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= 007481
(602 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 188 bits (478), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 125/362 (34%), Positives = 192/362 (53%), Gaps = 19/362 (5%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTGR-DICGSAITGSGKTAAFALPTLERL 60
ELNLS +L A G+ KPT IQ IPL L +I A TGSGKTA+FA+P +E L
Sbjct: 10 ELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE-L 68
Query: 61 LYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMP 120
+ I AI ILTPTRELA+QV IE + +++ + GG + Q AL++
Sbjct: 69 VNENNGIEAI---ILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALKN-A 124
Query: 121 DIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTML 180
+IVV TPGR++DH+ N + L GF ++ +++ C K ++ +L
Sbjct: 125 NIVVGTPGRILDHI-NRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRILL 183
Query: 181 FSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQ--EAVLLSLC 238
FSAT ++ L+L K + D S + + + N+ EA+ L
Sbjct: 184 FSATXPREI-----LNLAK--KYXGDYSFIK-AKINANIEQSYVEVNENERFEALCRLLK 235
Query: 239 SKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLI 298
+K F ++F TK+ L KA +HG+L+Q+QR + + LF+++ + LI
Sbjct: 236 NKEFYG--LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILI 293
Query: 299 ATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAI 358
ATDV +RG+D+ + VINY P++ SY HR+GRT RAG++G A++ + + L+ I
Sbjct: 294 ATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKLRYI 353
Query: 359 AK 360
+
Sbjct: 354 ER 355
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 180 bits (457), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 119/356 (33%), Positives = 183/356 (51%), Gaps = 24/356 (6%)
Query: 5 LSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRP 64
++ + +A +G+ T +Q+ IPL L G+++ A TGSGKTAA+A+P LE
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILE------ 54
Query: 65 KRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVV 124
++ L++TPTREL QV S I I ++ D + V GG+ K Q +R+ DIVV
Sbjct: 55 ---LGMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRN-ADIVV 110
Query: 125 ATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSAT 184
ATPGR++D L + + E+GF +I ++ R+ T LFSAT
Sbjct: 111 ATPGRLLD-LWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSAT 169
Query: 185 LTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCSKTFTS 244
+ E++ +++K +T + A + + + +
Sbjct: 170 IPEEIRKVVKDFITNYEEIEA--------CIGLANVEHKFVHVKDDWRSKVQALRENKDK 221
Query: 245 KVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAA 304
VI+F T+ +L LF A EL G+L Q+ R ++ FR+ D LI TDVA+
Sbjct: 222 GVIVFVRTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVAS 277
Query: 305 RGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAIAK 360
RGLDI V+ VIN+ P+DL +Y+HR+GRT R GR+G A+TF+ N+ L K + K
Sbjct: 278 RGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFIL-NEYWLEKEVKK 332
>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 = 177 bits (449), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 111/367 (30%), Positives = 179/367 (48%), Gaps = 12/367 (3%)
Query: 3 LNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLY 62
+ L LLR A G+ KP+ IQ I + GRD+ + +G+GKTA F++ L+ L
Sbjct: 43 MGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDI 102
Query: 63 RPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDI 122
+ + A LIL PTRELAVQ+ + + + +++C +GG + L +
Sbjct: 103 QVRETQA---LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHV 159
Query: 123 VVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFS 182
V TPGR+ D +R S +L GF +I+++ R P Q +L S
Sbjct: 160 VAGTPGRVFDMIRRR-SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 218
Query: 183 ATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCS--K 240
ATL ++ E+ +T P+R+ + LT +E +LC
Sbjct: 219 ATLPHEILEMTNKFMTDPIRILV-----KRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 273
Query: 241 TFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIA 299
T T ++ +IF TK+ L A + +HG++ Q +R ++ FR LI+
Sbjct: 274 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 333
Query: 300 TDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAIA 359
TDV ARGLD+ V +INY P + Y+HR+GR+ R GR+G A+ FV ++D +L+ I
Sbjct: 334 TDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIE 393
Query: 360 KRAGSKL 366
+ +++
Sbjct: 394 QYYSTQI 400
>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 = 177 bits (449), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 111/367 (30%), Positives = 179/367 (48%), Gaps = 12/367 (3%)
Query: 3 LNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLY 62
+ L LLR A G+ KP+ IQ I + GRD+ + +G+GKTA F++ L+ L
Sbjct: 42 MGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDI 101
Query: 63 RPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDI 122
+ + A LIL PTRELAVQ+ + + + +++C +GG + L +
Sbjct: 102 QVRETQA---LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHV 158
Query: 123 VVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFS 182
V TPGR+ D +R S +L GF +I+++ R P Q +L S
Sbjct: 159 VAGTPGRVFDMIRRR-SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 217
Query: 183 ATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCS--K 240
ATL ++ E+ +T P+R+ + LT +E +LC
Sbjct: 218 ATLPHEILEMTNKFMTDPIRILV-----KRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 272
Query: 241 TFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIA 299
T T ++ +IF TK+ L A + +HG++ Q +R ++ FR LI+
Sbjct: 273 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 332
Query: 300 TDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAIA 359
TDV ARGLD+ V +INY P + Y+HR+GR+ R GR+G A+ FV ++D +L+ I
Sbjct: 333 TDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIE 392
Query: 360 KRAGSKL 366
+ +++
Sbjct: 393 QYYSTQI 399
>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 = 177 bits (449), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 111/367 (30%), Positives = 179/367 (48%), Gaps = 12/367 (3%)
Query: 3 LNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLY 62
+ L LLR A G+ KP+ IQ I + GRD+ + +G+GKTA F++ L+ L
Sbjct: 43 MGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDI 102
Query: 63 RPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDI 122
+ + A LIL PTRELAVQ+ + + + +++C +GG + L +
Sbjct: 103 QVRETQA---LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHV 159
Query: 123 VVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFS 182
V TPGR+ D +R S +L GF +I+++ R P Q +L S
Sbjct: 160 VAGTPGRVFDMIRRR-SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 218
Query: 183 ATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCS--K 240
ATL ++ E+ +T P+R+ + LT +E +LC
Sbjct: 219 ATLPHEILEMTNKFMTDPIRILV-----KRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 273
Query: 241 TFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIA 299
T T ++ +IF TK+ L A + +HG++ Q +R ++ FR LI+
Sbjct: 274 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 333
Query: 300 TDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAIA 359
TDV ARGLD+ V +INY P + Y+HR+GR+ R GR+G A+ FV ++D +L+ I
Sbjct: 334 TDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIE 393
Query: 360 KRAGSKL 366
+ +++
Sbjct: 394 QYYSTQI 400
>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 = 177 bits (448), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 111/367 (30%), Positives = 179/367 (48%), Gaps = 12/367 (3%)
Query: 3 LNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLY 62
+ L LLR A G+ KP+ IQ I + GRD+ + +G+GKTA F++ L+ L
Sbjct: 21 MGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDI 80
Query: 63 RPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDI 122
+ + A LIL PTRELAVQ+ + + + +++C +GG + L +
Sbjct: 81 QVRETQA---LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHV 137
Query: 123 VVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFS 182
V TPGR+ D +R S +L GF +I+++ R P Q +L S
Sbjct: 138 VAGTPGRVFDMIRRR-SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 196
Query: 183 ATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCS--K 240
ATL ++ E+ +T P+R+ + LT +E +LC
Sbjct: 197 ATLPHEILEMTNKFMTDPIRILV-----KRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 251
Query: 241 TFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIA 299
T T ++ +IF TK+ L A + +HG++ Q +R ++ FR LI+
Sbjct: 252 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 311
Query: 300 TDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAIA 359
TDV ARGLD+ V +INY P + Y+HR+GR+ R GR+G A+ FV ++D +L+ I
Sbjct: 312 TDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIE 371
Query: 360 KRAGSKL 366
+ +++
Sbjct: 372 QYYSTQI 378
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 177 bits (448), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 113/367 (30%), Positives = 179/367 (48%), Gaps = 12/367 (3%)
Query: 3 LNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLY 62
+ L LLR A G+ KP+ IQ I + GRD+ + +G+GKTA F++ L+ L
Sbjct: 6 MGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDI 65
Query: 63 RPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDI 122
+ + A LIL PTRELAVQV + + + +++C +GG + L +
Sbjct: 66 QVRETQA---LILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHV 122
Query: 123 VVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFS 182
V TPGR+ D +R S +L GF +I+++ R P Q +L S
Sbjct: 123 VAGTPGRVFDMIRRR-SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 183 ATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCS--K 240
ATL ++ E+ +T P+R+ + LT +E +LC
Sbjct: 182 ATLPHEILEMTNKFMTDPIRILV-----KRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 236
Query: 241 TFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIA 299
T T ++ +IF TK+ L A + +HG++ Q +R ++ FR LI+
Sbjct: 237 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 296
Query: 300 TDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAIA 359
TDV ARGLD+ V +INY P + Y+HR+GR+ R GR+G AV FV ++D +L+ I
Sbjct: 297 TDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIE 356
Query: 360 KRAGSKL 366
+ +++
Sbjct: 357 QYYSTQI 363
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 175 bits (443), Expect = 7e-44, Method: Compositional matrix adjust.
Identities = 123/384 (32%), Positives = 183/384 (47%), Gaps = 35/384 (9%)
Query: 18 YSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLY--------------- 62
Y++PTP+Q IP+ RD+ A TGSGKTAAF LP L ++
Sbjct: 35 YTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGR 94
Query: 63 --RPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMP 120
R K+ P L+L PTRELAVQ++ K + + +R C+V GG Q L
Sbjct: 95 YGRRKQYPI--SLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQIRDLERGC 152
Query: 121 DIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVR---LCPKR-R 176
++VATPGR++D + R+L++GF +I +V + PK R
Sbjct: 153 HLLVATPGRLVDMMERG-KIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVR 211
Query: 177 QTMLFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLS 236
TM+FSAT +++ L + L + + L+ + ST ++ + LL
Sbjct: 212 HTMMFSATFPKEIQMLARDFLDEYIFLAV---GRVGSTSENITQKVVWVEESDKRSFLLD 268
Query: 237 LCSKTF-TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVD 295
L + T S ++F TK+ A L+ +HG+ +Q R EAL FR
Sbjct: 269 LLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSP 328
Query: 296 FLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLL 355
L+AT VAARGLDI V+ VIN+ P D+ YVHR+GRT R G G A +F + + ++
Sbjct: 329 ILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINIT 388
Query: 356 KAIAKRAGSKLKSRIVAEQSITKW 379
K + L + A+Q + W
Sbjct: 389 KDL-------LDLLVEAKQEVPSW 405
>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 = 174 bits (441), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 115/353 (32%), Positives = 178/353 (50%), Gaps = 18/353 (5%)
Query: 17 GYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRPKRIPAIR--VLI 74
GY PTPIQ IP+ +GRD+ A TGSGKTAAF LP L +LL P + R V+I
Sbjct: 75 GYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVI 134
Query: 75 LTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVVATPGRMIDHL 134
++PTRELA+Q+ + K A + ++ +V GG S + Q + +V+ATPGR++D +
Sbjct: 135 VSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFV 194
Query: 135 RNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKR--RQTMLFSATLTEDVD-- 190
+ R+L++GFS ++ ++ R QT++FSAT E++
Sbjct: 195 DRTF-ITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTLMFSATFPEEIQRM 253
Query: 191 --ELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCSKTFTSKVII 248
E +K + + + + T+ + + L+ + S+ I+
Sbjct: 254 AGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYA-------KRSKLIEILSEQ-ADGTIV 305
Query: 249 FSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLD 308
F TK+ A L +HG+ Q+QR +AL F+ + LIAT VA+RGLD
Sbjct: 306 FVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLD 365
Query: 309 IIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFV-TDNDRSLLKAIAK 360
I ++ VINY P + YVHR+GRT R G G A +F + DR++ + K
Sbjct: 366 IKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVK 418
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 173 bits (439), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 115/367 (31%), Positives = 179/367 (48%), Gaps = 12/367 (3%)
Query: 3 LNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLY 62
+ L LLR A G+ KP+ IQ I + GRD+ + +G+GKTA F++ L+ L
Sbjct: 6 MGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDI 65
Query: 63 RPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDI 122
+ + A LIL PTRELAVQV + + + +++ +GG + L +
Sbjct: 66 QVRETQA---LILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYGQHV 122
Query: 123 VVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFS 182
V TPGR+ D +R S +L GF +I+++ R P Q +L S
Sbjct: 123 VAGTPGRVFDMIRRR-SLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 183 ATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCS--K 240
ATL +V E+ +T P+R+ KR LT +E +LC
Sbjct: 182 ATLPHEVLEMTNKFMTDPIRILV----KR-DELTLEGIKQFFVAVEREEWKFDTLCDLYD 236
Query: 241 TFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIA 299
T T ++ +IF TK+ L A + +HG++ Q +R ++ FR LI+
Sbjct: 237 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 296
Query: 300 TDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAIA 359
TDV ARGLD+ V +INY P + Y+HR+GR+ R GR+G AV FV ++D +L+ I
Sbjct: 297 TDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIE 356
Query: 360 KRAGSKL 366
+ +++
Sbjct: 357 QYYSTQI 363
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 172 bits (436), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 118/384 (30%), Positives = 178/384 (46%), Gaps = 16/384 (4%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLL 61
+ L R LL G+ KP+PIQ IP+A+TGRDI A G+GKTAAF +PTLE++
Sbjct: 25 DFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKV- 83
Query: 62 YRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPD 121
+PK + I+ LI+ PTRELA+Q ++ + + I C + GG + + L
Sbjct: 84 -KPK-LNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETVH 141
Query: 122 IVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLF 181
I+V TPGR++D L + ++L F I +++ P Q++LF
Sbjct: 142 ILVGTPGRVLD-LASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLF 200
Query: 182 SATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCSKT 241
SAT V E + L KP ++ TL + L +L SK
Sbjct: 201 SATFPLTVKEFMVKHLHKPYEINL----MEELTLKGITQYYAFVEERQKLHCLNTLFSKL 256
Query: 242 FTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATD 301
++ IIF + L H + Q +R + FR+ V L+ +D
Sbjct: 257 QINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSD 316
Query: 302 VAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAIAKR 361
+ RG+DI V VIN+ P+ +Y+HR+GR+ R G G A+ + NDR L I +
Sbjct: 317 LLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQE 376
Query: 362 AGSKL--------KSRIVAEQSIT 377
G+++ KS VAE T
Sbjct: 377 LGTEIAAIPATIDKSLYVAENDET 400
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 171 bits (434), Expect = 9e-43, Method: Compositional matrix adjust.
Identities = 110/356 (30%), Positives = 171/356 (48%), Gaps = 8/356 (2%)
Query: 9 LLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRPKRIP 68
LLRA G+ P+ +Q CIP A+ G D+ A +G GKTA F L TL++L
Sbjct: 18 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL---EPVTG 74
Query: 69 AIRVLILTPTRELAVQVHSMIEKIAQFT-DIRCCLVVGGLSTKMQETALR-SMPDIVVAT 126
+ VL++ TRELA Q+ E+ +++ +++ + GGLS K E L+ + P IVV T
Sbjct: 75 QVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGT 134
Query: 127 PGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSATLT 186
PGR++ RN L +L ++ E+ R+ P +Q M+FSATL+
Sbjct: 135 PGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLS 194
Query: 187 EDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCSKTFTSKV 246
+++ + + + P+ + D K TL + L L ++V
Sbjct: 195 KEIRPVCRKFMQDPMEIFVDDETK--LTLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQV 252
Query: 247 IIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARG 306
+IF + Q L L A +H + Q +RL + F+ L+AT++ RG
Sbjct: 253 VIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRG 312
Query: 307 LDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTD-NDRSLLKAIAKR 361
+DI V NY P D +Y+HRV R R G +G A+TFV+D ND +L + R
Sbjct: 313 MDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDR 368
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 171 bits (433), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 110/356 (30%), Positives = 171/356 (48%), Gaps = 8/356 (2%)
Query: 9 LLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRPKRIP 68
LLRA G+ P+ +Q CIP A+ G D+ A +G GKTA F L TL++L
Sbjct: 19 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL---EPVTG 75
Query: 69 AIRVLILTPTRELAVQVHSMIEKIAQFT-DIRCCLVVGGLSTKMQETALR-SMPDIVVAT 126
+ VL++ TRELA Q+ E+ +++ +++ + GGLS K E L+ + P IVV T
Sbjct: 76 QVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGT 135
Query: 127 PGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSATLT 186
PGR++ RN L +L ++ E+ R+ P +Q M+FSATL+
Sbjct: 136 PGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLS 195
Query: 187 EDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCSKTFTSKV 246
+++ + + + P+ + D K TL + L L ++V
Sbjct: 196 KEIRPVCRKFMQDPMEIFVDDETKL--TLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQV 253
Query: 247 IIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARG 306
+IF + Q L L A +H + Q +RL + F+ L+AT++ RG
Sbjct: 254 VIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRG 313
Query: 307 LDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTD-NDRSLLKAIAKR 361
+DI V NY P D +Y+HRV R R G +G A+TFV+D ND +L + R
Sbjct: 314 MDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDR 369
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 171 bits (432), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 110/356 (30%), Positives = 171/356 (48%), Gaps = 8/356 (2%)
Query: 9 LLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRPKRIP 68
LLRA G+ P+ +Q CIP A+ G D+ A +G GKTA F L TL++L
Sbjct: 19 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL---EPVTG 75
Query: 69 AIRVLILTPTRELAVQVHSMIEKIAQFT-DIRCCLVVGGLSTKMQETALR-SMPDIVVAT 126
+ VL++ TRELA Q+ E+ +++ +++ + GGLS K E L+ + P IVV T
Sbjct: 76 QVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGT 135
Query: 127 PGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSATLT 186
PGR++ RN L +L ++ E+ R+ P +Q M+FSATL+
Sbjct: 136 PGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLS 195
Query: 187 EDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCSKTFTSKV 246
+++ + + + P+ + D K TL + L L ++V
Sbjct: 196 KEIRPVCRKFMQDPMEIFVDDETKL--TLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQV 253
Query: 247 IIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARG 306
+IF + Q L L A +H + Q +RL + F+ L+AT++ RG
Sbjct: 254 VIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRG 313
Query: 307 LDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTD-NDRSLLKAIAKR 361
+DI V NY P D +Y+HRV R R G +G A+TFV+D ND +L + R
Sbjct: 314 MDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDR 369
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 167 bits (423), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 85/201 (42%), Positives = 123/201 (61%), Gaps = 3/201 (1%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLL 61
+L ++ L AC+ LG++KPT IQ IPLAL GRDI G A TGSGKT AFALP L LL
Sbjct: 47 DLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALL 106
Query: 62 YRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPD 121
P+R+ A L+LTPTRELA Q+ E + ++ ++VGG+ + Q AL P
Sbjct: 107 ETPQRLFA---LVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPH 163
Query: 122 IVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLF 181
I++ATPGR+IDHL N+ R+L + F E+ +++++ P+ R+T LF
Sbjct: 164 IIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLF 223
Query: 182 SATLTEDVDELIKLSLTKPLR 202
SAT+T+ V +L + +L P++
Sbjct: 224 SATMTKKVQKLQRAALKNPVK 244
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 149 bits (377), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 111/361 (30%), Positives = 176/361 (48%), Gaps = 13/361 (3%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLL 61
++NLS LLR A G+ KP+ IQ I + G D+ A +G+GKTA FA+ L+++
Sbjct: 44 DMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIE 103
Query: 62 YRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALR-SMP 120
K A + L+L PTRELA Q+ ++ + + C +GG + + + L+ P
Sbjct: 104 LDLK---ATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAP 160
Query: 121 DIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTML 180
I+V TPGR+ D L N +L GF +I+++ + Q +L
Sbjct: 161 HIIVGTPGRVFDML-NRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVL 219
Query: 181 FSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCS- 239
SAT+ DV E+ K + P+R+ + LT +E L +LC
Sbjct: 220 LSATMPSDVLEVTKKFMRDPIRILV-----KKEELTLEGIRQFYINVEREEWKLDTLCDL 274
Query: 240 -KTFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFL 297
+T T ++ +IF T++ L + +HG++ Q +R + FR L
Sbjct: 275 YETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVL 334
Query: 298 IATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 357
I TD+ ARG+D+ V VINY P + +Y+HR+GR R GR+G A+ VT+ D+ L+
Sbjct: 335 ITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRD 394
Query: 358 I 358
I
Sbjct: 395 I 395
>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 = 148 bits (374), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 111/361 (30%), Positives = 176/361 (48%), Gaps = 13/361 (3%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLL 61
++NLS LLR A G+ KP+ IQ I + G D+ A +G+GKTA FA+ L+++
Sbjct: 18 DMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIE 77
Query: 62 YRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALR-SMP 120
K A + L+L PTRELA Q+ ++ + + C +GG + + + L+ P
Sbjct: 78 LDLK---ATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAP 134
Query: 121 DIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTML 180
I+V TPGR+ D L N +L GF +I+++ + Q +L
Sbjct: 135 HIIVGTPGRVFDML-NRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVL 193
Query: 181 FSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCS- 239
SAT+ DV E+ K + P+R+ + LT +E L +LC
Sbjct: 194 LSATMPSDVLEVTKKFMRDPIRILV-----KKEELTLEGIRQFYINVEREEWKLDTLCDL 248
Query: 240 -KTFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFL 297
+T T ++ +IF T++ L + +HG++ Q +R + FR L
Sbjct: 249 YETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVL 308
Query: 298 IATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 357
I TD+ ARG+D+ V VINY P + +Y+HR+GR R GR+G A+ VT+ D+ L+
Sbjct: 309 ITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRD 368
Query: 358 I 358
I
Sbjct: 369 I 369
>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 = 144 bits (362), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 114/393 (29%), Positives = 186/393 (47%), Gaps = 28/393 (7%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTG--RDICGSAITGSGKTAAFALPTLER 59
EL L+ LL+ A+ + KP+ IQ +PL L R++ + +G+GKTAAF+L L R
Sbjct: 9 ELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTR 68
Query: 60 LLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSM 119
+ P+ + + + L P+RELA Q +++++ +FT I L+V K ++ +
Sbjct: 69 V--NPED-ASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQINAQ-- 123
Query: 120 PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTM 179
++V TPG ++D +R + L + G + + R PK Q +
Sbjct: 124 --VIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLV 181
Query: 180 LFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCS 239
LFSAT + V + K + P + + + ++ VL L
Sbjct: 182 LFSATFADAVRQYAKKIV--PNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYG 239
Query: 240 KTFTSKVIIFSGTKQAAHRLKILFGLAALKAAE---LHGNLTQAQRLEALELFRKQHVDF 296
IIF TK+ A+ +L+G + E LHG+L +R ++ FR+
Sbjct: 240 VMTIGSSIIFVATKKTAN---VLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKV 296
Query: 297 LIATDVAARGLDIIGVQTVINYACPR------DLTSYVHRVGRTARAGREGYAVTFVTD- 349
LI T+V ARG+DI V V+NY P D +Y+HR+GRT R GR+G A++FV D
Sbjct: 297 LITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDK 356
Query: 350 NDRSLLKAIAKRAGSKLKSRIVAEQSITKWSKI 382
N ++L AI K G +R+ + W ++
Sbjct: 357 NSFNILSAIQKYFGDIEMTRVPTDD----WDEV 385
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 143 bits (361), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 114/393 (29%), Positives = 186/393 (47%), Gaps = 28/393 (7%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTG--RDICGSAITGSGKTAAFALPTLER 59
EL L+ LL+ A+ + KP+ IQ +PL L R++ + +G+GKTAAF+L L R
Sbjct: 9 ELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTR 68
Query: 60 LLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSM 119
+ P+ + + + L P+RELA Q +++++ +FT I L+V K ++ +
Sbjct: 69 V--NPED-ASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQINAQ-- 123
Query: 120 PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTM 179
++V TPG ++D +R + L + G + + R PK Q +
Sbjct: 124 --VIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLV 181
Query: 180 LFSATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEAVLLSLCS 239
LFSAT + V + K + P + + + ++ VL L
Sbjct: 182 LFSATFADAVRQYAKKIV--PNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYG 239
Query: 240 KTFTSKVIIFSGTKQAAHRLKILFGLAALKAAE---LHGNLTQAQRLEALELFRKQHVDF 296
IIF TK+ A+ +L+G + E LHG+L +R ++ FR+
Sbjct: 240 LMTIGSSIIFVATKKTAN---VLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKV 296
Query: 297 LIATDVAARGLDIIGVQTVINYACPR------DLTSYVHRVGRTARAGREGYAVTFVTD- 349
LI T+V ARG+DI V V+NY P D +Y+HR+GRT R GR+G A++FV D
Sbjct: 297 LITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDK 356
Query: 350 NDRSLLKAIAKRAGSKLKSRIVAEQSITKWSKI 382
N ++L AI K G +R+ + W ++
Sbjct: 357 NSFNILSAIQKYFGDIEMTRVPTDD----WDEV 385
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 142 bits (358), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 106/368 (28%), Positives = 171/368 (46%), Gaps = 25/368 (6%)
Query: 5 LSRPLLRACEALGYSKPTPIQAACIPLALTG--RDICGSAITGSGKTAAFALPTLERLLY 62
L + + +A + + TP+Q I L+ D+ A TG+GKT AF +P + L+
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 63 -RPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFT----DIRCCLVVGGLSTKMQETALR 117
+ ++ +I+ PTR+LA+Q+ + ++KI C +VGG + +
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 118 SM-PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 176
+ P+IV+ATPGR+ID L + RLLE+GF ++ + + ++
Sbjct: 148 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 207
Query: 177 -------QTMLFSATLTEDVDELIKLSLTKPLRLSAD------PSA-KRPSTLTXXXXXX 222
+T+LFSATL + V +L + K L D P A +R
Sbjct: 208 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 267
Query: 223 XXXXXXNQEAVLLSLCSKTFTSKVIIFSGT-KQAAHRLKILFG--LAALKAAELHGNLTQ 279
E + + + K IIF+ T K + IL L E HG +TQ
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 327
Query: 280 AQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGR 339
+R ++ F+K L+ TDV ARG+D V V+ P +L +Y+HR+GRTAR+G+
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 387
Query: 340 EGYAVTFV 347
EG +V F+
Sbjct: 388 EGSSVLFI 395
>pdb|3I5X|A Chain A, Structure Of Mss116p Bound To Ssrna And Amp-Pnp
pdb|3I5Y|A Chain A, Structure Of Mss116p Bound To Ssrna Containing A Single
5-Bru And Amp- Pnp
pdb|3I61|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-beryllium
Fluoride
pdb|3I62|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-aluminum
Fluoride
Length = 563
Score = 141 bits (355), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 106/379 (27%), Positives = 176/379 (46%), Gaps = 25/379 (6%)
Query: 5 LSRPLLRACEALGYSKPTPIQAACIPLALTG--RDICGSAITGSGKTAAFALPTLERLLY 62
L + + +A + + TP+Q I L+ D+ A TG+GKT AF +P + L+
Sbjct: 79 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 138
Query: 63 -RPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFT----DIRCCLVVGGLSTKMQETALR 117
+ ++ +I+ PTR+LA+Q+ + ++KI C +VGG + +
Sbjct: 139 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 198
Query: 118 SM-PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 176
+ P+IV+ATPGR+ID L + RLLE+GF ++ + + ++
Sbjct: 199 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 258
Query: 177 -------QTMLFSATLTEDVDELIKLSLTKPLRLSAD------PSA-KRPSTLTXXXXXX 222
+T+LFSATL + V +L + K L D P A +R
Sbjct: 259 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 318
Query: 223 XXXXXXNQEAVLLSLCSKTFTSKVIIFSGT-KQAAHRLKILFG--LAALKAAELHGNLTQ 279
E + + + K IIF+ T K + IL L E HG +TQ
Sbjct: 319 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 378
Query: 280 AQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGR 339
+R ++ F+K L+ TDV ARG+D V V+ P +L +Y+HR+GRTAR+G+
Sbjct: 379 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 438
Query: 340 EGYAVTFVTDNDRSLLKAI 358
EG +V F+ ++ ++ +
Sbjct: 439 EGSSVLFICKDELPFVREL 457
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 140 bits (354), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 106/379 (27%), Positives = 176/379 (46%), Gaps = 25/379 (6%)
Query: 5 LSRPLLRACEALGYSKPTPIQAACIPLALTG--RDICGSAITGSGKTAAFALPTLERLLY 62
L + + +A + + TP+Q I L+ D+ A TG+GKT AF +P + L+
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 63 -RPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFT----DIRCCLVVGGLSTKMQETALR 117
+ ++ +I+ PTR+LA+Q+ + ++KI C +VGG + +
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 118 SM-PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 176
+ P+IV+ATPGR+ID L + RLLE+GF ++ + + ++
Sbjct: 148 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 207
Query: 177 -------QTMLFSATLTEDVDELIKLSLTKPLRLSAD------PSA-KRPSTLTXXXXXX 222
+T+LFSATL + V +L + K L D P A +R
Sbjct: 208 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 267
Query: 223 XXXXXXNQEAVLLSLCSKTFTSKVIIFSGT-KQAAHRLKILFG--LAALKAAELHGNLTQ 279
E + + + K IIF+ T K + IL L E HG +TQ
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 327
Query: 280 AQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGR 339
+R ++ F+K L+ TDV ARG+D V V+ P +L +Y+HR+GRTAR+G+
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 387
Query: 340 EGYAVTFVTDNDRSLLKAI 358
EG +V F+ ++ ++ +
Sbjct: 388 EGSSVLFICKDELPFVREL 406
>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 = 139 bits (350), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 104/369 (28%), Positives = 174/369 (47%), Gaps = 13/369 (3%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLL 61
++ L LLR G+ +P+ IQ I + G D+ A +G+GKT F++ L+R+
Sbjct: 26 DMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI- 84
Query: 62 YRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPD 121
+ A + L+L PTRELA+Q+ ++ +A DI+ +GG S LR
Sbjct: 85 --DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRD-AQ 141
Query: 122 IVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLF 181
IVV TPGR+ D+++ +L GF +I+++ L P Q +L
Sbjct: 142 IVVGTPGRVFDNIQRR-RFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLL 200
Query: 182 SATLTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEA---VLLSLC 238
SAT+ DV E+ + P+R+ + LT +E L L
Sbjct: 201 SATMPNDVLEVTTKFMRNPVRILV-----KKDELTLEGIKQFYVNVEEEEYKYECLTDLY 255
Query: 239 SKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLI 298
++ +IF T++ L + ++ +L Q +R ++ FR LI
Sbjct: 256 DSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILI 315
Query: 299 ATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAI 358
+TD+ ARG+D+ V VINY P + +Y+HR+GR R GR+G A+ FVT+ D ++ +
Sbjct: 316 STDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMREL 375
Query: 359 AKRAGSKLK 367
K ++++
Sbjct: 376 EKFYSTQIE 384
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 132 bits (331), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 105/366 (28%), Positives = 167/366 (45%), Gaps = 13/366 (3%)
Query: 5 LSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRP 64
L LLR G+ +P+ IQ I + G D+ A +G+GKT F++ L+R+
Sbjct: 28 LDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRI---D 84
Query: 65 KRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVV 124
+ A + L L PTRELA+Q+ ++ +A DI+ +GG S LR IVV
Sbjct: 85 TSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGLRDA-QIVV 143
Query: 125 ATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSAT 184
TPGR+ D+++ L GF +I+++ L P Q +L SAT
Sbjct: 144 GTPGRVFDNIQRR-RFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVLLSAT 202
Query: 185 LTEDVDELIKLSLTKPLRLSADPSAKRPSTLTXXXXXXXXXXXXNQEA---VLLSLCSKT 241
DV E+ P+R+ + LT +E L L
Sbjct: 203 XPNDVLEVTTKFXRNPVRILV-----KKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSI 257
Query: 242 FTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATD 301
++ +IF T++ L + ++ +L Q +R + FR LI+TD
Sbjct: 258 SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTD 317
Query: 302 VAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAIAKR 361
+ ARG+D+ V VINY P + +Y+HR+GR R GR+G A+ FVT+ D + + K
Sbjct: 318 LLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAXRELEKF 377
Query: 362 AGSKLK 367
++++
Sbjct: 378 YSTQIE 383
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 131 bits (329), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 74/198 (37%), Positives = 115/198 (58%), Gaps = 4/198 (2%)
Query: 5 LSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRP 64
LS+ L+ + Y T IQ I LAL G+D+ G+A TGSGKT AF +P LE L YR
Sbjct: 32 LSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEAL-YRL 90
Query: 65 KRIP--AIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDI 122
+ + VLI++PTRELA Q ++ K+ + D L++GG K + + ++ +I
Sbjct: 91 QWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERINNI-NI 149
Query: 123 VVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFS 182
+V TPGR++ H+ ++S R+L++GF+ ++ ++ PK+RQT+LFS
Sbjct: 150 LVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFS 209
Query: 183 ATLTEDVDELIKLSLTKP 200
AT T+ V +L +LSL P
Sbjct: 210 ATQTKSVKDLARLSLKNP 227
>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 = 130 bits (327), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 78/177 (44%), Positives = 100/177 (56%), Gaps = 3/177 (1%)
Query: 9 LLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRPKRIP 68
+L A G + PTPIQAA +PLAL G+D+ G A TG+GKT AFALP ERL +R
Sbjct: 12 ILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERGR 71
Query: 69 AIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVVATPG 128
R L+LTPTRELA+QV S + +A ++ V GG Q+ AL D VVATPG
Sbjct: 72 KPRALVLTPTRELALQVASELTAVA--PHLKVVAVYGGTGYGKQKEALLRGADAVVATPG 129
Query: 129 RMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSATL 185
R +D+LR + +L +GF E+ L+ P RQT+LFSATL
Sbjct: 130 RALDYLRQGV-LDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSATL 185
>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 = 129 bits (324), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 77/177 (43%), Positives = 100/177 (56%), Gaps = 3/177 (1%)
Query: 9 LLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRPKRIP 68
+L A G + PTPI+AA +PLAL G+D+ G A TG+GKT AFALP ERL +R
Sbjct: 12 ILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERGR 71
Query: 69 AIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVVATPG 128
R L+LTPTRELA+QV S + +A ++ V GG Q+ AL D VVATPG
Sbjct: 72 KPRALVLTPTRELALQVASELTAVAP--HLKVVAVYGGTGYGKQKEALLRGADAVVATPG 129
Query: 129 RMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSATL 185
R +D+LR + +L +GF E+ L+ P RQT+LFSATL
Sbjct: 130 RALDYLRQGV-LDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSATL 185
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 127 bits (320), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 74/196 (37%), Positives = 117/196 (59%), Gaps = 6/196 (3%)
Query: 10 LRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLE---RLLYRPKR 66
L+A + +G++ T IQ I L GRD+ +A TGSGKT AF +P +E +L + P+
Sbjct: 66 LKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRN 125
Query: 67 IPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVVAT 126
VLIL+PTRELA+Q +++++ L++GG + + L + +I+VAT
Sbjct: 126 --GTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVAT 183
Query: 127 PGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSATLT 186
PGR++DH++N+ R+L++GF E+ ++++L P RRQTMLFSAT T
Sbjct: 184 PGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSATQT 243
Query: 187 EDVDELIKLSLTK-PL 201
V++L ++SL K PL
Sbjct: 244 RKVEDLARISLKKEPL 259
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 121 bits (304), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 96/339 (28%), Positives = 157/339 (46%), Gaps = 27/339 (7%)
Query: 24 IQAACIPLALTG--RDICGSAITGSGKTAAFALPTLERLLYRPKRIPAIRVLILTPTREL 81
IQ +PL L+ R++ G + +G+GKTAAFAL L R+ +P + + L P+REL
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRV---DASVPKPQAICLAPSREL 201
Query: 82 AVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVVATPGRMIDHLRNSMSXX 141
A Q+ ++ ++ ++T+++ G+ + + A + IV+ TPG ++D ++
Sbjct: 202 ARQIMDVVTEMGKYTEVKTAF---GIKDSVPKGA-KIDAQIVIGTPGTVMDLMKRRQLDA 257
Query: 142 XXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSATLTEDVDELIKLSLTKPL 201
L + G + + L P+ Q +LFSAT +E V++ +
Sbjct: 258 RDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAE------- 310
Query: 202 RLSADPSAKRPST--LTXXXXXXXXXXXXNQE---AVLLSLCSKTFTSKVIIFSGTKQAA 256
R + + + R T L+ ++E VL+ L + IIF K A
Sbjct: 311 RFAPNANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSIIFCKKKDTA 370
Query: 257 HRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVI 316
+ A L GNL AQR ++ FR L+ T+V ARG+D+ V V+
Sbjct: 371 EEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVV 430
Query: 317 NYACPRDLT------SYVHRVGRTARAGREGYAVTFVTD 349
NY P D +Y+HR+GRT R GR G ++ FV D
Sbjct: 431 NYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHD 469
>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 = 115 bits (287), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 99/362 (27%), Positives = 165/362 (45%), Gaps = 30/362 (8%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALT--GRDICGSAITGSGKTAAFALPTLER 59
EL L LL+ A+G+++P+ IQ +PL L +++ + +G+GKTAAF L L +
Sbjct: 96 ELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQ 155
Query: 60 LLYRP-KRIPAIRVLILTPTRELAVQVHSMIEKIAQF-TDIRCCLVVGGLSTKMQETALR 117
+ P + P + L L+PT ELA+Q +IE++ +F +++ V G K+ E +
Sbjct: 156 V--EPANKYP--QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG--NKL-ERGQK 208
Query: 118 SMPDIVVATPGRMIDHLRN-SMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 176
IV+ TPG ++D + G + + R+ P+
Sbjct: 209 ISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 268
Query: 177 QTMLFSATLTEDVDELIKLSLTKPLRLSADPSA----KRPSTLTXXXXXXXXXXXXNQE- 231
Q +LFSAT + V + + ++ DP+ + TL +++
Sbjct: 269 QMLLFSATFEDSVWKFAQ-------KVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKF 321
Query: 232 AVLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRK 291
L +L ++ +IF T++ A L + A L G + QR +E FR+
Sbjct: 322 QALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE 381
Query: 292 QHVDFLIATDVAARGLDIIGVQTVINYACP------RDLTSYVHRVGRTARAGREGYAVT 345
L+ T+V ARG+D+ V VIN+ P D +Y+HR+GRT R G+ G AV
Sbjct: 382 GKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVN 441
Query: 346 FV 347
V
Sbjct: 442 MV 443
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 99/362 (27%), Positives = 165/362 (45%), Gaps = 30/362 (8%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALT--GRDICGSAITGSGKTAAFALPTLER 59
EL L LL+ A+G+++P+ IQ +PL L +++ + +G+GKTAAF L L +
Sbjct: 45 ELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQ 104
Query: 60 LLYRP-KRIPAIRVLILTPTRELAVQVHSMIEKIAQF-TDIRCCLVVGGLSTKMQETALR 117
+ P + P + L L+PT ELA+Q +IE++ +F +++ V G K+ E +
Sbjct: 105 V--EPANKYP--QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG--NKL-ERGQK 157
Query: 118 SMPDIVVATPGRMIDHLRN-SMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 176
IV+ TPG ++D + G + + R+ P+
Sbjct: 158 ISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 217
Query: 177 QTMLFSATLTEDVDELIKLSLTKPLRLSADPSA----KRPSTLTXXXXXXXXXXXXNQE- 231
Q +LFSAT + V + + ++ DP+ + TL +++
Sbjct: 218 QMLLFSATFEDSVWKFAQ-------KVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKF 270
Query: 232 AVLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRK 291
L +L ++ +IF T++ A L + A L G + QR +E FR+
Sbjct: 271 QALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE 330
Query: 292 QHVDFLIATDVAARGLDIIGVQTVINYACP------RDLTSYVHRVGRTARAGREGYAVT 345
L+ T+V ARG+D+ V VIN+ P D +Y+HR+GRT R G+ G AV
Sbjct: 331 GKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVN 390
Query: 346 FV 347
V
Sbjct: 391 MV 392
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 114 bits (285), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 99/362 (27%), Positives = 166/362 (45%), Gaps = 30/362 (8%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALT--GRDICGSAITGSGKTAAFALPTLER 59
EL L LL+ A+G+++P+ IQ +PL L +++ + +G+GKTAAF L L +
Sbjct: 66 ELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQ 125
Query: 60 LLYRP-KRIPAIRVLILTPTRELAVQVHSMIEKIAQFT-DIRCCLVVGGLSTKMQETALR 117
+ P + P + L L+PT ELA+Q +IE++ +F +++ V G K+ E +
Sbjct: 126 V--EPANKYP--QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG--NKL-ERGQK 178
Query: 118 SMPDIVVATPGRMIDHL-RNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 176
IV+ TPG ++D + + G + + R+ P+
Sbjct: 179 ISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 238
Query: 177 QTMLFSATLTEDVDELIKLSLTKPLRLSADPSA----KRPSTLTXXXXXXXXXXXXNQE- 231
Q +LFSAT + V + + ++ DP+ + TL +++
Sbjct: 239 QMLLFSATFEDSVWKFAQ-------KVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKF 291
Query: 232 AVLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRK 291
L +L ++ +IF T++ A L + A L G + QR +E FR+
Sbjct: 292 QALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE 351
Query: 292 QHVDFLIATDVAARGLDIIGVQTVINYACP------RDLTSYVHRVGRTARAGREGYAVT 345
L+ T+V ARG+D+ V VIN+ P D +Y+HR+GRT R G+ G AV
Sbjct: 352 GKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVN 411
Query: 346 FV 347
V
Sbjct: 412 MV 413
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 114 bits (285), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 99/362 (27%), Positives = 166/362 (45%), Gaps = 30/362 (8%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALT--GRDICGSAITGSGKTAAFALPTLER 59
EL L LL+ A+G+++P+ IQ +PL L +++ + +G+GKTAAF L L +
Sbjct: 29 ELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQ 88
Query: 60 LLYRP-KRIPAIRVLILTPTRELAVQVHSMIEKIAQF-TDIRCCLVVGGLSTKMQETALR 117
+ P + P + L L+PT ELA+Q +IE++ +F +++ V G K+ E +
Sbjct: 89 V--EPANKYP--QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG--NKL-ERGQK 141
Query: 118 SMPDIVVATPGRMIDHL-RNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 176
IV+ TPG ++D + + G + + R+ P+
Sbjct: 142 ISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 201
Query: 177 QTMLFSATLTEDVDELIKLSLTKPLRLSADPSA----KRPSTLTXXXXXXXXXXXXNQE- 231
Q +LFSAT + V + + ++ DP+ + TL +++
Sbjct: 202 QMLLFSATFEDSVWKFAQ-------KVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKF 254
Query: 232 AVLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRK 291
L +L ++ +IF T++ A L + A L G + QR +E FR+
Sbjct: 255 QALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE 314
Query: 292 QHVDFLIATDVAARGLDIIGVQTVINYACP------RDLTSYVHRVGRTARAGREGYAVT 345
L+ T+V ARG+D+ V VIN+ P D +Y+HR+GRT R G+ G AV
Sbjct: 315 GKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVN 374
Query: 346 FV 347
V
Sbjct: 375 MV 376
>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 = 107 bits (266), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 68/186 (36%), Positives = 102/186 (54%), Gaps = 13/186 (6%)
Query: 18 YSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLL------YRPKRIPAIR 71
Y +PTPIQ IP L RDI A TGSGKTAAF +P + L+ R + +
Sbjct: 43 YQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPK 102
Query: 72 VLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVVATPGRMI 131
LIL PTRELA+Q+ S +K + T +R C+V GG T Q ++ ++VATPGR++
Sbjct: 103 CLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLV 162
Query: 132 DHL-RNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLC--PK--RRQTMLFSATLT 186
D + +N +S R+L++GF +I +++ P RQT++FSAT
Sbjct: 163 DFIEKNKIS--LEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFP 220
Query: 187 EDVDEL 192
+++ +L
Sbjct: 221 KEIQKL 226
>pdb|1T6N|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Uap56
pdb|1T6N|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Uap56
Length = 220
Score = 105 bits (263), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 63/197 (31%), Positives = 103/197 (52%), Gaps = 5/197 (2%)
Query: 9 LLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRPKRIP 68
LLRA G+ P+ +Q CIP A+ G D+ A +G GKTA F L TL++L
Sbjct: 25 LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL---EPVTG 81
Query: 69 AIRVLILTPTRELAVQVHSMIEKIAQFT-DIRCCLVVGGLSTKMQETAL-RSMPDIVVAT 126
+ VL++ TRELA Q+ E+ +++ +++ + GGLS K E L ++ P IVV T
Sbjct: 82 QVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGT 141
Query: 127 PGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSATLT 186
PGR++ RN L +L ++ E+ R+ P +Q M+FSATL+
Sbjct: 142 PGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLS 201
Query: 187 EDVDELIKLSLTKPLRL 203
+++ + + + P+ +
Sbjct: 202 KEIRPVCRKFMQDPMEI 218
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 105 bits (262), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 67/203 (33%), Positives = 101/203 (49%), Gaps = 5/203 (2%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLL 61
++NL LLR A G+ KP+ IQ I + G D+ A +G+GKTA FA+ L++L
Sbjct: 34 DMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLE 93
Query: 62 YRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRS-MP 120
K A L+L PTRELA Q+ +I + + C +GG + + + L++ P
Sbjct: 94 IEFKETQA---LVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQAEAP 150
Query: 121 DIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTML 180
IVV TPGR+ D L N +L GF +I+E+ + Q +L
Sbjct: 151 HIVVGTPGRVFDML-NRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVL 209
Query: 181 FSATLTEDVDELIKLSLTKPLRL 203
SAT+ DV E+ K + P+R+
Sbjct: 210 LSATMPTDVLEVTKKFMRDPIRI 232
>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 = 105 bits (261), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 63/201 (31%), Positives = 104/201 (51%), Gaps = 5/201 (2%)
Query: 5 LSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRP 64
L R LL +G+ KP+PIQ IP+AL+GRDI A G+GK+ A+ +P LERL +
Sbjct: 10 LKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLDLKK 69
Query: 65 KRIPAIRVLILTPTRELAVQVHSMIEKIAQ-FTDIRCCLVVGGLSTKMQETALRSMPDIV 123
I A +++ PTRELA+QV + ++++ + GG + + L +V
Sbjct: 70 DNIQA---MVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVV 126
Query: 124 VATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSA 183
+ATPGR++D ++ ++ +LL F + +++ PK RQ +L+SA
Sbjct: 127 IATPGRILDLIKKGVA-KVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSA 185
Query: 184 TLTEDVDELIKLSLTKPLRLS 204
T V + + L KP ++
Sbjct: 186 TFPLSVQKFMNSHLEKPYEIN 206
>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 = 100 bits (248), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 51/145 (35%), Positives = 84/145 (57%)
Query: 229 NQEAVLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALEL 288
++ A+L+ L + ++ I+F ++ H L A + L G + Q +R EA++
Sbjct: 16 HKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKR 75
Query: 289 FRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVT 348
+ V+ L+ATDVAARG+DI V V N+ PR +Y+HR+GRTARAGR+G A++ V
Sbjct: 76 LTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVE 135
Query: 349 DNDRSLLKAIAKRAGSKLKSRIVAE 373
+D LL + + +K+R++ E
Sbjct: 136 AHDHLLLGKVGRYIEEPIKARVIDE 160
>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 = 99.0 bits (245), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 61/202 (30%), Positives = 99/202 (49%), Gaps = 5/202 (2%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLL 61
++ L LLR G+ +P+ IQ I + G D+ A +G+GKT F++ L+R+
Sbjct: 18 DMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI- 76
Query: 62 YRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPD 121
+ A + L+L PTRELA+Q+ ++ +A DI+ +GG S LR
Sbjct: 77 --DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRD-AQ 133
Query: 122 IVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLF 181
IVV TPGR+ D+++ +L GF +I+++ L P Q +L
Sbjct: 134 IVVGTPGRVFDNIQRR-RFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLL 192
Query: 182 SATLTEDVDELIKLSLTKPLRL 203
SAT+ DV E+ + P+R+
Sbjct: 193 SATMPNDVLEVTTKFMRNPVRI 214
>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 = 98.6 bits (244), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 62/203 (30%), Positives = 101/203 (49%), Gaps = 5/203 (2%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLL 61
++NLS LLR A G+ P+ IQ I + G D+ A +G+G TA FA+ L+++
Sbjct: 19 DMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQI- 77
Query: 62 YRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALR-SMP 120
+ A + L+L PTRELA Q+ ++ + + C +GG + + + L+ P
Sbjct: 78 --ELDLXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQXLQMEAP 135
Query: 121 DIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTML 180
I+V TPGR+ D L N +L GF +I+++ + Q +L
Sbjct: 136 HIIVGTPGRVFDML-NRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQVVL 194
Query: 181 FSATLTEDVDELIKLSLTKPLRL 203
SAT+ DV E+ + P+R+
Sbjct: 195 LSATMPSDVLEVTXXFMRDPIRI 217
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 98.6 bits (244), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 61/202 (30%), Positives = 99/202 (49%), Gaps = 5/202 (2%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLL 61
++ L LLR G+ +P+ IQ I + G D+ A +G+GKT F++ L+R+
Sbjct: 25 DMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI- 83
Query: 62 YRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPD 121
+ A + L+L PTRELA+Q+ ++ +A DI+ +GG S LR
Sbjct: 84 --DTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRD-AQ 140
Query: 122 IVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLF 181
IVV TPGR+ D+++ +L GF +I+++ L P Q +L
Sbjct: 141 IVVGTPGRVFDNIQRR-RFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLL 199
Query: 182 SATLTEDVDELIKLSLTKPLRL 203
SAT+ DV E+ + P+R+
Sbjct: 200 SATMPNDVLEVTTKFMRNPVRI 221
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 94.0 bits (232), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 59/178 (33%), Positives = 95/178 (53%), Gaps = 3/178 (1%)
Query: 17 GYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRP--KRIPAIRVLI 74
+++PT IQA P+AL+G D+ G A TGSGKT ++ LP + + ++P +R L+
Sbjct: 62 NFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLV 121
Query: 75 LTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVVATPGRMIDHL 134
L PTRELA QV + + + ++ + GG Q L +I +ATPGR+ID L
Sbjct: 122 LAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFL 181
Query: 135 RNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSATLTEDVDEL 192
+ R+L++GF +I ++V RQT+++SAT ++V +L
Sbjct: 182 ECGKT-NLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQL 238
>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 = 93.2 bits (230), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 59/177 (33%), Positives = 95/177 (53%), Gaps = 3/177 (1%)
Query: 18 YSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRP--KRIPAIRVLIL 75
+++PT IQA P+AL+G D+ G A TGSGKT ++ LP + + ++P +R L+L
Sbjct: 49 FTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVL 108
Query: 76 TPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIVVATPGRMIDHLR 135
PTRELA QV + + + ++ + GG Q L +I +ATPGR+ID L
Sbjct: 109 APTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLE 168
Query: 136 NSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSATLTEDVDEL 192
+ R+L++GF +I ++V RQT+++SAT ++V +L
Sbjct: 169 CGKT-NLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQL 224
>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 = 90.9 bits (224), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 62/198 (31%), Positives = 96/198 (48%), Gaps = 12/198 (6%)
Query: 9 LLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRPKRIP 68
++ A + L + KPT IQ IP AL G G + TG+GKT A+ LP E++ +P+R
Sbjct: 15 IIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKI--KPERA- 71
Query: 69 AIRVLILTPTRELAVQVHSMIEKIAQFTD------IRCCLVVGGLSTKMQETALRSMPDI 122
++ +I PTRELA Q++ KI +F RC ++GG + L P I
Sbjct: 72 EVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARC--LIGGTDKQKALEKLNVQPHI 129
Query: 123 VVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFS 182
V+ TPGR+ D +R + L+ GF ++ ++ PK Q ++FS
Sbjct: 130 VIGTPGRINDFIREQ-ALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKDLQXLVFS 188
Query: 183 ATLTEDVDELIKLSLTKP 200
AT+ E + +K P
Sbjct: 189 ATIPEKLKPFLKKYXENP 206
>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 = 90.1 bits (222), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 48/124 (38%), Positives = 70/124 (56%), Gaps = 1/124 (0%)
Query: 233 VLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQ 292
V L C + V+IF+ K + L ++A +HG Q +R +A+E FR+
Sbjct: 44 VYLLECLQKTPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREG 103
Query: 293 HVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDN-D 351
D L+ATDVA++GLD +Q VINY P ++ +YVHR+GRT +G G A TF+ D
Sbjct: 104 KKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFINKACD 163
Query: 352 RSLL 355
S+L
Sbjct: 164 ESVL 167
>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 = 90.1 bits (222), Expect = 3e-18, Method: Composition-based stats.
Identities = 46/121 (38%), Positives = 70/121 (57%)
Query: 247 IIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARG 306
IIF TK+ ++L ++HG + Q R + + F++ +L+ATDVAARG
Sbjct: 39 IIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARG 98
Query: 307 LDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAIAKRAGSKL 366
+DI + VINY P + SYVHR GRT RAG +G A++FVT ++ L I + G ++
Sbjct: 99 IDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFEKRFLADIEEYIGFEI 158
Query: 367 K 367
+
Sbjct: 159 Q 159
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 89.7 bits (221), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 69/210 (32%), Positives = 104/210 (49%), Gaps = 10/210 (4%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLL 61
E ++ LL+ G+ PTPIQ IP+ L GR++ SA TGSGKT AF++P L +L
Sbjct: 33 EYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLK 92
Query: 62 YRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLV-VGGLSTKMQETALRSMP 120
+ R LI++PTRELA Q+H + KI++ T R ++ ++ K
Sbjct: 93 QPANK--GFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKF 150
Query: 121 DIVVATPGRMIDHLR-NSMSXXXXXXXXXXXXXXXRLLE---LGFSAEIHELVRLCP--K 174
DI+V TP R+I L+ + +L E GF ++ + C K
Sbjct: 151 DILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHK 210
Query: 175 RRQTMLFSATLTEDVDELIKLSLTKPLRLS 204
R+ M FSAT DV++ KL+L + +S
Sbjct: 211 VRRAM-FSATFAYDVEQWCKLNLDNVISVS 239
>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 = 87.8 bits (216), Expect = 2e-17, Method: Composition-based stats.
Identities = 53/152 (34%), Positives = 78/152 (51%), Gaps = 8/152 (5%)
Query: 229 NQEAVLLSLCSKTFT-SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALE 287
++ + LL L + T S ++F TK+ A L+ +HG+ +Q R EAL
Sbjct: 31 DKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALH 90
Query: 288 LFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFV 347
FR L+AT VAARGLDI V+ VIN+ P D+ YVHR+GRT R G G A +F
Sbjct: 91 QFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFF 150
Query: 348 TDNDRSLLKAIAKRAGSKLKSRIVAEQSITKW 379
+ + ++ K + L + A+Q + W
Sbjct: 151 NERNINITKDL-------LDLLVEAKQEVPSW 175
>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 = 87.4 bits (215), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 69/216 (31%), Positives = 106/216 (49%), Gaps = 24/216 (11%)
Query: 3 LNLSRPLLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLY 62
L LSRP+L A G+ +P+P+Q IPL G D+ A +G+GKT F+ L+ L+
Sbjct: 29 LLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVL 88
Query: 63 RPKRIPAIRVLILTPTRELAVQVHSMIEKIA-QFTDIRCCLVVGGLSTKMQETALRSMPD 121
+ ++LIL PTRE+AVQ+HS+I I + + C + +GG +T L+
Sbjct: 89 ENL---STQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKKC-H 144
Query: 122 IVVATPGRM-----IDHLRNSMSXXXXXXXXXXXXXXXRLLELG-FSAEIHELVRLCPKR 175
I V +PGR+ +D+L +LLE G F +I+ + P
Sbjct: 145 IAVGSPGRIKQLIELDYLNPG------SIRLFILDEADKLLEEGSFQEQINWIYSSLPAS 198
Query: 176 RQTMLFSATLTEDVDELIKLSLTKPLRLSADPSAKR 211
+Q + SAT E + +LTK +R DP+ R
Sbjct: 199 KQMLAVSAT----YPEFLANALTKYMR---DPTFVR 227
>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 = 82.0 bits (201), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 34/91 (37%), Positives = 55/91 (60%)
Query: 268 LKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSY 327
L E HG +TQ +R ++ F+K L+ TDV ARG+D V V+ P +L +Y
Sbjct: 61 LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANY 120
Query: 328 VHRVGRTARAGREGYAVTFVTDNDRSLLKAI 358
+HR+GRTAR+G+EG +V F+ ++ ++ +
Sbjct: 121 IHRIGRTARSGKEGSSVLFICKDELPFVREL 151
>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 = 82.0 bits (201), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 34/91 (37%), Positives = 55/91 (60%)
Query: 268 LKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSY 327
L E HG +TQ +R ++ F+K L+ TDV ARG+D V V+ P +L +Y
Sbjct: 61 LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANY 120
Query: 328 VHRVGRTARAGREGYAVTFVTDNDRSLLKAI 358
+HR+GRTAR+G+EG +V F+ ++ ++ +
Sbjct: 121 IHRIGRTARSGKEGSSVLFICKDELPFVREL 151
>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 = 82.0 bits (201), Expect = 9e-16, Method: Composition-based stats.
Identities = 52/134 (38%), Positives = 75/134 (55%), Gaps = 13/134 (9%)
Query: 247 IIFSGTKQAAHRLKILFGLAALKAAE---LHGNLTQAQRLEALELFRKQHVDFLIATDVA 303
IIF TK+ A+ +L+G + E LHG+L +R ++ FR+ LI T+V
Sbjct: 40 IIFVATKKTAN---VLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 96
Query: 304 ARGLDIIGVQTVINYACPR------DLTSYVHRVGRTARAGREGYAVTFVTD-NDRSLLK 356
ARG+DI V V+NY P D +Y+HR+GRT R GR+G A++FV D N ++L
Sbjct: 97 ARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILS 156
Query: 357 AIAKRAGSKLKSRI 370
AI K G +R+
Sbjct: 157 AIQKYFGDIEXTRV 170
>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 = 81.6 bits (200), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 34/91 (37%), Positives = 55/91 (60%)
Query: 268 LKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSY 327
L E HG +TQ +R ++ F+K L+ TDV ARG+D V V+ P +L +Y
Sbjct: 61 LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANY 120
Query: 328 VHRVGRTARAGREGYAVTFVTDNDRSLLKAI 358
+HR+GRTAR+G+EG +V F+ ++ ++ +
Sbjct: 121 IHRIGRTARSGKEGSSVLFICKDELPFVREL 151
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 81.6 bits (200), Expect = 1e-15, Method: Composition-based stats.
Identities = 52/134 (38%), Positives = 75/134 (55%), Gaps = 13/134 (9%)
Query: 247 IIFSGTKQAAHRLKILFGLAALKAAE---LHGNLTQAQRLEALELFRKQHVDFLIATDVA 303
IIF TK+ A+ +L+G + E LHG+L +R ++ FR+ LI T+V
Sbjct: 41 IIFVATKKTAN---VLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 97
Query: 304 ARGLDIIGVQTVINYACPR------DLTSYVHRVGRTARAGREGYAVTFVTD-NDRSLLK 356
ARG+DI V V+NY P D +Y+HR+GRT R GR+G A++FV D N ++L
Sbjct: 98 ARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILS 157
Query: 357 AIAKRAGSKLKSRI 370
AI K G +R+
Sbjct: 158 AIQKYFGDIEXTRV 171
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 81.3 bits (199), Expect = 1e-15, Method: Composition-based stats.
Identities = 52/134 (38%), Positives = 75/134 (55%), Gaps = 13/134 (9%)
Query: 247 IIFSGTKQAAHRLKILFGLAALKAAE---LHGNLTQAQRLEALELFRKQHVDFLIATDVA 303
IIF TK+ A+ +L+G + E LHG+L +R ++ FR+ LI T+V
Sbjct: 39 IIFVATKKTAN---VLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 95
Query: 304 ARGLDIIGVQTVINYACPR------DLTSYVHRVGRTARAGREGYAVTFVTD-NDRSLLK 356
ARG+DI V V+NY P D +Y+HR+GRT R GR+G A++FV D N ++L
Sbjct: 96 ARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILS 155
Query: 357 AIAKRAGSKLKSRI 370
AI K G +R+
Sbjct: 156 AIQKYFGDIEMTRV 169
>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 = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 60/198 (30%), Positives = 101/198 (51%), Gaps = 9/198 (4%)
Query: 9 LLRACEALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTLERLLYRP---- 64
LL++ +G KPTPIQ+ P+ L G D+ A TG+GKT ++ +P L +P
Sbjct: 31 LLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISRE 90
Query: 65 -KRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSMPDIV 123
+ P + L+LTPTRELA+ V + K + + ++ + GG + Q + DI+
Sbjct: 91 QRNGPGM--LVLTPTRELALHVEAECSKYS-YKGLKSICIYGGRNRNGQIEDISKGVDII 147
Query: 124 VATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTMLFSA 183
+ATPGR+ D L+ + S ++L++ F +I +++ RQT++ SA
Sbjct: 148 IATPGRLND-LQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTSA 206
Query: 184 TLTEDVDELIKLSLTKPL 201
T + V +L L P+
Sbjct: 207 TWPDTVRQLALSYLKDPM 224
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 77.8 bits (190), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 57/195 (29%), Positives = 97/195 (49%), Gaps = 9/195 (4%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALTG--RDICGSAITGSGKTAAFALPTLER 59
EL L+ LL+ A+ + KP+ IQ +PL L R++ + +G+GKTAAF+L L R
Sbjct: 26 ELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTR 85
Query: 60 LLYRPKRIPAIRVLILTPTRELAVQVHSMIEKIAQFTDIRCCLVVGGLSTKMQETALRSM 119
+ P+ + + + L P+RELA Q +++++ +FT I L+V K ++ +
Sbjct: 86 V--NPEDA-SPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQINAQ-- 140
Query: 120 PDIVVATPGRMIDHLRNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRRQTM 179
++V TPG ++D +R + L + G + + R PK Q +
Sbjct: 141 --VIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLV 198
Query: 180 LFSATLTEDVDELIK 194
LFSAT + V + K
Sbjct: 199 LFSATFADAVRQYAK 213
>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 = 75.1 bits (183), Expect = 1e-13, Method: Composition-based stats.
Identities = 42/134 (31%), Positives = 67/134 (50%)
Query: 234 LLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQH 293
L +L S+ ++ IIF + Q L +H + Q R FR
Sbjct: 35 LNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGL 94
Query: 294 VDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRS 353
L+ TD+ RG+DI V VIN+ P+ +Y+HR+GR+ R G G A+ +T +DR
Sbjct: 95 CRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLITYDDRF 154
Query: 354 LLKAIAKRAGSKLK 367
LK+I ++ G+++K
Sbjct: 155 NLKSIEEQLGTEIK 168
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 72.4 bits (176), Expect = 7e-13, Method: Composition-based stats.
Identities = 41/119 (34%), Positives = 61/119 (51%), Gaps = 1/119 (0%)
Query: 244 SKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVA 303
++V+IF + Q L L A +H + Q +RL + F+ L+AT++
Sbjct: 32 NQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLF 91
Query: 304 ARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTD-NDRSLLKAIAKR 361
RG+DI V NY P D +Y+HRV R R G +G A+TFV+D ND +L + R
Sbjct: 92 GRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDR 150
>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 = 65.5 bits (158), Expect = 8e-11, Method: Composition-based stats.
Identities = 41/129 (31%), Positives = 63/129 (48%), Gaps = 6/129 (4%)
Query: 245 KVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAA 304
+ IIF T++ A L + + + L G LT QR ++ FR LI T+V A
Sbjct: 36 QAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCA 95
Query: 305 RGLDIIGVQTVINYACP------RDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAI 358
RG+D+ V V+N+ P D +Y+HR+GRT R G++G A + ++ L I
Sbjct: 96 RGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKI 155
Query: 359 AKRAGSKLK 367
S +K
Sbjct: 156 QDHFNSSIK 164
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 55/193 (28%), Positives = 93/193 (48%), Gaps = 12/193 (6%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALT--GRDICGSAITGSGKTAAFALPTLER 59
EL L LL+ A+G+++P+ IQ +PL L +++ + +G+GKTAAF L L +
Sbjct: 96 ELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQ 155
Query: 60 LLYRP-KRIPAIRVLILTPTRELAVQVHSMIEKIAQF-TDIRCCLVVGGLSTKMQETALR 117
+ P + P + L L+PT ELA+Q +IE++ +F +++ V G K+ E +
Sbjct: 156 V--EPANKYP--QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG--NKL-ERGQK 208
Query: 118 SMPDIVVATPGRMIDHLRN-SMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 176
IV+ TPG ++D + G + + R+ P+
Sbjct: 209 ISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 268
Query: 177 QTMLFSATLTEDV 189
Q +LFSAT + V
Sbjct: 269 QMLLFSATFEDSV 281
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 63.5 bits (153), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 55/193 (28%), Positives = 94/193 (48%), Gaps = 12/193 (6%)
Query: 2 ELNLSRPLLRACEALGYSKPTPIQAACIPLALT--GRDICGSAITGSGKTAAFALPTLER 59
EL L LL+ A+G+++P+ IQ +PL L +++ + +G+GKTAAF L L +
Sbjct: 29 ELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQ 88
Query: 60 LLYRP-KRIPAIRVLILTPTRELAVQVHSMIEKIAQF-TDIRCCLVVGGLSTKMQETALR 117
+ P + P + L L+PT ELA+Q +IE++ +F +++ V G K+ E +
Sbjct: 89 V--EPANKYP--QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG--NKL-ERGQK 141
Query: 118 SMPDIVVATPGRMIDHL-RNSMSXXXXXXXXXXXXXXXRLLELGFSAEIHELVRLCPKRR 176
IV+ TPG ++D + + G + + R+ P+
Sbjct: 142 ISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 201
Query: 177 QTMLFSATLTEDV 189
Q +LFSAT + V
Sbjct: 202 QMLLFSATFEDSV 214
>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 = 62.0 bits (149), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 54/137 (39%), Positives = 73/137 (53%), Gaps = 4/137 (2%)
Query: 233 VLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAAL--KAAELHGNLTQAQRLEALELFR 290
VL L + ++F+ TK A +I GL L A LHG+L+Q +R L FR
Sbjct: 21 VLSDLLYVASPDRAMVFTRTK--AETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFR 78
Query: 291 KQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDN 350
+ V L+ATDVAARGLDI V V++Y P +Y HR GRT RAGR G V
Sbjct: 79 QGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLYGPR 138
Query: 351 DRSLLKAIAKRAGSKLK 367
+R ++A+ + G + K
Sbjct: 139 ERRDVEALERAVGRRFK 155
>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 = 1e-09, Method: Compositional matrix adjust.
Identities = 52/137 (37%), Positives = 73/137 (53%), Gaps = 4/137 (2%)
Query: 233 VLLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAAL--KAAELHGNLTQAQRLEALELFR 290
VL L + ++F+ TK A +I GL L A LHG+++Q +R + FR
Sbjct: 18 VLSDLLYVASPDRAMVFTRTK--AETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFR 75
Query: 291 KQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDN 350
+ V L+ATDVAARGLDI V V++Y P +Y HR GRT RAGR G V
Sbjct: 76 QGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGRVVLLYGPR 135
Query: 351 DRSLLKAIAKRAGSKLK 367
+R ++A+ + G + K
Sbjct: 136 ERRDVEALERAVGRRFK 152
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 56.6 bits (135), Expect = 3e-08, Method: Composition-based stats.
Identities = 40/134 (29%), Positives = 70/134 (52%)
Query: 234 LLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQH 293
L L ++ +IF T++ L + ++ +L Q +R ++ FR
Sbjct: 21 LTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGS 80
Query: 294 VDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRS 353
LI+TD+ ARG+D+ V VINY P + +Y+HR+GR R GR+G A+ FVT+ D
Sbjct: 81 SRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVG 140
Query: 354 LLKAIAKRAGSKLK 367
++ + K ++++
Sbjct: 141 AMRELEKFYSTQIE 154
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 37/113 (32%), Positives = 51/113 (45%), Gaps = 15/113 (13%)
Query: 247 IIFSGTKQAAHRLKIL------FGLAALKAAELHGN--------LTQAQRLEALELFRKQ 292
IIF+ T+Q+A+ L F +KA L G +TQ ++ E + FR
Sbjct: 404 IIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTG 463
Query: 293 HVDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVT 345
++ LIAT VA GLDI VI Y + + V GR ARA Y +
Sbjct: 464 KINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARGR-ARADESTYVLV 515
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 46.2 bits (108), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 42/90 (46%)
Query: 267 ALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTS 326
+ AA H L R + E F++ + ++AT G++ V+ V+++ PR++ S
Sbjct: 260 GISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIES 319
Query: 327 YVHRVGRTARAGREGYAVTFVTDNDRSLLK 356
Y GR R G A+ F D + L+
Sbjct: 320 YYQETGRAGRDGLPAEAMLFYDPADMAWLR 349
Score = 33.1 bits (74), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%)
Query: 14 EALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTL 57
E GY + P Q I L+GRD TG GK+ + +P L
Sbjct: 19 ETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL 62
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 41/90 (45%)
Query: 267 ALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTS 326
+ AA H L R + E F++ + ++AT G++ V+ V+++ PR++ S
Sbjct: 260 GISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPRNIES 319
Query: 327 YVHRVGRTARAGREGYAVTFVTDNDRSLLK 356
Y GR R G A F D + L+
Sbjct: 320 YYQETGRAGRDGLPAEAXLFYDPADXAWLR 349
Score = 33.1 bits (74), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%)
Query: 14 EALGYSKPTPIQAACIPLALTGRDICGSAITGSGKTAAFALPTL 57
E GY + P Q I L+GRD TG GK+ + +P L
Sbjct: 19 ETFGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPAL 62
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 40/87 (45%), Gaps = 14/87 (16%)
Query: 247 IIFSGTKQAAHRLKIL------FGLAALKAAELHGN--------LTQAQRLEALELFRKQ 292
IIF+ T+Q+A+ L F +KA L G TQ ++ E + FR
Sbjct: 154 IIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAGHSSEFKPXTQNEQREVISKFRTG 213
Query: 293 HVDFLIATDVAARGLDIIGVQTVINYA 319
++ LIAT VA GLDI VI Y
Sbjct: 214 KINLLIATTVAEEGLDIKECNIVIRYG 240
>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 = 38.5 bits (88), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 45/102 (44%), Gaps = 8/102 (7%)
Query: 243 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGN--------LTQAQRLEALELFRKQHV 294
SK+I+F+ ++ A ++ +KA G L+Q ++ L+ F +
Sbjct: 361 NSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEF 420
Query: 295 DFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTAR 336
+ L+AT V GLD+ V V+ Y + R GRT R
Sbjct: 421 NVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR 462
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 37.4 bits (85), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 39/83 (46%), Gaps = 1/83 (1%)
Query: 268 LKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVINYACPRDLTSY 327
K +HG L+Q ++ + F + D L++T V G+D+ ++ R +
Sbjct: 614 FKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLAQ 673
Query: 328 VHRV-GRTARAGREGYAVTFVTD 349
+H++ GR R G+E Y V D
Sbjct: 674 LHQLRGRVGRGGQEAYCFLVVGD 696
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 34.3 bits (77), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 6/121 (4%)
Query: 243 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 302
+ ++ + TK+ A L A +K A LH + +R+E + R D L+ ++
Sbjct: 470 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 529
Query: 303 AARGLDIIGVQTVI-----NYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 357
GLDI V V R S + +GR AR G+ + + +S+ A
Sbjct: 530 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN-GHVIMYADTITKSMEIA 588
Query: 358 I 358
I
Sbjct: 589 I 589
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 6/121 (4%)
Query: 243 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 302
+ ++ + TK+ A L A +K A LH + +R+E + R D L+ ++
Sbjct: 444 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 503
Query: 303 AARGLDIIGVQTVI-----NYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 357
GLDI V V R S + +GR AR G+ + + +S+ A
Sbjct: 504 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN-GHVIMYADTITKSMEIA 562
Query: 358 I 358
I
Sbjct: 563 I 563
>pdb|1T5L|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
pdb|1T5L|B Chain B, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
Length = 658
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 6/121 (4%)
Query: 243 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 302
+ ++ + TK+ A L A +K A LH + +R+E + R D L+ ++
Sbjct: 445 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 504
Query: 303 AARGLDIIGVQTVI-----NYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 357
GLDI V V R S + +GR AR G+ + + +S+ A
Sbjct: 505 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN-GHVIMYADTITKSMEIA 563
Query: 358 I 358
I
Sbjct: 564 I 564
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 6/121 (4%)
Query: 243 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 302
+ ++ + TK+ A L A +K A LH + +R+E + R D L+ ++
Sbjct: 445 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 504
Query: 303 AARGLDIIGVQTVI-----NYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 357
GLDI V V R S + +GR AR G+ + + +S+ A
Sbjct: 505 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN-GHVIMYADTITKSMEIA 563
Query: 358 I 358
I
Sbjct: 564 I 564
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 33.9 bits (76), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 6/121 (4%)
Query: 243 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 302
+ ++ + TK+ A L A +K A LH + +R+E + R D L+ ++
Sbjct: 445 NERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 504
Query: 303 AARGLDIIGVQTVI-----NYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 357
GLDI V V R S + +GR AR G+ + + +S+ A
Sbjct: 505 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN-GHVIMYADTITKSMEIA 563
Query: 358 I 358
I
Sbjct: 564 I 564
>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 = 32.3 bits (72), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 41/89 (46%), Gaps = 11/89 (12%)
Query: 296 FLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTF---VTDNDR 352
LIAT VA G+DI+ V+ Y ++T + GR AG + VT V +N++
Sbjct: 456 LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTEVVENEK 515
Query: 353 SLLKAIAKRAGSKLKSRIVAEQSITKWSK 381
R ++ ++ V + I KW +
Sbjct: 516 ------CNRYKEEMMNKAV--EKIQKWDE 536
>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 = 32.0 bits (71), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%)
Query: 296 FLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTD 349
LIAT VA G+DI+ V+ Y ++T + GR AG + VT T+
Sbjct: 697 LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTE 750
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 32.0 bits (71), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 22/103 (21%), Positives = 45/103 (43%), Gaps = 5/103 (4%)
Query: 234 LLSLCSKTFTSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQH 293
L + + K+IIF+ + +R+ +F + A+ ++ +R E LE FR
Sbjct: 105 LREILERHRKDKIIIFTRHNELVYRISKVFLIPAITH-----RTSREEREEILEGFRTGR 159
Query: 294 VDFLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTAR 336
++++ V G+D+ + + Y+ R+GR R
Sbjct: 160 FRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 202
>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 = 32.0 bits (71), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 41/89 (46%), Gaps = 11/89 (12%)
Query: 296 FLIATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTF---VTDNDR 352
LIAT VA G+DI+ V+ Y ++T + GR AG + VT V +N++
Sbjct: 697 LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTEVVENEK 756
Query: 353 SLLKAIAKRAGSKLKSRIVAEQSITKWSK 381
R ++ ++ V + I KW +
Sbjct: 757 ------CNRYKEEMMNKAV--EKIQKWDE 777
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 32.0 bits (71), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 17/90 (18%), Positives = 39/90 (43%)
Query: 247 IIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARG 306
II+ +++ + ++ + + A H NL + + + ++AT G
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMG 330
Query: 307 LDIIGVQTVINYACPRDLTSYVHRVGRTAR 336
+D V+ VI+++ + + +Y GR R
Sbjct: 331 IDKPDVRFVIHHSMSKSMENYYQESGRAGR 360
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 42/92 (45%), Gaps = 5/92 (5%)
Query: 245 KVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAA 304
K+IIF+ + +R+ +F + A+ ++ +R E LE FR ++++ V
Sbjct: 351 KIIIFTRHNELVYRISKVFLIPAITH-----RTSREEREEILEGFRTGRFRAIVSSQVLD 405
Query: 305 RGLDIIGVQTVINYACPRDLTSYVHRVGRTAR 336
G+D+ + + Y+ R+GR R
Sbjct: 406 EGIDVPDANVGVIMSGSGSAREYIQRLGRILR 437
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 29/121 (23%), Positives = 49/121 (40%), Gaps = 6/121 (4%)
Query: 243 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 302
+V++ + TK+ + L +K LH + +R+E + R D L+ ++
Sbjct: 451 NERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 510
Query: 303 AARGLDIIGVQTVI-----NYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 357
GLDI V V R S + +GR AR EG + + +S+ A
Sbjct: 511 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA-EGRVIMYADKITKSMEIA 569
Query: 358 I 358
I
Sbjct: 570 I 570
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 29/121 (23%), Positives = 49/121 (40%), Gaps = 6/121 (4%)
Query: 243 TSKVIIFSGTKQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDV 302
+V++ + TK+ + L +K LH + +R+E + R D L+ ++
Sbjct: 445 NERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 504
Query: 303 AARGLDIIGVQTVI-----NYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKA 357
GLDI V V R S + +GR AR EG + + +S+ A
Sbjct: 505 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNA-EGRVIMYADKITKSMEIA 563
Query: 358 I 358
I
Sbjct: 564 I 564
>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 = 1.4, Method: Compositional matrix adjust.
Identities = 23/94 (24%), Positives = 41/94 (43%), Gaps = 9/94 (9%)
Query: 270 AAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGVQTVI-------NYACPR 322
AA H L QR + FR+ ++ ++AT A G+++ + ++ Y+
Sbjct: 299 AAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRI 358
Query: 323 DLTSYVHRVGRTARAGRE--GYAVTFVTDNDRSL 354
++ Y GR R G + G A+ V DR +
Sbjct: 359 KVSEYKQMAGRAGRPGMDERGEAIIIVGKRDREI 392
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 38/200 (19%), Positives = 89/200 (44%), Gaps = 24/200 (12%)
Query: 245 KVIIFSGTKQAAHRLKILFGLAALKAAE---LHGNLTQAQRLEALELFRKQHVD---FLI 298
+V+IFS Q L IL ++K L G + AQR +++ F + FL+
Sbjct: 574 RVLIFS---QMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLL 630
Query: 299 ATDVAARGLDIIGVQTVINYACPRDLTSYVHRVGRTARAGREGYAVTFVTDNDRSLLKAI 358
+T G++++ TV+ + + + + + R R G++ + + + + ++ + +
Sbjct: 631 STRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEV 690
Query: 359 AKRAGSKLKSRIVAEQSI--------TKWSKIIEQMEDQVAAILQXXXXXXIL---RKAE 407
+RA + +++ E +I K++K E +++AIL+ + +
Sbjct: 691 LERA----RKKMILEYAIISLGVTDGNKYTKKNEPNAGELSAILKFGAGNMFTATDNQKK 746
Query: 408 MEATKAENMIAHKEEIFARP 427
+E ++++ H E+ P
Sbjct: 747 LEDLNLDDVLNHAEDHVTTP 766
>pdb|3U44|A Chain A, Crystal Structure Of Addab-Dna Complex
pdb|3U4Q|A Chain A, Structure Of Addab-Dna Complex At 2.8 Angstroms
Length = 1232
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 28/56 (50%)
Query: 34 TGRDICGSAITGSGKTAAFALPTLERLLYRPKRIPAIRVLILTPTRELAVQVHSMI 89
TG+DI +A GSGKTA + ++ I R+L++T T A ++ I
Sbjct: 22 TGQDILVAAAAGSGKTAVLVERMIRKITAEENPIDVDRLLVVTFTNASAAEMKHRI 77
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 29.3 bits (64), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 41/92 (44%), Gaps = 3/92 (3%)
Query: 253 KQAAHRLKILFGLAALKAAELHGNLTQAQRLEALELFRKQHVDFLIATDVAARGLDIIGV 312
++AA RL L A + HG + + + + F Q + L+ T + G+DI
Sbjct: 826 QKAAERLAELVPEARIAIG--HGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTA 883
Query: 313 QTVINYACPRDLTSYVHRV-GRTARAGREGYA 343
T+I + +H++ GR R+ + YA
Sbjct: 884 NTIIIERADHFGLAQLHQLRGRVGRSHHQAYA 915
>pdb|1TAQ|A Chain A, Structure Of Taq Dna Polymerase
Length = 832
Score = 28.9 bits (63), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 17/81 (20%)
Query: 57 LERLLYRPKRIPAIRVLILTPTRELAVQV-------HSMIEKIAQFTDIRCCLVVGGLST 109
LER+L+ +PAI T R + V H ++EKI Q+ ++ T
Sbjct: 490 LERVLFDELGLPAIGKTEKTGKRSTSAAVLEALREAHPIVEKILQYREL----------T 539
Query: 110 KMQETALRSMPDIVVATPGRM 130
K++ T + +PD++ GR+
Sbjct: 540 KLKSTYIDPLPDLIHPRTGRL 560
>pdb|1BGX|T Chain T, Taq Polymerase In Complex With Tp7, An Inhibitory Fab
pdb|1TAU|A Chain A, Taq Polymerase (E.C.2.7.7.7)DNAB-Octylglucoside Complex
Length = 832
Score = 28.9 bits (63), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 17/81 (20%)
Query: 57 LERLLYRPKRIPAIRVLILTPTRELAVQV-------HSMIEKIAQFTDIRCCLVVGGLST 109
LER+L+ +PAI T R + V H ++EKI Q+ ++ T
Sbjct: 490 LERVLFDELGLPAIGKTEKTGKRSTSAAVLEALREAHPIVEKILQYREL----------T 539
Query: 110 KMQETALRSMPDIVVATPGRM 130
K++ T + +PD++ GR+
Sbjct: 540 KLKSTYIDPLPDLIHPRTGRL 560
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
0.318 0.131 0.360
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,099,147
Number of Sequences: 62578
Number of extensions: 423562
Number of successful extensions: 1303
Number of sequences better than 100.0: 101
Number of HSP's better than 100.0 without gapping: 83
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 1049
Number of HSP's gapped (non-prelim): 110
length of query: 602
length of database: 14,973,337
effective HSP length: 104
effective length of query: 498
effective length of database: 8,465,225
effective search space: 4215682050
effective search space used: 4215682050
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)