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= 008461
(564 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 147 bits (372), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 66/97 (68%), Positives = 82/97 (84%)
Query: 2 EKEHVNELNILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQL 61
E E +N +NILVCTPGRLLQHMDET +F + LQ+L+LDEADRILD+GF +NA++ L
Sbjct: 140 EAERINNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENL 199
Query: 62 PKHRQTFLFSATQTKSVQDLARLSLKDPQYLSVHEES 98
PK RQT LFSATQTKSV+DLARLSLK+P+Y+ VHE++
Sbjct: 200 PKKRQTLLFSATQTKSVKDLARLSLKNPEYVWVHEKA 236
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 123 bits (308), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 80/263 (30%), Positives = 145/263 (55%), Gaps = 24/263 (9%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHR---- 65
NI++ TPGRL+ +++ N + +LDEADR+L++GF+ L I L +
Sbjct: 152 NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSA 211
Query: 66 ---QTFLFSATQTKSVQDLAR--LSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLD 120
+T LFSAT VQ LA ++ K+ +L +++ R+ Q+ +I E+ +
Sbjct: 212 DNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVIS--EKFAN 269
Query: 121 MLWSFIKAHL---------NSKILVFLTSCKQVKYVFEAFK-KLRPGIPLMCLYGRMKQD 170
+++ ++ H+ N K ++F + K ++ K + + +P++ +G++ Q+
Sbjct: 270 SIFAAVE-HIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQN 328
Query: 171 RRMAIYAQFCEKRS-VLFCTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNS 229
+R ++ +F + S +L CTDV +RG+DF V V+Q+ P ++A+YIHR+GRTAR
Sbjct: 329 KRTSLVKRFKKDESGILVCTDVGARGMDF-PNVHEVLQIGVPSELANYIHRIGRTARSGK 387
Query: 230 GGRSVLFLTPTEMKMLEKLREAK 252
G SVLF+ E+ + +L +AK
Sbjct: 388 EGSSVLFICKDELPFVRELEDAK 410
>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 = 122 bits (306), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 80/263 (30%), Positives = 145/263 (55%), Gaps = 24/263 (9%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHR---- 65
NI++ TPGRL+ +++ N + +LDEADR+L++GF+ L I L +
Sbjct: 203 NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSA 262
Query: 66 ---QTFLFSATQTKSVQDLAR--LSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLD 120
+T LFSAT VQ LA ++ K+ +L +++ R+ Q+ +I E+ +
Sbjct: 263 DNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVIS--EKFAN 320
Query: 121 MLWSFIKAHL---------NSKILVFLTSCKQVKYVFEAFK-KLRPGIPLMCLYGRMKQD 170
+++ ++ H+ N K ++F + K ++ K + + +P++ +G++ Q+
Sbjct: 321 SIFAAVE-HIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQN 379
Query: 171 RRMAIYAQFCEKRS-VLFCTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNS 229
+R ++ +F + S +L CTDV +RG+DF V V+Q+ P ++A+YIHR+GRTAR
Sbjct: 380 KRTSLVKRFKKDESGILVCTDVGARGMDFPN-VHEVLQIGVPSELANYIHRIGRTARSGK 438
Query: 230 GGRSVLFLTPTEMKMLEKLREAK 252
G SVLF+ E+ + +L +AK
Sbjct: 439 EGSSVLFICKDELPFVRELEDAK 461
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 122 bits (305), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 80/263 (30%), Positives = 145/263 (55%), Gaps = 24/263 (9%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHR---- 65
NI++ TPGRL+ +++ N + +LDEADR+L++GF+ L I L +
Sbjct: 152 NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSA 211
Query: 66 ---QTFLFSATQTKSVQDLAR--LSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLD 120
+T LFSAT VQ LA ++ K+ +L +++ R+ Q+ +I E+ +
Sbjct: 212 DNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVIS--EKFAN 269
Query: 121 MLWSFIKAHL---------NSKILVFLTSCKQVKYVFEAFK-KLRPGIPLMCLYGRMKQD 170
+++ ++ H+ N K ++F + K ++ K + + +P++ +G++ Q+
Sbjct: 270 SIFAAVE-HIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQN 328
Query: 171 RRMAIYAQFCEKRS-VLFCTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNS 229
+R ++ +F + S +L CTDV +RG+DF V V+Q+ P ++A+YIHR+GRTAR
Sbjct: 329 KRTSLVKRFKKDESGILVCTDVGARGMDFPN-VHEVLQIGVPSELANYIHRIGRTARSGK 387
Query: 230 GGRSVLFLTPTEMKMLEKLREAK 252
G SVLF+ E+ + +L +AK
Sbjct: 388 EGSSVLFICKDELPFVRELEDAK 410
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 109 bits (273), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 53/88 (60%), Positives = 65/88 (73%), Gaps = 1/88 (1%)
Query: 7 NELNILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQ 66
N +NI+V TPGRLL HM TP F LQ L++DEADRILDVGF++ L I+ LP RQ
Sbjct: 175 NGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQ 234
Query: 67 TFLFSATQTKSVQDLARLSL-KDPQYLS 93
T LFSATQT+ V+DLAR+SL K+P Y+
Sbjct: 235 TMLFSATQTRKVEDLARISLKKEPLYVG 262
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 103 bits (258), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 83/252 (32%), Positives = 122/252 (48%), Gaps = 14/252 (5%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQ---LPKH-R 65
++LV TPGRL+ M E + L+LDEADR+LD+GF+ + IV Q PK R
Sbjct: 153 HLLVATPGRLVDMM-ERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVR 211
Query: 66 QTFLFSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDMLWSF 125
T +FSAT K +Q LAR L + +L+V V +T + Q + V K L
Sbjct: 212 HTMMFSATFPKEIQMLARDFLDEYIFLAVGR--VGSTSENITQKVVWVEESDKRSFLLDL 269
Query: 126 IKAHLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYG-RMKQDRRMAIYAQFCEKRS 184
+ A + + K+ E F G ++G R ++DR A++ K
Sbjct: 270 LNATGKDSLTLVFVETKKGADSLEDFL-YHEGYACTSIHGDRSQRDREEALHQFRSGKSP 328
Query: 185 VLFCTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTPTEMK- 243
+L T VA+RGLD + V V+ D P D+ Y+HR+GRT R + G + F +
Sbjct: 329 ILVATAVAARGLDISN-VKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINI 387
Query: 244 ---MLEKLREAK 252
+L+ L EAK
Sbjct: 388 TKDLLDLLVEAK 399
>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 = 103 bits (257), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 71/244 (29%), Positives = 121/244 (49%), Gaps = 14/244 (5%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQTFL 69
NI+V TPGR+L H++ + ++ ILDEAD L+ GF K + I++ K ++ L
Sbjct: 125 NIVVGTPGRILDHINRGT-LNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRILL 183
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDMLWSFIKAH 129
FSAT + + +LA+ D ++ + A ++Q+ + V ++ + L +K
Sbjct: 184 FSATXPREILNLAKKYXGDYSFIKA---KINAN---IEQSYVEVNENERFEALCRLLK-- 235
Query: 130 LNSKILVFLTSCKQVKYVFEAFKKLRP-GIPLMCLYGRMKQDRRMAIYAQFCEKR-SVLF 187
+K L CK + E LR G ++G + Q +R + F +K+ +L
Sbjct: 236 --NKEFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILI 293
Query: 188 CTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTPTEMKMLEK 247
TDV SRG+D N ++ V+ P++ SY HR+GRT R G+++ + E K L
Sbjct: 294 ATDVXSRGIDVND-LNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKLRY 352
Query: 248 LREA 251
+ A
Sbjct: 353 IERA 356
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 103 bits (256), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 74/228 (32%), Positives = 119/228 (52%), Gaps = 10/228 (4%)
Query: 9 LNILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQTF 68
++ILV TPGR+L + D S + I+DEAD++L FK + I+S LP Q+
Sbjct: 140 VHILVGTPGRVLD-LASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSL 198
Query: 69 LFSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDMLWS-FIK 127
LFSAT +V++ L P +++ EE T + Q V QKL L + F K
Sbjct: 199 LFSATFPLTVKEFMVKHLHKPYEINLMEE---LTLKGITQYYAFVEERQKLHCLNTLFSK 255
Query: 128 AHLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCE-KRSVL 186
+N I +F S +V+ + + L G + RMKQ R ++ +F + K L
Sbjct: 256 LQINQAI-IFCNSTNRVELLAKKITDL--GYSCYYSHARMKQQERNKVFHEFRQGKVRTL 312
Query: 187 FCTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSV 234
C+D+ +RG+D +AV+ V+ D P+ +Y+HR+GR+ R+ G ++
Sbjct: 313 VCSDLLTRGIDI-QAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAI 359
>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 = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 72/234 (30%), Positives = 117/234 (50%), Gaps = 12/234 (5%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQL---PKHRQ 66
++++ TPGRLL +D T + ++LDEADR+LD+GF + + I++ + P+H Q
Sbjct: 181 HVVIATPGRLLDFVDRT-FITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEH-Q 238
Query: 67 TFLFSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDMLWSFI 126
T +FSAT + +Q +A LK+ Y+ V V + ++QT V K L +
Sbjct: 239 TLMFSATFPEEIQRMAGEFLKN--YVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEIL 296
Query: 127 KAHLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYG-RMKQDRRMAIYAQFCEKRSV 185
+ I VF+ + + ++ + P ++G R++ R A+ V
Sbjct: 297 SEQADGTI-VFVETKRGADFLASFLSEKE--FPTTSIHGDRLQSQREQALRDFKNGSMKV 353
Query: 186 LFCTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTP 239
L T VASRGLD K + V+ D P + Y+HR+GRT R + GR+ F P
Sbjct: 354 LIATSVASRGLDI-KNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDP 406
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 96.3 bits (238), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 61/231 (26%), Positives = 126/231 (54%), Gaps = 7/231 (3%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILD-VGFKKALNAIVSQLPKHRQTF 68
+I+V TPGR+L + + + ++ ILDEAD++L+ + ++ + I P +Q
Sbjct: 129 HIVVGTPGRILA-LARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVM 187
Query: 69 LFSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDMLWSFIKA 128
+FSAT +K ++ + R ++DP + V +E+ T + LQQ + + +K L+ +
Sbjct: 188 MFSATLSKEIRPVCRKFMQDPMEIFVDDET-KLTLHGLQQYYVKLKDNEKNRKLFDLLDV 246
Query: 129 HLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCE-KRSVLF 187
+++++F+ S ++ + + + P + ++ M Q+ R++ Y QF + +R +L
Sbjct: 247 LEFNQVVIFVKSVQRCIALAQLL--VEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILV 304
Query: 188 CTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLT 238
T++ RG+D + V+ D PED +Y+HRV R R+ + G ++ F++
Sbjct: 305 ATNLFGRGMDIER-VNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVS 354
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 94.4 bits (233), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 60/231 (25%), Positives = 125/231 (54%), Gaps = 7/231 (3%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILD-VGFKKALNAIVSQLPKHRQTF 68
+I+V TPGR+L + + + ++ ILDE D++L+ + ++ + I P +Q
Sbjct: 130 HIVVGTPGRILA-LARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVM 188
Query: 69 LFSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDMLWSFIKA 128
+FSAT +K ++ + R ++DP + V +E+ T + LQQ + + +K L+ +
Sbjct: 189 MFSATLSKEIRPVCRKFMQDPMEIFVDDET-KLTLHGLQQYYVKLKDNEKNRKLFDLLDV 247
Query: 129 HLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCE-KRSVLF 187
+++++F+ S ++ + + + P + ++ M Q+ R++ Y QF + +R +L
Sbjct: 248 LEFNQVVIFVKSVQRCIALAQLL--VEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILV 305
Query: 188 CTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLT 238
T++ RG+D + V+ D PED +Y+HRV R R+ + G ++ F++
Sbjct: 306 ATNLFGRGMDIER-VNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVS 355
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 94.0 bits (232), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 60/231 (25%), Positives = 125/231 (54%), Gaps = 7/231 (3%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILD-VGFKKALNAIVSQLPKHRQTF 68
+I+V TPGR+L + + + ++ ILDE D++L+ + ++ + I P +Q
Sbjct: 130 HIVVGTPGRILA-LARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVM 188
Query: 69 LFSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDMLWSFIKA 128
+FSAT +K ++ + R ++DP + V +E+ T + LQQ + + +K L+ +
Sbjct: 189 MFSATLSKEIRPVCRKFMQDPMEIFVDDET-KLTLHGLQQYYVKLKDNEKNRKLFDLLDV 247
Query: 129 HLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCE-KRSVLF 187
+++++F+ S ++ + + + P + ++ M Q+ R++ Y QF + +R +L
Sbjct: 248 LEFNQVVIFVKSVQRCIALAQLL--VEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILV 305
Query: 188 CTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLT 238
T++ RG+D + V+ D PED +Y+HRV R R+ + G ++ F++
Sbjct: 306 ATNLFGRGMDIER-VNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVS 355
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 92.8 bits (229), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 67/243 (27%), Positives = 122/243 (50%), Gaps = 8/243 (3%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQTFL 69
+++ TPGR+ M + +++L+LDEAD +L+ GFK+ + + LP Q L
Sbjct: 121 HVVAGTPGRVFD-MIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVL 179
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQ-KLDMLWSFIKA 128
SAT V ++ + DP + V + +T ++Q + V E+ K D L
Sbjct: 180 ISATLPHEVLEMTNKFMTDPIRILVKRDELTL--EGIKQFFVAVEREEWKFDTLCDLYDT 237
Query: 129 HLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCEKRS-VLF 187
++ ++F + ++V ++ E ++ + ++G M Q R +I +F S VL
Sbjct: 238 LTITQAVIFCNTKRKVDWLTEKMRE--ANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 295
Query: 188 CTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTPTEMKMLEK 247
TDV +RGLD + V ++ D P + YIHR+GR+ RY G +V F+ ++++L
Sbjct: 296 STDVWARGLDVPQ-VSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRD 354
Query: 248 LRE 250
+ +
Sbjct: 355 IEQ 357
>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 = 92.0 bits (227), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 65/243 (26%), Positives = 122/243 (50%), Gaps = 8/243 (3%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQTFL 69
+++ TPGR+ M + +++L+LDEAD +L+ GFK+ + + LP Q L
Sbjct: 158 HVVAGTPGRVFD-MIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVL 216
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQ-KLDMLWSFIKA 128
SAT + ++ + DP + V + +T ++Q + V E+ K D L
Sbjct: 217 ISATLPHEILEMTNKFMTDPIRILVKRDELTL--EGIKQFFVAVEREEWKFDTLCDLYDT 274
Query: 129 HLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCEKRS-VLF 187
++ ++F + ++V ++ E ++ + ++G M Q R +I +F S VL
Sbjct: 275 LTITQAVIFCNTKRKVDWLTEKMRE--ANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 332
Query: 188 CTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTPTEMKMLEK 247
TDV +RGLD + V ++ D P + YIHR+GR+ RY G ++ F+ ++++L
Sbjct: 333 STDVWARGLDVPQ-VSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRD 391
Query: 248 LRE 250
+ +
Sbjct: 392 IEQ 394
>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 = 92.0 bits (227), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 65/243 (26%), Positives = 122/243 (50%), Gaps = 8/243 (3%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQTFL 69
+++ TPGR+ M + +++L+LDEAD +L+ GFK+ + + LP Q L
Sbjct: 157 HVVAGTPGRVFD-MIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVL 215
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQ-KLDMLWSFIKA 128
SAT + ++ + DP + V + +T ++Q + V E+ K D L
Sbjct: 216 ISATLPHEILEMTNKFMTDPIRILVKRDELTL--EGIKQFFVAVEREEWKFDTLCDLYDT 273
Query: 129 HLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCEKRS-VLF 187
++ ++F + ++V ++ E ++ + ++G M Q R +I +F S VL
Sbjct: 274 LTITQAVIFCNTKRKVDWLTEKMRE--ANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 331
Query: 188 CTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTPTEMKMLEK 247
TDV +RGLD + V ++ D P + YIHR+GR+ RY G ++ F+ ++++L
Sbjct: 332 STDVWARGLDVPQ-VSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRD 390
Query: 248 LRE 250
+ +
Sbjct: 391 IEQ 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 = 92.0 bits (227), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 65/243 (26%), Positives = 122/243 (50%), Gaps = 8/243 (3%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQTFL 69
+++ TPGR+ M + +++L+LDEAD +L+ GFK+ + + LP Q L
Sbjct: 158 HVVAGTPGRVFD-MIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVL 216
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQ-KLDMLWSFIKA 128
SAT + ++ + DP + V + +T ++Q + V E+ K D L
Sbjct: 217 ISATLPHEILEMTNKFMTDPIRILVKRDELTL--EGIKQFFVAVEREEWKFDTLCDLYDT 274
Query: 129 HLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCEKRS-VLF 187
++ ++F + ++V ++ E ++ + ++G M Q R +I +F S VL
Sbjct: 275 LTITQAVIFCNTKRKVDWLTEKMRE--ANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 332
Query: 188 CTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTPTEMKMLEK 247
TDV +RGLD + V ++ D P + YIHR+GR+ RY G ++ F+ ++++L
Sbjct: 333 STDVWARGLDVPQ-VSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRD 391
Query: 248 LRE 250
+ +
Sbjct: 392 IEQ 394
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 91.7 bits (226), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 66/243 (27%), Positives = 122/243 (50%), Gaps = 8/243 (3%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQTFL 69
+++ TPGR+ M + +++L+LDEAD +L+ GFK+ + + LP Q L
Sbjct: 121 HVVAGTPGRVFD-MIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVL 179
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQ-KLDMLWSFIKA 128
SAT + ++ + DP + V + +T ++Q + V E+ K D L
Sbjct: 180 ISATLPHEILEMTNKFMTDPIRILVKRDELTL--EGIKQFFVAVEREEWKFDTLCDLYDT 237
Query: 129 HLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCEKRS-VLF 187
++ ++F + ++V ++ E ++ + ++G M Q R +I +F S VL
Sbjct: 238 LTITQAVIFCNTKRKVDWLTEKMRE--ANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 295
Query: 188 CTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTPTEMKMLEK 247
TDV +RGLD + V ++ D P + YIHR+GR+ RY G +V F+ ++++L
Sbjct: 296 STDVWARGLDVPQ-VSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRD 354
Query: 248 LRE 250
+ +
Sbjct: 355 IEQ 357
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 91.7 bits (226), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 65/243 (26%), Positives = 122/243 (50%), Gaps = 8/243 (3%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQTFL 69
+++ TPGR+ M + +++L+LDEAD +L+ GFK+ + + LP Q L
Sbjct: 136 HVVAGTPGRVFD-MIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVL 194
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQ-KLDMLWSFIKA 128
SAT + ++ + DP + V + +T ++Q + V E+ K D L
Sbjct: 195 ISATLPHEILEMTNKFMTDPIRILVKRDELTL--EGIKQFFVAVEREEWKFDTLCDLYDT 252
Query: 129 HLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCEKRS-VLF 187
++ ++F + ++V ++ E ++ + ++G M Q R +I +F S VL
Sbjct: 253 LTITQAVIFCNTKRKVDWLTEKMRE--ANFTVSSMHGDMPQKERESIMKEFRSGASRVLI 310
Query: 188 CTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTPTEMKMLEK 247
TDV +RGLD + V ++ D P + YIHR+GR+ RY G ++ F+ ++++L
Sbjct: 311 STDVWARGLDVPQ-VSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRD 369
Query: 248 LRE 250
+ +
Sbjct: 370 IEQ 372
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 86.3 bits (212), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 70/241 (29%), Positives = 119/241 (49%), Gaps = 30/241 (12%)
Query: 5 HVNELNILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKH 64
V +I+V TPGRLL + D S +I+I+DEAD + ++GF + I++Q
Sbjct: 102 RVRNADIVVATPGRLLDLWSKGV-IDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNR 160
Query: 65 RQTFLFSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDML-- 122
+ T LFSAT + ++ + + +++ +EE ++ + +E K +
Sbjct: 161 KITGLFSATIPEEIRKVVK------DFITNYEE--------IEACIGLANVEHKFVHVKD 206
Query: 123 -W-SFIKAHLNSK---ILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYA 177
W S ++A +K ++VF+ + +V + F + L G + Q R
Sbjct: 207 DWRSKVQALRENKDKGVIVFVRTRNRVAKLVRLFDNA------IELRGDLPQSVRNRNID 260
Query: 178 QFCE-KRSVLFCTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLF 236
F E + +L TDVASRGLD V+ V+ D P+D+ +YIHR+GRT R G ++ F
Sbjct: 261 AFREGEYDMLITTDVASRGLDI-PLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITF 319
Query: 237 L 237
+
Sbjct: 320 I 320
>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 = 85.9 bits (211), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 43/124 (34%), Positives = 76/124 (61%), Gaps = 3/124 (2%)
Query: 131 NSKILVFLTSCKQVKYVFEAFK-KLRPGIPLMCLYGRMKQDRRMAIYAQFCEKRS-VLFC 188
N K ++F + K ++ K + + +P++ +G++ Q++R ++ +F + S +L C
Sbjct: 33 NYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVC 92
Query: 189 TDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTPTEMKMLEKL 248
TDV +RG+DF V V+Q+ P ++A+YIHR+GRTAR G SVLF+ E+ + +L
Sbjct: 93 TDVGARGMDFPN-VHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVREL 151
Query: 249 REAK 252
+AK
Sbjct: 152 EDAK 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 = 85.9 bits (211), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 43/124 (34%), Positives = 76/124 (61%), Gaps = 3/124 (2%)
Query: 131 NSKILVFLTSCKQVKYVFEAFK-KLRPGIPLMCLYGRMKQDRRMAIYAQFCEKRS-VLFC 188
N K ++F + K ++ K + + +P++ +G++ Q++R ++ +F + S +L C
Sbjct: 33 NYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVC 92
Query: 189 TDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTPTEMKMLEKL 248
TDV +RG+DF V V+Q+ P ++A+YIHR+GRTAR G SVLF+ E+ + +L
Sbjct: 93 TDVGARGMDFPN-VHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVREL 151
Query: 249 REAK 252
+AK
Sbjct: 152 EDAK 155
>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 = 85.5 bits (210), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 43/124 (34%), Positives = 76/124 (61%), Gaps = 3/124 (2%)
Query: 131 NSKILVFLTSCKQVKYVFEAFK-KLRPGIPLMCLYGRMKQDRRMAIYAQFCEKRS-VLFC 188
N K ++F + K ++ K + + +P++ +G++ Q++R ++ +F + S +L C
Sbjct: 33 NYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVC 92
Query: 189 TDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTPTEMKMLEKL 248
TDV +RG+DF V V+Q+ P ++A+YIHR+GRTAR G SVLF+ E+ + +L
Sbjct: 93 TDVGARGMDFPN-VHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVREL 151
Query: 249 REAK 252
+AK
Sbjct: 152 EDAK 155
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 85.5 bits (210), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 39/85 (45%), Positives = 61/85 (71%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQTFL 69
+I++ TPGRL+ H++ T F+ L+ L++DEADRIL++ F+ ++ I+ +P+ R+TFL
Sbjct: 163 HIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFL 222
Query: 70 FSATQTKSVQDLARLSLKDPQYLSV 94
FSAT TK VQ L R +LK+P +V
Sbjct: 223 FSATMTKKVQKLQRAALKNPVKCAV 247
>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 = 85.1 bits (209), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 71/258 (27%), Positives = 122/258 (47%), Gaps = 18/258 (6%)
Query: 11 ILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDV-GFKKALNAIVSQLPKHRQTFL 69
I++ TPG +L + D ++++ +LDEAD ++ G + I LP++ Q L
Sbjct: 213 IVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLL 272
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDMLWSFIKAH 129
FSAT SV A+ + DP + + E T + Q + ++K L + A
Sbjct: 273 FSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIK-QYYVLCSSRDEKFQALCNLYGAI 331
Query: 130 LNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCE-KRSVLFC 188
++ ++F + K ++ K G + L G M ++R A+ +F E K VL
Sbjct: 332 TIAQAMIFCHTRKTASWLAAELSK--EGHQVALLSGEMMVEQRAAVIERFREGKEKVLVT 389
Query: 189 TDVASRGLDFNKAVDWVVQVDCP------EDVASYIHRVGRTARYNSGGRSVLFL-TPTE 241
T+V +RG+D + V V+ D P D +Y+HR+GRT R+ G +V + +
Sbjct: 390 TNVCARGIDVEQ-VSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHS 448
Query: 242 MKMLEKLREAKIPIHFTK 259
M +L +++E HF K
Sbjct: 449 MNILNRIQE-----HFNK 461
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 84.7 bits (208), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 71/258 (27%), Positives = 122/258 (47%), Gaps = 18/258 (6%)
Query: 11 ILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDV-GFKKALNAIVSQLPKHRQTFL 69
I++ TPG +L + D ++++ +LDEAD ++ G + I LP++ Q L
Sbjct: 162 IVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLL 221
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDMLWSFIKAH 129
FSAT SV A+ + DP + + E T + Q + ++K L + A
Sbjct: 222 FSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIK-QYYVLCSSRDEKFQALCNLYGAI 280
Query: 130 LNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCE-KRSVLFC 188
++ ++F + K ++ K G + L G M ++R A+ +F E K VL
Sbjct: 281 TIAQAMIFCHTRKTASWLAAELSK--EGHQVALLSGEMMVEQRAAVIERFREGKEKVLVT 338
Query: 189 TDVASRGLDFNKAVDWVVQVDCP------EDVASYIHRVGRTARYNSGGRSVLFL-TPTE 241
T+V +RG+D + V V+ D P D +Y+HR+GRT R+ G +V + +
Sbjct: 339 TNVCARGIDVEQ-VSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHS 397
Query: 242 MKMLEKLREAKIPIHFTK 259
M +L +++E HF K
Sbjct: 398 MNILNRIQE-----HFNK 410
>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 = 84.7 bits (208), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 71/258 (27%), Positives = 122/258 (47%), Gaps = 18/258 (6%)
Query: 11 ILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDV-GFKKALNAIVSQLPKHRQTFL 69
I++ TPG +L + D ++++ +LDEAD ++ G + I LP++ Q L
Sbjct: 146 IVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLL 205
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDMLWSFIKAH 129
FSAT SV A+ + DP + + E T + Q + ++K L + A
Sbjct: 206 FSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIK-QYYVLCSSRDEKFQALCNLYGAI 264
Query: 130 LNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCE-KRSVLFC 188
++ ++F + K ++ K G + L G M ++R A+ +F E K VL
Sbjct: 265 TIAQAMIFCHTRKTASWLAAELSK--EGHQVALLSGEMMVEQRAAVIERFREGKEKVLVT 322
Query: 189 TDVASRGLDFNKAVDWVVQVDCP------EDVASYIHRVGRTARYNSGGRSVLFL-TPTE 241
T+V +RG+D + V V+ D P D +Y+HR+GRT R+ G +V + +
Sbjct: 323 TNVCARGIDVEQ-VSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHS 381
Query: 242 MKMLEKLREAKIPIHFTK 259
M +L +++E HF K
Sbjct: 382 MNILNRIQE-----HFNK 394
>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 = 84.7 bits (208), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 71/258 (27%), Positives = 122/258 (47%), Gaps = 18/258 (6%)
Query: 11 ILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDV-GFKKALNAIVSQLPKHRQTFL 69
I++ TPG +L + D ++++ +LDEAD ++ G + I LP++ Q L
Sbjct: 183 IVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLL 242
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDMLWSFIKAH 129
FSAT SV A+ + DP + + E T + Q + ++K L + A
Sbjct: 243 FSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIK-QYYVLCSSRDEKFQALCNLYGAI 301
Query: 130 LNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCE-KRSVLFC 188
++ ++F + K ++ K G + L G M ++R A+ +F E K VL
Sbjct: 302 TIAQAMIFCHTRKTASWLAAELSK--EGHQVALLSGEMMVEQRAAVIERFREGKEKVLVT 359
Query: 189 TDVASRGLDFNKAVDWVVQVDCP------EDVASYIHRVGRTARYNSGGRSVLFL-TPTE 241
T+V +RG+D + V V+ D P D +Y+HR+GRT R+ G +V + +
Sbjct: 360 TNVCARGIDVEQ-VSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHS 418
Query: 242 MKMLEKLREAKIPIHFTK 259
M +L +++E HF K
Sbjct: 419 MNILNRIQE-----HFNK 431
>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 = 79.7 bits (195), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 69/236 (29%), Positives = 108/236 (45%), Gaps = 15/236 (6%)
Query: 11 ILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDV-GFKKALNAIVSQLPKHRQTFL 69
++V TPG +L M +++I +LDEAD +LD G + LPK Q L
Sbjct: 124 VIVGTPGTVLDLMRRKL-MQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVL 182
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQ-KLDMLWSFIKA 128
FSAT +V+ A+ + + L + V + ++Q M E K D+L
Sbjct: 183 FSATFADAVRQYAKKIVPNANTLELQTNEVNV--DAIKQLYMDCKNEADKFDVLTELYGV 240
Query: 129 HLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCEKRS-VLF 187
++F+ + K ++ K G + L+G ++ R + F E RS VL
Sbjct: 241 MTIGSSIIFVATKKTANVLYGKLKS--EGHEVSILHGDLQTQERDRLIDDFREGRSKVLI 298
Query: 188 CTDVASRGLDFNKAVDWVVQVDCP------EDVASYIHRVGRTARYNSGGRSVLFL 237
T+V +RG+D V VV D P D A+YIHR+GRT R+ G ++ F+
Sbjct: 299 TTNVLARGIDI-PTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 353
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 79.3 bits (194), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 71/246 (28%), Positives = 110/246 (44%), Gaps = 15/246 (6%)
Query: 1 MEKEHVNELNILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDV-GFKKALNAIVS 59
EK ++V TPG +L M +++I +LDEAD +LD G +
Sbjct: 114 FEKNKQINAQVIVGTPGTVLDLMRRKL-MQLQKIKIFVLDEADNMLDQQGLGDQCIRVKR 172
Query: 60 QLPKHRQTFLFSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQ-K 118
LPK Q LFSAT +V+ A+ + + L + V + ++Q M E K
Sbjct: 173 FLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNV--DAIKQLYMDCKNEADK 230
Query: 119 LDMLWSFIKAHLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQ 178
D+L ++F+ + K ++ K G + L+G ++ R +
Sbjct: 231 FDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKS--EGHEVSILHGDLQTQERDRLIDD 288
Query: 179 FCEKRS-VLFCTDVASRGLDFNKAVDWVVQVDCP------EDVASYIHRVGRTARYNSGG 231
F E RS VL T+V +RG+D V VV D P D A+YIHR+GRT R+ G
Sbjct: 289 FREGRSKVLITTNVLARGIDI-PTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKG 347
Query: 232 RSVLFL 237
++ F+
Sbjct: 348 VAISFV 353
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 77.8 bits (190), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 64/223 (28%), Positives = 109/223 (48%), Gaps = 17/223 (7%)
Query: 1 MEKEHVNELNILVCTPGRLLQHMDE---TPNFDCSQLQILILDEADRILDVGFKKALNAI 57
ME H I+V TPGR+ ++ +P + +++ +LDEAD +L GFK + I
Sbjct: 157 MEAPH-----IIVGTPGRVFDMLNRRYLSPKY----IKMFVLDEADEMLSRGFKDQIYDI 207
Query: 58 VSQLPKHRQTFLFSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQ 117
+L + Q L SAT V ++ + ++DP + V +E +T R Q + E
Sbjct: 208 FQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIR-QFYINVEREEW 266
Query: 118 KLDMLWSFIKAHLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYA 177
KLD L + ++ ++F+ + ++V ++ E K + ++G M Q R I
Sbjct: 267 KLDTLCDLYETLTITQAVIFINTRRKVDWLTE--KMHARDFTVSAMHGDMDQKERDVIMR 324
Query: 178 QFCEKRS-VLFCTDVASRGLDFNKAVDWVVQVDCPEDVASYIH 219
+F S VL TD+ +RG+D + V V+ D P + +YIH
Sbjct: 325 EFRSGSSRVLITTDLLARGIDVQQ-VSLVINYDLPTNRENYIH 366
>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 = 77.0 bits (188), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 61/214 (28%), Positives = 107/214 (50%), Gaps = 12/214 (5%)
Query: 10 NILVCTPGRLLQHMDE---TPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQ 66
+I+V TPGR+ ++ +P + +++ +LDEAD +L GFK + I +L + Q
Sbjct: 135 HIIVGTPGRVFDMLNRRYLSPKY----IKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQ 190
Query: 67 TFLFSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDMLWSFI 126
L SAT V ++ + ++DP + V +E +T R Q + E KLD L
Sbjct: 191 VVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIR-QFYINVEREEWKLDTLCDLY 249
Query: 127 KAHLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCEKRS-V 185
+ ++ ++F+ + ++V ++ E K + ++G M Q R I +F S V
Sbjct: 250 ETLTITQAVIFINTRRKVDWLTE--KMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRV 307
Query: 186 LFCTDVASRGLDFNKAVDWVVQVDCPEDVASYIH 219
L TD+ +RG+D + V V+ D P + +YIH
Sbjct: 308 LITTDLLARGIDVQQ-VSLVINYDLPTNRENYIH 340
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 77.0 bits (188), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 68/237 (28%), Positives = 115/237 (48%), Gaps = 17/237 (7%)
Query: 11 ILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDV-GFKKALNAIVSQLPKHRQTFL 69
I++ TPG ++ M D +++ +LDEAD +LD G I LP++ Q L
Sbjct: 238 IVIGTPGTVMDLMKRR-QLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVL 296
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQ-KLDMLWSFIKA 128
FSAT ++ V+ A + + + E ++ ++Q M E+ K ++L
Sbjct: 297 FSATFSERVEKYAERFAPNANEIRLKTEELSV--EGIKQLYMDCQSEEHKYNVLVELYGL 354
Query: 129 HLNSKILVFLTSCKQVKYVFEAFKKLRP-GIPLMCLYGRMKQDRRMAIYAQFCEKRS-VL 186
+ ++F CK+ E +++ G + CL G ++ +R AI F S VL
Sbjct: 355 LTIGQSIIF---CKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVL 411
Query: 187 FCTDVASRGLDFNKAVDWVVQVDCPEDVA------SYIHRVGRTARYNSGGRSVLFL 237
T+V +RG+D ++ V+ VV D P D A +Y+HR+GRT R+ G S+ F+
Sbjct: 412 VTTNVIARGIDVSQ-VNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFV 467
>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 = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 72/257 (28%), Positives = 126/257 (49%), Gaps = 11/257 (4%)
Query: 2 EKEHVNELNILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQL 61
+ E + + I+V TPGR+ ++ + F ++++ ILDEAD +L GFK+ + I + L
Sbjct: 133 DAEGLRDAQIVVGTPGRVFDNI-QRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL 191
Query: 62 PKHRQTFLFSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDM 121
P Q L SAT V ++ +++P + V ++ +T + Q + E K +
Sbjct: 192 PPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIK-QFYVNVEEEEYKYEC 250
Query: 122 LWSFIKAHLNSKILVFLTSCKQVKYVFEAFKKLRPG-IPLMCLYGRMKQDRRMAIYAQFC 180
L + ++ ++F C + V E KLR + +Y + Q R I +F
Sbjct: 251 LTDLYDSISVTQAVIF---CNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFR 307
Query: 181 EKRS-VLFCTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTP 239
S +L TD+ +RG+D + V V+ D P + +YIHR+GR R+ G ++ F+T
Sbjct: 308 SGSSRILISTDLLARGIDVQQ-VSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTN 366
Query: 240 TE---MKMLEKLREAKI 253
+ M+ LEK +I
Sbjct: 367 EDVGAMRELEKFYSTQI 383
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 70.1 bits (170), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 60/220 (27%), Positives = 103/220 (46%), Gaps = 8/220 (3%)
Query: 2 EKEHVNELNILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQL 61
+ E + + I+V TPGR+ ++ + F +++ ILDEAD L GFK+ + I + L
Sbjct: 132 DAEGLRDAQIVVGTPGRVFDNI-QRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLL 190
Query: 62 PKHRQTFLFSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDM 121
P Q L SAT V ++ ++P + V ++ +T + Q + E K +
Sbjct: 191 PPTTQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIK-QFYVNVEEEEYKYEC 249
Query: 122 LWSFIKAHLNSKILVFLTSCKQVKYVFEAFKKLRPG-IPLMCLYGRMKQDRRMAIYAQFC 180
L + ++ ++F C + V E KLR + +Y + Q R I +F
Sbjct: 250 LTDLYDSISVTQAVIF---CNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFR 306
Query: 181 EKRS-VLFCTDVASRGLDFNKAVDWVVQVDCPEDVASYIH 219
S +L TD+ +RG+D + V V+ D P + +YIH
Sbjct: 307 SGSSRILISTDLLARGIDVQQ-VSLVINYDLPANKENYIH 345
>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 = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 32/85 (37%), Positives = 54/85 (63%), Gaps = 1/85 (1%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQTFL 69
+ +V TPGR L ++ + D S++++ +LDEAD +L +GF++ + A++S P RQT L
Sbjct: 122 DAVVATPGRALDYLRQG-VLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLL 180
Query: 70 FSATQTKSVQDLARLSLKDPQYLSV 94
FSAT + LA +K+P ++V
Sbjct: 181 FSATLPSWAKRLAERYMKNPVLINV 205
>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 = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 32/85 (37%), Positives = 54/85 (63%), Gaps = 1/85 (1%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQTFL 69
+ +V TPGR L ++ + D S++++ +LDEAD +L +GF++ + A++S P RQT L
Sbjct: 122 DAVVATPGRALDYLRQG-VLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLL 180
Query: 70 FSATQTKSVQDLARLSLKDPQYLSV 94
FSAT + LA +K+P ++V
Sbjct: 181 FSATLPSWAKRLAERYMKNPVLINV 205
>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 = 62.8 bits (151), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 42/152 (27%), Positives = 71/152 (46%), Gaps = 8/152 (5%)
Query: 102 TPNRLQQTAMIVPLEQKLDMLWSFIKAHLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLM 161
T ++ + V E K +L + ++F + + V + + L G P
Sbjct: 6 TTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDL--GYPCD 63
Query: 162 CLYGRMKQDRRMAIYAQFCEKRS---VLFCTDVASRGLDFNKAVDWVVQVDCPEDVASYI 218
++G M Q+ R + +F KR L TDVA+RG+D + V+ D P + SY+
Sbjct: 64 KIHGGMIQEDRFDVMNEF--KRGEYRYLVATDVAARGIDIEN-ISLVINYDLPLEKESYV 120
Query: 219 HRVGRTARYNSGGRSVLFLTPTEMKMLEKLRE 250
HR GRT R + G+++ F+T E + L + E
Sbjct: 121 HRTGRTGRAGNKGKAISFVTAFEKRFLADIEE 152
>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 = 62.4 bits (150), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 36/105 (34%), Positives = 56/105 (53%), Gaps = 4/105 (3%)
Query: 134 ILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCE-KRSVLFCTDVA 192
+L+F V + E L G+ + ++G Q+ R F E K+ VL TDVA
Sbjct: 57 VLIFAEKKADVDAIHEYL--LLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVA 114
Query: 193 SRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFL 237
S+GLDF A+ V+ D PE++ +Y+HR+GRT + G + F+
Sbjct: 115 SKGLDF-PAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFI 158
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 62.0 bits (149), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 34/86 (39%), Positives = 53/86 (61%), Gaps = 1/86 (1%)
Query: 9 LNILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQTF 68
+ I + TPGRL+ + E + + L+LDEADR+LD+GF+ + IV Q+ RQT
Sbjct: 167 VEICIATPGRLIDFL-ECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTL 225
Query: 69 LFSATQTKSVQDLARLSLKDPQYLSV 94
++SAT K V+ LA LKD ++++
Sbjct: 226 MWSATWPKEVRQLAEDFLKDYIHINI 251
>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 = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 34/86 (39%), Positives = 53/86 (61%), Gaps = 1/86 (1%)
Query: 9 LNILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQTF 68
+ I + TPGRL+ + E + + L+LDEADR+LD+GF+ + IV Q+ RQT
Sbjct: 153 VEICIATPGRLIDFL-ECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTL 211
Query: 69 LFSATQTKSVQDLARLSLKDPQYLSV 94
++SAT K V+ LA LKD ++++
Sbjct: 212 MWSATWPKEVRQLAEDFLKDYIHINI 237
>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 = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 45/169 (26%), Positives = 86/169 (50%), Gaps = 15/169 (8%)
Query: 87 KDPQYLSVHEESVTATPNRLQQTAMIVPLEQKLDMLWS-FIKAHLNSKILVFLTSCKQVK 145
+DP +++ EE T + Q V QK+ L + F + +N I +F S ++V+
Sbjct: 3 QDPYEINLMEE---LTLKGVTQYYAYVTERQKVHCLNTLFSRLQINQSI-IFCNSSQRVE 58
Query: 146 YVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQF----CEKRSVLFCTDVASRGLDFNKA 201
+ + +L G ++ +M+Q+ R ++ F C L CTD+ +RG+D +A
Sbjct: 59 LLAKKISQL--GYSCFYIHAKMRQEHRNRVFHDFRNGLCRN---LVCTDLFTRGIDI-QA 112
Query: 202 VDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTPTEMKMLEKLRE 250
V+ V+ D P+ +Y+HR+GR+ R+ G ++ +T + L+ + E
Sbjct: 113 VNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLITYDDRFNLKSIEE 161
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 48/82 (58%), Gaps = 2/82 (2%)
Query: 158 IPLMCLYGRMKQDRRMAIYAQFCE-KRSVLFCTDVASRGLDFNKAVDWVVQVDCPEDVAS 216
P + ++ M Q+ R++ Y QF + +R +L T++ RG+D + V+ D PED +
Sbjct: 56 FPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIER-VNIAFNYDMPEDSDT 114
Query: 217 YIHRVGRTARYNSGGRSVLFLT 238
Y+HRV R R+ + G ++ F++
Sbjct: 115 YLHRVARAGRFGTKGLAITFVS 136
>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 = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 43/157 (27%), Positives = 68/157 (43%), Gaps = 7/157 (4%)
Query: 101 ATPNRLQQTAMIVPLEQKLDMLWSFIKAHLNSKILVFLTSCKQVKYVFEAFKKLRPGIPL 160
+T + Q + V K L + A + + K+ E F G
Sbjct: 15 STSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFL-YHEGYAC 73
Query: 161 MCLYG-RMKQDRRMAIYAQFCEKRSVLFCTDVASRGLDFNKAVDWVVQVDCPEDVASYIH 219
++G R ++DR A++ K +L T VA+RGLD + V V+ D P D+ Y+H
Sbjct: 74 TSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISN-VKHVINFDLPSDIEEYVH 132
Query: 220 RVGRTARYNSGGRSVLFLTPTEMK----MLEKLREAK 252
R+GRT R + G + F + +L+ L EAK
Sbjct: 133 RIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAK 169
>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 = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 36/103 (34%), Positives = 62/103 (60%), Gaps = 7/103 (6%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIV--SQLPK--HR 65
++LV TPGRL+ +++ + ++LDEADR+LD+GF+ + I+ S +P +R
Sbjct: 152 HLLVATPGRLVDFIEKN-KISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINR 210
Query: 66 QTFLFSATQTKSVQDLARLSLKDPQYLSVHEESVTATPNRLQQ 108
QT +FSAT K +Q LA L + +++V V +T + ++Q
Sbjct: 211 QTLMFSATFPKEIQKLAADFLYNYIFMTVGR--VGSTSDSIKQ 251
>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 = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 38/127 (29%), Positives = 59/127 (46%), Gaps = 10/127 (7%)
Query: 118 KLDMLWSFIKAHLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYA 177
K D+L ++F+ + K ++ K G + L+G ++ R +
Sbjct: 23 KFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKS--EGHEVSILHGDLQTQERDRLID 80
Query: 178 QFCEKRS-VLFCTDVASRGLDFNKAVDWVVQVDCP------EDVASYIHRVGRTARYNSG 230
F E RS VL T+V +RG+D V VV D P D A+YIHR+GRT R+
Sbjct: 81 DFREGRSKVLITTNVLARGIDI-PTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRK 139
Query: 231 GRSVLFL 237
G ++ F+
Sbjct: 140 GVAISFV 146
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 38/127 (29%), Positives = 59/127 (46%), Gaps = 10/127 (7%)
Query: 118 KLDMLWSFIKAHLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYA 177
K D+L ++F+ + K ++ K G + L+G ++ R +
Sbjct: 24 KFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKS--EGHEVSILHGDLQTQERDRLID 81
Query: 178 QFCEKRS-VLFCTDVASRGLDFNKAVDWVVQVDCP------EDVASYIHRVGRTARYNSG 230
F E RS VL T+V +RG+D V VV D P D A+YIHR+GRT R+
Sbjct: 82 DFREGRSKVLITTNVLARGIDI-PTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRK 140
Query: 231 GRSVLFL 237
G ++ F+
Sbjct: 141 GVAISFV 147
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 38/127 (29%), Positives = 59/127 (46%), Gaps = 10/127 (7%)
Query: 118 KLDMLWSFIKAHLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYA 177
K D+L ++F+ + K ++ K G + L+G ++ R +
Sbjct: 22 KFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKS--EGHEVSILHGDLQTQERDRLID 79
Query: 178 QFCEKRS-VLFCTDVASRGLDFNKAVDWVVQVDCP------EDVASYIHRVGRTARYNSG 230
F E RS VL T+V +RG+D V VV D P D A+YIHR+GRT R+
Sbjct: 80 DFREGRSKVLITTNVLARGIDI-PTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRK 138
Query: 231 GRSVLFL 237
G ++ F+
Sbjct: 139 GVAISFV 145
>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 = 53.1 bits (126), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 50/156 (32%), Positives = 76/156 (48%), Gaps = 5/156 (3%)
Query: 107 QQTAMIVPLEQKLDMLWSFIKAHLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGR 166
++ A+ P+ +L++L + + +VF + + + + + LR G P L+G
Sbjct: 4 EEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGL--LRLGHPAQALHGD 61
Query: 167 MKQDRRMAIYAQFCEKR-SVLFCTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTA 225
M Q R + F + VL TDVA+RGLD + VD VV P+ +Y HR GRT
Sbjct: 62 MSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQ-VDLVVHYRMPDRAEAYQHRSGRTG 120
Query: 226 RYNSGGRSVLFLTPTEMKMLEKLREAKIPIHFTKAN 261
R GGR VL P E + +E L E + F + N
Sbjct: 121 RAGRGGRVVLLYGPRERRDVEAL-ERAVGRRFKRVN 155
>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 = 53.1 bits (126), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 48/150 (32%), Positives = 73/150 (48%), Gaps = 4/150 (2%)
Query: 103 PNRLQQTAMIVPLEQKLDMLWSFIKAHLNSKILVFLTSCKQVKYVFEAFKKLRPGIPLMC 162
P ++ A+ P+ +L++L + + +VF + + + + + LR G P
Sbjct: 3 PVTYEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGL--LRLGHPAQA 60
Query: 163 LYGRMKQDRRMAIYAQFCEKR-SVLFCTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRV 221
L+G + Q R + F + VL TDVA+RGLD + VD VV P+ +Y HR
Sbjct: 61 LHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQ-VDLVVHYRLPDRAEAYQHRS 119
Query: 222 GRTARYNSGGRSVLFLTPTEMKMLEKLREA 251
GRT R GGR VL P E + +E L A
Sbjct: 120 GRTGRAGRGGRVVLLYGPRERRDVEALERA 149
>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 = 53.1 bits (126), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 55/99 (55%), Gaps = 1/99 (1%)
Query: 2 EKEHVNELNILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQL 61
+ E + + I+V TPGR+ ++ + F ++++ ILDEAD +L GFK+ + I + L
Sbjct: 125 DAEGLRDAQIVVGTPGRVFDNI-QRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL 183
Query: 62 PKHRQTFLFSATQTKSVQDLARLSLKDPQYLSVHEESVT 100
P Q L SAT V ++ +++P + V ++ +T
Sbjct: 184 PPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELT 222
>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 = 52.8 bits (125), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 49/83 (59%), Gaps = 1/83 (1%)
Query: 7 NELNILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQ 66
+ +++++ TPGR+L + + +Q+++LDEAD++L F + + I+ LPK+RQ
Sbjct: 121 DTVHVVIATPGRILDLIKKGVA-KVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQ 179
Query: 67 TFLFSATQTKSVQDLARLSLKDP 89
L+SAT SVQ L+ P
Sbjct: 180 ILLYSATFPLSVQKFMNSHLEKP 202
>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 = 52.4 bits (124), Expect = 7e-07, Method: Composition-based stats.
Identities = 44/136 (32%), Positives = 67/136 (49%), Gaps = 6/136 (4%)
Query: 115 LEQKLDMLWSFIKAHLNSKILVFLTSCKQVKYVFEAFKKLR-PGIPLMCLYGRMKQDRRM 173
LE K +L +K ++ +VF+ ++ + V E LR GI L G M Q +R
Sbjct: 14 LEHKTALLVHLLKQPEATRSIVFV---RKRERVHELANWLREAGINNCYLEGEMVQGKRN 70
Query: 174 AIYAQFCEKR-SVLFCTDVASRGLDFNKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGR 232
+ E R +VL TDVA+RG+D V V D P +Y+HR+GRTAR G
Sbjct: 71 EAIKRLTEGRVNVLVATDVAARGIDIPD-VSHVFNFDMPRSGDTYLHRIGRTARAGRKGT 129
Query: 233 SVLFLTPTEMKMLEKL 248
++ + + +L K+
Sbjct: 130 AISLVEAHDHLLLGKV 145
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 49/88 (55%), Gaps = 1/88 (1%)
Query: 2 EKEHVNELNILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQL 61
+ E + + I+V TPGR+ ++ + F ++++ ILDEAD +L GFK+ + I + L
Sbjct: 132 DAEGLRDAQIVVGTPGRVFDNI-QRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL 190
Query: 62 PKHRQTFLFSATQTKSVQDLARLSLKDP 89
P Q L SAT V ++ +++P
Sbjct: 191 PPTTQVVLLSATMPNDVLEVTTKFMRNP 218
>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 = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 33/88 (37%), Positives = 53/88 (60%), Gaps = 5/88 (5%)
Query: 9 LNILVCTPGRL--LQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQ 66
++I++ TPGRL LQ M+ + N + L++DEAD++LD+ F+ + I+ + RQ
Sbjct: 144 VDIIIATPGRLNDLQ-MNNSVNL--RSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQ 200
Query: 67 TFLFSATQTKSVQDLARLSLKDPQYLSV 94
T + SAT +V+ LA LKDP + V
Sbjct: 201 TVMTSATWPDTVRQLALSYLKDPMIVYV 228
>pdb|1Q0U|A Chain A, Crystal Structure Of The Bstdead N-Terminal Domain
pdb|1Q0U|B Chain B, Crystal Structure Of The Bstdead N-Terminal Domain
Length = 219
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 48/87 (55%), Gaps = 1/87 (1%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVGFKKALNAIVSQLPKHRQTFL 69
+I++ TPGR+ + E D IL++DEAD LD GF ++ I ++ PK Q +
Sbjct: 128 HIVIGTPGRINDFIREQ-ALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKDLQXLV 186
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHE 96
FSAT + ++ + ++P ++ V E
Sbjct: 187 FSATIPEKLKPFLKKYXENPTFVHVLE 213
>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 = 49.3 bits (116), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 36/136 (26%), Positives = 67/136 (49%), Gaps = 15/136 (11%)
Query: 132 SKILVFLTSCKQVKYVFEAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCE-KRSVLFCTD 190
+ ++F + + K++ + ++ G + L G + ++R +I +F + K VL T+
Sbjct: 35 GQAIIFCQTRRNAKWL--TVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTN 92
Query: 191 VASRGLDFNKAVDWVVQVDCP------EDVASYIHRVGRTARYNSGGRSVLFLTPTEMKM 244
V +RG+D K V VV D P D +Y+HR+GRT R+ G + + E+
Sbjct: 93 VCARGIDV-KQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDELPS 151
Query: 245 LEKLREAKIPIHFTKA 260
L K+++ HF +
Sbjct: 152 LMKIQD-----HFNSS 162
>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 = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 55/95 (57%), Gaps = 2/95 (2%)
Query: 2 EKEHVNELNILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDVG-FKKALNAIVSQ 60
+K + + +I V +PGR+ Q + E + +++ ILDEAD++L+ G F++ +N I S
Sbjct: 136 DKTRLKKCHIAVGSPGRIKQ-LIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSS 194
Query: 61 LPKHRQTFLFSATQTKSVQDLARLSLKDPQYLSVH 95
LP +Q SAT + + + ++DP ++ ++
Sbjct: 195 LPASKQMLAVSATYPEFLANALTKYMRDPTFVRLN 229
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 52/100 (52%), Gaps = 7/100 (7%)
Query: 1 MEKEHVNELNILVCTPGRLLQHMDE---TPNFDCSQLQILILDEADRILDVGFKKALNAI 57
M+K +I+V TPGR+ ++ +P + +++ +LDEAD +L GFK + I
Sbjct: 142 MQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKW----IKMFVLDEADEMLSRGFKDQIYEI 197
Query: 58 VSQLPKHRQTFLFSATQTKSVQDLARLSLKDPQYLSVHEE 97
+L Q L SAT V ++ + ++DP + V +E
Sbjct: 198 FQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRILVKKE 237
>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 = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 49/86 (56%), Gaps = 2/86 (2%)
Query: 10 NILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILD-VGFKKALNAIVSQLPKHRQTF 68
+I+V TPGR+L + + + ++ ILDE D++L+ + ++ + I P +Q
Sbjct: 136 HIVVGTPGRILA-LARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVM 194
Query: 69 LFSATQTKSVQDLARLSLKDPQYLSV 94
+FSAT +K ++ + R ++DP + V
Sbjct: 195 MFSATLSKEIRPVCRKFMQDPMEIFV 220
>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 = 43.1 bits (100), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 44/92 (47%), Gaps = 12/92 (13%)
Query: 1 MEKEHVNELNILVCTPGRLLQHMDE---TPNFDCSQLQILILDEADRILDVGFKKALNAI 57
ME H I+V TPGR+ ++ +P + + + +LDEAD +L GF + I
Sbjct: 132 MEAPH-----IIVGTPGRVFDMLNRRYLSPXY----IXMFVLDEADEMLSRGFXDQIYDI 182
Query: 58 VSQLPKHRQTFLFSATQTKSVQDLARLSLKDP 89
L + Q L SAT V ++ ++DP
Sbjct: 183 FQXLNSNTQVVLLSATMPSDVLEVTXXFMRDP 214
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 45/88 (51%), Gaps = 1/88 (1%)
Query: 11 ILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDV-GFKKALNAIVSQLPKHRQTFL 69
I++ TPG +L + D ++++ +LDEAD ++ G + I LP++ Q L
Sbjct: 213 IVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLL 272
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEE 97
FSAT SV A+ + DP + + E
Sbjct: 273 FSATFEDSVWKFAQKVVPDPNVIKLKRE 300
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 42.7 bits (99), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 45/88 (51%), Gaps = 1/88 (1%)
Query: 11 ILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILDV-GFKKALNAIVSQLPKHRQTFL 69
I++ TPG +L + D ++++ +LDEAD ++ G + I LP++ Q L
Sbjct: 146 IVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLL 205
Query: 70 FSATQTKSVQDLARLSLKDPQYLSVHEE 97
FSAT SV A+ + DP + + E
Sbjct: 206 FSATFEDSVWKFAQKVVPDPNVIKLKRE 233
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 51/92 (55%), Gaps = 5/92 (5%)
Query: 8 ELNILVCTPGRLLQHMDE-TPNFDCSQLQILILDEADRILD---VGFKKALNAIVSQLPK 63
+ +ILV TP RL+ + + P D + ++ L++DE+D++ + GF+ L +I
Sbjct: 149 KFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTS 208
Query: 64 HR-QTFLFSATQTKSVQDLARLSLKDPQYLSV 94
H+ + +FSAT V+ +L+L + +S+
Sbjct: 209 HKVRRAMFSATFAYDVEQWCKLNLDNVISVSI 240
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 52/224 (23%), Positives = 92/224 (41%), Gaps = 17/224 (7%)
Query: 36 ILILDEADRILDVG--FK---KALNAIVSQLPKHRQTFLFSATQTKSVQDLARL-SLKDP 89
+L +DEA I G F+ AL + + P L + + QD+ RL L DP
Sbjct: 142 LLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTLPFMALTATADDTTRQDIVRLLGLNDP 201
Query: 90 QYLSVHEESVTATPNRLQQTAMIVPLEQKLDMLWSFIKAHLNSKILVFLTSCKQVKYVFE 149
+ + S PN M++ + LD L +++ +++ S +V+
Sbjct: 202 ----LIQISSFDRPNI---RYMLMEKFKPLDQLMRYVQEQRGKSGIIYCNSRAKVEDT-- 252
Query: 150 AFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCEKRSVLFCTDVASRGLDFNKA-VDWVVQV 208
A + GI + ++ + R + +F ++ + + G+ NK V +VV
Sbjct: 253 AARLQSKGISAAAYHAGLENNVRADVQEKF-QRDDLQIVVATVAFGMGINKPNVRFVVHF 311
Query: 209 DCPEDVASYIHRVGRTARYNSGGRSVLFLTPTEMKMLEKLREAK 252
D P ++ SY GR R ++LF P +M L + E K
Sbjct: 312 DIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLRRCLEEK 355
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 37.0 bits (84), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 35/161 (21%), Positives = 74/161 (45%), Gaps = 17/161 (10%)
Query: 103 PNRLQQTAMIVPLEQKLDMLWSFIKAHLNSKILVFLT----------SCKQVKYVFEAF- 151
P R + M+VP++ +++ ++ F++ + F+ + K ++E
Sbjct: 549 PGRKEVQTMLVPMD-RVNEVYEFVRQEVMRGGQAFIVYPLIEESDKLNVKSAVEMYEYLS 607
Query: 152 KKLRPGIPLMCLYGRMKQDRRMAIYAQFCEKR-SVLFCTDVASRGLDFNKAVDWVVQVDC 210
K++ P L ++GR+ Q+ + + +F E R +L T V G+D +A V+ ++
Sbjct: 608 KEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRAN--VMVIEN 665
Query: 211 PEDVA-SYIHRV-GRTARYNSGGRSVLFLTPTEMKMLEKLR 249
PE + +H++ GR R L + + +E+LR
Sbjct: 666 PERFGLAQLHQLRGRVGRGGQEAYCFLVVGDVGEEAMERLR 706
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 36.6 bits (83), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 37/118 (31%), Positives = 58/118 (49%), Gaps = 6/118 (5%)
Query: 141 CKQVKYVFEAFKKLRPG-IPLMCLYGRMKQDRRMAIYAQFCEKRS-VLFCTDVASRGLDF 198
C + V E KLR + +Y + Q R I +F S +L TD+ +RG+D
Sbjct: 37 CNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDV 96
Query: 199 NKAVDWVVQVDCPEDVASYIHRVGRTARYNSGGRSVLFLTPTE---MKMLEKLREAKI 253
+ V V+ D P + +YIHR+GR R+ G ++ F+T + M+ LEK +I
Sbjct: 97 QQ-VSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQI 153
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 36.6 bits (83), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 40/83 (48%), Gaps = 2/83 (2%)
Query: 2 EKEHVNELNILVCTPGRLLQHMDETPNFDCSQLQILILDEADRILD-VGFKKALNAIVSQ 60
EK ++V TPG +L M +++I +LDEAD +LD G +
Sbjct: 132 EKNKQINAQVIVGTPGTVLDLMRRK-LMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRF 190
Query: 61 LPKHRQTFLFSATQTKSVQDLAR 83
LPK Q LFSAT +V+ A+
Sbjct: 191 LPKDTQLVLFSATFADAVRQYAK 213
>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 = 36.2 bits (82), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 46/190 (24%), Positives = 77/190 (40%), Gaps = 29/190 (15%)
Query: 49 GF-KKALNAIVSQLPKHRQTFLFSAT---QTKSVQDLARLSLKDPQYLSVHEESVTATPN 104
GF K+ L+ I LP QT + + KS +D AR D Y P
Sbjct: 427 GFPKRELHTIKLPLPTQYQTAIKVSGIXGARKSAEDRAR----DXLY-----------PE 471
Query: 105 RLQQ-----TAMIVPLEQKLDMLWSFIKAHLNSKILVFLTSCKQVKYVFEAFKKLRPGIP 159
R+ Q A + +++ L ++ +H + K+LV + + ++ R GI
Sbjct: 472 RIYQEFEGDNATWWNFDPRVEWLXGYLTSHRSQKVLVICAKAATALQLEQVLRE-REGIR 530
Query: 160 LMCLY---GRMKQDRRMAIYAQFCEKRSVLFCTDVASRGLDFNKAVDWVVQVDCPEDVAS 216
+ +++DR A +A+ VL C+++ S G +F A V D P +
Sbjct: 531 AAVFHEGXSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASH-XVXFDLPFNPDL 589
Query: 217 YIHRVGRTAR 226
R+GR R
Sbjct: 590 LEQRIGRLDR 599
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 35.4 bits (80), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 55/225 (24%), Positives = 90/225 (40%), Gaps = 19/225 (8%)
Query: 36 ILILDEADRILDVGFK-KALNAIVSQLPKHRQTFLFSA-TQTK---SVQDLARL-SLKDP 89
+L +DEA I G + A + QL + T F A T T + QD+ RL L DP
Sbjct: 142 LLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTLPFXALTATADDTTRQDIVRLLGLNDP 201
Query: 90 QYLSVHEESVTATPN-RLQQTAMIVPLEQKLDMLWSFIKAHLNSKILVFLTSCKQVKYVF 148
+ + S PN R PL+Q L +++ +++ S +V+
Sbjct: 202 ----LIQISSFDRPNIRYXLXEKFKPLDQ----LXRYVQEQRGKSGIIYCNSRAKVEDT- 252
Query: 149 EAFKKLRPGIPLMCLYGRMKQDRRMAIYAQFCEKRSVLFCTDVASRGLDFNKA-VDWVVQ 207
A + GI + ++ + R + +F ++ + + G NK V +VV
Sbjct: 253 -AARLQSKGISAAAYHAGLENNVRADVQEKF-QRDDLQIVVATVAFGXGINKPNVRFVVH 310
Query: 208 VDCPEDVASYIHRVGRTARYNSGGRSVLFLTPTEMKMLEKLREAK 252
D P ++ SY GR R + LF P + L + E K
Sbjct: 311 FDIPRNIESYYQETGRAGRDGLPAEAXLFYDPADXAWLRRCLEEK 355
>pdb|3V05|A Chain A, 2.4 Angstrom Crystal Structure Of Superantigen-Like
Protein From Staphylococcus Aureus.
pdb|3V05|B Chain B, 2.4 Angstrom Crystal Structure Of Superantigen-Like
Protein From Staphylococcus Aureus.
pdb|3V05|C Chain C, 2.4 Angstrom Crystal Structure Of Superantigen-Like
Protein From Staphylococcus Aureus.
pdb|3V05|D Chain D, 2.4 Angstrom Crystal Structure Of Superantigen-Like
Protein From Staphylococcus Aureus
Length = 218
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 37/88 (42%)
Query: 241 EMKMLEKLREAKIPIHFTKANTKRLQPVSGLLAALLVKYPDMQHRAQKAFITYLRSVHIQ 300
E+K L+ L K+ R GLL + KYP +H Q AF+
Sbjct: 40 ELKNLDGLYRQKVTDKGVYVWKDRKDYFVGLLGKDIEKYPQGEHDKQDAFLVIEEETVNG 99
Query: 301 KDKEVFDVTKLSIDEFSASLGLPMTPKI 328
+ + ++K + EFS + + +T KI
Sbjct: 100 RQYSIGGLSKTNSKEFSKEVDVKVTRKI 127
>pdb|3B5W|A Chain A, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|B Chain B, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|C Chain C, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|D Chain D, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|E Chain E, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|F Chain F, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|G Chain G, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|H Chain H, Crystal Structure Of Eschericia Coli Msba
Length = 582
Score = 28.5 bits (62), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 36 ILILDEADRILDVGFKKALNAIVSQLPKHRQTFLFS 71
ILILDEA LD ++A+ A + +L K+R + + +
Sbjct: 501 ILILDEATSALDTESERAIQAALDELQKNRTSLVIA 536
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: 14,034,553
Number of Sequences: 62578
Number of extensions: 523072
Number of successful extensions: 1476
Number of sequences better than 100.0: 76
Number of HSP's better than 100.0 without gapping: 67
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1337
Number of HSP's gapped (non-prelim): 77
length of query: 564
length of database: 14,973,337
effective HSP length: 104
effective length of query: 460
effective length of database: 8,465,225
effective search space: 3894003500
effective search space used: 3894003500
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)