQKVVMALAFHMDIKVHACI-GGTSFVEDAEGLRDA-QIVVGTPGRV 150
Query: 529 LDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTP 588
D+ + + K++ +LDEAD +L G++ I + +L P Q +LLSAT+
Sbjct: 151 FDNIQRRR-FRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLP---PTTQVVLLSATMPN 206
Query: 589 AVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGK 648
V + ++NP++I +V +L L + F +
Sbjct: 207 DVLEVTTKFMRNPVRI-------------------------LVKKDELTLEGIKQFYV-- 239
Query: 649 CQNVNEDEE--------------SKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSM 694
NV E+E ++ ++F T+ + EL + + + ++ +
Sbjct: 240 --NVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVE---ELTTKLRNDKFTVSAIYSDL 294
Query: 695 SQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARV 754
Q ER + K FRS S +LI TD+ ARG+D+ V ++ Y P++ +Y+HR+GR R
Sbjct: 295 PQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRF 354
Query: 755 GHEGSSLLFLIPSEVKLVEELQ 776
G +G ++ F+ +V + EL+
Sbjct: 355 GRKGVAINFVTNEDVGAMRELE 376
Score = 85.5 bits (210), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 54/171 (31%), Positives = 93/171 (54%), Gaps = 12/171 (7%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +QQ +I PI++G DVL ++Q+G+GKT ++I +Q++ + A+++ PT
Sbjct: 46 SAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRID------TSVKAPQALMLAPT 99
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELALQ ++ L V + + GG + +R I+V TPGR+ D+ +
Sbjct: 100 RELALQIQKVVMALAFHMDIKVHACI-GGTSFVEDAEGLRDA-QIVVGTPGRVFDNIQR- 156
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
+ K++ +LDEAD +L G++ I + +L P Q +LLSAT+
Sbjct: 157 RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL---PPTTQVVLLSATM 204
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 190 LKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGMT 249
+ K++ +LDEAD +L G++ I + +L P Q VLLSAT+ V +
Sbjct: 159 FRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL---PPTTQVVLLSATMPNDVLEVTTKF 215
Query: 250 LQNPIQI 256
++NP++I
Sbjct: 216 MRNPVRI 222
>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 = 124 bits (310), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 95/335 (28%), Positives = 170/335 (50%), Gaps = 32/335 (9%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ +QQ +I P + G DV+ ++Q+G+GKT +AI I+Q++ E+ K ++ A+++ PT
Sbjct: 38 SAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQI-ELDLKATQ-----ALVLAPT 91
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIR-KGISILVATPGRLLDHCKH 534
RELA Q ++ L + GG +++E +++ + I+V TPGR+ D
Sbjct: 92 RELAQQIQKVVMAL-GDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNR 150
Query: 535 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLA 594
L ++ VLDEAD +L +G++ I +I +K Q +LLSAT+ V +
Sbjct: 151 -RYLSPKYIKMFVLDEADEMLSRGFKDQI---YDIFQKLNSNTQVVLLSATMPSDVLEVT 206
Query: 595 GMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFI-VTPPKLRLVALASFILGKCQNVN 653
+++PI+I + + ++Q +I V + +L L C
Sbjct: 207 KKFMRDPIRILVKKEE---------LTLEGIRQFYINVEREEWKLDTL-------CDLYE 250
Query: 654 EDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGV 713
++ ++F+ T+ D+ TE + + +HG M Q ER + + FRS S V
Sbjct: 251 TLTITQAVIFINTRRKVDWLTEKMH---ARDFTVSAMHGDMDQKERDVIMREFRSGSSRV 307
Query: 714 LICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRV 748
LI TD+ ARG+D+ V ++ Y P++ +Y+HR+
Sbjct: 308 LITTDLLARGIDVQQVSLVINYDLPTNRENYIHRI 342
Score = 79.3 bits (194), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 55/172 (31%), Positives = 96/172 (55%), Gaps = 12/172 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +QQ +I P + G DV+ ++Q+G+GKT +AI I+Q++ E+ K ++ A+++ PT
Sbjct: 38 SAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQI-ELDLKATQ-----ALVLAPT 91
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIR-KGISILVATPGRLLDHCKH 125
RELA Q ++ L + GG +++E +++ + I+V TPGR+ D
Sbjct: 92 RELAQQIQKVVMAL-GDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNR 150
Query: 126 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
L ++ VLDEAD +L +G++ I +I +K Q +LLSAT+
Sbjct: 151 -RYLSPKYIKMFVLDEADEMLSRGFKDQI---YDIFQKLNSNTQVVLLSATM 198
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 124 bits (310), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 96/335 (28%), Positives = 173/335 (51%), Gaps = 32/335 (9%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ +QQ +I P + G DV+ ++Q+G+GKT +AI I+Q++ E+ K ++ A+++ PT
Sbjct: 64 SAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQI-ELDLKATQ-----ALVLAPT 117
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIR-KGISILVATPGRLLDHCKH 534
RELA Q ++ L + + GG +++E +++ + I+V TPGR+ D
Sbjct: 118 RELAQQIQKVVMALGDYMGASCHACI-GGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNR 176
Query: 535 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLA 594
L ++ VLDEAD +L +G++ I +I +K Q +LLSAT+ V +
Sbjct: 177 -RYLSPKYIKMFVLDEADEMLSRGFKDQI---YDIFQKLNSNTQVVLLSATMPSDVLEVT 232
Query: 595 GMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFI-VTPPKLRLVALASFILGKCQNVN 653
+++PI+I + L + + ++Q +I V + +L L C
Sbjct: 233 KKFMRDPIRILVK--------KEELTL-EGIRQFYINVEREEWKLDTL-------CDLYE 276
Query: 654 EDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGV 713
++ ++F+ T+ D+ TE + + +HG M Q ER + + FRS S V
Sbjct: 277 TLTITQAVIFINTRRKVDWLTEKMH---ARDFTVSAMHGDMDQKERDVIMREFRSGSSRV 333
Query: 714 LICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRV 748
LI TD+ ARG+D+ V ++ Y P++ +Y+HR+
Sbjct: 334 LITTDLLARGIDVQQVSLVINYDLPTNRENYIHRI 368
Score = 79.7 bits (195), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 55/172 (31%), Positives = 97/172 (56%), Gaps = 12/172 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +QQ +I P + G DV+ ++Q+G+GKT +AI I+Q++ E+ K ++ A+++ PT
Sbjct: 64 SAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQI-ELDLKATQ-----ALVLAPT 117
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIR-KGISILVATPGRLLDHCKH 125
RELA Q ++ L + + GG +++E +++ + I+V TPGR+ D
Sbjct: 118 RELAQQIQKVVMALGDYMGASCHACI-GGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNR 176
Query: 126 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
L ++ VLDEAD +L +G++ I +I +K Q +LLSAT+
Sbjct: 177 -RYLSPKYIKMFVLDEADEMLSRGFKDQI---YDIFQKLNSNTQVVLLSATM 224
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 119 bits (298), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 102/382 (26%), Positives = 178/382 (46%), Gaps = 58/382 (15%)
Query: 409 GMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIY 468
G + + +QQ +I PI++G DVL ++Q+G+GKT ++I +Q++ +
Sbjct: 38 GYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRID------TSVKAPQ 91
Query: 469 AVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRL 528
A+ + PTRELALQ ++ L V + + GG + +R I+V TPGR+
Sbjct: 92 ALXLAPTRELALQIQKVVXALAFHXDIKVHACI-GGTSFVEDAEGLRDA-QIVVGTPGRV 149
Query: 529 LDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTP 588
D+ + + K++ +LDEAD L G++ I + +L P Q +LLSAT
Sbjct: 150 FDNIQRRR-FRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLP---PTTQVVLLSATXPN 205
Query: 589 AVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGK 648
V + +NP++I +V +L L + F +
Sbjct: 206 DVLEVTTKFXRNPVRI-------------------------LVKKDELTLEGIKQFYV-- 238
Query: 649 CQNVNEDEE--------------SKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSM 694
NV E+E ++ ++F T+ + EL + + + ++ +
Sbjct: 239 --NVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVE---ELTTKLRNDKFTVSAIYSDL 293
Query: 695 SQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARV 754
Q ER + K FRS S +LI TD+ ARG+D+ V ++ Y P++ +Y+HR+GR R
Sbjct: 294 PQQERDTIXKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRF 353
Query: 755 GHEGSSLLFLIPSEVKLVEELQ 776
G +G ++ F+ +V EL+
Sbjct: 354 GRKGVAINFVTNEDVGAXRELE 375
Score = 82.0 bits (201), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 54/170 (31%), Positives = 90/170 (52%), Gaps = 12/170 (7%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +QQ +I PI++G DVL ++Q+G+GKT ++I +Q++ + A+ + PT
Sbjct: 45 SAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRID------TSVKAPQALXLAPT 98
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELALQ ++ L V + + GG + +R I+V TPGR+ D+ +
Sbjct: 99 RELALQIQKVVXALAFHXDIKVHACI-GGTSFVEDAEGLRDA-QIVVGTPGRVFDNIQR- 155
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSAT 176
+ K++ +LDEAD L G++ I + +L P Q +LLSAT
Sbjct: 156 RRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLL---PPTTQVVLLSAT 202
Score = 36.6 bits (83), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 3/67 (4%)
Query: 190 LKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGMT 249
+ K++ +LDEAD L G++ I + +L P Q VLLSAT V +
Sbjct: 158 FRTDKIKXFILDEADEXLSSGFKEQIYQIFTLL---PPTTQVVLLSATXPNDVLEVTTKF 214
Query: 250 LQNPIQI 256
+NP++I
Sbjct: 215 XRNPVRI 221
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 117 bits (293), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 68/191 (35%), Positives = 114/191 (59%), Gaps = 10/191 (5%)
Query: 413 TQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVII 472
T+ T +Q +I L G D++ ++TGSGKT A+A+PI+ L E ++ +A+++
Sbjct: 64 TKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRL------FALVL 117
Query: 473 LPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHC 532
PTRELA Q E F L S + + + GG S+ + K I++ATPGRL+DH
Sbjct: 118 TPTRELAFQISEQFEALGSSI-GVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHL 176
Query: 533 KHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQR 592
++T+ +++LV+DEADRIL+ +E ++ + L+++ + + F L SAT+T VQ+
Sbjct: 177 ENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTF---LFSATMTKKVQK 233
Query: 593 LAGMTLQNPIQ 603
L L+NP++
Sbjct: 234 LQRAALKNPVK 244
Score = 105 bits (262), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 62/175 (35%), Positives = 104/175 (59%), Gaps = 10/175 (5%)
Query: 4 TQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVII 63
T+ T +Q +I L G D++ ++TGSGKT A+A+PI+ L E ++ +A+++
Sbjct: 64 TKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRL------FALVL 117
Query: 64 LPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHC 123
PTRELA Q E F L S + + + GG S+ + K I++ATPGRL+DH
Sbjct: 118 TPTRELAFQISEQFEALGSSI-GVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHL 176
Query: 124 KHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLT 178
++T+ +++LV+DEADRIL+ +E ++ + L+++ + + F L SAT+T
Sbjct: 177 ENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTF---LFSATMT 228
>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 = 116 bits (290), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 104/386 (26%), Positives = 191/386 (49%), Gaps = 50/386 (12%)
Query: 391 SYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDG--GDVLVRSQTGSGKTLAYAI 448
S++E G+ P + K + M + + +Q+ ++ +L +++ +SQ+G+GKT A+++
Sbjct: 6 SFDEL-GLAPELLKGI-YAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL 63
Query: 449 PIIQKL--QEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLT--GG 504
++ ++ ++ P+ A+ + P+RELA QTLE+ ++ K FT I +
Sbjct: 64 TMLTRVNPEDASPQ--------AICLAPSRELARQTLEVVQEMGK-FTKITSQLIVPDSF 114
Query: 505 EKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIA 564
EK K A++ +V TPG +LD + + ++ K++ VLDEAD +LDQ D
Sbjct: 115 EKNKQINAQV------IVGTPGTVLDLMRR-KLMQLQKIKIFVLDEADNMLDQQGLGD-- 165
Query: 565 EFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDS 624
+ + + + Q +L SAT AV++ A + N A++ ++ V D+
Sbjct: 166 QCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPN------ANTLELQTNE---VNVDA 216
Query: 625 LKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGEN 684
+KQ ++ + + + + G ++F+AT+ A+ L + E
Sbjct: 217 IKQLYMDCKNEADKFDVLTELYGVM------TIGSSIIFVATKKTANV---LYGKLKSEG 267
Query: 685 IAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTD- 743
LHG + ER + FR +S VLI T+V ARG+D+P V +V Y P+ +
Sbjct: 268 HEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQ 327
Query: 744 -----YVHRVGRTARVGHEGSSLLFL 764
Y+HR+GRT R G +G ++ F+
Sbjct: 328 ADPATYIHRIGRTGRFGRKGVAISFV 353
Score = 60.8 bits (146), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 49/163 (30%), Positives = 88/163 (53%), Gaps = 22/163 (13%)
Query: 22 DVLVRSQTGSGKTLAYAIPIIQKL--QEMRPKISRKDGIYAVIILPTRELALQTLEIFTK 79
+++ +SQ+G+GKT A+++ ++ ++ ++ P+ A+ + P+RELA QTLE+ +
Sbjct: 46 NMIAQSQSGTGKTAAFSLTMLTRVNPEDASPQ--------AICLAPSRELARQTLEVVQE 97
Query: 80 LCKSFTWIVPSWLT--GGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHL 137
+ K FT I + EK K A+ ++V TPG +LD + + ++ K++
Sbjct: 98 MGK-FTKITSQLIVPDSFEKNKQINAQ------VIVGTPGTVLDLMRR-KLMQLQKIKIF 149
Query: 138 VLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
VLDEAD +LDQ D + + + + Q +L SAT A
Sbjct: 150 VLDEADNMLDQQGLGD--QCIRVKRFLPKDTQLVLFSATFADA 190
Score = 30.4 bits (67), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 3/76 (3%)
Query: 178 TPATCW-CKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSA 236
TP T + ++ K++ VLDEAD +LDQ D + + + + Q VL SA
Sbjct: 128 TPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGD--QCIRVKRFLPKDTQLVLFSA 185
Query: 237 TLTPAVQRLAGMTLQN 252
T AV++ A + N
Sbjct: 186 TFADAVRQYAKKIVPN 201
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 116 bits (290), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 110/397 (27%), Positives = 188/397 (47%), Gaps = 72/397 (18%)
Query: 391 SYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDG--GDVLVRSQTGSGKTLAYAI 448
S++E G+ P + K + M + + +Q+ ++ +L +++ +SQ+G+GKT A+++
Sbjct: 6 SFDEL-GLAPELLKGI-YAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL 63
Query: 449 PIIQKL--QEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLT--GG 504
++ ++ ++ P+ A+ + P+RELA QTLE+ ++ K FT I +
Sbjct: 64 TMLTRVNPEDASPQ--------AICLAPSRELARQTLEVVQEMGK-FTKITSQLIVPDSF 114
Query: 505 EKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIA 564
EK K A++ +V TPG +LD + + ++ K++ VLDEAD +LDQ D
Sbjct: 115 EKNKQINAQV------IVGTPGTVLDLMRR-KLMQLQKIKIFVLDEADNMLDQQGLGD-- 165
Query: 565 EFLEILKKQKPQFQSILLSATLTPAVQRLA------GMTLQ---NPIQIDAADS--TDIH 613
+ + + + Q +L SAT AV++ A TL+ N + +DA D
Sbjct: 166 QCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCK 225
Query: 614 NTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYH 673
N D F V L+ + S I +F+AT+ A+
Sbjct: 226 NEADK----------FDVLTELYGLMTIGSSI----------------IFVATKKTANV- 258
Query: 674 TELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIV 733
L + E LHG + ER + FR +S VLI T+V ARG+D+P V +V
Sbjct: 259 --LYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVV 316
Query: 734 QYTAPSSSTD------YVHRVGRTARVGHEGSSLLFL 764
Y P+ + Y+HR+GRT R G +G ++ F+
Sbjct: 317 NYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 353
Score = 60.8 bits (146), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 49/163 (30%), Positives = 88/163 (53%), Gaps = 22/163 (13%)
Query: 22 DVLVRSQTGSGKTLAYAIPIIQKL--QEMRPKISRKDGIYAVIILPTRELALQTLEIFTK 79
+++ +SQ+G+GKT A+++ ++ ++ ++ P+ A+ + P+RELA QTLE+ +
Sbjct: 46 NMIAQSQSGTGKTAAFSLTMLTRVNPEDASPQ--------AICLAPSRELARQTLEVVQE 97
Query: 80 LCKSFTWIVPSWLT--GGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHL 137
+ K FT I + EK K A+ ++V TPG +LD + + ++ K++
Sbjct: 98 MGK-FTKITSQLIVPDSFEKNKQINAQ------VIVGTPGTVLDLMRR-KLMQLQKIKIF 149
Query: 138 VLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPA 180
VLDEAD +LDQ D + + + + Q +L SAT A
Sbjct: 150 VLDEADNMLDQQGLGD--QCIRVKRFLPKDTQLVLFSATFADA 190
Score = 30.4 bits (67), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 3/76 (3%)
Query: 178 TPATCW-CKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSA 236
TP T + ++ K++ VLDEAD +LDQ D + + + + Q VL SA
Sbjct: 128 TPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGD--QCIRVKRFLPKDTQLVLFSA 185
Query: 237 TLTPAVQRLAGMTLQN 252
T AV++ A + N
Sbjct: 186 TFADAVRQYAKKIVPN 201
>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 = 115 bits (287), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 73/214 (34%), Positives = 120/214 (56%), Gaps = 12/214 (5%)
Query: 392 YEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPII 451
+++FP + P + + L+ G +T T +Q ++ L+G D++ +++TG+GKTLA+A+PI
Sbjct: 3 FKDFP-LKPEILEALH-GRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIA 60
Query: 452 QKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEK 511
++L P R A+++ PTRELALQ T + + + GG +K
Sbjct: 61 ERLA---PSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVA---VYGGTGYGKQK 114
Query: 512 ARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILK 571
+ +G +VATPGR LD+ + L S+VE VLDEAD +L G+E ++ +L
Sbjct: 115 EALLRGADAVVATPGRALDYLRQG-VLDLSRVEVAVLDEADEMLSMGFEEEVE---ALLS 170
Query: 572 KQKPQFQSILLSATLTPAVQRLAGMTLQNPIQID 605
P Q++L SATL +RLA ++NP+ I+
Sbjct: 171 ATPPSRQTLLFSATLPSWAKRLAERYMKNPVLIN 204
Score = 103 bits (256), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 64/185 (34%), Positives = 99/185 (53%), Gaps = 13/185 (7%)
Query: 2 NITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAV 61
+T T +Q ++ L+G D++ +++TG+GKTLA+A+PI ++L P R A+
Sbjct: 20 GLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLA---PSQERGRKPRAL 76
Query: 62 IILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLD 121
++ PTRELALQ T + + + GG +K + +G +VATPGR LD
Sbjct: 77 VLTPTRELALQVASELTAVAPHLKVVA---VYGGTGYGKQKEALLRGADAVVATPGRALD 133
Query: 122 HCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAT 181
+ + L S+VE VLDEAD +L G+E ++ +L P Q++L SATL
Sbjct: 134 YLRQG-VLDLSRVEVAVLDEADEMLSMGFEEEVE---ALLSATPPSRQTLLFSATL---P 186
Query: 182 CWCKH 186
W K
Sbjct: 187 SWAKR 191
Score = 48.5 bits (114), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 40/68 (58%), Gaps = 3/68 (4%)
Query: 190 LKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGMT 249
L S+VE VLDEAD +L G+E ++ +L P Q++L SATL +RLA
Sbjct: 140 LDLSRVEVAVLDEADEMLSMGFEEEVE---ALLSATPPSRQTLLFSATLPSWAKRLAERY 196
Query: 250 LQNPIQID 257
++NP+ I+
Sbjct: 197 MKNPVLIN 204
>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 = 113 bits (283), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 72/214 (33%), Positives = 120/214 (56%), Gaps = 12/214 (5%)
Query: 392 YEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPII 451
+++FP + P + + L+ G +T T ++ ++ L+G D++ +++TG+GKTLA+A+PI
Sbjct: 3 FKDFP-LKPEILEALH-GRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIA 60
Query: 452 QKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEK 511
++L P R A+++ PTRELALQ T + + + GG +K
Sbjct: 61 ERLA---PSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVA---VYGGTGYGKQK 114
Query: 512 ARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILK 571
+ +G +VATPGR LD+ + L S+VE VLDEAD +L G+E ++ +L
Sbjct: 115 EALLRGADAVVATPGRALDYLRQG-VLDLSRVEVAVLDEADEMLSMGFEEEVE---ALLS 170
Query: 572 KQKPQFQSILLSATLTPAVQRLAGMTLQNPIQID 605
P Q++L SATL +RLA ++NP+ I+
Sbjct: 171 ATPPSRQTLLFSATLPSWAKRLAERYMKNPVLIN 204
Score = 102 bits (253), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 63/185 (34%), Positives = 99/185 (53%), Gaps = 13/185 (7%)
Query: 2 NITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAV 61
+T T ++ ++ L+G D++ +++TG+GKTLA+A+PI ++L P R A+
Sbjct: 20 GLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLA---PSQERGRKPRAL 76
Query: 62 IILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLD 121
++ PTRELALQ T + + + GG +K + +G +VATPGR LD
Sbjct: 77 VLTPTRELALQVASELTAVAPHLKVVA---VYGGTGYGKQKEALLRGADAVVATPGRALD 133
Query: 122 HCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAT 181
+ + L S+VE VLDEAD +L G+E ++ +L P Q++L SATL
Sbjct: 134 YLRQG-VLDLSRVEVAVLDEADEMLSMGFEEEVE---ALLSATPPSRQTLLFSATL---P 186
Query: 182 CWCKH 186
W K
Sbjct: 187 SWAKR 191
Score = 48.5 bits (114), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 40/68 (58%), Gaps = 3/68 (4%)
Query: 190 LKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGMT 249
L S+VE VLDEAD +L G+E ++ +L P Q++L SATL +RLA
Sbjct: 140 LDLSRVEVAVLDEADEMLSMGFEEEVE---ALLSATPPSRQTLLFSATLPSWAKRLAERY 196
Query: 250 LQNPIQID 257
++NP+ I+
Sbjct: 197 MKNPVLIN 204
>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 = 108 bits (271), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 47/123 (38%), Positives = 75/123 (60%)
Query: 655 DEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVL 714
D K ++F T + +L +++ + HG ++Q++RT + K F+ +SG+L
Sbjct: 31 DSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGIL 90
Query: 715 ICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVEE 774
+CTDV ARG+D P V ++Q PS +Y+HR+GRTAR G EGSS+LF+ E+ V E
Sbjct: 91 VCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRE 150
Query: 775 LQN 777
L++
Sbjct: 151 LED 153
>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 = 108 bits (271), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 47/123 (38%), Positives = 75/123 (60%)
Query: 655 DEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVL 714
D K ++F T + +L +++ + HG ++Q++RT + K F+ +SG+L
Sbjct: 31 DSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGIL 90
Query: 715 ICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVEE 774
+CTDV ARG+D P V ++Q PS +Y+HR+GRTAR G EGSS+LF+ E+ V E
Sbjct: 91 VCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRE 150
Query: 775 LQN 777
L++
Sbjct: 151 LED 153
>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 = 108 bits (271), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 47/123 (38%), Positives = 75/123 (60%)
Query: 655 DEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVL 714
D K ++F T + +L +++ + HG ++Q++RT + K F+ +SG+L
Sbjct: 31 DSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGIL 90
Query: 715 ICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVEE 774
+CTDV ARG+D P V ++Q PS +Y+HR+GRTAR G EGSS+LF+ E+ V E
Sbjct: 91 VCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRE 150
Query: 775 LQN 777
L++
Sbjct: 151 LED 153
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 108 bits (270), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 67/195 (34%), Positives = 112/195 (57%), Gaps = 6/195 (3%)
Query: 411 NITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAV 470
N T+ T +Q L G D++ +QTGSGKTL+Y +P I + +P + R DG +
Sbjct: 62 NFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINH-QPFLERGDGPICL 120
Query: 471 IILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLD 530
++ PTRELA Q ++ + C++ + + + GG + + +G+ I +ATPGRL+D
Sbjct: 121 VLAPTRELAQQVQQVAAEYCRACR-LKSTCIYGGAPKGPQIRDLERGVEICIATPGRLID 179
Query: 531 HCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAV 590
+ +T + +LVLDEADR+LD G+E I +I+ + +P Q+++ SAT V
Sbjct: 180 FLECGKT-NLRRTTYLVLDEADRMLDMGFEPQIR---KIVDQIRPDRQTLMWSATWPKEV 235
Query: 591 QRLAGMTLQNPIQID 605
++LA L++ I I+
Sbjct: 236 RQLAEDFLKDYIHIN 250
Score = 103 bits (256), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 61/175 (34%), Positives = 101/175 (57%), Gaps = 6/175 (3%)
Query: 2 NITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAV 61
N T+ T +Q L G D++ +QTGSGKTL+Y +P I + +P + R DG +
Sbjct: 62 NFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINH-QPFLERGDGPICL 120
Query: 62 IILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLD 121
++ PTRELA Q ++ + C++ + + + GG + + +G+ I +ATPGRL+D
Sbjct: 121 VLAPTRELAQQVQQVAAEYCRACR-LKSTCIYGGAPKGPQIRDLERGVEICIATPGRLID 179
Query: 122 HCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSAT 176
+ +T + +LVLDEADR+LD G+E I +I+ + +P Q+++ SAT
Sbjct: 180 FLECGKT-NLRRTTYLVLDEADRMLDMGFEPQIR---KIVDQIRPDRQTLMWSAT 230
>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 = 108 bits (270), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 67/195 (34%), Positives = 112/195 (57%), Gaps = 6/195 (3%)
Query: 411 NITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAV 470
N T+ T +Q L G D++ +QTGSGKTL+Y +P I + +P + R DG +
Sbjct: 48 NFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINH-QPFLERGDGPICL 106
Query: 471 IILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLD 530
++ PTRELA Q ++ + C++ + + + GG + + +G+ I +ATPGRL+D
Sbjct: 107 VLAPTRELAQQVQQVAAEYCRACR-LKSTCIYGGAPKGPQIRDLERGVEICIATPGRLID 165
Query: 531 HCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAV 590
+ +T + +LVLDEADR+LD G+E I +I+ + +P Q+++ SAT V
Sbjct: 166 FLECGKT-NLRRTTYLVLDEADRMLDMGFEPQIR---KIVDQIRPDRQTLMWSATWPKEV 221
Query: 591 QRLAGMTLQNPIQID 605
++LA L++ I I+
Sbjct: 222 RQLAEDFLKDYIHIN 236
Score = 103 bits (256), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 61/175 (34%), Positives = 101/175 (57%), Gaps = 6/175 (3%)
Query: 2 NITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAV 61
N T+ T +Q L G D++ +QTGSGKTL+Y +P I + +P + R DG +
Sbjct: 48 NFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINH-QPFLERGDGPICL 106
Query: 62 IILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLD 121
++ PTRELA Q ++ + C++ + + + GG + + +G+ I +ATPGRL+D
Sbjct: 107 VLAPTRELAQQVQQVAAEYCRACR-LKSTCIYGGAPKGPQIRDLERGVEICIATPGRLID 165
Query: 122 HCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSAT 176
+ +T + +LVLDEADR+LD G+E I +I+ + +P Q+++ SAT
Sbjct: 166 FLECGKT-NLRRTTYLVLDEADRMLDMGFEPQIR---KIVDQIRPDRQTLMWSAT 216
>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 = 107 bits (266), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 65/190 (34%), Positives = 109/190 (57%), Gaps = 10/190 (5%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ +Q+ SI L G D+L R++ G+GK+ AY IP++++L +KD I A++I+PT
Sbjct: 27 SPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLD------LKKDNIQAMVIVPT 80
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 535
RELALQ +I ++ K TGG ++ + R+ + +++ATPGR+LD K
Sbjct: 81 RELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATPGRILDLIKKG 140
Query: 536 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAG 595
K V+ +VLDEAD++L Q + + + + + L K + Q +L SAT +VQ+
Sbjct: 141 -VAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNR---QILLYSATFPLSVQKFMN 196
Query: 596 MTLQNPIQID 605
L+ P +I+
Sbjct: 197 SHLEKPYEIN 206
Score = 99.0 bits (245), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 60/171 (35%), Positives = 99/171 (57%), Gaps = 10/171 (5%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +Q+ SI L G D+L R++ G+GK+ AY IP++++L +KD I A++I+PT
Sbjct: 27 SPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLD------LKKDNIQAMVIVPT 80
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELALQ +I ++ K TGG ++ + R+ + +++ATPGR+LD K
Sbjct: 81 RELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATPGRILDLIKKG 140
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
K V+ +VLDEAD++L Q + + + + + L K + Q +L SAT
Sbjct: 141 -VAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNR---QILLYSATF 187
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 103 bits (256), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 86/338 (25%), Positives = 161/338 (47%), Gaps = 43/338 (12%)
Query: 431 DVLVRSQTGSGKTLAYAIPIIQKLQEMR--PKISRKDGIYAVIILPTRELALQTLEIFTK 488
+++ +SQ+G+GKT A+ + ++ +++ P+ + + PT ELALQT ++ +
Sbjct: 82 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQ 133
Query: 489 LCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVL 548
+ K + + ++ G K++ + + I++ TPG +LD C + + K++ VL
Sbjct: 134 MGKFYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVL 190
Query: 549 DEAD-RILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAA 607
DEAD I QG++ +L + Q +L SAT +V + A + +P
Sbjct: 191 DEADVMIATQGHQDQSIRIQRMLPRN---CQMLLFSATFEDSVWKFAQKVVPDP------ 241
Query: 608 DSTDIHNTTDSLVIPDSLKQHFIVTPPK-LRLVALASFILGKCQNVNEDEESKMLVFMAT 666
+ + ++L D++KQ++++ + + AL C ++ ++F T
Sbjct: 242 NVIKLKREEETL---DTIKQYYVLCSSRDEKFQAL-------CNLYGAITIAQAMIFCHT 291
Query: 667 QDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDL 726
+ A + LS G +A L G M +R V + FR K VL+ T+V ARG+D+
Sbjct: 292 RKTASWLAAELSKE-GHQVAL--LSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDV 348
Query: 727 PLVDWIVQYTAP------SSSTDYVHRVGRTARVGHEG 758
V ++ + P + Y+HR+GRT R G G
Sbjct: 349 EQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRG 386
Score = 55.8 bits (133), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 42/159 (26%), Positives = 82/159 (51%), Gaps = 17/159 (10%)
Query: 22 DVLVRSQTGSGKTLAYAIPIIQKLQEMR--PKISRKDGIYAVIILPTRELALQTLEIFTK 79
+++ +SQ+G+GKT A+ + ++ +++ P+ + + PT ELALQT ++ +
Sbjct: 82 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQ 133
Query: 80 LCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVL 139
+ K + + ++ G K++ + + I++ TPG +LD C + + K++ VL
Sbjct: 134 MGKFYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVL 190
Query: 140 DEAD-RILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
DEAD I QG++ +L + Q +L SAT
Sbjct: 191 DEADVMIATQGHQDQSIRIQRMLPR---NCQMLLFSATF 226
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 28/109 (25%), Positives = 51/109 (46%), Gaps = 15/109 (13%)
Query: 178 TPATC--WCKHTETLKFSKVEHLVLDEAD-RILDQGYERDIAEFLEILKKQKPQFQSVLL 234
TP T WC + + K++ VLDEAD I QG++ +L + Q +L
Sbjct: 166 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPR---NCQMLLF 222
Query: 235 SATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIV 283
SAT +V + A + +P + + ++L D++KQ++++
Sbjct: 223 SATFEDSVWKFAQKVVPDP------NVIKLKREEETL---DTIKQYYVL 262
>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 = 103 bits (256), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 86/338 (25%), Positives = 161/338 (47%), Gaps = 43/338 (12%)
Query: 431 DVLVRSQTGSGKTLAYAIPIIQKLQEMR--PKISRKDGIYAVIILPTRELALQTLEIFTK 488
+++ +SQ+G+GKT A+ + ++ +++ P+ + + PT ELALQT ++ +
Sbjct: 66 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQ 117
Query: 489 LCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVL 548
+ K + + ++ G K++ + + I++ TPG +LD C + + K++ VL
Sbjct: 118 MGKFYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVL 174
Query: 549 DEAD-RILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAA 607
DEAD I QG++ +L + Q +L SAT +V + A + +P
Sbjct: 175 DEADVMIATQGHQDQSIRIQRMLPRN---CQMLLFSATFEDSVWKFAQKVVPDP------ 225
Query: 608 DSTDIHNTTDSLVIPDSLKQHFIVTPPK-LRLVALASFILGKCQNVNEDEESKMLVFMAT 666
+ + ++L D++KQ++++ + + AL C ++ ++F T
Sbjct: 226 NVIKLKREEETL---DTIKQYYVLCSSRDEKFQAL-------CNLYGAITIAQAMIFCHT 275
Query: 667 QDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDL 726
+ A + LS G +A L G M +R V + FR K VL+ T+V ARG+D+
Sbjct: 276 RKTASWLAAELSKE-GHQVAL--LSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDV 332
Query: 727 PLVDWIVQYTAP------SSSTDYVHRVGRTARVGHEG 758
V ++ + P + Y+HR+GRT R G G
Sbjct: 333 EQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRG 370
Score = 55.8 bits (133), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 42/159 (26%), Positives = 82/159 (51%), Gaps = 17/159 (10%)
Query: 22 DVLVRSQTGSGKTLAYAIPIIQKLQEMR--PKISRKDGIYAVIILPTRELALQTLEIFTK 79
+++ +SQ+G+GKT A+ + ++ +++ P+ + + PT ELALQT ++ +
Sbjct: 66 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQ 117
Query: 80 LCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVL 139
+ K + + ++ G K++ + + I++ TPG +LD C + + K++ VL
Sbjct: 118 MGKFYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVL 174
Query: 140 DEAD-RILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
DEAD I QG++ +L + Q +L SAT
Sbjct: 175 DEADVMIATQGHQDQSIRIQRMLPR---NCQMLLFSATF 210
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 28/109 (25%), Positives = 51/109 (46%), Gaps = 15/109 (13%)
Query: 178 TPATC--WCKHTETLKFSKVEHLVLDEAD-RILDQGYERDIAEFLEILKKQKPQFQSVLL 234
TP T WC + + K++ VLDEAD I QG++ +L + Q +L
Sbjct: 150 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPR---NCQMLLF 206
Query: 235 SATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIV 283
SAT +V + A + +P + + ++L D++KQ++++
Sbjct: 207 SATFEDSVWKFAQKVVPDP------NVIKLKREEETL---DTIKQYYVL 246
>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 = 102 bits (255), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 86/338 (25%), Positives = 161/338 (47%), Gaps = 43/338 (12%)
Query: 431 DVLVRSQTGSGKTLAYAIPIIQKLQEMR--PKISRKDGIYAVIILPTRELALQTLEIFTK 488
+++ +SQ+G+GKT A+ + ++ +++ P+ + + PT ELALQT ++ +
Sbjct: 103 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQ 154
Query: 489 LCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVL 548
+ K + + ++ G K++ + + I++ TPG +LD C + + K++ VL
Sbjct: 155 MGKFYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVL 211
Query: 549 DEAD-RILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAA 607
DEAD I QG++ +L + Q +L SAT +V + A + +P
Sbjct: 212 DEADVMIATQGHQDQSIRIQRMLPRN---CQMLLFSATFEDSVWKFAQKVVPDP------ 262
Query: 608 DSTDIHNTTDSLVIPDSLKQHFIVTPPK-LRLVALASFILGKCQNVNEDEESKMLVFMAT 666
+ + ++L D++KQ++++ + + AL C ++ ++F T
Sbjct: 263 NVIKLKREEETL---DTIKQYYVLCSSRDEKFQAL-------CNLYGAITIAQAMIFCHT 312
Query: 667 QDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDL 726
+ A + LS G +A L G M +R V + FR K VL+ T+V ARG+D+
Sbjct: 313 RKTASWLAAELSKE-GHQVAL--LSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDV 369
Query: 727 PLVDWIVQYTAP------SSSTDYVHRVGRTARVGHEG 758
V ++ + P + Y+HR+GRT R G G
Sbjct: 370 EQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRG 407
Score = 55.8 bits (133), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 42/159 (26%), Positives = 82/159 (51%), Gaps = 17/159 (10%)
Query: 22 DVLVRSQTGSGKTLAYAIPIIQKLQEMR--PKISRKDGIYAVIILPTRELALQTLEIFTK 79
+++ +SQ+G+GKT A+ + ++ +++ P+ + + PT ELALQT ++ +
Sbjct: 103 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQ 154
Query: 80 LCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVL 139
+ K + + ++ G K++ + + I++ TPG +LD C + + K++ VL
Sbjct: 155 MGKFYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVL 211
Query: 140 DEAD-RILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
DEAD I QG++ +L + Q +L SAT
Sbjct: 212 DEADVMIATQGHQDQSIRIQRMLPR---NCQMLLFSATF 247
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 28/113 (24%), Positives = 52/113 (46%), Gaps = 15/113 (13%)
Query: 178 TPATC--WCKHTETLKFSKVEHLVLDEAD-RILDQGYERDIAEFLEILKKQKPQFQSVLL 234
TP T WC + + K++ VLDEAD I QG++ +L + Q +L
Sbjct: 187 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPR---NCQMLLF 243
Query: 235 SATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIVTPPK 287
SAT +V + A + +P + + ++L D++KQ++++ +
Sbjct: 244 SATFEDSVWKFAQKVVPDP------NVIKLKREEETL---DTIKQYYVLCSSR 287
>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 = 102 bits (255), Expect = 8e-22, Method: Compositional matrix adjust.
Identities = 86/338 (25%), Positives = 161/338 (47%), Gaps = 43/338 (12%)
Query: 431 DVLVRSQTGSGKTLAYAIPIIQKLQEMR--PKISRKDGIYAVIILPTRELALQTLEIFTK 488
+++ +SQ+G+GKT A+ + ++ +++ P+ + + PT ELALQT ++ +
Sbjct: 133 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQ 184
Query: 489 LCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVL 548
+ K + + ++ G K++ + + I++ TPG +LD C + + K++ VL
Sbjct: 185 MGKFYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVL 241
Query: 549 DEAD-RILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAA 607
DEAD I QG++ +L + Q +L SAT +V + A + +P
Sbjct: 242 DEADVMIATQGHQDQSIRIQRMLPRN---CQMLLFSATFEDSVWKFAQKVVPDP------ 292
Query: 608 DSTDIHNTTDSLVIPDSLKQHFIVTPPK-LRLVALASFILGKCQNVNEDEESKMLVFMAT 666
+ + ++L D++KQ++++ + + AL C ++ ++F T
Sbjct: 293 NVIKLKREEETL---DTIKQYYVLCSSRDEKFQAL-------CNLYGAITIAQAMIFCHT 342
Query: 667 QDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDL 726
+ A + LS G +A L G M +R V + FR K VL+ T+V ARG+D+
Sbjct: 343 RKTASWLAAELSKE-GHQVAL--LSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDV 399
Query: 727 PLVDWIVQYTAP------SSSTDYVHRVGRTARVGHEG 758
V ++ + P + Y+HR+GRT R G G
Sbjct: 400 EQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRG 437
Score = 55.8 bits (133), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 42/159 (26%), Positives = 82/159 (51%), Gaps = 17/159 (10%)
Query: 22 DVLVRSQTGSGKTLAYAIPIIQKLQEMR--PKISRKDGIYAVIILPTRELALQTLEIFTK 79
+++ +SQ+G+GKT A+ + ++ +++ P+ + + PT ELALQT ++ +
Sbjct: 133 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQ 184
Query: 80 LCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVL 139
+ K + + ++ G K++ + + I++ TPG +LD C + + K++ VL
Sbjct: 185 MGKFYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVL 241
Query: 140 DEAD-RILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
DEAD I QG++ +L + Q +L SAT
Sbjct: 242 DEADVMIATQGHQDQSIRIQRMLPR---NCQMLLFSATF 277
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 28/109 (25%), Positives = 51/109 (46%), Gaps = 15/109 (13%)
Query: 178 TPATC--WCKHTETLKFSKVEHLVLDEAD-RILDQGYERDIAEFLEILKKQKPQFQSVLL 234
TP T WC + + K++ VLDEAD I QG++ +L + Q +L
Sbjct: 217 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPR---NCQMLLF 273
Query: 235 SATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIPDSLKQHFIV 283
SAT +V + A + +P + + ++L D++KQ++++
Sbjct: 274 SATFEDSVWKFAQKVVPDP------NVIKLKREEETL---DTIKQYYVL 313
>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 = 101 bits (252), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 77/211 (36%), Positives = 118/211 (55%), Gaps = 15/211 (7%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKL--QEMRPKISRKDGIYAVIIL 473
T +Q+ +I IL+ D++ +QTGSGKT A+ IPII L Q++ + K +IL
Sbjct: 47 TPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLIL 106
Query: 474 -PTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHC 532
PTRELA+Q L K + T + + GG S+ ++ G +LVATPGRL+D
Sbjct: 107 APTRELAIQILSESQKFSLN-TPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFI 165
Query: 533 -KHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKP---QFQSILLSATLTP 588
K+ +L+F K ++VLDEADR+LD G+E I + +E + P Q+++ SAT
Sbjct: 166 EKNKISLEFCK--YIVLDEADRMLDMGFEPQIRKIIE--ESNMPSGINRQTLMFSATFPK 221
Query: 589 AVQRLAGMTLQNPIQIDAADSTDIHNTTDSL 619
+Q+LA L N I + + +T+DS+
Sbjct: 222 EIQKLAADFLYNYIFMTVG---RVGSTSDSI 249
Score = 94.0 bits (232), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 68/178 (38%), Positives = 102/178 (57%), Gaps = 12/178 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKL--QEMRPKISRKDGIYAVIIL 64
T +Q+ +I IL+ D++ +QTGSGKT A+ IPII L Q++ + K +IL
Sbjct: 47 TPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLIL 106
Query: 65 -PTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHC 123
PTRELA+Q L K + T + + GG S+ ++ G +LVATPGRL+D
Sbjct: 107 APTRELAIQILSESQKFSLN-TPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFI 165
Query: 124 -KHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKP---QFQSILLSATL 177
K+ +L+F K ++VLDEADR+LD G+E I + +E + P Q+++ SAT
Sbjct: 166 EKNKISLEFCK--YIVLDEADRMLDMGFEPQIRKIIE--ESNMPSGINRQTLMFSATF 219
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 100 bits (248), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 93/345 (26%), Positives = 172/345 (49%), Gaps = 48/345 (13%)
Query: 431 DVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLC 490
+++ +SQ+G+GKT A+A+ ++ ++ PK A+ + P+RELA Q +++ T++
Sbjct: 160 NMIGQSQSGTGKTAAFALTMLSRVDASVPKPQ------AICLAPSRELARQIMDVVTEMG 213
Query: 491 KSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDE 550
K +T + ++ G + + A+I I++ TPG ++D K + L ++ VLDE
Sbjct: 214 K-YTEVKTAF--GIKDSVPKGAKI--DAQIVIGTPGTVMDLMKRRQ-LDARDIKVFVLDE 267
Query: 551 ADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADST 610
AD +LDQ D + ++ L + Q +L SAT + V++ A + A ++
Sbjct: 268 ADNMLDQQGLGDQSMRIKHLLPRNTQI--VLFSATFSERVEKYA--------ERFAPNAN 317
Query: 611 DIHNTTDSLVIPDSLKQHFIVTPPKLR----LVALASFI-LGKCQNVNEDEESKMLVFMA 665
+I T+ L + + +KQ ++ + LV L + +G+ ++F
Sbjct: 318 EIRLKTEELSV-EGIKQLYMDCQSEEHKYNVLVELYGLLTIGQS-----------IIFCK 365
Query: 666 TQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLD 725
+D A+ + T G +A L G++ ++R + +FR S VL+ T+V ARG+D
Sbjct: 366 KKDTAEEIARRM-TADGHTVAC--LTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGID 422
Query: 726 LPLVDWIVQYTAPSSSTD------YVHRVGRTARVGHEGSSLLFL 764
+ V+ +V Y P Y+HR+GRT R G G S+ F+
Sbjct: 423 VSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFV 467
Score = 57.4 bits (137), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 46/157 (29%), Positives = 87/157 (55%), Gaps = 14/157 (8%)
Query: 22 DVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLC 81
+++ +SQ+G+GKT A+A+ ++ ++ PK A+ + P+RELA Q +++ T++
Sbjct: 160 NMIGQSQSGTGKTAAFALTMLSRVDASVPKPQ------AICLAPSRELARQIMDVVTEMG 213
Query: 82 KSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDE 141
K +T + ++ G + + A+I I++ TPG ++D K + L ++ VLDE
Sbjct: 214 K-YTEVKTAF--GIKDSVPKGAKI--DAQIVIGTPGTVMDLMKRRQ-LDARDIKVFVLDE 267
Query: 142 ADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLT 178
AD +LDQ D + ++ L + Q +L SAT +
Sbjct: 268 ADNMLDQQGLGDQSMRIKHLLPRNTQI--VLFSATFS 302
>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 = 94.7 bits (234), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 70/226 (30%), Positives = 121/226 (53%), Gaps = 12/226 (5%)
Query: 377 RRLKPVSEALFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRS 436
+RL P F +++++P + +K + G I + T +Q + IL G D++V +
Sbjct: 11 KRLIPKPTCRFK-DAFQQYPDL---LKSIIRVG--ILKPTPIQSQAWPIILQGIDLIVVA 64
Query: 437 QTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWI 496
QTG+GKTL+Y +P L +++G +++ PTRELAL +K S+ +
Sbjct: 65 QTGTGKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKY--SYKGL 122
Query: 497 VPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILD 556
+ GG + I KG+ I++ATPGRL D + ++ + +LV+DEAD++LD
Sbjct: 123 KSICIYGGRNRNGQIEDISKGVDIIIATPGRLND-LQMNNSVNLRSITYLVIDEADKMLD 181
Query: 557 QGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPI 602
+E I +IL +P Q+++ SAT V++LA L++P+
Sbjct: 182 MEFEPQIR---KILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPM 224
Score = 87.4 bits (215), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 58/176 (32%), Positives = 96/176 (54%), Gaps = 6/176 (3%)
Query: 1 MNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYA 60
+ I + T +Q + IL G D++V +QTG+GKTL+Y +P L +++G
Sbjct: 38 VGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQRNGPGM 97
Query: 61 VIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLL 120
+++ PTRELAL +K S+ + + GG + I KG+ I++ATPGRL
Sbjct: 98 LVLTPTRELALHVEAECSKY--SYKGLKSICIYGGRNRNGQIEDISKGVDIIIATPGRLN 155
Query: 121 DHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSAT 176
D + ++ + +LV+DEAD++LD +E I +IL +P Q+++ SAT
Sbjct: 156 D-LQMNNSVNLRSITYLVIDEADKMLDMEFEPQIR---KILLDVRPDRQTVMTSAT 207
Score = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 41/70 (58%), Gaps = 3/70 (4%)
Query: 185 KHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQR 244
+ ++ + +LV+DEAD++LD +E I +IL +P Q+V+ SAT V++
Sbjct: 158 QMNNSVNLRSITYLVIDEADKMLDMEFEPQIR---KILLDVRPDRQTVMTSATWPDTVRQ 214
Query: 245 LAGMTLQNPI 254
LA L++P+
Sbjct: 215 LALSYLKDPM 224
>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 = 92.4 bits (228), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 59/196 (30%), Positives = 104/196 (53%), Gaps = 12/196 (6%)
Query: 409 GMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIY 468
G + + +QQ +I PI++G DVL ++Q+G+GKT ++I +Q++ +
Sbjct: 31 GYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRID------TSVKAPQ 84
Query: 469 AVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRL 528
A+++ PTRELALQ ++ L V + + GG + +R I+V TPGR+
Sbjct: 85 ALMLAPTRELALQIQKVVMALAFHMDIKVHACI-GGTSFVEDAEGLRDA-QIVVGTPGRV 142
Query: 529 LDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTP 588
D+ + + K++ +LDEAD +L G++ I + +L P Q +LLSAT+
Sbjct: 143 FDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL---PPTTQVVLLSATMPN 198
Query: 589 AVQRLAGMTLQNPIQI 604
V + ++NP++I
Sbjct: 199 DVLEVTTKFMRNPVRI 214
Score = 85.5 bits (210), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 54/171 (31%), Positives = 93/171 (54%), Gaps = 12/171 (7%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +QQ +I PI++G DVL ++Q+G+GKT ++I +Q++ + A+++ PT
Sbjct: 38 SAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRID------TSVKAPQALMLAPT 91
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELALQ ++ L V + + GG + +R I+V TPGR+ D+ +
Sbjct: 92 RELALQIQKVVMALAFHMDIKVHACI-GGTSFVEDAEGLRDA-QIVVGTPGRVFDNIQR- 148
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
+ K++ +LDEAD +L G++ I + +L P Q +LLSAT+
Sbjct: 149 RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL---PPTTQVVLLSATM 196
Score = 39.7 bits (91), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 190 LKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGMT 249
+ K++ +LDEAD +L G++ I + +L P Q VLLSAT+ V +
Sbjct: 151 FRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL---PPTTQVVLLSATMPNDVLEVTTKF 207
Query: 250 LQNPIQI 256
++NP++I
Sbjct: 208 MRNPVRI 214
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 91.7 bits (226), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 59/196 (30%), Positives = 104/196 (53%), Gaps = 12/196 (6%)
Query: 409 GMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIY 468
G + + +QQ +I PI++G DVL ++Q+G+GKT ++I +Q++ +
Sbjct: 38 GYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRID------TSVKAPQ 91
Query: 469 AVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRL 528
A+++ PTRELALQ ++ L V + + GG + +R I+V TPGR+
Sbjct: 92 ALMLAPTRELALQIQKVVMALAFHMDIKVHACI-GGTSFVEDAEGLRDA-QIVVGTPGRV 149
Query: 529 LDHCKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTP 588
D+ + + K++ +LDEAD +L G++ I + +L P Q +LLSAT+
Sbjct: 150 FDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL---PPTTQVVLLSATMPN 205
Query: 589 AVQRLAGMTLQNPIQI 604
V + ++NP++I
Sbjct: 206 DVLEVTTKFMRNPVRI 221
Score = 85.1 bits (209), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 54/171 (31%), Positives = 93/171 (54%), Gaps = 12/171 (7%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +QQ +I PI++G DVL ++Q+G+GKT ++I +Q++ + A+++ PT
Sbjct: 45 SAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRID------TSVKAPQALMLAPT 98
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELALQ ++ L V + + GG + +R I+V TPGR+ D+ +
Sbjct: 99 RELALQIQKVVMALAFHMDIKVHACI-GGTSFVEDAEGLRDA-QIVVGTPGRVFDNIQR- 155
Query: 127 ETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
+ K++ +LDEAD +L G++ I + +L P Q +LLSAT+
Sbjct: 156 RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL---PPTTQVVLLSATM 203
Score = 39.7 bits (91), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 190 LKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGMT 249
+ K++ +LDEAD +L G++ I + +L P Q VLLSAT+ V +
Sbjct: 158 FRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL---PPTTQVVLLSATMPNDVLEVTTKF 214
Query: 250 LQNPIQI 256
++NP++I
Sbjct: 215 MRNPVRI 221
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 86.3 bits (212), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 61/190 (32%), Positives = 105/190 (55%), Gaps = 12/190 (6%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ +QQ +I P + G DV+ ++Q+G+GKT +AI I+Q+L+ I K+ A+++ PT
Sbjct: 54 SAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLE-----IEFKE-TQALVLAPT 107
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIR-KGISILVATPGRLLDHCKH 534
RELA Q ++ L + GG +++E +++ + I+V TPGR+ D +
Sbjct: 108 RELAQQIQKVILAL-GDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDML-N 165
Query: 535 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLA 594
L ++ VLDEAD +L +G++ I EI +K Q +LLSAT+ V +
Sbjct: 166 RRYLSPKWIKMFVLDEADEMLSRGFKDQI---YEIFQKLNTSIQVVLLSATMPTDVLEVT 222
Query: 595 GMTLQNPIQI 604
+++PI+I
Sbjct: 223 KKFMRDPIRI 232
Score = 81.6 bits (200), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 57/172 (33%), Positives = 96/172 (55%), Gaps = 12/172 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +QQ +I P + G DV+ ++Q+G+GKT +AI I+Q+L+ I K+ A+++ PT
Sbjct: 54 SAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLE-----IEFKE-TQALVLAPT 107
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIR-KGISILVATPGRLLDHCKH 125
RELA Q ++ L + GG +++E +++ + I+V TPGR+ D +
Sbjct: 108 RELAQQIQKVILAL-GDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDML-N 165
Query: 126 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
L ++ VLDEAD +L +G++ I EI +K Q +LLSAT+
Sbjct: 166 RRYLSPKWIKMFVLDEADEMLSRGFKDQI---YEIFQKLNTSIQVVLLSATM 214
>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 = 85.9 bits (211), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 69/218 (31%), Positives = 107/218 (49%), Gaps = 17/218 (7%)
Query: 388 APTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYA 447
A T + FP PF+ + + + + + T +Q+ I L G + +SQTG+GKT AY
Sbjct: 2 AETQFTRFP-FQPFIIEAI-KTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYL 59
Query: 448 IPIIQKLQEMRPKISRKDGIYAVIILPTRELALQ----TLEIFTKLCKSFTWIVPSWLTG 503
+PI +K++ R ++ AVI PTRELA Q TL+I TK C IV L G
Sbjct: 60 LPIXEKIKPERAEVQ------AVITAPTRELATQIYHETLKI-TKFCPKDRXIVARCLIG 112
Query: 504 GEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILDQGYERDI 563
G + ++ I++ TPGR+ D + + L LV+DEAD LD G+ D+
Sbjct: 113 GTDKQKALEKLNVQPHIVIGTPGRINDFIRE-QALDVHTAHILVVDEADLXLDXGFITDV 171
Query: 564 AEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNP 601
+I + Q ++ SAT+ ++ +NP
Sbjct: 172 D---QIAARXPKDLQXLVFSATIPEKLKPFLKKYXENP 206
Score = 80.9 bits (198), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 61/175 (34%), Positives = 89/175 (50%), Gaps = 15/175 (8%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
T +Q+ I L G + +SQTG+GKT AY +PI +K++ R ++ AVI PT
Sbjct: 28 TEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKIKPERAEVQ------AVITAPT 81
Query: 67 RELALQ----TLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDH 122
RELA Q TL+I TK C IV L GG + ++ I++ TPGR+ D
Sbjct: 82 RELATQIYHETLKI-TKFCPKDRXIVARCLIGGTDKQKALEKLNVQPHIVIGTPGRINDF 140
Query: 123 CKHTETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
+ + L LV+DEAD LD G+ D+ +I + Q ++ SAT+
Sbjct: 141 IRE-QALDVHTAHILVVDEADLXLDXGFITDVD---QIAARXPKDLQXLVFSATI 191
>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 = 83.2 bits (204), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 50/133 (37%), Positives = 71/133 (53%), Gaps = 5/133 (3%)
Query: 643 SFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEV 702
SF+L +D S LVF+ T+ AD + L E A +HG SQ +R E
Sbjct: 34 SFLLDLLNATGKD--SLTLVFVETKKGADSLEDFL---YHEGYACTSIHGDRSQRDREEA 88
Query: 703 FKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLL 762
FRS KS +L+ T VAARGLD+ V ++ + PS +YVHR+GRT RVG+ G +
Sbjct: 89 LHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATS 148
Query: 763 FLIPSEVKLVEEL 775
F + + ++L
Sbjct: 149 FFNERNINITKDL 161
>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 = 81.6 bits (200), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 52/191 (27%), Positives = 104/191 (54%), Gaps = 12/191 (6%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ VQ I + G DVL ++++G GKT + + +Q+L+ + ++S +++ T
Sbjct: 38 SEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVS------VLVMCHT 91
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGI-SILVATPGRLLDHCKH 534
RELA Q + + + K + + GG +K ++ ++K I+V TPGR+L ++
Sbjct: 92 RELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARN 151
Query: 535 TETLKFSKVEHLVLDEADRILDQ-GYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRL 593
++L ++H +LDE D++L+Q RD+ E + +K Q ++ SATL+ ++ +
Sbjct: 152 -KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEK---QVMMFSATLSKEIRPV 207
Query: 594 AGMTLQNPIQI 604
+Q+P++I
Sbjct: 208 CRKFMQDPMEI 218
Score = 74.7 bits (182), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 49/174 (28%), Positives = 94/174 (54%), Gaps = 12/174 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ VQ I + G DVL ++++G GKT + + +Q+L+ + ++S +++ T
Sbjct: 38 SEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVS------VLVMCHT 91
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGI-SILVATPGRLLDHCKH 125
RELA Q + + + K + + GG +K ++ ++K I+V TPGR+L ++
Sbjct: 92 RELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARN 151
Query: 126 TETLKFSKVEHLVLDEADRILDQ-GYERDIAEFLEILKKQKPQFQSILLSATLT 178
++L ++H +LDE D++L+Q RD+ E + +K Q ++ SATL+
Sbjct: 152 -KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEK---QVMMFSATLS 201
>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 = 77.0 bits (188), Expect = 5e-14, Method: Composition-based stats.
Identities = 56/190 (29%), Positives = 98/190 (51%), Gaps = 12/190 (6%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
+ +QQ +I P + G DV+ ++Q+G+G T +AI I+Q++ E+ ++ A+++ PT
Sbjct: 39 SAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQI-ELDLXATQ-----ALVLAPT 92
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIR-KGISILVATPGRLLDHCKH 534
RELA Q + L + GG +++E ++ + I+V TPGR+ D
Sbjct: 93 RELAQQIQXVVMAL-GDYMGASCHACIGGTNVRAEVQXLQMEAPHIIVGTPGRVFDMLNR 151
Query: 535 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLA 594
L + VLDEAD +L +G+ I + + L Q +LLSAT+ V +
Sbjct: 152 -RYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNT---QVVLLSATMPSDVLEVT 207
Query: 595 GMTLQNPIQI 604
+++PI+I
Sbjct: 208 XXFMRDPIRI 217
Score = 70.9 bits (172), Expect = 3e-12, Method: Composition-based stats.
Identities = 52/172 (30%), Positives = 89/172 (51%), Gaps = 12/172 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
+ +QQ +I P + G DV+ ++Q+G+G T +AI I+Q++ E+ ++ A+++ PT
Sbjct: 39 SAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQI-ELDLXATQ-----ALVLAPT 92
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIR-KGISILVATPGRLLDHCKH 125
RELA Q + L + GG +++E ++ + I+V TPGR+ D
Sbjct: 93 RELAQQIQXVVMAL-GDYMGASCHACIGGTNVRAEVQXLQMEAPHIIVGTPGRVFDMLNR 151
Query: 126 TETLKFSKVEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
L + VLDEAD +L +G+ I + + L Q +LLSAT+
Sbjct: 152 -RYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNT---QVVLLSATM 199
Score = 37.0 bits (84), Expect = 0.050, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 33/62 (53%), Gaps = 3/62 (4%)
Query: 195 VEHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGMTLQNPI 254
+ VLDEAD +L +G+ I + + L Q VLLSAT+ V + +++PI
Sbjct: 159 IXMFVLDEADEMLSRGFXDQIYDIFQXLNSNT---QVVLLSATMPSDVLEVTXXFMRDPI 215
Query: 255 QI 256
+I
Sbjct: 216 RI 217
>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 = 75.1 bits (183), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 45/75 (60%)
Query: 690 LHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVG 749
+HG Q ERT+ + FR K VL+ TDVA++GLD P + ++ Y P +YVHR+G
Sbjct: 84 IHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIG 143
Query: 750 RTARVGHEGSSLLFL 764
RT G+ G + F+
Sbjct: 144 RTGCSGNTGIATTFI 158
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 73.2 bits (178), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 58/193 (30%), Positives = 92/193 (47%), Gaps = 11/193 (5%)
Query: 416 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 475
T +Q +I +L G ++L + TGSGKTLA++IPI+ +L++ K G A+II PT
Sbjct: 53 TPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPANK-----GFRALIISPT 107
Query: 476 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 535
RELA Q K+ + + + K + K ILV TP RL+ K
Sbjct: 108 RELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQD 167
Query: 536 -ETLKFSKVEHLVLDEADRILDQ---GYERDIAEFLEILKKQKPQFQSILLSATLTPAVQ 591
+ + VE LV+DE+D++ + G+ +A K + + SAT V+
Sbjct: 168 PPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHK--VRRAMFSATFAYDVE 225
Query: 592 RLAGMTLQNPIQI 604
+ + L N I +
Sbjct: 226 QWCKLNLDNVISV 238
Score = 71.2 bits (173), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 57/184 (30%), Positives = 87/184 (47%), Gaps = 12/184 (6%)
Query: 7 TTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPT 66
T +Q +I +L G ++L + TGSGKTLA++IPI+ +L++ K G A+II PT
Sbjct: 53 TPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPANK-----GFRALIISPT 107
Query: 67 RELALQTLEIFTKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHT 126
RELA Q K+ + + + K + K ILV TP RL+ K
Sbjct: 108 RELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQD 167
Query: 127 -ETLKFSKVEHLVLDEADRILDQ---GYERDIAEFLEILKKQKPQFQSILLSATLT-PAT 181
+ + VE LV+DE+D++ + G+ +A K + + SAT
Sbjct: 168 PPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHK--VRRAMFSATFAYDVE 225
Query: 182 CWCK 185
WCK
Sbjct: 226 QWCK 229
>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 = 72.0 bits (175), Expect = 1e-12, Method: Composition-based stats.
Identities = 31/88 (35%), Positives = 52/88 (59%)
Query: 689 KLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRV 748
K+HG M Q +R +V F+ + L+ TDVAARG+D+ + ++ Y P YVHR
Sbjct: 64 KIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRT 123
Query: 749 GRTARVGHEGSSLLFLIPSEVKLVEELQ 776
GRT R G++G ++ F+ E + + +++
Sbjct: 124 GRTGRAGNKGKAISFVTAFEKRFLADIE 151
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 70.9 bits (172), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 38/110 (34%), Positives = 59/110 (53%), Gaps = 9/110 (8%)
Query: 661 LVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVA 720
++F+AT+ A+ L + E LHG + ER + FR +S VLI T+V
Sbjct: 39 IIFVATKKTANV---LYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 95
Query: 721 ARGLDLPLVDWIVQYTAPSSSTD------YVHRVGRTARVGHEGSSLLFL 764
ARG+D+P V +V Y P+ + Y+HR+GRT R G +G ++ F+
Sbjct: 96 ARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 145
>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 = 70.1 bits (170), Expect = 5e-12, Method: Composition-based stats.
Identities = 31/72 (43%), Positives = 44/72 (61%)
Query: 690 LHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVG 749
L G M Q +R E K + VL+ TDVAARG+D+P V + + P S Y+HR+G
Sbjct: 60 LEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIG 119
Query: 750 RTARVGHEGSSL 761
RTAR G +G+++
Sbjct: 120 RTARAGRKGTAI 131
>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 = 68.9 bits (167), Expect = 1e-11, Method: Composition-based stats.
Identities = 38/110 (34%), Positives = 58/110 (52%), Gaps = 9/110 (8%)
Query: 661 LVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVA 720
++F+AT+ A+ L + E LHG + ER + FR +S VLI T+V
Sbjct: 40 IIFVATKKTANV---LYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 96
Query: 721 ARGLDLPLVDWIVQYTAPS------SSTDYVHRVGRTARVGHEGSSLLFL 764
ARG+D+P V +V Y P+ Y+HR+GRT R G +G ++ F+
Sbjct: 97 ARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 146
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 68.9 bits (167), Expect = 1e-11, Method: Composition-based stats.
Identities = 38/110 (34%), Positives = 58/110 (52%), Gaps = 9/110 (8%)
Query: 661 LVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVA 720
++F+AT+ A+ L + E LHG + ER + FR +S VLI T+V
Sbjct: 41 IIFVATKKTANV---LYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 97
Query: 721 ARGLDLPLVDWIVQYTAPS------SSTDYVHRVGRTARVGHEGSSLLFL 764
ARG+D+P V +V Y P+ Y+HR+GRT R G +G ++ F+
Sbjct: 98 ARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 147
>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 = 68.6 bits (166), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 43/74 (58%)
Query: 688 FKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHR 747
F +H M Q R VF FR+ L+CTD+ RG+D+ V+ ++ + P + Y+HR
Sbjct: 72 FYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHR 131
Query: 748 VGRTARVGHEGSSL 761
+GR+ R GH G ++
Sbjct: 132 IGRSGRFGHLGLAI 145
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 67.8 bits (164), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 61/225 (27%), Positives = 116/225 (51%), Gaps = 34/225 (15%)
Query: 386 LFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGG--DVLVRSQTGSGKT 443
L++ S++E G+ P + K + M + + +Q+ ++ +L +++ +SQ+G+GKT
Sbjct: 18 LYSAKSFDEL-GLAPELLKGIY-AMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKT 75
Query: 444 LAYAIPIIQKL--QEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFT-----WI 496
A+++ ++ ++ ++ P+ A+ + P+RELA QTLE+ ++ K FT I
Sbjct: 76 AAFSLTMLTRVNPEDASPQ--------AICLAPSRELARQTLEVVQEMGK-FTKITSQLI 126
Query: 497 VPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRILD 556
VP +++ ++ ++V TPG +LD + + ++ K++ VLDEAD +LD
Sbjct: 127 VPDSFEKNKQINAQ---------VIVGTPGTVLDLMRR-KLMQLQKIKIFVLDEADNMLD 176
Query: 557 -QGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQN 600
QG L K Q +L SAT AV++ A + N
Sbjct: 177 QQGLGDQCIRVKRFLPKDT---QLVLFSATFADAVRQYAKKIVPN 218
Score = 61.2 bits (147), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 77/134 (57%), Gaps = 26/134 (19%)
Query: 22 DVLVRSQTGSGKTLAYAIPIIQKL--QEMRPKISRKDGIYAVIILPTRELALQTLEIFTK 79
+++ +SQ+G+GKT A+++ ++ ++ ++ P+ A+ + P+RELA QTLE+ +
Sbjct: 63 NMIAQSQSGTGKTAAFSLTMLTRVNPEDASPQ--------AICLAPSRELARQTLEVVQE 114
Query: 80 LCKSFT-----WIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKV 134
+ K FT IVP +++ ++ ++V TPG +LD + + ++ K+
Sbjct: 115 MGK-FTKITSQLIVPDSFEKNKQINAQ---------VIVGTPGTVLDLMRR-KLMQLQKI 163
Query: 135 EHLVLDEADRILDQ 148
+ VLDEAD +LDQ
Sbjct: 164 KIFVLDEADNMLDQ 177
Score = 30.4 bits (67), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 35/77 (45%), Gaps = 5/77 (6%)
Query: 178 TPATCW-CKHTETLKFSKVEHLVLDEADRILD-QGYERDIAEFLEILKKQKPQFQSVLLS 235
TP T + ++ K++ VLDEAD +LD QG L K Q VL S
Sbjct: 145 TPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDT---QLVLFS 201
Query: 236 ATLTPAVQRLAGMTLQN 252
AT AV++ A + N
Sbjct: 202 ATFADAVRQYAKKIVPN 218
>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 = 66.2 bits (160), Expect = 7e-11, Method: Composition-based stats.
Identities = 43/87 (49%), Positives = 51/87 (58%)
Query: 690 LHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVG 749
LHG MSQ ER V FR + VL+ TDVAARGLD+P VD +V Y P + Y HR G
Sbjct: 58 LHGDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSG 117
Query: 750 RTARVGHEGSSLLFLIPSEVKLVEELQ 776
RT R G G +L P E + VE L+
Sbjct: 118 RTGRAGRGGRVVLLYGPRERRDVEALE 144
>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 = 64.7 bits (156), Expect = 2e-10, Method: Composition-based stats.
Identities = 42/87 (48%), Positives = 51/87 (58%)
Query: 690 LHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVG 749
LHG +SQ ER V FR + VL+ TDVAARGLD+P VD +V Y P + Y HR G
Sbjct: 61 LHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSG 120
Query: 750 RTARVGHEGSSLLFLIPSEVKLVEELQ 776
RT R G G +L P E + VE L+
Sbjct: 121 RTGRAGRGGRVVLLYGPRERRDVEALE 147
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 63.5 bits (153), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 56/104 (53%), Gaps = 1/104 (0%)
Query: 676 LLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQY 735
L ++ +N +H M Q ER ++ F+ + +L+ T++ RG+D+ V+ Y
Sbjct: 47 LAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNY 106
Query: 736 TAPSSSTDYVHRVGRTARVGHEGSSLLFLI-PSEVKLVEELQNR 778
P S Y+HRV R R G +G ++ F+ ++ K++ ++Q+R
Sbjct: 107 DMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDR 150
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 60.1 bits (144), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 45/174 (25%), Positives = 89/174 (51%), Gaps = 17/174 (9%)
Query: 431 DVLVRSQTGSGKTLAYAIPIIQKLQEMR--PKISRKDGIYAVIILPTRELALQTLEIFTK 488
+++ +SQ+G+GKT A+ + ++ +++ P+ + + PT ELALQT ++ +
Sbjct: 133 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQ 184
Query: 489 LCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVL 548
+ K + + ++ G K++ + + I++ TPG +LD C + + K++ VL
Sbjct: 185 MGKFYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVL 241
Query: 549 DEAD-RILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNP 601
DEAD I QG++ +L + Q +L SAT +V + A + +P
Sbjct: 242 DEADVMIATQGHQDQSIRIQRMLPR---NCQMLLFSATFEDSVWKFAQKVVPDP 292
Score = 56.2 bits (134), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 42/159 (26%), Positives = 82/159 (51%), Gaps = 17/159 (10%)
Query: 22 DVLVRSQTGSGKTLAYAIPIIQKLQEMR--PKISRKDGIYAVIILPTRELALQTLEIFTK 79
+++ +SQ+G+GKT A+ + ++ +++ P+ + + PT ELALQT ++ +
Sbjct: 133 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQ 184
Query: 80 LCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVL 139
+ K + + ++ G K++ + + I++ TPG +LD C + + K++ VL
Sbjct: 185 MGKFYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVL 241
Query: 140 DEAD-RILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
DEAD I QG++ +L + Q +L SAT
Sbjct: 242 DEADVMIATQGHQDQSIRIQRMLPR---NCQMLLFSATF 277
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 37/79 (46%), Gaps = 6/79 (7%)
Query: 178 TPATC--WCKHTETLKFSKVEHLVLDEAD-RILDQGYERDIAEFLEILKKQKPQFQSVLL 234
TP T WC + + K++ VLDEAD I QG++ +L + Q +L
Sbjct: 217 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPR---NCQMLLF 273
Query: 235 SATLTPAVQRLAGMTLQNP 253
SAT +V + A + +P
Sbjct: 274 SATFEDSVWKFAQKVVPDP 292
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 60.1 bits (144), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 45/174 (25%), Positives = 89/174 (51%), Gaps = 17/174 (9%)
Query: 431 DVLVRSQTGSGKTLAYAIPIIQKLQEMR--PKISRKDGIYAVIILPTRELALQTLEIFTK 488
+++ +SQ+G+GKT A+ + ++ +++ P+ + + PT ELALQT ++ +
Sbjct: 66 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQ 117
Query: 489 LCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVL 548
+ K + + ++ G K++ + + I++ TPG +LD C + + K++ VL
Sbjct: 118 MGKFYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVL 174
Query: 549 DEAD-RILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNP 601
DEAD I QG++ +L + Q +L SAT +V + A + +P
Sbjct: 175 DEADVMIATQGHQDQSIRIQRMLPR---NCQMLLFSATFEDSVWKFAQKVVPDP 225
Score = 56.2 bits (134), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 42/159 (26%), Positives = 82/159 (51%), Gaps = 17/159 (10%)
Query: 22 DVLVRSQTGSGKTLAYAIPIIQKLQEMR--PKISRKDGIYAVIILPTRELALQTLEIFTK 79
+++ +SQ+G+GKT A+ + ++ +++ P+ + + PT ELALQT ++ +
Sbjct: 66 NLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQ--------CLCLSPTYELALQTGKVIEQ 117
Query: 80 LCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVL 139
+ K + + ++ G K++ + + I++ TPG +LD C + + K++ VL
Sbjct: 118 MGKFYPELKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVL 174
Query: 140 DEAD-RILDQGYERDIAEFLEILKKQKPQFQSILLSATL 177
DEAD I QG++ +L + Q +L SAT
Sbjct: 175 DEADVMIATQGHQDQSIRIQRMLPR---NCQMLLFSATF 210
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 37/79 (46%), Gaps = 6/79 (7%)
Query: 178 TPATC--WCKHTETLKFSKVEHLVLDEAD-RILDQGYERDIAEFLEILKKQKPQFQSVLL 234
TP T WC + + K++ VLDEAD I QG++ +L + Q +L
Sbjct: 150 TPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPR---NCQMLLF 206
Query: 235 SATLTPAVQRLAGMTLQNP 253
SAT +V + A + +P
Sbjct: 207 SATFEDSVWKFAQKVVPDP 225
>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 = 56.2 bits (134), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 6/75 (8%)
Query: 690 LHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTD------ 743
L G ++ +R + + FR K VLI T+V ARG+D+ V +V + P +
Sbjct: 64 LSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYET 123
Query: 744 YVHRVGRTARVGHEG 758
Y+HR+GRT R G +G
Sbjct: 124 YLHRIGRTGRFGKKG 138
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 53.5 bits (127), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 33/102 (32%), Positives = 58/102 (56%)
Query: 675 ELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQ 734
EL + + + ++ + Q ER + K FRS S +LI TD+ ARG+D+ V ++
Sbjct: 45 ELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVIN 104
Query: 735 YTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVEELQ 776
Y P++ +Y+HR+GR R G +G ++ F+ +V + EL+
Sbjct: 105 YDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELE 146
>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 = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 35/132 (26%), Positives = 68/132 (51%), Gaps = 12/132 (9%)
Query: 20 GGDVLVRSQTGSGKTLAYAIPIIQKL--QEMRPKISRKDGIYAVIILPTRELALQTLEIF 77
G D++V++++G+GKT ++ + L + + +I +I+ PTRE+A+Q +
Sbjct: 61 GLDLIVQAKSGTGKTCVFSTIALDSLVLENLSTQI--------LILAPTREIAVQIHSVI 112
Query: 78 TKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHL 137
T + + GG + +K R++K I V +PGR+ + L +
Sbjct: 113 TAIGIKMEGLECHVFIGGTPLSQDKTRLKK-CHIAVGSPGRI-KQLIELDYLNPGSIRLF 170
Query: 138 VLDEADRILDQG 149
+LDEAD++L++G
Sbjct: 171 ILDEADKLLEEG 182
Score = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 35/132 (26%), Positives = 68/132 (51%), Gaps = 12/132 (9%)
Query: 429 GGDVLVRSQTGSGKTLAYAIPIIQKL--QEMRPKISRKDGIYAVIILPTRELALQTLEIF 486
G D++V++++G+GKT ++ + L + + +I +I+ PTRE+A+Q +
Sbjct: 61 GLDLIVQAKSGTGKTCVFSTIALDSLVLENLSTQI--------LILAPTREIAVQIHSVI 112
Query: 487 TKLCKSFTWIVPSWLTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHL 546
T + + GG + +K R++K I V +PGR+ + L +
Sbjct: 113 TAIGIKMEGLECHVFIGGTPLSQDKTRLKK-CHIAVGSPGRI-KQLIELDYLNPGSIRLF 170
Query: 547 VLDEADRILDQG 558
+LDEAD++L++G
Sbjct: 171 ILDEADKLLEEG 182
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 50.1 bits (118), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 87/389 (22%), Positives = 148/389 (38%), Gaps = 79/389 (20%)
Query: 403 KKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIP--IIQKLQEM-RP 459
K+ L E Q Q+ I +L G D LV TG GK+L Y IP ++ L + P
Sbjct: 14 KQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALLLNGLTVVVSP 73
Query: 460 KIS---------RKDGIYAVII--LPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMK 508
IS + +G+ A + TRE Q LE+ T C++ G+
Sbjct: 74 LISLMKDQVDQLQANGVAAACLNSTQTRE---QQLEVMTG-CRT-----------GQ--- 115
Query: 509 SEKARIRKGISILVATPGRL-----LDHCKHTETLKFSKVEHLVLDEADRILDQGYE-RD 562
I +L P RL L+H H + L +DEA I G++ R
Sbjct: 116 ---------IRLLYIAPERLMLDNFLEHLAHWNPVL------LAVDEAHCISQWGHDFRP 160
Query: 563 IAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIP 622
L L+++ P + L+AT AD T + L +
Sbjct: 161 EYAALGQLRQRFPTLPFMALTAT---------------------ADDTTRQDIVRLLGLN 199
Query: 623 DSLKQHFIVTPPKLRLVALASF--ILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTV 680
D L Q P +R + + F + + V E +++ ++ + L +
Sbjct: 200 DPLIQISSFDRPNIRYMLMEKFKPLDQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQS- 258
Query: 681 LGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSS 740
+ I+ H + + R +V + F+ +++ T G++ P V ++V + P +
Sbjct: 259 --KGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRN 316
Query: 741 STDYVHRVGRTARVGHEGSSLLFLIPSEV 769
Y GR R G ++LF P+++
Sbjct: 317 IESYYQETGRAGRDGLPAEAMLFYDPADM 345
Score = 30.8 bits (68), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 19/33 (57%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPII 42
Q+ I +L G D LV TG GK+L Y IP +
Sbjct: 30 QEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL 62
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 49.3 bits (116), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 76/354 (21%), Positives = 137/354 (38%), Gaps = 66/354 (18%)
Query: 433 LVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQ----TLEIFTK 488
L++ GSGKT+ + I+ + G ++PT LA+Q T+E F+K
Sbjct: 393 LLQGDVGSGKTVVAQLAILDNYEA---------GFQTAFMVPTSILAIQHYRRTVESFSK 443
Query: 489 LCKSFTWIVPSWLTGGEKMKSEKARIRKG-----ISILVATPGRLLDHCKHTETLKFSKV 543
++ G SEK +I+ G I +++ T H E + F +
Sbjct: 444 FNIHVALLI------GATTPSEKEKIKSGLRNGQIDVVIGT------HALIQEDVHFKNL 491
Query: 544 EHLVLDEADRILDQGYERDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQ 603
+++DE R G ++ E L + ++++SAT P R + +
Sbjct: 492 GLVIIDEQHRF---GVKQR-----EALMNKGKMVDTLVMSATPIP---RSMALAFYGDLD 540
Query: 604 IDAADSTDIHNTTDSLVIPDSLKQHFIVTPPKLRLVALASFILGKCQNVNED-------E 656
+ D +P K+ + P R+ + F+ + + E
Sbjct: 541 VTVIDE-----------MPPGRKEVQTMLVPMDRVNEVYEFVRQEVMRGGQAFIVYPLIE 589
Query: 657 ESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLIC 716
ES L + +M +Y LS + +HG +SQ E+ V F + +L+
Sbjct: 590 ESDKLNVKSAVEMYEY----LSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVS 645
Query: 717 TDVAARGLDLPLVDWIVQYTAPSSSTDYVHRV-GRTARVGHEGSSLLFLIPSEV 769
T V G+D+P + +V +H++ GR R G E + FL+ +V
Sbjct: 646 TTVIEVGIDVPRANVMVIENPERFGLAQLHQLRGRVGRGGQE--AYCFLVVGDV 697
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 86/388 (22%), Positives = 141/388 (36%), Gaps = 79/388 (20%)
Query: 403 KKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIP--IIQKLQ-EMRP 459
K+ L E Q Q+ I +L G D LV TG GK+L Y IP ++ L + P
Sbjct: 14 KQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALLLNGLTVVVSP 73
Query: 460 KIS---------RKDGIYAVII--LPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKMK 508
IS + +G+ A + TRE Q LE+ T C++
Sbjct: 74 LISLXKDQVDQLQANGVAAACLNSTQTRE---QQLEVXTG-CRTGQ-------------- 115
Query: 509 SEKARIRKGISILVATPGRL-----LDHCKHTETLKFSKVEHLVLDEADRILDQGYE-RD 562
I +L P RL L+H H + L +DEA I G++ R
Sbjct: 116 ---------IRLLYIAPERLXLDNFLEHLAHWNPVL------LAVDEAHCISQWGHDFRP 160
Query: 563 IAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVIP 622
L L+++ P L+AT AD T + L +
Sbjct: 161 EYAALGQLRQRFPTLPFXALTAT---------------------ADDTTRQDIVRLLGLN 199
Query: 623 DSLKQHFIVTPPKLRLVALASF--ILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTV 680
D L Q P +R F + + V E +++ ++ + L +
Sbjct: 200 DPLIQISSFDRPNIRYXLXEKFKPLDQLXRYVQEQRGKSGIIYCNSRAKVEDTAARLQS- 258
Query: 681 LGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSS 740
+ I+ H + + R +V + F+ +++ T G++ P V ++V + P +
Sbjct: 259 --KGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPRN 316
Query: 741 STDYVHRVGRTARVGHEGSSLLFLIPSE 768
Y GR R G + LF P++
Sbjct: 317 IESYYQETGRAGRDGLPAEAXLFYDPAD 344
Score = 30.8 bits (68), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 19/33 (57%)
Query: 10 QQLSIQPILDGGDVLVRSQTGSGKTLAYAIPII 42
Q+ I +L G D LV TG GK+L Y IP +
Sbjct: 30 QEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPAL 62
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 53/112 (47%), Gaps = 11/112 (9%)
Query: 650 QNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHG--------SMSQSERTE 701
+ + + SK++VF ++ A ++++ ++ + I + G +SQ E+
Sbjct: 354 EQLQRKQNSKIIVFTNYRETAK---KIVNELVKDGIKAKRFVGQASKENDRGLSQREQKL 410
Query: 702 VFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTAR 753
+ F + VL+ T V GLD+P VD +V Y S+ + R GRT R
Sbjct: 411 ILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR 462
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 43/173 (24%), Positives = 77/173 (44%), Gaps = 22/173 (12%)
Query: 29 TGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIV 88
TG GKTL I + E R K G +++ PT+ L LQ E F +L +
Sbjct: 32 TGLGKTL-----IAMMIAEYR---LTKYGGKVLMLAPTKPLVLQHAESFRRLFN----LP 79
Query: 89 PSWLTG--GEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLVLDEADRIL 146
P + GEK E+++ ++VATP + +++ + V +V DEA R +
Sbjct: 80 PEKIVALTGEKSPEERSKAWARAKVIVATP-QTIENDLLAGRISLEDVSLIVFDEAHRAV 138
Query: 147 DQGYERDIAEFLEILKKQKPQFQS-ILLSATLTPATCWCKHTETLKFSKVEHL 198
++ I ++ K Q ++ +++ T +P + K E + +EH+
Sbjct: 139 GN------YAYVFIAREYKRQAKNPLVIGLTASPGSTPEKIMEVINNLGIEHI 185
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 43.1 bits (100), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 9/77 (11%)
Query: 694 MSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTAR 753
M+Q+E+ EV FR+ K +LI T VA GLD+ + +++Y ++ V GR AR
Sbjct: 448 MTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARGR-AR 506
Query: 754 --------VGHEGSSLL 762
V H GS ++
Sbjct: 507 ADESTYVLVAHSGSGVI 523
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 2/89 (2%)
Query: 691 HGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRV-G 749
HG M + E V F + VL+CT + G+D+P + I+ A +H++ G
Sbjct: 845 HGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLRG 904
Query: 750 RTARVGHEGSSLLFLIPSEVKLVEELQNR 778
R R H+ + L L P + + Q R
Sbjct: 905 RVGRSHHQAYAWL-LTPHPKAMTTDAQKR 932
>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 = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 56/124 (45%), Gaps = 10/124 (8%)
Query: 645 ILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFK 704
++G+ Q E E ++LV T+ M++ T+ L + I LH + ER E+ +
Sbjct: 440 LIGEIQARIERNE-RVLVTTLTKKMSEDLTDYLKEI---GIKVNYLHSEIKTLERIEIIR 495
Query: 705 TFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPS-----SSTDYVHRVGRTARVGHEGS 759
R K VL+ ++ GLD+P V + A S + +GR AR EG
Sbjct: 496 DLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR-NAEGR 554
Query: 760 SLLF 763
+++
Sbjct: 555 VIMY 558
>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 = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 56/124 (45%), Gaps = 10/124 (8%)
Query: 645 ILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFK 704
++G+ Q E E ++LV T+ M++ T+ L + I LH + ER E+ +
Sbjct: 434 LIGEIQARIERNE-RVLVTTLTKKMSEDLTDYLKEI---GIKVNYLHSEIKTLERIEIIR 489
Query: 705 TFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPS-----SSTDYVHRVGRTARVGHEGS 759
R K VL+ ++ GLD+P V + A S + +GR AR EG
Sbjct: 490 DLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR-NAEGR 548
Query: 760 SLLF 763
+++
Sbjct: 549 VIMY 552
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 38.5 bits (88), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 33/59 (55%)
Query: 695 SQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTAR 753
S+ ER E+ + FR+ + ++ + V G+D+P + V + S+ +Y+ R+GR R
Sbjct: 379 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 437
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 37.7 bits (86), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 78/389 (20%), Positives = 149/389 (38%), Gaps = 50/389 (12%)
Query: 388 APTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYA 447
A + E+FP +K L + + +Q +I + G +V + TG GK+L Y
Sbjct: 19 AAWNKEDFPWSGK-VKDILQNVFKLEKFRPLQLETINVTMAGKEVFLVMPTGGGKSLCYQ 77
Query: 448 IPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWLTGGEKM 507
+P + DG + ++I P L L + +L S T + S + E +
Sbjct: 78 LPALCS-----------DG-FTLVICPLISLMEDQLMVLKQLGISATMLNAS--SSKEHV 123
Query: 508 K---SEKARIRKGISILVATPGRLLDHC-------KHTETLKFSKVEHLVLDEADRILDQ 557
K +E + ++ TP ++ K E +F+++ +DE
Sbjct: 124 KWVHAEMVNKNSELKLIYVTPEKIAKSKMFMSRLEKAYEARRFTRI---AVDEVHCCSQW 180
Query: 558 GYE-RDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTT 616
G++ R + L ILK+Q P I L+AT T V D+ I
Sbjct: 181 GHDFRPDYKALGILKRQFPNASLIGLTATATNHV---------------LTDAQKILCIE 225
Query: 617 DSLVIPDSLKQHFIVTPPKLRLVALASFI--LGKCQNVNEDEESKMLVFMATQDMADYHT 674
S + + + + FI + K N +S ++ + +D
Sbjct: 226 KCFTFTASFNRPNLYYEVRQKPSNTEDFIEDIVKLINGRYKGQSGIIYCFSQKDSEQVTV 285
Query: 675 ELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQ 734
L + LG + + H ++ ++T V + + + + V++ T G+D P V +++
Sbjct: 286 SLQN--LGIHAGAY--HANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIH 341
Query: 735 YTAPSSSTDYVHRVGRTARVGHEGSSLLF 763
++ S +Y GR R + +L+
Sbjct: 342 HSMSKSMENYYQESGRAGRDDMKADCILY 370
Score = 30.4 bits (67), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 44/181 (24%), Positives = 76/181 (41%), Gaps = 28/181 (15%)
Query: 9 VQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRE 68
+Q +I + G +V + TG GK+L Y +P + DG + ++I P
Sbjct: 48 LQLETINVTMAGKEVFLVMPTGGGKSLCYQLPALC-----------SDG-FTLVICPLIS 95
Query: 69 LALQTLEIFTKLCKSFTWIVPSWLTGGEKMK---SEKARIRKGISILVATPGRLLDHC-- 123
L L + +L S T + S + E +K +E + ++ TP ++
Sbjct: 96 LMEDQLMVLKQLGISATMLNAS--SSKEHVKWVHAEMVNKNSELKLIYVTPEKIAKSKMF 153
Query: 124 -----KHTETLKFSKVEHLVLDEADRILDQGYE-RDIAEFLEILKKQKPQFQSILLSATL 177
K E +F+++ +DE G++ R + L ILK+Q P I L+AT
Sbjct: 154 MSRLEKAYEARRFTRI---AVDEVHCCSQWGHDFRPDYKALGILKRQFPNASLIGLTATA 210
Query: 178 T 178
T
Sbjct: 211 T 211
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 37.7 bits (86), Expect = 0.030, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 33/59 (55%)
Query: 695 SQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTAR 753
S+ ER E+ + FR+ + ++ + V G+D+P + V + S+ +Y+ R+GR R
Sbjct: 144 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 202
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 37.4 bits (85), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 52/114 (45%), Gaps = 9/114 (7%)
Query: 645 ILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFK 704
++G+ + E E + LV T+ MA+ T+ L G +A+ LH + ER E+ +
Sbjct: 433 LIGEIRERVERNE-RTLVTTLTKKMAEDLTDYLKEA-GIKVAY--LHSEIKTLERIEIIR 488
Query: 705 TFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPS-----SSTDYVHRVGRTAR 753
R K VL+ ++ GLD+P V + A S + +GR AR
Sbjct: 489 DLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 542
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 37.4 bits (85), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 52/114 (45%), Gaps = 9/114 (7%)
Query: 645 ILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFK 704
++G+ + E E + LV T+ MA+ T+ L G +A+ LH + ER E+ +
Sbjct: 434 LIGEIRERVERNE-RTLVTTLTKKMAEDLTDYLKEA-GIKVAY--LHSEIKTLERIEIIR 489
Query: 705 TFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPS-----SSTDYVHRVGRTAR 753
R K VL+ ++ GLD+P V + A S + +GR AR
Sbjct: 490 DLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 543
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 37.4 bits (85), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 52/114 (45%), Gaps = 9/114 (7%)
Query: 645 ILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFK 704
++G+ + E E + LV T+ MA+ T+ L G +A+ LH + ER E+ +
Sbjct: 434 LIGEIRERVERNE-RTLVTTLTKKMAEDLTDYLKEA-GIKVAY--LHSEIKTLERIEIIR 489
Query: 705 TFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPS-----SSTDYVHRVGRTAR 753
R K VL+ ++ GLD+P V + A S + +GR AR
Sbjct: 490 DLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 543
>pdb|1T5L|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
pdb|1T5L|B Chain B, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
Length = 658
Score = 37.4 bits (85), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 52/114 (45%), Gaps = 9/114 (7%)
Query: 645 ILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFK 704
++G+ + E E + LV T+ MA+ T+ L G +A+ LH + ER E+ +
Sbjct: 434 LIGEIRERVERNE-RTLVTTLTKKMAEDLTDYLKEA-GIKVAY--LHSEIKTLERIEIIR 489
Query: 705 TFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPS-----SSTDYVHRVGRTAR 753
R K VL+ ++ GLD+P V + A S + +GR AR
Sbjct: 490 DLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 543
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 37.0 bits (84), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 51/114 (44%), Gaps = 9/114 (7%)
Query: 645 ILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFK 704
++G+ E E + LV T+ MA+ T+ L G +A+ LH + ER E+ +
Sbjct: 459 LIGEIHERVERNE-RTLVTTLTKKMAEDLTDYLKEA-GIKVAY--LHSEIKTLERIEIIR 514
Query: 705 TFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPS-----SSTDYVHRVGRTAR 753
R K VL+ ++ GLD+P V + A S + +GR AR
Sbjct: 515 DLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 568
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 26/41 (63%)
Query: 695 SQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQY 735
+Q+E+ EV FR+ K +LI T VA GLD+ + +++Y
Sbjct: 199 TQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 239
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 33.9 bits (76), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 77/340 (22%), Positives = 142/340 (41%), Gaps = 61/340 (17%)
Query: 424 QPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTL 483
+ +L+G +L+ S TGSGKTL + II L K+G A+ + P R L +
Sbjct: 41 KGLLEGNRLLLTSPTGSGKTLIAEMGIISFLL--------KNGGKAIYVTPLRALTNEKY 92
Query: 484 EIFTKLCKSFTWIVPSW---LTGGEKMKSEKARIRKGISILVATPGRLLDHCKHTETLKF 540
F W + + +T G+ ++ A + K I++ T +L +H
Sbjct: 93 LTFK------DWELIGFKVAMTSGD-YDTDDAWL-KNYDIIITTYEKLDSLWRHRPEW-L 143
Query: 541 SKVEHLVLDEADRILDQGYERD-IAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQ 599
++V + VLDE + D ER + E + I K++ + LSAT++ Q +A
Sbjct: 144 NEVNYFVLDELHYLNDP--ERGPVVESVTIRAKRR---NLLALSATISNYKQ-IAKWLGA 197
Query: 600 NPIQIDA-----------------------ADSTDIHNTTDSLVIP---DSLKQH--FIV 631
P+ + D+T D +I DSL ++ +V
Sbjct: 198 EPVATNWRPVPLIEGVIYPERKKKEYNVIFKDNTTKKVHGDDAIIAYTLDSLSKNGQVLV 257
Query: 632 TPPKLRLVALASFILGKCQN-VNEDEESKMLVFMATQDMADYHT---ELLSTVLGENIAF 687
++ + + N V+ DE + + D+ + + ELL +++ + +A+
Sbjct: 258 FRNSRKMAESTALKIANYMNFVSLDENALSEILKQLDDIEEGGSDEKELLKSLISKGVAY 317
Query: 688 FKLHGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLP 727
H +S++ R + + FR K V++ T A G++LP
Sbjct: 318 H--HAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLP 355
Score = 29.3 bits (64), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 8/55 (14%)
Query: 15 QPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTREL 69
+ +L+G +L+ S TGSGKTL + II L K+G A+ + P R L
Sbjct: 41 KGLLEGNRLLLTSPTGSGKTLIAEMGIISFLL--------KNGGKAIYVTPLRAL 87
>pdb|1TWI|A Chain A, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschii In Co-Complex With L-Lysine
pdb|1TWI|B Chain B, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschii In Co-Complex With L-Lysine
pdb|1TWI|C Chain C, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschii In Co-Complex With L-Lysine
pdb|1TWI|D Chain D, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschii In Co-Complex With L-Lysine
Length = 434
Score = 33.1 bits (74), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 42/176 (23%), Positives = 78/176 (44%), Gaps = 20/176 (11%)
Query: 561 RDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLV 620
R + +F+ LK++ + + + L L + Q P Q D AD+ I NT L
Sbjct: 226 RKVMDFVVELKEEGIEIEDVNLGGGLGIPYYK----DKQIPTQKDLADA--IINTM--LK 277
Query: 621 IPDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQD------MADYHT 674
D ++ ++ P LVA A ++LGK ++ E +K ++ A + M + +
Sbjct: 278 YKDKVEMPNLILEPGRSLVATAGYLLGKVHHIKETPVTKWVMIDAGMNDMMRPAMYEAYH 337
Query: 675 ELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRS---VKSG-VLICTDVAARGLDL 726
+++ + + G + +S ++VF R V+ G VL DV A G+ +
Sbjct: 338 HIINCKVKNEKEVVSIAGGLCES--SDVFGRDRELDKVEVGDVLAIFDVGAYGISM 391
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 30/110 (27%), Positives = 51/110 (46%), Gaps = 9/110 (8%)
Query: 213 RDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLV 272
R + +F+ LK++ + + V L L + Q P Q D AD+ I NT L
Sbjct: 226 RKVMDFVVELKEEGIEIEDVNLGGGLGIPYYK----DKQIPTQKDLADA--IINTM--LK 277
Query: 273 IPDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESK-MLVFMATQDM 321
D ++ ++ P LVA A ++LGK ++ E +K +++ DM
Sbjct: 278 YKDKVEMPNLILEPGRSLVATAGYLLGKVHHIKETPVTKWVMIDAGMNDM 327
>pdb|1TUF|A Chain A, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschi
pdb|1TUF|B Chain B, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschi
Length = 434
Score = 33.1 bits (74), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 42/176 (23%), Positives = 78/176 (44%), Gaps = 20/176 (11%)
Query: 561 RDIAEFLEILKKQKPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLV 620
R + +F+ LK++ + + + L L + Q P Q D AD+ I NT L
Sbjct: 226 RKVMDFVVELKEEGIEIEDVNLGGGLGIPYYK----DKQIPTQKDLADA--IINTM--LK 277
Query: 621 IPDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQD------MADYHT 674
D ++ ++ P LVA A ++LGK ++ E +K ++ A + M + +
Sbjct: 278 YKDKVEMPNLILEPGRSLVATAGYLLGKVHHIKETPVTKWVMIDAGMNDMMRPAMYEAYH 337
Query: 675 ELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRS---VKSG-VLICTDVAARGLDL 726
+++ + + G + +S ++VF R V+ G VL DV A G+ +
Sbjct: 338 HIINCKVKNEKEVVSIAGGLCES--SDVFGRDRELDKVEVGDVLAIFDVGAYGISM 391
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 30/110 (27%), Positives = 51/110 (46%), Gaps = 9/110 (8%)
Query: 213 RDIAEFLEILKKQKPQFQSVLLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLV 272
R + +F+ LK++ + + V L L + Q P Q D AD+ I NT L
Sbjct: 226 RKVMDFVVELKEEGIEIEDVNLGGGLGIPYYK----DKQIPTQKDLADA--IINTM--LK 277
Query: 273 IPDSLKQHFIVTPPKLRLVALASFILGKCQNVNEDEESK-MLVFMATQDM 321
D ++ ++ P LVA A ++LGK ++ E +K +++ DM
Sbjct: 278 YKDKVEMPNLILEPGRSLVATAGYLLGKVHHIKETPVTKWVMIDAGMNDM 327
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 32.7 bits (73), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 22/97 (22%), Positives = 40/97 (41%)
Query: 659 KMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSGVLICTD 718
K+LV A A ++L G A F S+ + +R + + VL+C++
Sbjct: 505 KVLVICAKAATALQLEQVLREREGIRAAVFHEGXSIIERDRAAAWFAEEDTGAQVLLCSE 564
Query: 719 VAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVG 755
+ + G + V + P + R+GR R+G
Sbjct: 565 IGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIG 601
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 34/139 (24%), Positives = 59/139 (42%), Gaps = 22/139 (15%)
Query: 657 ESKMLVFMATQDMADYHTELLSTVLGENIAF-FKLHGSMSQSERTE------------VF 703
E+K ++F+ T+ + D L + EN A F G ++ RT V
Sbjct: 389 ETKTILFVKTRALVD----ALKKWIEENPALSFLKPGILTGRGRTNRATGXTLPAQKCVL 444
Query: 704 KTFR-SVKSGVLICTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLL 762
+ FR S + +LI T VA G+D+ + ++ Y + + GR G S
Sbjct: 445 EAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGR----GRARDSKC 500
Query: 763 FLIPSEVKLVEELQNRRIR 781
FL+ S ++E+ + I+
Sbjct: 501 FLLTSSADVIEKEKANXIK 519
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 27/123 (21%), Positives = 55/123 (44%), Gaps = 6/123 (4%)
Query: 659 KMLVFMATQDMADYHTELLSTVLGENIAFFKLHGSMSQSERTEVFKTFRSVKSG---VLI 715
++L+F M D + LS + I F +L G++ ++R F S S L+
Sbjct: 574 RVLIFSQMVRMLDILGDYLSI---KGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLL 630
Query: 716 CTDVAARGLDLPLVDWIVQYTAPSSSTDYVHRVGRTARVGHEGSSLLFLIPSEVKLVEEL 775
T G++L D +V + + + + + R R+G + +++ + S+ + EE+
Sbjct: 631 STRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEV 690
Query: 776 QNR 778
R
Sbjct: 691 LER 693
>pdb|2F8S|A Chain A, Crystal Structure Of Aa-Ago With Externally-Bound Sirna
pdb|2F8S|B Chain B, Crystal Structure Of Aa-Ago With Externally-Bound Sirna
pdb|2F8T|A Chain A, Crystal Structure Of Aa-Ago With Externally-Bound Sirna
pdb|2F8T|B Chain B, Crystal Structure Of Aa-Ago With Externally-Bound Sirna
pdb|2NUB|A Chain A, Structure Of Aquifex Aeolicus Argonuate
Length = 706
Score = 31.2 bits (69), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 59/212 (27%), Positives = 87/212 (41%), Gaps = 53/212 (25%)
Query: 393 EEFPGIHP--------FMKKNLNEGMNITQVT---TVQQLSIQPILDGGDVLVRSQTGSG 441
EE+P + P F+K+ L + M +QV T++ +++ +L V ++TG+
Sbjct: 425 EEYPKVDPYKSFLLYDFVKRELLKKMIPSQVILNRTLKNENLKFVLLNVAEQVLAKTGN- 483
Query: 442 KTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLCKSFTWIVPSWL 501
IP KL+E+ K+ GI I TR+ FTK+ S +V +L
Sbjct: 484 ------IPY--KLKEIEGKVDAFVGIDISRI--TRDGKTVNAVAFTKIFNSKGELVRYYL 533
Query: 502 TG----GEKMKS----------EKARIRKGISILVATPGRLLDHCKHTETLKFSKVEHLV 547
T GEK+ EK +KG I+V GRL E F K L
Sbjct: 534 TSYPAFGEKLTEKAIGDVFSLLEKLGFKKGSKIVVHRDGRLY----RDEVAAFKKYGELY 589
Query: 548 LDEADRILDQGYERDIAEFLEILKKQKPQFQS 579
GY E LEI+K+ P+F S
Sbjct: 590 ----------GYS---LELLEIIKRNNPRFFS 608
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 36/144 (25%), Positives = 59/144 (40%), Gaps = 26/144 (18%)
Query: 691 HGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSS---------- 740
H M++ +RT V F VL+ T A G++LP I++ T S
Sbjct: 385 HAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELG 444
Query: 741 STDYVHRVGRTARVGHE--GSSLLFLIPSEVKLVEELQNRRIRIEE---IKLKDCLQNLL 795
+ D + +GR R ++ G +L E++ L N+++ IE KL D L
Sbjct: 445 ALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQLPIESQMVSKLPDMLN--- 501
Query: 796 SVKMEGDLSRLADGNVETAATALQ 819
+ + GNV+ A A+
Sbjct: 502 --------AEIVLGNVQNAKDAVN 517
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 31.2 bits (69), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 36/144 (25%), Positives = 59/144 (40%), Gaps = 26/144 (18%)
Query: 691 HGSMSQSERTEVFKTFRSVKSGVLICTDVAARGLDLPLVDWIVQYTAPSS---------- 740
H M++ +RT V F VL+ T A G++LP I++ T S
Sbjct: 385 HAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELG 444
Query: 741 STDYVHRVGRTARVGHE--GSSLLFLIPSEVKLVEELQNRRIRIEE---IKLKDCLQNLL 795
+ D + +GR R ++ G +L E++ L N+++ IE KL D L
Sbjct: 445 ALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQLPIESQMVSKLPDMLN--- 501
Query: 796 SVKMEGDLSRLADGNVETAATALQ 819
+ + GNV+ A A+
Sbjct: 502 --------AEIVLGNVQNAKDAVN 517
>pdb|4DDT|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 2
pdb|4DDU|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 1
pdb|4DDV|A Chain A, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDV|B Chain B, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDW|A Chain A, Thermotoga Maritima Reverse Gyrase, C-centered
Orthorhombic Form
pdb|4DDX|A Chain A, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
pdb|4DDX|B Chain B, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
Length = 1104
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 46/111 (41%), Gaps = 14/111 (12%)
Query: 380 KPVSEALFAPTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTG 439
K + E F + E+ F KK + + T Q+L + I+ G + + TG
Sbjct: 49 KTLKEYRFYHEFWNEYEDFRSFFKKKFGKDL-----TGYQRLWAKRIVQGKSFTMVAPTG 103
Query: 440 SGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLC 490
GKT + + ++RK G + ++ PT L QTLE KL
Sbjct: 104 VGKTTFGMMTALW--------LARK-GKKSALVFPTVTLVKQTLERLQKLA 145
>pdb|1IOA|A Chain A, Arcelin-5, A Lectin-Like Defense Protein From Phaseolus
Vulgaris
pdb|1IOA|B Chain B, Arcelin-5, A Lectin-Like Defense Protein From Phaseolus
Vulgaris
Length = 240
Score = 30.0 bits (66), Expect = 6.7, Method: Composition-based stats.
Identities = 38/187 (20%), Positives = 74/187 (39%), Gaps = 28/187 (14%)
Query: 574 KPQFQSILLSATLTPAVQRLAGMTLQNPIQIDAADSTDIHNTTDSLVI---PDSLKQHFI 630
K Q Q + + P V L +PIQI +++ NT + +I S+ + +
Sbjct: 28 KGQLQLTGVGSNELPRVDSLGRAFYSDPIQIKDSNNVASFNTNFTFIIRAKNQSISAYGL 87
Query: 631 V-------TPPKLRLVALASFILGKCQNVNEDEESKMLVFMATQDMADYHTELLSTVLGE 683
+PP+ + L F N + + +VF ++ D+ + + E
Sbjct: 88 AFALVPVNSPPQKKQEFLGIF---NTNNPEPNARTVAVVFNTFKNRIDFDKNFIKPYVNE 144
Query: 684 NIAFFKLHGSMSQSERTEVFKTFRSVKSGVLI----------CTDVAARGLDLPLVDWIV 733
N F K +G E+T+V T+ S + + + C+ A L+ + +W+
Sbjct: 145 NCDFHKYNG-----EKTDVQITYDSSNNDLRVFLHFTVSQVKCSVSATVHLEKEVDEWVS 199
Query: 734 QYTAPSS 740
+P+S
Sbjct: 200 VGFSPTS 206
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 29.6 bits (65), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 53/113 (46%), Gaps = 8/113 (7%)
Query: 5 QVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIIL 64
Q+ Q QP L+G ++++ TGSGKT A+ I + + + K S VI+L
Sbjct: 33 QLRPYQMEVAQPALEGKNIIICLPTGSGKT-RVAVYIAKDHLDKKKKASEPG---KVIVL 88
Query: 65 PTRELALQTLEIFTKLCKSF--TWIVPSWLTGGEKMKSEKARIRKGISILVAT 115
+ L ++ L F K + F W L+G ++K + K I+++T
Sbjct: 89 VNKVLLVEQL--FRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIIST 139
Score = 29.6 bits (65), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 53/113 (46%), Gaps = 8/113 (7%)
Query: 414 QVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYAIPIIQKLQEMRPKISRKDGIYAVIIL 473
Q+ Q QP L+G ++++ TGSGKT A+ I + + + K S VI+L
Sbjct: 33 QLRPYQMEVAQPALEGKNIIICLPTGSGKT-RVAVYIAKDHLDKKKKASEPG---KVIVL 88
Query: 474 PTRELALQTLEIFTKLCKSF--TWIVPSWLTGGEKMKSEKARIRKGISILVAT 524
+ L ++ L F K + F W L+G ++K + K I+++T
Sbjct: 89 VNKVLLVEQL--FRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIIST 139
>pdb|1QX7|D Chain D, Crystal Structure Of Apocam Bound To The Gating Domain Of
Small Conductance Ca2+-Activated Potassium Channel
Length = 85
Score = 29.6 bits (65), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 40/73 (54%), Gaps = 4/73 (5%)
Query: 751 TARVGHEGSSLL---FLIPSEVKLVEELQNRRIRIEEIKLKDCLQNLLSVKMEG-DLSRL 806
T RV + +++L +LI KLV+++ + ++R + K + L SVKME L+
Sbjct: 7 TKRVKNAAANVLRETWLIYKNTKLVKKIDHAKVRKHQRKFLQAIHQLRSVKMEQRKLNDQ 66
Query: 807 ADGNVETAATALQ 819
A+ V+ A T L+
Sbjct: 67 ANTLVDLAKTQLE 79
>pdb|3P4Y|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
- P2 Form
Length = 415
Score = 29.3 bits (64), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 43/103 (41%), Gaps = 14/103 (13%)
Query: 388 APTSYEEFPGIHPFMKKNLNEGMNITQVTTVQQLSIQPILDGGDVLVRSQTGSGKTLAYA 447
A + E+ F KK + + T Q+L + I+ G + + TG GKT
Sbjct: 1 AAEFWNEYEDFRSFFKKKFGKDL-----TGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGM 55
Query: 448 IPIIQKLQEMRPKISRKDGIYAVIILPTRELALQTLEIFTKLC 490
+ + ++RK G + ++ PT L QTLE KL
Sbjct: 56 MTALW--------LARK-GKKSALVFPTVTLVKQTLERLQKLA 89
>pdb|1KKD|A Chain A, Solution Structure Of The Calmodulin Binding Domain
(Cambd) Of Small Conductance Ca2+-Activated Potassium
Channels (Sk2)
pdb|4G27|B Chain B, Calcium-Calmodulin Complexed With The Calmodulin Binding
Domain From A Small Conductance Potassium Channel Splice
Variant And Phenylurea
pdb|4G28|B Chain B, Calcium-Calmodulin Complexed With The Calmodulin Binding
Domain From A Small Conductance Potassium Channel Splice
Variant And Ebio-1
Length = 102
Score = 29.3 bits (64), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 40/73 (54%), Gaps = 4/73 (5%)
Query: 751 TARVGHEGSSLL---FLIPSEVKLVEELQNRRIRIEEIKLKDCLQNLLSVKMEG-DLSRL 806
T RV + +++L +LI KLV+++ + ++R + K + L SVKME L+
Sbjct: 24 TKRVKNAAANVLRETWLIYKNTKLVKKIDHAKVRKHQRKFLQAIHQLRSVKMEQRKLNDQ 83
Query: 807 ADGNVETAATALQ 819
A+ V+ A T L+
Sbjct: 84 ANTLVDLAKTQLE 96
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.134 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,951,116
Number of Sequences: 62578
Number of extensions: 979104
Number of successful extensions: 3024
Number of sequences better than 100.0: 104
Number of HSP's better than 100.0 without gapping: 74
Number of HSP's successfully gapped in prelim test: 30
Number of HSP's that attempted gapping in prelim test: 2493
Number of HSP's gapped (non-prelim): 232
length of query: 930
length of database: 14,973,337
effective HSP length: 108
effective length of query: 822
effective length of database: 8,214,913
effective search space: 6752658486
effective search space used: 6752658486
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: 56 (26.2 bits)