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= psy12983
(838 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 314 bits (804), Expect = 2e-85, Method: Compositional matrix adjust.
Identities = 149/220 (67%), Positives = 174/220 (79%)
Query: 385 LSIPSILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGS 444
L + T F +L V ENTLKAI +MGFT MTEIQ ++I PLLEGRDL+ +AKTGS
Sbjct: 43 LGLTGAFEDTSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGS 102
Query: 445 GKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMG 504
GKTLAFL+PAVELI L+FMPRNGTG++I+SPTREL+MQTFGVLKELM +H HTYGLIMG
Sbjct: 103 GKTLAFLIPAVELIVKLRFMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMG 162
Query: 505 GASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDM 564
G++R AEAQKL GINIIVATPGRLLDH+QNTP F+YKNLQCL+IDEADRILD+GFEE++
Sbjct: 163 GSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEEL 222
Query: 565 KQIVNLLPKRRQTMLFSXXXXXXXXXXXXXXXXXXPVYIG 604
KQI+ LLP RRQTMLFS P+Y+G
Sbjct: 223 KQIIKLLPTRRQTMLFSATQTRKVEDLARISLKKEPLYVG 262
>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 = 189 bits (479), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 124/381 (32%), Positives = 195/381 (51%), Gaps = 31/381 (8%)
Query: 409 KAIADMGFTKMTEIQARTIPPLL--EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPR 466
KAI M F +T +Q +TI P+L E D++ AKTG+GKT AFL+P + + N KF +
Sbjct: 85 KAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 144
Query: 467 NGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGL-------IMGGASRQAEAQKLAK-G 518
+I++PTR+L++Q + E+ K H YGL ++GG +A K+ K
Sbjct: 145 YMVKAVIVAPTRDLALQ---IEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 201
Query: 519 INIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRR--- 575
NI++ATPGRL+D L+ ++ + ++DEADR+L+IGF +D++ I +L ++
Sbjct: 202 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 261
Query: 576 ----QTMLFSXXXXXXXXXXXXXXXXXXP-VYIGVDDTKEEATVAGLEQGYVVCPSEXXX 630
+T+LFS +++ D E ++Q V+
Sbjct: 262 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANS 321
Query: 631 XXXXXXXXXXXXXXVMVFFSSCM---SVKFHHELLNYI------DLPVMCIHGKQKQMKR 681
+ + + +VKF L + + DLP++ HGK Q KR
Sbjct: 322 IFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKR 381
Query: 682 TTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSG 741
T+ +F E+GIL+CTDV ARG+D P V ++Q P + YIHR+GRTAR G G
Sbjct: 382 TSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARS-GKEG 440
Query: 742 HALLILRPEELGFLRYLKQAK 762
++L + +EL F+R L+ AK
Sbjct: 441 SSVLFICKDELPFVRELEDAK 461
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 189 bits (479), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 124/381 (32%), Positives = 195/381 (51%), Gaps = 31/381 (8%)
Query: 409 KAIADMGFTKMTEIQARTIPPLL--EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPR 466
KAI M F +T +Q +TI P+L E D++ AKTG+GKT AFL+P + + N KF +
Sbjct: 34 KAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 93
Query: 467 NGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGL-------IMGGASRQAEAQKLAK-G 518
+I++PTR+L++Q + E+ K H YGL ++GG +A K+ K
Sbjct: 94 YMVKAVIVAPTRDLALQ---IEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 150
Query: 519 INIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRR--- 575
NI++ATPGRL+D L+ ++ + ++DEADR+L+IGF +D++ I +L ++
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 210
Query: 576 ----QTMLFSXXXXXXXXXXXXXXXXXXP-VYIGVDDTKEEATVAGLEQGYVVCPSEXXX 630
+T+LFS +++ D E ++Q V+
Sbjct: 211 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANS 270
Query: 631 XXXXXXXXXXXXXXVMVFFSSCM---SVKFHHELLNYI------DLPVMCIHGKQKQMKR 681
+ + + +VKF L + + DLP++ HGK Q KR
Sbjct: 271 IFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKR 330
Query: 682 TTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSG 741
T+ +F E+GIL+CTDV ARG+D P V ++Q P + YIHR+GRTAR G G
Sbjct: 331 TSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARS-GKEG 389
Query: 742 HALLILRPEELGFLRYLKQAK 762
++L + +EL F+R L+ AK
Sbjct: 390 SSVLFICKDELPFVRELEDAK 410
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 189 bits (479), Expect = 8e-48, Method: Compositional matrix adjust.
Identities = 124/381 (32%), Positives = 195/381 (51%), Gaps = 31/381 (8%)
Query: 409 KAIADMGFTKMTEIQARTIPPLL--EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPR 466
KAI M F +T +Q +TI P+L E D++ AKTG+GKT AFL+P + + N KF +
Sbjct: 34 KAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 93
Query: 467 NGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGL-------IMGGASRQAEAQKLAK-G 518
+I++PTR+L++Q + E+ K H YGL ++GG +A K+ K
Sbjct: 94 YMVKAVIVAPTRDLALQ---IEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 150
Query: 519 INIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRR--- 575
NI++ATPGRL+D L+ ++ + ++DEADR+L+IGF +D++ I +L ++
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 210
Query: 576 ----QTMLFSXXXXXXXXXXXXXXXXXXP-VYIGVDDTKEEATVAGLEQGYVVCPSEXXX 630
+T+LFS +++ D E ++Q V+
Sbjct: 211 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANS 270
Query: 631 XXXXXXXXXXXXXXVMVFFSSCM---SVKFHHELLNYI------DLPVMCIHGKQKQMKR 681
+ + + +VKF L + + DLP++ HGK Q KR
Sbjct: 271 IFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKR 330
Query: 682 TTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSG 741
T+ +F E+GIL+CTDV ARG+D P V ++Q P + YIHR+GRTAR G G
Sbjct: 331 TSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARS-GKEG 389
Query: 742 HALLILRPEELGFLRYLKQAK 762
++L + +EL F+R L+ AK
Sbjct: 390 SSVLFICKDELPFVRELEDAK 410
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 185 bits (470), Expect = 8e-47, Method: Compositional matrix adjust.
Identities = 90/179 (50%), Positives = 130/179 (72%), Gaps = 1/179 (0%)
Query: 403 VCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLK 462
+ + TLK + + + +TEIQ +TI L+G+D++G+AKTGSGKTLAFLVP +E +Y L+
Sbjct: 32 LSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQ 91
Query: 463 FMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINII 522
+ +G G++IISPTREL+ QTF VL+++ K H + GLI+GG + EA+++ INI+
Sbjct: 92 WTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERI-NNINIL 150
Query: 523 VATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
V TPGRLL H+ T F +LQ L++DEADRILD+GF + M ++ LPK+RQT+LFS
Sbjct: 151 VCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFS 209
>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 = 170 bits (431), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 116/360 (32%), Positives = 176/360 (48%), Gaps = 17/360 (4%)
Query: 403 VCENTLKAIADMGFTKMTEIQARTIPPLLEGR-DLVGSAKTGSGKTLAFLVPAVELIYNL 461
+ +N L AI + GF K T+IQ + IP L ++V A+TGSGKT +F +P +EL+
Sbjct: 13 LSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIELV--- 69
Query: 462 KFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINI 521
NG II++PTREL++Q ++ L + I GG + + + L K NI
Sbjct: 70 --NENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKAL-KNANI 126
Query: 522 IVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
+V TPGR+LDH+ N KN++ I+DEAD L+ GF +D+++I+N K ++ +LFS
Sbjct: 127 VVGTPGRILDHI-NRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRILLFS 185
Query: 582 XXXXXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXXXXXXXXX 641
Y G + A +EQ YV +E
Sbjct: 186 ATXPREILNLAKK-------YXGDYSFIKAKINANIEQSYVEV-NENERFEALCRLLKNK 237
Query: 642 XXXVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDV 701
+VF + K L I IHG Q +R F + IL+ TDV
Sbjct: 238 EFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDV 297
Query: 702 AARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQA 761
+RG+D+ ++ ++ Y P +P+ Y HR+GRT R G G A+ I+ E LRY+++A
Sbjct: 298 XSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRA-GKKGKAISIINRREYKKLRYIERA 356
>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 = 162 bits (410), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 106/357 (29%), Positives = 182/357 (50%), Gaps = 15/357 (4%)
Query: 399 LKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAV-EL 457
L+ + +N K+ G+ T IQ +IP + GRDL+ A+TGSGKT AFL+P + +L
Sbjct: 63 LRDIIIDNVNKS----GYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKL 118
Query: 458 IYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAK 517
+ + + ++I+SPTREL++Q F ++ + G++ GG S + + + + +
Sbjct: 119 LEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITR 178
Query: 518 GINIIVATPGRLLDHLQNTPEFL-YKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKR-- 574
G ++++ATPGRLLD + T F+ +++ + +++DEADR+LD+GF EDM++I+ + R
Sbjct: 179 GCHVVIATPGRLLDFVDRT--FITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPE 236
Query: 575 RQTMLFSXXXXXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXX 634
QT++FS Y+ V + ++Q + ++
Sbjct: 237 HQTLMFSATFPEEIQRMAGEFLKN---YVFVAIGIVGGACSDVKQ-TIYEVNKYAKRSKL 292
Query: 635 XXXXXXXXXXVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETG 694
+VF + F L+ + P IHG + Q +R F N
Sbjct: 293 IEILSEQADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMK 352
Query: 695 ILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEE 751
+L+ T VA+RGLDI + ++ YD P +Y+HR+GRT R G++G A PE+
Sbjct: 353 VLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGR-VGNNGRATSFFDPEK 408
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 152 bits (385), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 102/357 (28%), Positives = 181/357 (50%), Gaps = 10/357 (2%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
E+ L+ I GF K + IQ R I +++GRD++ +++G+GKT F +V ++ L
Sbjct: 10 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATF---SVSVLQCLDIQ 66
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVA 524
R T +I++PTREL++Q L L Y + +GG + + +KL G +++
Sbjct: 67 VRE-TQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYGQHVVAG 125
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSXXX 584
TPGR+ D ++ + ++ L++DEAD +L+ GF+E + + LP Q +L S
Sbjct: 126 TPGRVFDMIRRRS-LRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATL 184
Query: 585 XXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXX-XXXXXXXXX 643
P+ I V ++E T+ G++Q +V E
Sbjct: 185 PHEVLEMTNKFMTD-PIRILV--KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 241
Query: 644 XVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAA 703
++F ++ V + E + + V +HG Q +R + +F + + +L+ TDV A
Sbjct: 242 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 301
Query: 704 RGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQ 760
RGLD+P V I+ YD P++ + YIHR+GR+ R G G A+ ++ +++ LR ++Q
Sbjct: 302 RGLDVPQVSLIINYDLPNNRELYIHRIGRSGR-YGRKGVAVNFVKNDDIRVLRDIEQ 357
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 152 bits (384), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 108/347 (31%), Positives = 171/347 (49%), Gaps = 27/347 (7%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
E +AI +MGF TE+Q++TIP +L+G+++V AKTGSGKT A+ +P +EL
Sbjct: 3 EKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL------- 55
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVA 524
G ++++PTREL+ Q ++++ +Y + GG +A+ ++ + +I+VA
Sbjct: 56 ---GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRV-RNADIVVA 111
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSXXX 584
TPGRLLD L + + + +IIDEAD + ++GF +D+K I+ R+ T LFS
Sbjct: 112 TPGRLLD-LWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFS--- 167
Query: 585 XXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXXXXXXXXXXXX 644
++ + +A +E +V +
Sbjct: 168 ---ATIPEEIRKVVKDFITNYEEIEACIGLANVEHKFVHVKDD--WRSKVQALRENKDKG 222
Query: 645 VMVFFSSCMSV-KFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAA 703
V+VF + V K N I+L G Q R F E +L+ TDVA+
Sbjct: 223 VIVFVRTRNRVAKLVRLFDNAIEL-----RGDLPQSVRNRNIDAFREGEYDMLITTDVAS 277
Query: 704 RGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPE 750
RGLDIP V+ ++ +D P D + YIHR+GRT R G G A+ + E
Sbjct: 278 RGLDIPLVEKVINFDAPQDLRTYIHRIGRTGR-MGRKGEAITFILNE 323
>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 = 152 bits (383), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 101/357 (28%), Positives = 181/357 (50%), Gaps = 10/357 (2%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
E+ L+ I GF K + IQ R I +++GRD++ +++G+GKT F ++ ++ L
Sbjct: 25 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATF---SISVLQCLDIQ 81
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVA 524
R T +I++PTREL++Q L L Y + +GG + + +KL G +++
Sbjct: 82 VRE-TQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAG 140
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSXXX 584
TPGR+ D ++ + ++ L++DEAD +L+ GF+E + + LP Q +L S
Sbjct: 141 TPGRVFDMIRRRS-LRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATL 199
Query: 585 XXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXX-XXXXXXXXX 643
P+ I V ++E T+ G++Q +V E
Sbjct: 200 PHEILEMTNKFMTD-PIRILV--KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 256
Query: 644 XVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAA 703
++F ++ V + E + + V +HG Q +R + +F + + +L+ TDV A
Sbjct: 257 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 316
Query: 704 RGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQ 760
RGLD+P V I+ YD P++ + YIHR+GR+ R G G A+ ++ +++ LR ++Q
Sbjct: 317 RGLDVPQVSLIINYDLPNNRELYIHRIGRSGR-YGRKGVAINFVKNDDIRILRDIEQ 372
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 152 bits (383), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 102/357 (28%), Positives = 181/357 (50%), Gaps = 10/357 (2%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
E+ L+ I GF K + IQ R I +++GRD++ +++G+GKT F +V ++ L
Sbjct: 10 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATF---SVSVLQCLDIQ 66
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVA 524
R T +I++PTREL++Q L L Y + +GG + + +KL G +++
Sbjct: 67 VRE-TQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAG 125
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSXXX 584
TPGR+ D ++ + ++ L++DEAD +L+ GF+E + + LP Q +L S
Sbjct: 126 TPGRVFDMIRRRS-LRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATL 184
Query: 585 XXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXX-XXXXXXXXX 643
P+ I V ++E T+ G++Q +V E
Sbjct: 185 PHEILEMTNKFMTD-PIRILV--KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 241
Query: 644 XVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAA 703
++F ++ V + E + + V +HG Q +R + +F + + +L+ TDV A
Sbjct: 242 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 301
Query: 704 RGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQ 760
RGLD+P V I+ YD P++ + YIHR+GR+ R G G A+ ++ +++ LR ++Q
Sbjct: 302 RGLDVPQVSLIINYDLPNNRELYIHRIGRSGR-YGRKGVAVNFVKNDDIRVLRDIEQ 357
>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 = 152 bits (383), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 101/357 (28%), Positives = 181/357 (50%), Gaps = 10/357 (2%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
E+ L+ I GF K + IQ R I +++GRD++ +++G+GKT F ++ ++ L
Sbjct: 46 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATF---SISVLQCLDIQ 102
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVA 524
R T +I++PTREL++Q L L Y + +GG + + +KL G +++
Sbjct: 103 VRE-TQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAG 161
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSXXX 584
TPGR+ D ++ + ++ L++DEAD +L+ GF+E + + LP Q +L S
Sbjct: 162 TPGRVFDMIRRRS-LRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATL 220
Query: 585 XXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXX-XXXXXXXXX 643
P+ I V ++E T+ G++Q +V E
Sbjct: 221 PHEILEMTNKFMTD-PIRILV--KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 277
Query: 644 XVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAA 703
++F ++ V + E + + V +HG Q +R + +F + + +L+ TDV A
Sbjct: 278 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 337
Query: 704 RGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQ 760
RGLD+P V I+ YD P++ + YIHR+GR+ R G G A+ ++ +++ LR ++Q
Sbjct: 338 RGLDVPQVSLIINYDLPNNRELYIHRIGRSGR-YGRKGVAINFVKNDDIRILRDIEQ 393
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 152 bits (383), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 101/357 (28%), Positives = 181/357 (50%), Gaps = 10/357 (2%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
E+ L+ I GF K + IQ R I +++GRD++ +++G+GKT F ++ ++ L
Sbjct: 47 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATF---SISVLQCLDIQ 103
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVA 524
R T +I++PTREL++Q L L Y + +GG + + +KL G +++
Sbjct: 104 VRE-TQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAG 162
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSXXX 584
TPGR+ D ++ + ++ L++DEAD +L+ GF+E + + LP Q +L S
Sbjct: 163 TPGRVFDMIRRRS-LRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATL 221
Query: 585 XXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXX-XXXXXXXXX 643
P+ I V ++E T+ G++Q +V E
Sbjct: 222 PHEILEMTNKFMTD-PIRILV--KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 278
Query: 644 XVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAA 703
++F ++ V + E + + V +HG Q +R + +F + + +L+ TDV A
Sbjct: 279 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 338
Query: 704 RGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQ 760
RGLD+P V I+ YD P++ + YIHR+GR+ R G G A+ ++ +++ LR ++Q
Sbjct: 339 RGLDVPQVSLIINYDLPNNRELYIHRIGRSGR-YGRKGVAINFVKNDDIRILRDIEQ 394
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 151 bits (382), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 101/357 (28%), Positives = 181/357 (50%), Gaps = 10/357 (2%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
E+ L+ I GF K + IQ R I +++GRD++ +++G+GKT F ++ ++ L
Sbjct: 47 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATF---SISVLQCLDIQ 103
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVA 524
R T +I++PTREL++Q L L Y + +GG + + +KL G +++
Sbjct: 104 VRE-TQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAG 162
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSXXX 584
TPGR+ D ++ + ++ L++DEAD +L+ GF+E + + LP Q +L S
Sbjct: 163 TPGRVFDMIRRRS-LRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATL 221
Query: 585 XXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXX-XXXXXXXXX 643
P+ I V ++E T+ G++Q +V E
Sbjct: 222 PHEILEMTNKFMTD-PIRILV--KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 278
Query: 644 XVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAA 703
++F ++ V + E + + V +HG Q +R + +F + + +L+ TDV A
Sbjct: 279 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 338
Query: 704 RGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQ 760
RGLD+P V I+ YD P++ + YIHR+GR+ R G G A+ ++ +++ LR ++Q
Sbjct: 339 RGLDVPQVSLIINYDLPNNRELYIHRIGRSGR-YGRKGVAINFVKNDDIRILRDIEQ 394
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 151 bits (381), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 97/329 (29%), Positives = 163/329 (49%), Gaps = 11/329 (3%)
Query: 408 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPR- 466
L I + GF K + IQ IP + GRD++ AK G+GKT AF++P +E K P+
Sbjct: 33 LMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLE-----KVKPKL 87
Query: 467 NGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATP 526
N +I+ PTREL++QT V++ L K+ + + GG + + + +L + ++I+V TP
Sbjct: 88 NKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETVHILVGTP 147
Query: 527 GRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSXXXXX 586
GR+LD L + + I+DEAD++L F+ ++QI++ LP Q++LFS
Sbjct: 148 GRVLD-LASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSATFPL 206
Query: 587 XXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXXXXXXXXXXXXVM 646
P I + EE T+ G+ Q Y +
Sbjct: 207 TVKEFMVKHLHK-PYEINL---MEELTLKGITQYYAFVEERQKLHCLNTLFSKLQINQAI 262
Query: 647 VFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGL 706
+F +S V+ + + + H + KQ +R F +F + L+C+D+ RG+
Sbjct: 263 IFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGI 322
Query: 707 DIPAVDWIVQYDPPDDPKEYIHRVGRTAR 735
DI AV+ ++ +D P + Y+HR+GR+ R
Sbjct: 323 DIQAVNVVINFDFPKTAETYLHRIGRSGR 351
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 149 bits (377), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 107/342 (31%), Positives = 171/342 (50%), Gaps = 29/342 (8%)
Query: 416 FTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYN------LKFMPRNGT 469
+T+ T +Q IP + E RDL+ A+TGSGKT AFL+P + IY+ L+ M NG
Sbjct: 35 YTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGR 94
Query: 470 G--------IIIISPTRELSMQTFGVLKELMKYHHHTY---GLIMGGASRQAEAQKLAKG 518
++++PTREL++Q + +E K+ + + ++ GGA + + L +G
Sbjct: 95 YGRRKQYPISLVLAPTRELAVQIY---EEARKFSYRSRVRPCVVYGGADIGQQIRDLERG 151
Query: 519 INIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIV--NLLPKR-- 574
+++VATPGRL+D ++ L + L++DEADR+LD+GFE +++IV + +P +
Sbjct: 152 CHLLVATPGRLVDMMERGKIGL-DFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGV 210
Query: 575 RQTMLFSXXXXXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYV-VCPSEXXXXXX 633
R TM+FS YI + + +T + Q V V S+
Sbjct: 211 RHTMMFSATFPKEIQMLARDFLDE---YIFLAVGRVGSTSENITQKVVWVEESDKRSFLL 267
Query: 634 XXXXXXXXXXXVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAET 693
+VF + + L + IHG + Q R QF + ++
Sbjct: 268 DLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKS 327
Query: 694 GILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTAR 735
IL+ T VAARGLDI V ++ +D P D +EY+HR+GRT R
Sbjct: 328 PILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGR 369
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 137 bits (345), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 99/331 (29%), Positives = 162/331 (48%), Gaps = 12/331 (3%)
Query: 403 VCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI-YNL 461
+ E+ L+ I GF K + IQ R I P ++G D++ A++G+GKT F + ++ I +L
Sbjct: 47 LSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDL 106
Query: 462 KFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLA-KGIN 520
K T ++++PTREL+ Q V+ L Y + +GG + +AE QKL + +
Sbjct: 107 K-----ATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAPH 161
Query: 521 IIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLF 580
IIV TPGR+ D L N K ++ ++DEAD +L GF++ + I L Q +L
Sbjct: 162 IIVGTPGRVFDML-NRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLL 220
Query: 581 SXXXXXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYV-VCPSEXXXXXXXXXXXX 639
S P+ I V KEE T+ G+ Q Y+ V E
Sbjct: 221 SATMPSDVLEVTKKFMRD-PIRILV--KKEELTLEGIRQFYINVEREEWKLDTLCDLYET 277
Query: 640 XXXXXVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCT 699
++F ++ V + E ++ D V +HG Q +R +F + + +L+ T
Sbjct: 278 LTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITT 337
Query: 700 DVAARGLDIPAVDWIVQYDPPDDPKEYIHRV 730
D+ ARG+D+ V ++ YD P + + YIHR+
Sbjct: 338 DLLARGIDVQQVSLVINYDLPTNRENYIHRI 368
>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 = 136 bits (343), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 99/331 (29%), Positives = 162/331 (48%), Gaps = 12/331 (3%)
Query: 403 VCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI-YNL 461
+ E+ L+ I GF K + IQ R I P ++G D++ A++G+GKT F + ++ I +L
Sbjct: 21 LSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDL 80
Query: 462 KFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLA-KGIN 520
K T ++++PTREL+ Q V+ L Y + +GG + +AE QKL + +
Sbjct: 81 K-----ATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAPH 135
Query: 521 IIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLF 580
IIV TPGR+ D L N K ++ ++DEAD +L GF++ + I L Q +L
Sbjct: 136 IIVGTPGRVFDML-NRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLL 194
Query: 581 SXXXXXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYV-VCPSEXXXXXXXXXXXX 639
S P+ I V KEE T+ G+ Q Y+ V E
Sbjct: 195 SATMPSDVLEVTKKFMRD-PIRILV--KKEELTLEGIRQFYINVEREEWKLDTLCDLYET 251
Query: 640 XXXXXVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCT 699
++F ++ V + E ++ D V +HG Q +R +F + + +L+ T
Sbjct: 252 LTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITT 311
Query: 700 DVAARGLDIPAVDWIVQYDPPDDPKEYIHRV 730
D+ ARG+D+ V ++ YD P + + YIHR+
Sbjct: 312 DLLARGIDVQQVSLVINYDLPTNRENYIHRI 342
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 136 bits (342), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 101/347 (29%), Positives = 167/347 (48%), Gaps = 13/347 (3%)
Query: 408 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRN 467
L+AI D GF +E+Q IP + G D++ AK+G GKT F++ ++ + P
Sbjct: 19 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ-----QLEPVT 73
Query: 468 G-TGIIIISPTRELSMQTFGVLKELMKYHHHT-YGLIMGGASRQAEAQKLAKGI-NIIVA 524
G ++++ TREL+ Q + KY + + GG S + + + L K +I+V
Sbjct: 74 GQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVG 133
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILD-IGFEEDMKQIVNLLPKRRQTMLFSXX 583
TPGR+L +N L K+++ I+DEAD++L+ + D+++I + P +Q M+FS
Sbjct: 134 TPGRILALARNKSLNL-KHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMMFSAT 192
Query: 584 XXXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXXXXXXXXXXX 643
P+ I VDD + + T+ GL+Q YV
Sbjct: 193 LSKEIRPVCRKFMQD-PMEIFVDD-ETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLEFN 250
Query: 644 XVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAA 703
V++F S +LL + P + IH Q +R + + QF + + IL+ T++
Sbjct: 251 QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFG 310
Query: 704 RGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPE 750
RG+DI V+ YD P+D Y+HRV R R G+ G A+ + E
Sbjct: 311 RGMDIERVNIAFNYDMPEDSDTYLHRVARAGRF-GTKGLAITFVSDE 356
>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 = 135 bits (340), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 101/329 (30%), Positives = 159/329 (48%), Gaps = 14/329 (4%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
EN L+ + GF + + IQ R I P++EG D++ A++G+GKT F + A++ I
Sbjct: 31 ENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKA 90
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVA 524
P+ ++++PTREL++Q V+ L + +GG S +A+ L + I+V
Sbjct: 91 PQA----LMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-RDAQIVVG 145
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSXXX 584
TPGR+ D++Q F ++ I+DEAD +L GF+E + QI LLP Q +L S
Sbjct: 146 TPGRVFDNIQRR-RFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATM 204
Query: 585 XXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXXXXXXXXXXXX 644
PV I V K+E T+ G++Q YV E
Sbjct: 205 PNDVLEVTTKFMRN-PVRILV--KKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVT 261
Query: 645 VMVFFSSCMSVKFHHEL---LNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDV 701
V F C + + EL L V I+ Q +R T +F + + IL+ TD+
Sbjct: 262 QAVIF--CNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDL 319
Query: 702 AARGLDIPAVDWIVQYDPPDDPKEYIHRV 730
ARG+D+ V ++ YD P + + YIHR+
Sbjct: 320 LARGIDVQQVSLVINYDLPANKENYIHRI 348
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 134 bits (338), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 103/329 (31%), Positives = 159/329 (48%), Gaps = 14/329 (4%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
EN L+ + GF + + IQ R I P++EG D++ A++G+GKT F + A++ I
Sbjct: 30 ENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKA 89
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVA 524
P+ + ++PTREL++Q V+ L + +GG S +A+ L + I+V
Sbjct: 90 PQ----ALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGL-RDAQIVVG 144
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFSXXX 584
TPGR+ D++Q F ++ I+DEAD L GF+E + QI LLP Q +L S
Sbjct: 145 TPGRVFDNIQRR-RFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVLLSATX 203
Query: 585 XXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXXXXXXXXXXXX 644
PV I V K+E T+ G++Q YV E
Sbjct: 204 PNDVLEVTTKFXRN-PVRILV--KKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVT 260
Query: 645 VMVFFSSCMSVKFHHEL---LNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDV 701
V F C + + EL L V I+ Q +R T +F + + IL+ TD+
Sbjct: 261 QAVIF--CNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDL 318
Query: 702 AARGLDIPAVDWIVQYDPPDDPKEYIHRV 730
ARG+D+ V ++ YD P + + YIHR+
Sbjct: 319 LARGIDVQQVSLVINYDLPANKENYIHRI 347
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 134 bits (337), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 100/347 (28%), Positives = 166/347 (47%), Gaps = 13/347 (3%)
Query: 408 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRN 467
L+AI D GF +E+Q IP + G D++ AK+G GKT F++ ++ + P
Sbjct: 20 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ-----QLEPVT 74
Query: 468 G-TGIIIISPTRELSMQTFGVLKELMKYHHHT-YGLIMGGASRQAEAQKLAKGI-NIIVA 524
G ++++ TREL+ Q + KY + + GG S + + + L K +I+V
Sbjct: 75 GQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVG 134
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILD-IGFEEDMKQIVNLLPKRRQTMLFSXX 583
TPGR+L +N L K+++ I+DE D++L+ + D+++I + P +Q M+FS
Sbjct: 135 TPGRILALARNKSLNL-KHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSAT 193
Query: 584 XXXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXXXXXXXXXXX 643
P+ I VDD + + T+ GL+Q YV
Sbjct: 194 LSKEIRPVCRKFMQD-PMEIFVDD-ETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLEFN 251
Query: 644 XVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAA 703
V++F S +LL + P + IH Q +R + + QF + + IL+ T++
Sbjct: 252 QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFG 311
Query: 704 RGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPE 750
RG+DI V+ YD P+D Y+HRV R R G+ G A+ + E
Sbjct: 312 RGMDIERVNIAFNYDMPEDSDTYLHRVARAGRF-GTKGLAITFVSDE 357
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 134 bits (337), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 100/347 (28%), Positives = 166/347 (47%), Gaps = 13/347 (3%)
Query: 408 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRN 467
L+AI D GF +E+Q IP + G D++ AK+G GKT F++ ++ + P
Sbjct: 20 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ-----QLEPVT 74
Query: 468 G-TGIIIISPTRELSMQTFGVLKELMKYHHHT-YGLIMGGASRQAEAQKLAKGI-NIIVA 524
G ++++ TREL+ Q + KY + + GG S + + + L K +I+V
Sbjct: 75 GQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVG 134
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILD-IGFEEDMKQIVNLLPKRRQTMLFSXX 583
TPGR+L +N L K+++ I+DE D++L+ + D+++I + P +Q M+FS
Sbjct: 135 TPGRILALARNKSLNL-KHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSAT 193
Query: 584 XXXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXXXXXXXXXXX 643
P+ I VDD + + T+ GL+Q YV
Sbjct: 194 LSKEIRPVCRKFMQD-PMEIFVDD-ETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLEFN 251
Query: 644 XVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAA 703
V++F S +LL + P + IH Q +R + + QF + + IL+ T++
Sbjct: 252 QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFG 311
Query: 704 RGLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPE 750
RG+DI V+ YD P+D Y+HRV R R G+ G A+ + E
Sbjct: 312 RGMDIERVNIAFNYDMPEDSDTYLHRVARAGRF-GTKGLAITFVSDE 357
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 129 bits (325), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 73/179 (40%), Positives = 111/179 (62%), Gaps = 8/179 (4%)
Query: 403 VCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLK 462
+CE A +G+TK T+IQ IP L+GRD++G A+TGSGKT AF +P I N
Sbjct: 54 LCE----ACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALP----ILNAL 105
Query: 463 FMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINII 522
++++PTREL+ Q + L +I+GG +++ LAK +II
Sbjct: 106 LETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHII 165
Query: 523 VATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
+ATPGRL+DHL+NT F + L+ L++DEADRIL++ FE ++ +I+ ++P+ R+T LFS
Sbjct: 166 IATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFS 224
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 128 bits (322), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 71/177 (40%), Positives = 110/177 (62%), Gaps = 2/177 (1%)
Query: 406 NTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMP 465
N + IA FT+ T IQA+ P L G D+VG A+TGSGKTL++L+PA+ I + F+
Sbjct: 53 NVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLE 112
Query: 466 R-NGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVA 524
R +G ++++PTREL+ Q V E + I GGA + + + L +G+ I +A
Sbjct: 113 RGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIA 172
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
TPGRL+D L+ L + L++DEADR+LD+GFE +++IV+ + RQT+++S
Sbjct: 173 TPGRLIDFLECGKTNLRRTTY-LVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWS 228
>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 = 128 bits (322), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 71/177 (40%), Positives = 110/177 (62%), Gaps = 2/177 (1%)
Query: 406 NTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMP 465
N + IA FT+ T IQA+ P L G D+VG A+TGSGKTL++L+PA+ I + F+
Sbjct: 39 NVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLE 98
Query: 466 R-NGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVA 524
R +G ++++PTREL+ Q V E + I GGA + + + L +G+ I +A
Sbjct: 99 RGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIA 158
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
TPGRL+D L+ L + L++DEADR+LD+GFE +++IV+ + RQT+++S
Sbjct: 159 TPGRLIDFLECGKTNLRRTTY-LVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWS 214
>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 = 120 bits (300), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 100/350 (28%), Positives = 162/350 (46%), Gaps = 29/350 (8%)
Query: 408 LKAIADMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMP 465
LK I M F K ++IQ R +P LL R+++ +++G+GKT AF + + + P
Sbjct: 17 LKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTRVNPEDASP 76
Query: 466 RNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGA---SRQAEAQKLAKGINII 522
+ I ++P+REL+ QT V++E+ K+ T LI+ + ++Q AQ +I
Sbjct: 77 Q----AICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQINAQ-------VI 125
Query: 523 VATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDI-GFEEDMKQIVNLLPKRRQTMLFS 581
V TPG +LD ++ L K ++ ++DEAD +LD G + ++ LPK Q +LFS
Sbjct: 126 VGTPGTVLDLMRRKLMQLQK-IKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLFS 184
Query: 582 XXXXXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXX-XXXXXXXXXX 640
P ++ E V ++Q Y+ C +E
Sbjct: 185 ATFADAVRQYAKKIV---PNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGVM 241
Query: 641 XXXXVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTD 700
++F ++ + + L V +HG + +R F + +L+ T+
Sbjct: 242 TIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTN 301
Query: 701 VAARGLDIPAVDWIVQYDPPD------DPKEYIHRVGRTARGEGSSGHAL 744
V ARG+DIP V +V YD P DP YIHR+GRT R G G A+
Sbjct: 302 VLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRF-GRKGVAI 350
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 120 bits (300), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 100/350 (28%), Positives = 162/350 (46%), Gaps = 29/350 (8%)
Query: 408 LKAIADMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMP 465
LK I M F K ++IQ R +P LL R+++ +++G+GKT AF + + + P
Sbjct: 17 LKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTRVNPEDASP 76
Query: 466 RNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGA---SRQAEAQKLAKGINII 522
+ I ++P+REL+ QT V++E+ K+ T LI+ + ++Q AQ +I
Sbjct: 77 Q----AICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQINAQ-------VI 125
Query: 523 VATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDI-GFEEDMKQIVNLLPKRRQTMLFS 581
V TPG +LD ++ L K ++ ++DEAD +LD G + ++ LPK Q +LFS
Sbjct: 126 VGTPGTVLDLMRRKLMQLQK-IKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLFS 184
Query: 582 XXXXXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXX-XXXXXXXXXX 640
P ++ E V ++Q Y+ C +E
Sbjct: 185 ATFADAVRQYAKKIV---PNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGLM 241
Query: 641 XXXXVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTD 700
++F ++ + + L V +HG + +R F + +L+ T+
Sbjct: 242 TIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTN 301
Query: 701 VAARGLDIPAVDWIVQYDPPD------DPKEYIHRVGRTARGEGSSGHAL 744
V ARG+DIP V +V YD P DP YIHR+GRT R G G A+
Sbjct: 302 VLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRF-GRKGVAI 350
>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 = 113 bits (282), Expect = 5e-25, Method: Composition-based stats.
Identities = 66/178 (37%), Positives = 104/178 (58%), Gaps = 12/178 (6%)
Query: 408 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRN 467
L+A+ G T T IQA +P LEG+DL+G A+TG+GKTLAF +P E + P
Sbjct: 13 LEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAE-----RLAPSQ 67
Query: 468 GTG----IIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIV 523
G ++++PTREL++Q L + H + GG + + L +G + +V
Sbjct: 68 ERGRKPRALVLTPTRELALQVASELTAVAP--HLKVVAVYGGTGYGKQKEALLRGADAVV 125
Query: 524 ATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
ATPGR LD+L+ L + ++ ++DEAD +L +GFEE+++ +++ P RQT+LFS
Sbjct: 126 ATPGRALDYLRQGVLDLSR-VEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFS 182
>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 = 112 bits (280), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 71/185 (38%), Positives = 115/185 (62%), Gaps = 18/185 (9%)
Query: 406 NTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMP 465
+ LK+I +G K T IQ++ P +L+G DL+ A+TG+GKTL++L+P +L P
Sbjct: 30 DLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPG---FIHLDSQP 86
Query: 466 -----RNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGL----IMGGASRQAEAQKLA 516
RNG G+++++PTREL++ V E KY + GL I GG +R + + ++
Sbjct: 87 ISREQRNGPGMLVLTPTRELALH---VEAECSKYSYK--GLKSICIYGGRNRNGQIEDIS 141
Query: 517 KGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQ 576
KG++II+ATPGRL D LQ +++ L+IDEAD++LD+ FE +++I+ + RQ
Sbjct: 142 KGVDIIIATPGRLND-LQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQ 200
Query: 577 TMLFS 581
T++ S
Sbjct: 201 TVMTS 205
>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWJ|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWK|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWK|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWL|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3MWL|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3NBF|A Chain A, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|B Chain B, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|C Chain C, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|D Chain D, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NEJ|A Chain A, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
pdb|3NEJ|B Chain B, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
Length = 207
Score = 111 bits (278), Expect = 1e-24, Method: Composition-based stats.
Identities = 65/178 (36%), Positives = 104/178 (58%), Gaps = 12/178 (6%)
Query: 408 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRN 467
L+A+ G T T I+A +P LEG+DL+G A+TG+GKTLAF +P E + P
Sbjct: 13 LEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAE-----RLAPSQ 67
Query: 468 GTG----IIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIV 523
G ++++PTREL++Q L + H + GG + + L +G + +V
Sbjct: 68 ERGRKPRALVLTPTRELALQVASELTAVAP--HLKVVAVYGGTGYGKQKEALLRGADAVV 125
Query: 524 ATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
ATPGR LD+L+ L + ++ ++DEAD +L +GFEE+++ +++ P RQT+LFS
Sbjct: 126 ATPGRALDYLRQGVLDLSR-VEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFS 182
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 106 bits (264), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 88/332 (26%), Positives = 151/332 (45%), Gaps = 36/332 (10%)
Query: 421 EIQARTIPPLLEG--RDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTR 478
+IQ + +P LL R+++G +++G+GKT AF + + + P+ I ++P+R
Sbjct: 144 KIQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKPQ----AICLAPSR 199
Query: 479 ELSMQTFGVLKELMKYHH--HTYGL---IMGGASRQAEAQKLAKGINIIVATPGRLLDHL 533
EL+ Q V+ E+ KY +G+ + GA A+ I++ TPG ++D L
Sbjct: 200 ELARQIMDVVTEMGKYTEVKTAFGIKDSVPKGAKIDAQ---------IVIGTPGTVMD-L 249
Query: 534 QNTPEFLYKNLQCLIIDEADRILDI-GFEEDMKQIVNLLPKRRQTMLFSXXXXXXXXXXX 592
+ ++++ ++DEAD +LD G + +I +LLP+ Q +LFS
Sbjct: 250 MKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYA 309
Query: 593 XXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPSEXXXXXXXXXXXXXXXXXVMVFFSSC 652
P + EE +V G++Q Y+ C SE + F C
Sbjct: 310 ERFA---PNANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSIIF--C 364
Query: 653 MSVKFHHELLNYIDLP---VMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIP 709
E+ + V C+ G + +R F + +L+ T+V ARG+D+
Sbjct: 365 KKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVS 424
Query: 710 AVDWIVQYDPP------DDPKEYIHRVGRTAR 735
V+ +V YD P DP+ Y+HR+GRT R
Sbjct: 425 QVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGR 456
>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 (258), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 85/356 (23%), Positives = 164/356 (46%), Gaps = 21/356 (5%)
Query: 390 ILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKT 447
+ S FE L+ K L+ + MGF + ++IQ +P +L ++L+ +++G+GKT
Sbjct: 21 LYSVKSFEELRLK--PQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKT 78
Query: 448 LAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGAS 507
AF++ + + P+ + +SPT EL++QT V++++ K++ +
Sbjct: 79 AAFVLAMLSQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN 134
Query: 508 RQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDI-GFEEDMKQ 566
+ QK+++ I++ TPG +LD K ++ ++DEAD ++ G ++ +
Sbjct: 135 KLERGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIR 192
Query: 567 IVNLLPKRRQTMLFSXXXXXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPS 626
I +LP+ Q +LFS V + +EE T+ ++Q YV+C S
Sbjct: 193 IQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNV---IKLKREEETLDTIKQYYVLCSS 249
Query: 627 -EXXXXXXXXXXXXXXXXXVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTF 685
+ M+F + + + L+ V + G+ +R
Sbjct: 250 RDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVI 309
Query: 686 FQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPP------DDPKEYIHRVGRTAR 735
+F + +L+ T+V ARG+D+ V ++ +D P D + Y+HR+GRT R
Sbjct: 310 ERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 365
>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 = 103 bits (257), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 85/356 (23%), Positives = 164/356 (46%), Gaps = 21/356 (5%)
Query: 390 ILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKT 447
+ S FE L+ K L+ + MGF + ++IQ +P +L ++L+ +++G+GKT
Sbjct: 58 LYSVKSFEELRLK--PQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKT 115
Query: 448 LAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGAS 507
AF++ + + P+ + +SPT EL++QT V++++ K++ +
Sbjct: 116 AAFVLAMLSQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN 171
Query: 508 RQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDI-GFEEDMKQ 566
+ QK+++ I++ TPG +LD K ++ ++DEAD ++ G ++ +
Sbjct: 172 KLERGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIR 229
Query: 567 IVNLLPKRRQTMLFSXXXXXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPS 626
I +LP+ Q +LFS V + +EE T+ ++Q YV+C S
Sbjct: 230 IQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNV---IKLKREEETLDTIKQYYVLCSS 286
Query: 627 -EXXXXXXXXXXXXXXXXXVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTF 685
+ M+F + + + L+ V + G+ +R
Sbjct: 287 RDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVI 346
Query: 686 FQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPP------DDPKEYIHRVGRTAR 735
+F + +L+ T+V ARG+D+ V ++ +D P D + Y+HR+GRT R
Sbjct: 347 ERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 402
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 103 bits (257), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 88/365 (24%), Positives = 168/365 (46%), Gaps = 22/365 (6%)
Query: 390 ILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKT 447
+ S FE L+ K L+ + MGF + ++IQ +P +L ++L+ +++G+GKT
Sbjct: 37 LYSVKSFEELRLK--PQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKT 94
Query: 448 LAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGAS 507
AF++ + + P+ + +SPT EL++QT V++++ K++ +
Sbjct: 95 AAFVLAMLSQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN 150
Query: 508 RQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDI-GFEEDMKQ 566
+ QK+++ I++ TPG +LD K ++ ++DEAD ++ G ++ +
Sbjct: 151 KLERGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIR 208
Query: 567 IVNLLPKRRQTMLFSXXXXXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPS 626
I +LP+ Q +LFS V + +EE T+ ++Q YV+C S
Sbjct: 209 IQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNV---IKLKREEETLDTIKQYYVLCSS 265
Query: 627 -EXXXXXXXXXXXXXXXXXVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTF 685
+ M+F + + + L+ V + G+ +R
Sbjct: 266 RDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVI 325
Query: 686 FQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPP------DDPKEYIHRVGRTARGEGS 739
+F + +L+ T+V ARG+D+ V ++ +D P D + Y+HR+GRT R G
Sbjct: 326 ERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRF-GK 384
Query: 740 SGHAL 744
G A+
Sbjct: 385 RGLAV 389
>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 = 103 bits (256), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 85/356 (23%), Positives = 164/356 (46%), Gaps = 21/356 (5%)
Query: 390 ILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKT 447
+ S FE L+ K L+ + MGF + ++IQ +P +L ++L+ +++G+GKT
Sbjct: 88 LYSVKSFEELRLK--PQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKT 145
Query: 448 LAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGAS 507
AF++ + + P+ + +SPT EL++QT V++++ K++ +
Sbjct: 146 AAFVLAMLSQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN 201
Query: 508 RQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDI-GFEEDMKQ 566
+ QK+++ I++ TPG +LD K ++ ++DEAD ++ G ++ +
Sbjct: 202 KLERGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIR 259
Query: 567 IVNLLPKRRQTMLFSXXXXXXXXXXXXXXXXXXPVYIGVDDTKEEATVAGLEQGYVVCPS 626
I +LP+ Q +LFS V + +EE T+ ++Q YV+C S
Sbjct: 260 IQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNV---IKLKREEETLDTIKQYYVLCSS 316
Query: 627 -EXXXXXXXXXXXXXXXXXVMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTF 685
+ M+F + + + L+ V + G+ +R
Sbjct: 317 RDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVI 376
Query: 686 FQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPP------DDPKEYIHRVGRTAR 735
+F + +L+ T+V ARG+D+ V ++ +D P D + Y+HR+GRT R
Sbjct: 377 ERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 432
>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 = 102 bits (253), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 62/179 (34%), Positives = 110/179 (61%), Gaps = 16/179 (8%)
Query: 415 GFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVE--LIYNLKFMPRNGTG-- 470
+ + T IQ IP +LE RD++ A+TGSGKT AFL+P + + +L + T
Sbjct: 42 SYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYP 101
Query: 471 -IIIISPTRELSMQTFGVLKELMKYHHHT---YGLIMGGASRQAEAQKLAKGINIIVATP 526
+I++PTREL++Q +L E K+ +T ++ GGA ++ +++ G +++VATP
Sbjct: 102 KCLILAPTRELAIQ---ILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATP 158
Query: 527 GRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIV--NLLPK--RRQTMLFS 581
GRL+D ++ + + + +++DEADR+LD+GFE +++I+ + +P RQT++FS
Sbjct: 159 GRLVDFIEKN-KISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFS 216
>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 = 100 bits (249), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 61/177 (34%), Positives = 99/177 (55%), Gaps = 6/177 (3%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
EN L+ + GF + + IQ R I P++EG D++ A++G+GKT F + A++ I
Sbjct: 23 ENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKA 82
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVA 524
P+ ++++PTREL++Q V+ L + +GG S +A+ L + I+V
Sbjct: 83 PQA----LMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-RDAQIVVG 137
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
TPGR+ D++Q F ++ I+DEAD +L GF+E + QI LLP Q +L S
Sbjct: 138 TPGRVFDNIQRR-RFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 193
>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 = 99.8 bits (247), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 60/177 (33%), Positives = 108/177 (61%), Gaps = 10/177 (5%)
Query: 408 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRN 467
L I +MG+ K + IQ +IP L GRD++ AK G+GK+ A+L+P +E + +LK ++
Sbjct: 15 LMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERL-DLK---KD 70
Query: 468 GTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIM---GGASRQAEAQKLAKGINIIVA 524
++I PTREL++Q + ++ K H +M GG + + + +L +++++A
Sbjct: 71 NIQAMVIVPTRELALQVSQICIQVSK--HMGGAKVMATTGGTNLRDDIMRLDDTVHVVIA 128
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
TPGR+LD ++ + ++Q +++DEAD++L F + M+ I+ LPK RQ +L+S
Sbjct: 129 TPGRILDLIKKGVAKV-DHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYS 184
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 98.2 bits (243), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 60/177 (33%), Positives = 98/177 (55%), Gaps = 6/177 (3%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
E L+ + GF + + IQ R I P++EG D++ A++G+GKT F + A++ I
Sbjct: 30 EQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKA 89
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVA 524
P+ ++++PTREL++Q V+ L + +GG S +A+ L + I+V
Sbjct: 90 PQA----LMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-RDAQIVVG 144
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
TPGR+ D++Q F ++ I+DEAD +L GF+E + QI LLP Q +L S
Sbjct: 145 TPGRVFDNIQRR-RFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 200
>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 = 98.2 bits (243), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 63/179 (35%), Positives = 96/179 (53%), Gaps = 11/179 (6%)
Query: 408 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMP-R 466
++AI + F K TEIQ R IP L G VG ++TG+GKT A+L+P E K P R
Sbjct: 16 IEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXE-----KIKPER 70
Query: 467 NGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLI----MGGASRQAEAQKLAKGINII 522
+I +PTREL+ Q + ++ K+ ++ +GG +Q +KL +I+
Sbjct: 71 AEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLNVQPHIV 130
Query: 523 VATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
+ TPGR+ D ++ ++ L++DEAD LD GF D+ QI PK Q ++FS
Sbjct: 131 IGTPGRINDFIREQALDVH-TAHILVVDEADLXLDXGFITDVDQIAARXPKDLQXLVFS 188
>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 = 94.4 bits (233), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 46/97 (47%), Positives = 63/97 (64%), Gaps = 1/97 (1%)
Query: 666 DLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKE 725
DLP++ HGK Q KRT+ +F E+GIL+CTDV ARG+D P V ++Q P +
Sbjct: 60 DLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELAN 119
Query: 726 YIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQAK 762
YIHR+GRTAR G G ++L + +EL F+R L+ AK
Sbjct: 120 YIHRIGRTARS-GKEGSSVLFICKDELPFVRELEDAK 155
>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 = 94.4 bits (233), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 46/97 (47%), Positives = 63/97 (64%), Gaps = 1/97 (1%)
Query: 666 DLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKE 725
DLP++ HGK Q KRT+ +F E+GIL+CTDV ARG+D P V ++Q P +
Sbjct: 60 DLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELAN 119
Query: 726 YIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQAK 762
YIHR+GRTAR G G ++L + +EL F+R L+ AK
Sbjct: 120 YIHRIGRTARS-GKEGSSVLFICKDELPFVRELEDAK 155
>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 = 94.4 bits (233), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 46/97 (47%), Positives = 63/97 (64%), Gaps = 1/97 (1%)
Query: 666 DLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKE 725
DLP++ HGK Q KRT+ +F E+GIL+CTDV ARG+D P V ++Q P +
Sbjct: 60 DLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELAN 119
Query: 726 YIHRVGRTARGEGSSGHALLILRPEELGFLRYLKQAK 762
YIHR+GRTAR G G ++L + +EL F+R L+ AK
Sbjct: 120 YIHRIGRTARS-GKEGSSVLFICKDELPFVRELEDAK 155
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 92.4 bits (228), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 61/178 (34%), Positives = 99/178 (55%), Gaps = 6/178 (3%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
E+ L+ I GF K + IQ R I P ++G D++ A++G+GKT F A+ ++ L+
Sbjct: 39 ESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATF---AISILQQLEIE 95
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKL-AKGINIIV 523
+ T ++++PTREL+ Q V+ L Y T +GG + + E QKL A+ +I+V
Sbjct: 96 FKE-TQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQAEAPHIVV 154
Query: 524 ATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLFS 581
TPGR+ D L N K ++ ++DEAD +L GF++ + +I L Q +L S
Sbjct: 155 GTPGRVFDML-NRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVLLS 211
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 88.6 bits (218), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 61/174 (35%), Positives = 95/174 (54%), Gaps = 14/174 (8%)
Query: 402 KVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNL 461
K+ L+ I D GF T IQ + IP +L GR+L+ SA TGSGKTLAF +P ++ L
Sbjct: 35 KINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIP---ILMQL 91
Query: 462 KFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHT----YGLIMGGASRQAEAQKLAK 517
K G +IISPTREL+ Q + +EL+K T + + + + K +K
Sbjct: 92 KQPANKGFRALIISPTRELASQ---IHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSK 148
Query: 518 GINIIVATPGRLLDHL-QNTPEFLYKNLQCLIIDEADRILD---IGFEEDMKQI 567
+I+V TP RL+ L Q+ P +++ L++DE+D++ + GF + + I
Sbjct: 149 KFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASI 202
>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 = 85.1 bits (209), Expect = 1e-16, Method: Composition-based stats.
Identities = 56/181 (30%), Positives = 91/181 (50%), Gaps = 12/181 (6%)
Query: 405 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 464
E+ L+ I GF + IQ R I P + G D++ A++G+G T F + ++ I +
Sbjct: 24 ESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQIE----L 79
Query: 465 PRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLA-KGINIIV 523
T ++++PTREL+ Q V+ L Y + +GG + +AE Q L + +IIV
Sbjct: 80 DLXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQXLQMEAPHIIV 139
Query: 524 ATPGRLLDHLQN---TPEFLYKNLQCLIIDEADRILDIGFEEDMKQIVNLLPKRRQTMLF 580
TPGR+ D L +P + + ++DEAD +L GF + + I L Q +L
Sbjct: 140 GTPGRVFDMLNRRYLSPXY----IXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQVVLL 195
Query: 581 S 581
S
Sbjct: 196 S 196
>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 = 83.6 bits (205), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 55/178 (30%), Positives = 96/178 (53%), Gaps = 10/178 (5%)
Query: 408 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRN 467
L+AI D GF +E+Q IP + G D++ AK+G GKT F++ ++ + P
Sbjct: 26 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ-----QLEPVT 80
Query: 468 G-TGIIIISPTRELSMQTFGVLKELMKYHHHT-YGLIMGGASRQAEAQKLAKGI-NIIVA 524
G ++++ TREL+ Q + KY + + GG S + + + L K +I+V
Sbjct: 81 GQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVG 140
Query: 525 TPGRLLDHLQNTPEFLYKNLQCLIIDEADRILD-IGFEEDMKQIVNLLPKRRQTMLFS 581
TPGR+L +N L K+++ I+DE D++L+ + D+++I + P +Q M+FS
Sbjct: 141 TPGRILALARNKSLNL-KHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFS 197
>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 = 72.4 bits (176), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 35/98 (35%), Positives = 55/98 (56%), Gaps = 4/98 (4%)
Query: 645 VMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAAR 704
V++F V HE L + + IHG + Q +RT F + +L+ TDVA++
Sbjct: 57 VLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASK 116
Query: 705 GLDIPAVDWIVQYDPPDDPKEYIHRVGRTARGEGSSGH 742
GLD PA+ ++ YD P++ + Y+HR+GRT G SG+
Sbjct: 117 GLDFPAIQHVINYDMPEEIENYVHRIGRT----GCSGN 150
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 72.0 bits (175), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 51/195 (26%), Positives = 102/195 (52%), Gaps = 11/195 (5%)
Query: 390 ILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKT 447
+ S FE L+ K L+ + MGF + ++IQ +P +L ++L+ +++G+GKT
Sbjct: 21 LYSVKSFEELRLK--PQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKT 78
Query: 448 LAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGAS 507
AF++ + + P+ + +SPT EL++QT V++++ K++ +
Sbjct: 79 AAFVLAMLSQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN 134
Query: 508 RQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDI-GFEEDMKQ 566
+ QK+++ I++ TPG +LD K ++ ++DEAD ++ G ++ +
Sbjct: 135 KLERGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIR 192
Query: 567 IVNLLPKRRQTMLFS 581
I +LP+ Q +LFS
Sbjct: 193 IQRMLPRNCQMLLFS 207
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 71.2 bits (173), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 51/195 (26%), Positives = 102/195 (52%), Gaps = 11/195 (5%)
Query: 390 ILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKT 447
+ S FE L+ K L+ + MGF + ++IQ +P +L ++L+ +++G+GKT
Sbjct: 88 LYSVKSFEELRLK--PQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKT 145
Query: 448 LAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGAS 507
AF++ + + P+ + +SPT EL++QT V++++ K++ +
Sbjct: 146 AAFVLAMLSQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN 201
Query: 508 RQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDEADRILDI-GFEEDMKQ 566
+ QK+++ I++ TPG +LD K ++ ++DEAD ++ G ++ +
Sbjct: 202 KLERGQKISE--QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIR 259
Query: 567 IVNLLPKRRQTMLFS 581
I +LP+ Q +LFS
Sbjct: 260 IQRMLPRNCQMLLFS 274
>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 = 71.2 bits (173), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 66/223 (29%), Positives = 113/223 (50%), Gaps = 30/223 (13%)
Query: 366 KDLTPPLISVGTVISADVSLSIPSILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQAR 425
+DL+ P G DV L+ P+ FE+L + L+ + GF + + +Q +
Sbjct: 6 QDLSSPRTRTG-----DVLLAEPA-----DFESLL--LSRPVLEGLRAAGFERPSPVQLK 53
Query: 426 TIPPLLEGRDLVGSAKTGSGKTLAFLVPAVE--LIYNLKFMPRNGTGIIIISPTRELSMQ 483
IP G DL+ AK+G+GKT F A++ ++ NL T I+I++PTRE+++Q
Sbjct: 54 AIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVLENLS------TQILILAPTREIAVQ 107
Query: 484 TFGVLKEL-MKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEFLYK 542
V+ + +K + +GG + +L K +I V +PGR ++ E Y
Sbjct: 108 IHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKK-CHIAVGSPGR----IKQLIELDYL 162
Query: 543 N---LQCLIIDEADRILDIG-FEEDMKQIVNLLPKRRQTMLFS 581
N ++ I+DEAD++L+ G F+E + I + LP +Q + S
Sbjct: 163 NPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVS 205
>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 = 69.3 bits (168), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 30/65 (46%), Positives = 41/65 (63%)
Query: 671 CIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRV 730
IHG + Q R QF + ++ IL+ T VAARGLDI V ++ +D P D +EY+HR+
Sbjct: 75 SIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRI 134
Query: 731 GRTAR 735
GRT R
Sbjct: 135 GRTGR 139
>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 = 66.6 bits (161), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 57/126 (45%)
Query: 610 EEATVAGLEQGYVVCPSEXXXXXXXXXXXXXXXXXVMVFFSSCMSVKFHHELLNYIDLPV 669
EE T+ G+ Q Y ++F +S V+ + ++ +
Sbjct: 12 EELTLKGVTQYYAYVTERQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSC 71
Query: 670 MCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHR 729
IH K +Q R F F N L+CTD+ RG+DI AV+ ++ +D P + Y+HR
Sbjct: 72 FYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHR 131
Query: 730 VGRTAR 735
+GR+ R
Sbjct: 132 IGRSGR 137
>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
pdb|2HJV|B Chain B, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
Length = 163
Score = 64.7 bits (156), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 35/94 (37%), Positives = 49/94 (52%), Gaps = 1/94 (1%)
Query: 662 LNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPD 721
L+ + P IHG Q R +F E L+ TDVAARG+DI + ++ YD P
Sbjct: 55 LDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPL 114
Query: 722 DPKEYIHRVGRTARGEGSSGHALLILRPEELGFL 755
+ + Y+HR GRT R G+ G A+ + E FL
Sbjct: 115 EKESYVHRTGRTGRA-GNKGKAISFVTAFEKRFL 147
>pdb|1XCR|A Chain A, Crystal Structure Of Longer Splice Variant Of Ptd012 From
Homo Sapiens Reveals A Novel Zinc-Containing Fold
pdb|1XCR|B Chain B, Crystal Structure Of Longer Splice Variant Of Ptd012 From
Homo Sapiens Reveals A Novel Zinc-Containing Fold
Length = 316
Score = 63.5 bits (153), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 26/67 (38%), Positives = 45/67 (67%), Gaps = 1/67 (1%)
Query: 256 QVIKIKVQTRIGKEDFVTSVRNVLAAHYKDQPVGLGGVILIENAPAKHHVMP-DFSTTPL 314
+VI++K + R G +FVT +R L HY ++P+G+GG +I+ K H+MP +FS+ PL
Sbjct: 170 KVIEVKAKRRTGPLNFVTCMRETLEKHYGNKPIGMGGTFIIQKGKVKSHIMPAEFSSCPL 229
Query: 315 ETKDQLN 321
+ +++N
Sbjct: 230 NSDEEVN 236
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 142 VLNQGLGKYFKEVSVSFTECPNLTSHPFNL 171
V+ +GL F +V VS +CP+LT PF
Sbjct: 20 VMQKGLKDNFADVQVSVVDCPDLTKEPFTF 49
>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 = 61.6 bits (148), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 31/84 (36%), Positives = 41/84 (48%)
Query: 645 VMVFFSSCMSVKFHHELLNYIDLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAAR 704
MVF + + + L + P +HG Q +R F E +L+ TDVAAR
Sbjct: 31 AMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAAR 90
Query: 705 GLDIPAVDWIVQYDPPDDPKEYIH 728
GLDIP VD +V Y PD + Y H
Sbjct: 91 GLDIPQVDLVVHYRMPDRAEAYQH 114
>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 = 61.6 bits (148), Expect = 2e-09, Method: Composition-based stats.
Identities = 36/109 (33%), Positives = 56/109 (51%), Gaps = 8/109 (7%)
Query: 659 HELLNYI---DLPVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIV 715
HEL N++ + + G+ Q KR + +L+ TDVAARG+DIP V +
Sbjct: 44 HELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVF 103
Query: 716 QYDPPDDPKEYIHRVGRTARGEGSSGHALLILRPEELGFL----RYLKQ 760
+D P Y+HR+GRTAR G G A+ ++ + L RY+++
Sbjct: 104 NFDMPRSGDTYLHRIGRTARA-GRKGTAISLVEAHDHLLLGKVGRYIEE 151
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 60.1 bits (144), Expect = 5e-09, Method: Composition-based stats.
Identities = 48/170 (28%), Positives = 75/170 (44%), Gaps = 14/170 (8%)
Query: 612 ATVAGLEQGYVVCPSEXXXXXXXXXXXXXXXXXVMVFFSSCMSVKFHHELLNYIDLPVMC 671
++ GL+Q YV V++F S +LL + P +
Sbjct: 1 GSLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIA 60
Query: 672 IHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVG 731
IH Q +R + + QF + + IL+ T++ RG+DI V+ YD P+D Y+HRV
Sbjct: 61 IHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVA 120
Query: 732 RTARGEGSSGHALLILRPEELGFLRYLKQAKIPLNE----FEFSWSKISD 777
R R G+ G A+ + E AKI LN+ FE + S++ D
Sbjct: 121 RAGRF-GTKGLAITFVSDE--------NDAKI-LNDVQDRFEVNISELPD 160
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 59.7 bits (143), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 39/73 (53%), Gaps = 6/73 (8%)
Query: 669 VMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPD------D 722
V +HG + +R F + +L+ T+V ARG+DIP V +V YD P D
Sbjct: 62 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQAD 121
Query: 723 PKEYIHRVGRTAR 735
P YIHR+GRT R
Sbjct: 122 PATYIHRIGRTGR 134
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 59.3 bits (142), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 39/73 (53%), Gaps = 6/73 (8%)
Query: 669 VMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPD------D 722
V +HG + +R F + +L+ T+V ARG+DIP V +V YD P D
Sbjct: 64 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQAD 123
Query: 723 PKEYIHRVGRTAR 735
P YIHR+GRT R
Sbjct: 124 PATYIHRIGRTGR 136
>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 = 58.9 bits (141), Expect = 1e-08, Method: Composition-based stats.
Identities = 29/73 (39%), Positives = 39/73 (53%), Gaps = 6/73 (8%)
Query: 669 VMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPD------D 722
V +HG + +R F + +L+ T+V ARG+DIP V +V YD P D
Sbjct: 63 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQAD 122
Query: 723 PKEYIHRVGRTAR 735
P YIHR+GRT R
Sbjct: 123 PATYIHRIGRTGR 135
>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 = 56.6 bits (135), Expect = 5e-08, Method: Composition-based stats.
Identities = 27/61 (44%), Positives = 33/61 (54%)
Query: 668 PVMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYI 727
P +HG Q +R F E +L+ TDVAARGLDIP VD +V Y PD + Y
Sbjct: 57 PAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQ 116
Query: 728 H 728
H
Sbjct: 117 H 117
>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 = 48.9 bits (115), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 44/79 (55%), Gaps = 7/79 (8%)
Query: 680 KRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPP------DDPKEYIHRVGRT 733
+R + +F + + +L+ T+V ARG+D+ V +V +D P D + Y+HR+GRT
Sbjct: 72 QRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRT 131
Query: 734 ARGEGSSGHALLILRPEEL 752
R G G A ++ +EL
Sbjct: 132 GRF-GKKGLAFNMIEVDEL 149
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 45.4 bits (106), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/62 (35%), Positives = 36/62 (58%)
Query: 669 VMCIHGKQKQMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIH 728
V I+ Q +R T +F + + IL+ TD+ ARG+D+ V ++ YD P + + YIH
Sbjct: 57 VSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 116
Query: 729 RV 730
R+
Sbjct: 117 RI 118
>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 = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 29/58 (50%)
Query: 678 QMKRTTTFFQFCNAETGILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTAR 735
Q ++ +F E +L+ T V GLD+P VD +V Y+P I R GRT R
Sbjct: 405 QREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR 462
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 39/151 (25%), Positives = 71/151 (47%), Gaps = 12/151 (7%)
Query: 402 KVCENTLKAIADMGFTKMTEIQARTIPP-LLEGRDLVGSAKTGSGKTLAFLVPAVELIYN 460
K+ N ++ I G K+ Q + LLEG L+ ++ TGSGKT L+ + +I
Sbjct: 14 KLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKT---LIAEMGII-- 68
Query: 461 LKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGIN 520
F+ +NG I ++P R L+ + + K+ + + + M + L K +
Sbjct: 69 -SFLLKNGGKAIYVTPLRALTNEKYLTFKD---WELIGFKVAMTSGDYDTDDAWL-KNYD 123
Query: 521 IIVATPGRLLDHLQNTPEFLYKNLQCLIIDE 551
II+ T +L ++ PE+L + ++DE
Sbjct: 124 IIITTYEKLDSLWRHRPEWL-NEVNYFVLDE 153
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 38.9 bits (89), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 26/105 (24%), Positives = 47/105 (44%), Gaps = 8/105 (7%)
Query: 650 SSCMSVKFHHELLNYIDLPVM------CIHGKQKQMKRTTTFFQFCNAETGILLCTDVAA 703
S ++VK E+ Y+ V +HG+ Q ++ +F IL+ T V
Sbjct: 591 SDKLNVKSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIE 650
Query: 704 RGLDIPAVDWIVQYDPPDDPKEYIHRV-GRTARGEGSSGHALLIL 747
G+D+P + +V +P +H++ GR RG G + L++
Sbjct: 651 VGIDVPRANVMVIENPERFGLAQLHQLRGRVGRG-GQEAYCFLVV 694
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 35.8 bits (81), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 24/107 (22%), Positives = 51/107 (47%), Gaps = 4/107 (3%)
Query: 429 PLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTG-IIIISPTRELSMQTFGV 487
P ++G++ + A TG GKT L+ ++LK P+ G ++ + + Q V
Sbjct: 24 PAMKGKNTIICAPTGCGKTFVSLLICE---HHLKKFPQGQKGKVVFFANQIPVYEQNKSV 80
Query: 488 LKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQ 534
+ + H + I G + +++ + +II+ TP L+++L+
Sbjct: 81 FSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLK 127
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 35.8 bits (81), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 24/107 (22%), Positives = 51/107 (47%), Gaps = 4/107 (3%)
Query: 429 PLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTG-IIIISPTRELSMQTFGV 487
P ++G++ + A TG GKT L+ ++LK P+ G ++ + + Q V
Sbjct: 15 PAMKGKNTIICAPTGCGKTFVSLLICE---HHLKKFPQGQKGKVVFFANQIPVYEQNKSV 71
Query: 488 LKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQ 534
+ + H + I G + +++ + +II+ TP L+++L+
Sbjct: 72 FSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLK 118
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/107 (22%), Positives = 51/107 (47%), Gaps = 4/107 (3%)
Query: 429 PLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTG-IIIISPTRELSMQTFGV 487
P ++G++ + A TG GKT L+ ++LK P+ G ++ + + Q V
Sbjct: 23 PAMKGKNTIICAPTGCGKTFVSLLICE---HHLKKFPQGQKGKVVFFANQIPVYEQQKSV 79
Query: 488 LKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQ 534
+ + H + I G + +++ + +II+ TP L+++L+
Sbjct: 80 FSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLK 126
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 47/111 (42%), Gaps = 10/111 (9%)
Query: 429 PLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIIS----PTRELSMQT 484
P +G++ + A TG GKT L+ ++LK P G ++ P E
Sbjct: 15 PAKKGKNTIICAPTGCGKTFVSLLICE---HHLKKFPCGQKGKVVFFANQIPVYEQQATV 71
Query: 485 FGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGINIIVATPGRLLDHLQN 535
F E + Y+ I G S Q + + +II+ TP L+++L N
Sbjct: 72 FSRYFERLGYN---IASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNN 119
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 33/151 (21%), Positives = 71/151 (47%), Gaps = 12/151 (7%)
Query: 402 KVCENTLKAIADMGFTKMTEIQARTIPP-LLEGRDLVGSAKTGSGKTLAFLVPAVELIYN 460
+V E + + G QA + +LEG++ + S T SGKT L+ + +++
Sbjct: 7 RVDERIKSTLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKT---LIAEIAMVH- 62
Query: 461 LKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQKLAKGIN 520
+ + + G + I+ P + L+ + F +E + + M ++ + L K +
Sbjct: 63 -RILTQGGKAVYIV-PLKALAEEKF---QEFQDWEKIGLRVAMATGDYDSKDEWLGK-YD 116
Query: 521 IIVATPGRLLDHLQNTPEFLYKNLQCLIIDE 551
II+AT + L++ ++ K+++ L+ DE
Sbjct: 117 IIIATAEKFDSLLRHGSSWI-KDVKILVADE 146
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 35/158 (22%), Positives = 65/158 (41%), Gaps = 14/158 (8%)
Query: 395 QFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTL-AFLVP 453
+ E L + + + + G ++ QA + + G++L+ + T +GKTL A +
Sbjct: 2 KVEELAESISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAM 61
Query: 454 AVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQAEAQ 513
E I G + + P R L+ + + K+ K GL +G ++ E++
Sbjct: 62 VREAI--------KGGKSLYVVPLRALAGEKYESFKKWEKI-----GLRIGISTGDYESR 108
Query: 514 KLAKGINIIVATPGRLLDHLQNTPEFLYKNLQCLIIDE 551
G I+ T D L K + CL++DE
Sbjct: 109 DEHLGDCDIIVTTSEKADSLIRNRASWIKAVSCLVVDE 146
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 27/122 (22%), Positives = 53/122 (43%), Gaps = 10/122 (8%)
Query: 418 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPT 477
K Q P + G++ + A TGSGKT ++ ++ + MP ++ T
Sbjct: 248 KARSYQIELAQPAINGKNALICAPTGSGKTFVSILICE---HHFQNMPAGRKAKVVFLAT 304
Query: 478 RELSMQTFGVLKELMKYHHHTYGLIMGGASRQ----AEAQKLAKGINIIVATPGRLLDHL 533
+ + + K + K+H G + G S + +K+ + +IIV TP L++
Sbjct: 305 K---VPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSF 361
Query: 534 QN 535
++
Sbjct: 362 ED 363
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 27/122 (22%), Positives = 53/122 (43%), Gaps = 10/122 (8%)
Query: 418 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPT 477
K Q P + G++ + A TGSGKT ++ ++ + MP ++ T
Sbjct: 248 KARSYQIELAQPAINGKNALICAPTGSGKTFVSILICE---HHFQNMPAGRKAKVVFLAT 304
Query: 478 RELSMQTFGVLKELMKYHHHTYGLIMGGASRQ----AEAQKLAKGINIIVATPGRLLDHL 533
+ + + K + K+H G + G S + +K+ + +IIV TP L++
Sbjct: 305 K---VPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSF 361
Query: 534 QN 535
++
Sbjct: 362 ED 363
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 28/126 (22%), Positives = 54/126 (42%), Gaps = 10/126 (7%)
Query: 414 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIII 473
M K Q P + G++ + A TGSGKT ++ ++ + MP ++
Sbjct: 3 METKKARSYQIELAQPAINGKNALICAPTGSGKTFVSILICE---HHFQNMPAGRKAKVV 59
Query: 474 ISPTRELSMQTFGVLKELMKYHHHTYGLIMGGASRQ----AEAQKLAKGINIIVATPGRL 529
T+ + + K + K+H G + G S + +K+ + +IIV TP L
Sbjct: 60 FLATK---VPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQIL 116
Query: 530 LDHLQN 535
++ ++
Sbjct: 117 VNSFED 122
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 679 MKRTTTFFQFCNAETG--ILLCTDVAARGLDIPAVDWIVQYDPPDDPKEYIHRVGRTAR 735
++R F +TG +LLC+++ + G + V +D P +P R+GR R
Sbjct: 541 IERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDR 599
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 414 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVEL 457
G+ + Q I +L GRD + TG GK+L + +PA+ L
Sbjct: 21 FGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALLL 64
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 30.8 bits (68), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%)
Query: 415 GFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVEL 457
G+ + Q I +L GRD + TG GK+L + +PA+ L
Sbjct: 22 GYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALLL 64
>pdb|1M6N|A Chain A, Crystal Structure Of The Seca Translocation Atpase From
Bacillus Subtilis
pdb|1M74|A Chain A, Crystal Structure Of Mg-Adp-Bound Seca From Bacillus
Subtilis
Length = 802
Score = 29.6 bits (65), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 57/127 (44%), Gaps = 17/127 (13%)
Query: 437 VGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHH 496
+ KTG GKTL +P +Y G G+ +++ L+ + + ++ ++
Sbjct: 97 IAEMKTGEGKTLTSTLP----VY---LNALTGKGVHVVTVNEYLASRDAEQMGKIFEFLG 149
Query: 497 HTYGLIMGGASRQAEAQKLAKGINIIVATPGRL-LDHLQNTPEFLYKN------LQCLII 549
T GL + S+ + ++ A +I +T L D+L++ LYK L +I
Sbjct: 150 LTVGLNLNSMSK--DEKREAYAADITYSTNNELGFDYLRDNM-VLYKEQMVQRPLHFAVI 206
Query: 550 DEADRIL 556
DE D IL
Sbjct: 207 DEVDSIL 213
>pdb|2IBM|A Chain A, A Novel Dimer Interface And Conformational Changes
Revealed By An X- Ray Structure Of B. Subtilis Seca
pdb|2IBM|B Chain B, A Novel Dimer Interface And Conformational Changes
Revealed By An X- Ray Structure Of B. Subtilis Seca
Length = 780
Score = 29.6 bits (65), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 57/127 (44%), Gaps = 17/127 (13%)
Query: 437 VGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHH 496
+ KTG GKTL +P +Y G G+ +++ L+ + + ++ ++
Sbjct: 97 IAEMKTGEGKTLTSTLP----VY---LNALTGKGVHVVTVNEYLASRDAEQMGKIFEFLG 149
Query: 497 HTYGLIMGGASRQAEAQKLAKGINIIVATPGRL-LDHLQNTPEFLYKN------LQCLII 549
T GL + S+ + ++ A +I +T L D+L++ LYK L +I
Sbjct: 150 LTVGLNLNSMSK--DEKREAYAADITYSTNNELGFDYLRDNM-VLYKEQMVQRPLHFAVI 206
Query: 550 DEADRIL 556
DE D IL
Sbjct: 207 DEVDSIL 213
>pdb|1TF2|A Chain A, Crystal Structure Of Seca:adp In An Open Conformation From
Bacillus Subtilis
pdb|1TF5|A Chain A, Crystal Structure Of Seca In An Open Conformation From
Bacillus Subtilis
Length = 844
Score = 29.6 bits (65), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 57/127 (44%), Gaps = 17/127 (13%)
Query: 437 VGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHH 496
+ KTG GKTL +P +Y G G+ +++ L+ + + ++ ++
Sbjct: 100 IAEMKTGEGKTLTSTLP----VY---LNALTGKGVHVVTVNEYLASRDAEQMGKIFEFLG 152
Query: 497 HTYGLIMGGASRQAEAQKLAKGINIIVATPGRL-LDHLQNTPEFLYKN------LQCLII 549
T GL + S+ + ++ A +I +T L D+L++ LYK L +I
Sbjct: 153 LTVGLNLNSMSK--DEKREAYAADITYSTNNELGFDYLRDNM-VLYKEQMVQRPLHFAVI 209
Query: 550 DEADRIL 556
DE D IL
Sbjct: 210 DEVDSIL 216
>pdb|3DL8|A Chain A, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
pdb|3DL8|B Chain B, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
Length = 779
Score = 29.6 bits (65), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 57/127 (44%), Gaps = 17/127 (13%)
Query: 437 VGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHH 496
+ KTG GKTL +P +Y G G+ +++ L+ + + ++ ++
Sbjct: 97 IAEMKTGEGKTLTSTLP----VY---LNALTGKGVHVVTVNEYLASRDAEQMGKIFEFLG 149
Query: 497 HTYGLIMGGASRQAEAQKLAKGINIIVATPGRL-LDHLQNTPEFLYKN------LQCLII 549
T GL + S+ + ++ A +I +T L D+L++ LYK L +I
Sbjct: 150 LTVGLNLNSMSK--DEKREAYAADITYSTNNELGFDYLRDNM-VLYKEQMVQRPLHFAVI 206
Query: 550 DEADRIL 556
DE D IL
Sbjct: 207 DEVDSIL 213
>pdb|2FSG|A Chain A, Complex Seca:atp From Escherichia Coli
pdb|2FSG|B Chain B, Complex Seca:atp From Escherichia Coli
Length = 853
Score = 29.3 bits (64), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 30/129 (23%), Positives = 53/129 (41%), Gaps = 21/129 (16%)
Query: 437 VGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHH 496
+ +TG GKTL +PA G G+ +++ L+ + + L ++
Sbjct: 91 IAEXRTGEGKTLTATLPAY-------LNALTGKGVHVVTVNDYLAQRDAENNRPLFEFLG 143
Query: 497 HTYGLIMGG----ASRQAEAQKLAKGINIIVATPGRLLDHLQNTPEF-----LYKNLQCL 547
T G+ + G A R+A A + G N D+L++ F + + L
Sbjct: 144 LTVGINLPGXPAPAKREAYAADITYGTNNEYG-----FDYLRDNXAFSPEERVQRKLHYA 198
Query: 548 IIDEADRIL 556
++DE D IL
Sbjct: 199 LVDEVDSIL 207
>pdb|3JV2|A Chain A, Crystal Structure Of B. Subtilis Seca With Bound Peptide
pdb|3JV2|B Chain B, Crystal Structure Of B. Subtilis Seca With Bound Peptide
Length = 783
Score = 29.3 bits (64), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 57/127 (44%), Gaps = 17/127 (13%)
Query: 437 VGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHH 496
+ KTG GKTL +P +Y G G+ +++ L+ + + ++ ++
Sbjct: 100 IAEMKTGEGKTLTSTLP----VY---LNALTGKGVHVVTVNEYLASRDAEQMGKIFEFLG 152
Query: 497 HTYGLIMGGASRQAEAQKLAKGINIIVATPGRL-LDHLQNTPEFLYKN------LQCLII 549
T GL + S+ + ++ A +I +T L D+L++ LYK L +I
Sbjct: 153 LTVGLNLNSMSK--DEKREAYAADITYSTNNELGFDYLRDNM-VLYKEQMVQRPLHFAVI 209
Query: 550 DEADRIL 556
DE D IL
Sbjct: 210 DEVDSIL 216
>pdb|2VDA|A Chain A, Solution Structure Of The Seca-Signal Peptide Complex
Length = 828
Score = 29.3 bits (64), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 31/125 (24%), Positives = 54/125 (43%), Gaps = 13/125 (10%)
Query: 437 VGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGTGIIIISPTRELSMQTFGVLKELMKYHH 496
+ +TG GKTL +PA G G+ +++ L+ + + L ++
Sbjct: 91 IAEMRTGEGKTLTATLPAY-------LNALTGKGVHVVTVNDYLAQRDAENNRPLFEFLG 143
Query: 497 HTYGLIMGG----ASRQAEAQKLAKGINIIVATPGRLLDHLQNTP-EFLYKNLQCLIIDE 551
T G+ + G A R+A A + G N L D++ +P E + + L ++DE
Sbjct: 144 LTVGINLPGMPAPAKREAYAADITYGTNNEYGFD-YLRDNMAFSPEERVQRKLHYALVDE 202
Query: 552 ADRIL 556
D IL
Sbjct: 203 VDSIL 207
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.137 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,700,143
Number of Sequences: 62578
Number of extensions: 954426
Number of successful extensions: 3884
Number of sequences better than 100.0: 98
Number of HSP's better than 100.0 without gapping: 70
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 3647
Number of HSP's gapped (non-prelim): 115
length of query: 838
length of database: 14,973,337
effective HSP length: 107
effective length of query: 731
effective length of database: 8,277,491
effective search space: 6050845921
effective search space used: 6050845921
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)