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= psy10680
(537 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 208 bits (529), Expect = 7e-54, Method: Compositional matrix adjust.
Identities = 105/192 (54%), Positives = 123/192 (64%), Gaps = 35/192 (18%)
Query: 43 YGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSW 102
+ +PT+IQAQ WP+ LSG D++G+AQTGSGKTLS
Sbjct: 63 FTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLS-------------------------- 96
Query: 103 WNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIRH 162
Y+LPA+ HI P LE GDGPI LVLAPTRELAQQ+Q V + + R R++
Sbjct: 97 ---------YLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKS 147
Query: 163 ACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGF 222
C+YGG K Q RDL RG EI +ATPGRLIDFLE G TN+ R TYLVLDEADRMLDMGF
Sbjct: 148 TCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGF 207
Query: 223 EPQIRKIIQMTR 234
EPQIRKI+ R
Sbjct: 208 EPQIRKIVDQIR 219
Score = 98.2 bits (243), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 46/59 (77%), Positives = 49/59 (83%)
Query: 236 RDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTR 294
RDL RG EI +ATPGRLIDFLE G TN+ R TYLVLDEADRMLDMGFEPQIRKI+ R
Sbjct: 161 RDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIR 219
Score = 69.7 bits (169), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 31/43 (72%), Positives = 35/43 (81%)
Query: 313 ILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTR 355
++ FLE G TN+ R TYLVLDEADRMLDMGFEPQIRKI+ R
Sbjct: 177 LIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIR 219
>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 = 207 bits (528), Expect = 8e-54, Method: Compositional matrix adjust.
Identities = 105/192 (54%), Positives = 123/192 (64%), Gaps = 35/192 (18%)
Query: 43 YGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSW 102
+ +PT+IQAQ WP+ LSG D++G+AQTGSGKTLS
Sbjct: 49 FTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLS-------------------------- 82
Query: 103 WNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIRH 162
Y+LPA+ HI P LE GDGPI LVLAPTRELAQQ+Q V + + R R++
Sbjct: 83 ---------YLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKS 133
Query: 163 ACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGF 222
C+YGG K Q RDL RG EI +ATPGRLIDFLE G TN+ R TYLVLDEADRMLDMGF
Sbjct: 134 TCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGF 193
Query: 223 EPQIRKIIQMTR 234
EPQIRKI+ R
Sbjct: 194 EPQIRKIVDQIR 205
Score = 98.2 bits (243), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 46/59 (77%), Positives = 49/59 (83%)
Query: 236 RDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTR 294
RDL RG EI +ATPGRLIDFLE G TN+ R TYLVLDEADRMLDMGFEPQIRKI+ R
Sbjct: 147 RDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIR 205
Score = 69.7 bits (169), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 31/43 (72%), Positives = 35/43 (81%)
Query: 313 ILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTR 355
++ FLE G TN+ R TYLVLDEADRMLDMGFEPQIRKI+ R
Sbjct: 163 LIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIR 205
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 165 bits (417), Expect = 8e-41, Method: Compositional matrix adjust.
Identities = 101/277 (36%), Positives = 147/277 (53%), Gaps = 28/277 (10%)
Query: 236 RDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRH 295
RDL RG ++VATPGRL+D +E G ++ YLVLDEADRMLDMGFEPQIR+I++
Sbjct: 146 RDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQD-- 203
Query: 296 AHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVLDEADRMLDMGF-------EPQIR 348
+P + H + T I L D D + + E +
Sbjct: 204 ---TMPPK--------GVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQ 252
Query: 349 KIIQMTRFNTCVFLGYVLYFWFILVAGIER--WVFMEINHNGTETKHYGVSSSLYRAMGI 406
K++ + + FL + G + VF+E G ++ + Y I
Sbjct: 253 KVVWVEESDKRSFL-----LDLLNATGKDSLTLVFVETK-KGADSLEDFLYHEGYACTSI 306
Query: 407 HGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGR 466
HGD+SQ +R++ L FRSG +L+A+ VA+RGLD+ ++K+V+N+D P + E YVHRIGR
Sbjct: 307 HGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGR 366
Query: 467 TARSTKTGISYTLFTPLNGNKAQDLIDILNEAHQFVP 503
T R G++ + F N N +DL+D+L EA Q VP
Sbjct: 367 TGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVP 403
Score = 136 bits (342), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 78/189 (41%), Positives = 102/189 (53%), Gaps = 22/189 (11%)
Query: 43 YGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSW 102
Y +PT +Q + PI RDL+ AQTGSGKT + + G + + +E+
Sbjct: 35 YTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGR 94
Query: 103 WNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIRH 162
+ +Y PI+LVLAPTRELA QI FS R+R
Sbjct: 95 YGRRK---QY-------------------PISLVLAPTRELAVQIYEEARKFSYRSRVRP 132
Query: 163 ACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGF 222
+YGG Q RDL RG ++VATPGRL+D +E G ++ YLVLDEADRMLDMGF
Sbjct: 133 CVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGF 192
Query: 223 EPQIRKIIQ 231
EPQIR+I++
Sbjct: 193 EPQIRRIVE 201
>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 = 142 bits (357), Expect = 6e-34, Method: Compositional matrix adjust.
Identities = 80/190 (42%), Positives = 108/190 (56%), Gaps = 37/190 (19%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G KPT IQ+Q+WPI L G DLI +AQTG+GKTLS
Sbjct: 39 GILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLS------------------------- 73
Query: 102 WWNNNVVDVKYILPALYHILKMP-KLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRI 160
Y++P H+ P E+ +GP LVL PTRELA ++A S +S +
Sbjct: 74 ----------YLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSYK-GL 122
Query: 161 RHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
+ C+YGG ++ Q D+ +G +I++ATPGRL D + + N+ ITYLV+DEAD+MLDM
Sbjct: 123 KSICIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDM 182
Query: 221 GFEPQIRKII 230
FEPQIRKI+
Sbjct: 183 EFEPQIRKIL 192
Score = 73.2 bits (178), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 32/54 (59%), Positives = 43/54 (79%)
Query: 237 DLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKII 290
D+ +G +I++ATPGRL D + + N+ ITYLV+DEAD+MLDM FEPQIRKI+
Sbjct: 139 DISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKIL 192
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/33 (66%), Positives = 28/33 (84%)
Query: 319 SGTTNVNRITYLVLDEADRMLDMGFEPQIRKII 351
+ + N+ ITYLV+DEAD+MLDM FEPQIRKI+
Sbjct: 160 NNSVNLRSITYLVIDEADKMLDMEFEPQIRKIL 192
>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 = 140 bits (354), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 94/284 (33%), Positives = 139/284 (48%), Gaps = 43/284 (15%)
Query: 238 LCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKI---IQMTR 294
+ RG +V+ATPGRL+DF++ ++VLDEADRMLDMGF +R+I + M
Sbjct: 176 ITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRP 235
Query: 295 HAHPVVPVSLFISERRDTILHFLES-----------GTTNVNRITYLVLDEADRMLDMGF 343
++ + F E + FL++ ++V + Y V A R
Sbjct: 236 EHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRS----- 290
Query: 344 EPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTETKHYGVSSSLYRA 403
++ +I+ T VF+ G + +S +
Sbjct: 291 --KLIEILSEQADGTIVFVE---------------------TKRGADFLASFLSEKEFPT 327
Query: 404 MGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHR 463
IHGD+ Q R+Q LRDF++G + VLIA+ VASRGLD+++IK+V+NYD P ++YVHR
Sbjct: 328 TSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHR 387
Query: 464 IGRTARSTKTGISYTLFTPLNGNK-AQDLIDILNEAHQFVPDRL 506
IGRT R G + + F P A DL+ IL + Q VPD L
Sbjct: 388 IGRTGRVGNNGRATSFFDPEKDRAIAADLVKILEGSGQTVPDFL 431
Score = 117 bits (292), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 71/197 (36%), Positives = 98/197 (49%), Gaps = 35/197 (17%)
Query: 40 NSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEE 99
SGY PT IQ S P+ SGRDL+ AQTGSGKT +
Sbjct: 73 KSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAA----------------------- 109
Query: 100 SSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMR 159
++LP L +L+ P E P ++++PTRELA QI F+
Sbjct: 110 ------------FLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESY 157
Query: 160 IRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLD 219
++ +YGGTS +Q + RG +V+ATPGRL+DF++ ++VLDEADRMLD
Sbjct: 158 LKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLD 217
Query: 220 MGFEPQIRKIIQMTRTR 236
MGF +R+I+ R
Sbjct: 218 MGFSEDMRRIMTHVTMR 234
>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 = 130 bits (326), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 113/448 (25%), Positives = 180/448 (40%), Gaps = 131/448 (29%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGR-DLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSK 97
+N G+ KPT IQ + P+ L+ +++ A+TGSGKT S I ++
Sbjct: 22 RNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIEL------------- 68
Query: 98 EESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRT 157
+ E +G A++L PTRELA Q+ I
Sbjct: 69 ----------------------------VNENNGIEAIILTPTRELAIQVADEIESLKGN 100
Query: 158 MRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRM 217
++ A +Y G +Y
Sbjct: 101 KNLKIAKIY-GGKAIY-------------------------------------------- 115
Query: 218 LDMGFEPQIRKIIQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRM 277
PQI+ + + A IVV TPGR++D + GT N+ + Y +LDEAD
Sbjct: 116 ------PQIKAL----------KNANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEX 159
Query: 278 LDMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVLDEADR 337
L+ GF + KI+ ++ LF + IL+ + + + I
Sbjct: 160 LNXGFIKDVEKILNACNKDKRIL---LFSATXPREILNLAKKYXGDYSFIKA-------- 208
Query: 338 MLDMGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTETKHYGVS 397
++ E ++ + RF L F+ ++ +R +TK ++
Sbjct: 209 KINANIEQSYVEVNENERFEALCRLLKNKEFYGLVFCKTKR-----------DTKE--LA 255
Query: 398 SSL----YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDF 453
S L ++A IHGD SQ R++ +R F+ I +LIA+DV SRG+DV D+ V+NY
Sbjct: 256 SXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHL 315
Query: 454 PDNTENYVHRIGRTARSTKTGISYTLFT 481
P N E+Y HRIGRT R+ K G + ++
Sbjct: 316 PQNPESYXHRIGRTGRAGKKGKAISIIN 343
>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 = 128 bits (321), Expect = 9e-30, Method: Compositional matrix adjust.
Identities = 73/195 (37%), Positives = 100/195 (51%), Gaps = 39/195 (20%)
Query: 41 SGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEES 100
+ Y +PT IQ + P L RD++ AQTGSGKT +
Sbjct: 41 ASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAA------------------------ 76
Query: 101 SWWNNNVVDVKYILPALYHI----LKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSR 156
+++P + H+ L + + P L+LAPTRELA QI + FS
Sbjct: 77 -----------FLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSL 125
Query: 157 TMRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADR 216
+R +YGG Q R++ G ++VATPGRL+DF+E ++ Y+VLDEADR
Sbjct: 126 NTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADR 185
Query: 217 MLDMGFEPQIRKIIQ 231
MLDMGFEPQIRKII+
Sbjct: 186 MLDMGFEPQIRKIIE 200
Score = 78.6 bits (192), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 34/59 (57%), Positives = 46/59 (77%)
Query: 233 TRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQ 291
++ R++ G ++VATPGRL+DF+E ++ Y+VLDEADRMLDMGFEPQIRKII+
Sbjct: 142 SQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIE 200
Score = 56.2 bits (134), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 24/40 (60%), Positives = 31/40 (77%)
Query: 313 ILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQ 352
++ F+E ++ Y+VLDEADRMLDMGFEPQIRKII+
Sbjct: 161 LVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIE 200
>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 = 118 bits (295), Expect = 9e-27, Method: Compositional matrix adjust.
Identities = 70/192 (36%), Positives = 98/192 (51%), Gaps = 39/192 (20%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G PT IQA + P+ L G+DLIG A+TG+GKTL+
Sbjct: 20 GLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLA------------------------- 54
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
+ LP + P E G P ALVL PTRELA Q+ + ++ + +++
Sbjct: 55 ----------FALPIAERL--APSQERGRKPRALVLTPTRELALQVASELTAVAPHLKV- 101
Query: 162 HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMG 221
+YGGT Q L RGA+ VVATPGR +D+L G +++R+ VLDEAD ML MG
Sbjct: 102 -VAVYGGTGYGKQKEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMG 160
Query: 222 FEPQIRKIIQMT 233
FE ++ ++ T
Sbjct: 161 FEEEVEALLSAT 172
Score = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 39/56 (69%)
Query: 238 LCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMT 293
L RGA+ VVATPGR +D+L G +++R+ VLDEAD ML MGFE ++ ++ T
Sbjct: 117 LLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSAT 172
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 26/41 (63%)
Query: 314 LHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMT 354
L +L G +++R+ VLDEAD ML MGFE ++ ++ T
Sbjct: 132 LDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSAT 172
>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 = 117 bits (292), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 69/192 (35%), Positives = 98/192 (51%), Gaps = 39/192 (20%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G PT I+A + P+ L G+DLIG A+TG+GKTL+
Sbjct: 20 GLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLA------------------------- 54
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
+ LP + P E G P ALVL PTRELA Q+ + ++ + +++
Sbjct: 55 ----------FALPIAERL--APSQERGRKPRALVLTPTRELALQVASELTAVAPHLKV- 101
Query: 162 HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMG 221
+YGGT Q L RGA+ VVATPGR +D+L G +++R+ VLDEAD ML MG
Sbjct: 102 -VAVYGGTGYGKQKEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMG 160
Query: 222 FEPQIRKIIQMT 233
FE ++ ++ T
Sbjct: 161 FEEEVEALLSAT 172
Score = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 39/56 (69%)
Query: 238 LCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMT 293
L RGA+ VVATPGR +D+L G +++R+ VLDEAD ML MGFE ++ ++ T
Sbjct: 117 LLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSAT 172
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 26/41 (63%)
Query: 314 LHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMT 354
L +L G +++R+ VLDEAD ML MGFE ++ ++ T
Sbjct: 132 LDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSAT 172
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 69/192 (35%), Positives = 101/192 (52%), Gaps = 41/192 (21%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KPT IQ ++ P+ L GRD+IG+A+TGSGKT +
Sbjct: 62 GWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGA------------------------- 96
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
+ LP L +L+ P+ ALVL PTRELA QI ++ ++
Sbjct: 97 ----------FALPILNALLETPQ-----RLFALVLTPTRELAFQISEQFEALGSSIGVQ 141
Query: 162 HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTT-NVNRITYLVLDEADRMLDM 220
A + GG M Q+ L + I++ATPGRLID LE+ N+ + YLV+DEADR+L+M
Sbjct: 142 SAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNM 201
Query: 221 GFEPQIRKIIQM 232
FE ++ KI+++
Sbjct: 202 DFETEVDKILKV 213
Score = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 29/65 (44%), Positives = 46/65 (70%), Gaps = 1/65 (1%)
Query: 229 IIQMTRTRDLCRGAEIVVATPGRLIDFLESGTT-NVNRITYLVLDEADRMLDMGFEPQIR 287
I M+++ L + I++ATPGRLID LE+ N+ + YLV+DEADR+L+M FE ++
Sbjct: 149 IDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVD 208
Query: 288 KIIQM 292
KI+++
Sbjct: 209 KILKV 213
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 31/50 (62%)
Query: 313 ILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRFNTCVFL 362
I H + N+ + YLV+DEADR+L+M FE ++ KI+++ + FL
Sbjct: 173 IDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFL 222
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 128/465 (27%), Positives = 187/465 (40%), Gaps = 119/465 (25%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KP++IQ ++ C+ G D+I AQ+G+GKT + I
Sbjct: 59 GFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAIS--------------------- 97
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
IL + LK + ALVLAPTRELAQQIQ V+ M
Sbjct: 98 -----------ILQQIELDLKATQ--------ALVLAPTRELAQQIQKVVMALGDYMGAS 138
Query: 162 -HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
HAC+ G TNV
Sbjct: 139 CHACI---------------------------------GGTNVR---------------- 149
Query: 221 GFEPQIRKIIQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 280
+++K+ QM I+V TPGR+ D L + I VLDEAD ML
Sbjct: 150 ---AEVQKL-QM-------EAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSR 198
Query: 281 GFEPQIRKIIQMTRHAHPVVPVSLFI-SERRDTILHFLESGTTNVNRITYLVLDEADRML 339
GF+ QI I Q VV +S + S+ + F+ + + L L E R
Sbjct: 199 GFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTL-EGIRQF 257
Query: 340 DMGFEPQIRKIIQMTR-FNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTETKHYGVSS 398
+ E + K+ + + T V+ FI W+ TE H +
Sbjct: 258 YINVEREEWKLDTLCDLYETLTITQAVI---FINTRRKVDWL--------TEKMH----A 302
Query: 399 SLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTE 458
+ +HGD Q RD +R+FRSG VLI +D+ +RG+DV+ + V+NYD P N E
Sbjct: 303 RDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRE 362
Query: 459 NYVHRIGRTARSTKTGISYTLFTPLNGNKAQDLIDILNEAHQFVP 503
NY+HRIGR R + G++ + T + +D+ N + + +P
Sbjct: 363 NYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEMP 407
>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 = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 128/465 (27%), Positives = 187/465 (40%), Gaps = 119/465 (25%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KP++IQ ++ C+ G D+I AQ+G+GKT + I
Sbjct: 33 GFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAIS--------------------- 71
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
IL + LK + ALVLAPTRELAQQIQ V+ M
Sbjct: 72 -----------ILQQIELDLKATQ--------ALVLAPTRELAQQIQKVVMALGDYMGAS 112
Query: 162 -HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
HAC+ G TNV
Sbjct: 113 CHACI---------------------------------GGTNVR---------------- 123
Query: 221 GFEPQIRKIIQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 280
+++K+ QM I+V TPGR+ D L + I VLDEAD ML
Sbjct: 124 ---AEVQKL-QM-------EAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSR 172
Query: 281 GFEPQIRKIIQMTRHAHPVVPVSLFI-SERRDTILHFLESGTTNVNRITYLVLDEADRML 339
GF+ QI I Q VV +S + S+ + F+ + + L L E R
Sbjct: 173 GFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTL-EGIRQF 231
Query: 340 DMGFEPQIRKIIQMTR-FNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTETKHYGVSS 398
+ E + K+ + + T V+ FI W+ TE H +
Sbjct: 232 YINVEREEWKLDTLCDLYETLTITQAVI---FINTRRKVDWL--------TEKMH----A 276
Query: 399 SLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTE 458
+ +HGD Q RD +R+FRSG VLI +D+ +RG+DV+ + V+NYD P N E
Sbjct: 277 RDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRE 336
Query: 459 NYVHRIGRTARSTKTGISYTLFTPLNGNKAQDLIDILNEAHQFVP 503
NY+HRIGR R + G++ + T + +D+ N + + +P
Sbjct: 337 NYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEMP 381
>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 = 107 bits (268), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 51/110 (46%), Positives = 73/110 (66%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
Y IHGD+SQ +R++ L FRSG +L+A+ VA+RGLD+ ++K+V+N+D P + E Y
Sbjct: 71 YACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEY 130
Query: 461 VHRIGRTARSTKTGISYTLFTPLNGNKAQDLIDILNEAHQFVPDRLLLLA 510
VHRIGRT R G++ + F N N +DL+D+L EA Q VP L +A
Sbjct: 131 VHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENMA 180
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 105 bits (262), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 108/448 (24%), Positives = 172/448 (38%), Gaps = 149/448 (33%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ T +Q+++ P+ L G++++ A+TGSGKT +
Sbjct: 13 GFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAA------------------------- 47
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
Y +P L +K +LV+ PTREL +Q+ + I R M +
Sbjct: 48 ----------YAIPILELGMK-----------SLVVTPTRELTRQVASHIRDIGRYMDTK 86
Query: 162 HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMG 221
A +YGG M
Sbjct: 87 VAEVYGG---------------------------------------------------MP 95
Query: 222 FEPQIRKIIQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMG 281
++ QI ++ R A+IVVATPGRL+D G +++ +++DEAD M +MG
Sbjct: 96 YKAQINRV----------RNADIVVATPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMG 145
Query: 282 FEPQIRKIIQMTRHAHPVVPVSLFISER-----RDTILHFLE----SGTTNVNRITYLVL 332
F I+ I+ T + S I E +D I ++ E G NV V
Sbjct: 146 FIDDIKIILAQTSNRKITGLFSATIPEEIRKVVKDFITNYEEIEACIGLANVEHKFVHVK 205
Query: 333 DEADRMLDMGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTETK 392
D+ R +Q R N G +++ T +
Sbjct: 206 DDW------------RSKVQALRENKD--KGVIVFVR-------------------TRNR 232
Query: 393 HYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYD 452
+ A+ + GD Q R++ + FR G ++LI +DVASRGLD+ ++ V+N+D
Sbjct: 233 VAKLVRLFDNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFD 292
Query: 453 FPDNTENYVHRIGRTARSTKTGISYTLF 480
P + Y+HRIGRT R + G + T
Sbjct: 293 APQDLRTYIHRIGRTGRMGRKGEAITFI 320
>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 = 105 bits (262), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 83/271 (30%), Positives = 129/271 (47%), Gaps = 31/271 (11%)
Query: 236 RDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRH 295
R L G +V TPGR+ D + + I LVLDEAD ML+ GF+ QI + R+
Sbjct: 151 RKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVY---RY 207
Query: 296 AHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMT- 354
P V L + IL T+ RI L + D + G + + +
Sbjct: 208 LPPATQVVLISATLPHEILEMTNKFMTDPIRI----LVKRDELTLEGIKQFFVAVEREEW 263
Query: 355 RFNT-CVFLGYVLYFWFILVAGIER---WVFMEINHNGTETKHYGVSSSLYRAMGIHGDK 410
+F+T C + ++ +R W+ ++ ++ VSS +HGD
Sbjct: 264 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRE-----ANFTVSS-------MHGDM 311
Query: 411 SQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARS 470
Q R+ +++FRSG VLI++DV +RGLDV + ++NYD P+N E Y+HRIGR+ R
Sbjct: 312 PQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRY 371
Query: 471 TKTGISYTLFTPLNGNKAQDLIDILNEAHQF 501
+ G++ +N K D I IL + Q+
Sbjct: 372 GRKGVA------INFVKNDD-IRILRDIEQY 395
Score = 85.5 bits (210), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 60/186 (32%), Positives = 86/186 (46%), Gaps = 42/186 (22%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KP++IQ ++ + GRD+I +Q+G+GKT + +I Q C + +
Sbjct: 57 GFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ------CLDIQVRETQ-- 108
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
AL+LAPTRELA QIQ + M ++
Sbjct: 109 --------------------------------ALILAPTRELAVQIQKGLLALGDYMNVQ 136
Query: 162 -HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
HAC+ GGT+ R L G +V TPGR+ D + + I LVLDEAD ML+
Sbjct: 137 CHACI-GGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK 195
Query: 221 GFEPQI 226
GF+ QI
Sbjct: 196 GFKEQI 201
>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 = 105 bits (262), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 83/271 (30%), Positives = 129/271 (47%), Gaps = 31/271 (11%)
Query: 236 RDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRH 295
R L G +V TPGR+ D + + I LVLDEAD ML+ GF+ QI + R+
Sbjct: 150 RKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVY---RY 206
Query: 296 AHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMT- 354
P V L + IL T+ RI L + D + G + + +
Sbjct: 207 LPPATQVVLISATLPHEILEMTNKFMTDPIRI----LVKRDELTLEGIKQFFVAVEREEW 262
Query: 355 RFNT-CVFLGYVLYFWFILVAGIER---WVFMEINHNGTETKHYGVSSSLYRAMGIHGDK 410
+F+T C + ++ +R W+ ++ ++ VSS +HGD
Sbjct: 263 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRE-----ANFTVSS-------MHGDM 310
Query: 411 SQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARS 470
Q R+ +++FRSG VLI++DV +RGLDV + ++NYD P+N E Y+HRIGR+ R
Sbjct: 311 PQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRY 370
Query: 471 TKTGISYTLFTPLNGNKAQDLIDILNEAHQF 501
+ G++ +N K D I IL + Q+
Sbjct: 371 GRKGVA------INFVKNDD-IRILRDIEQY 394
Score = 85.5 bits (210), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 60/186 (32%), Positives = 86/186 (46%), Gaps = 42/186 (22%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KP++IQ ++ + GRD+I +Q+G+GKT + +I Q C + +
Sbjct: 56 GFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ------CLDIQVRETQ-- 107
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
AL+LAPTRELA QIQ + M ++
Sbjct: 108 --------------------------------ALILAPTRELAVQIQKGLLALGDYMNVQ 135
Query: 162 -HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
HAC+ GGT+ R L G +V TPGR+ D + + I LVLDEAD ML+
Sbjct: 136 CHACI-GGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK 194
Query: 221 GFEPQI 226
GF+ QI
Sbjct: 195 GFKEQI 200
>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 = 105 bits (262), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 83/271 (30%), Positives = 129/271 (47%), Gaps = 31/271 (11%)
Query: 236 RDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRH 295
R L G +V TPGR+ D + + I LVLDEAD ML+ GF+ QI + R+
Sbjct: 151 RKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVY---RY 207
Query: 296 AHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMT- 354
P V L + IL T+ RI L + D + G + + +
Sbjct: 208 LPPATQVVLISATLPHEILEMTNKFMTDPIRI----LVKRDELTLEGIKQFFVAVEREEW 263
Query: 355 RFNT-CVFLGYVLYFWFILVAGIER---WVFMEINHNGTETKHYGVSSSLYRAMGIHGDK 410
+F+T C + ++ +R W+ ++ ++ VSS +HGD
Sbjct: 264 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRE-----ANFTVSS-------MHGDM 311
Query: 411 SQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARS 470
Q R+ +++FRSG VLI++DV +RGLDV + ++NYD P+N E Y+HRIGR+ R
Sbjct: 312 PQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRY 371
Query: 471 TKTGISYTLFTPLNGNKAQDLIDILNEAHQF 501
+ G++ +N K D I IL + Q+
Sbjct: 372 GRKGVA------INFVKNDD-IRILRDIEQY 395
Score = 85.5 bits (210), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 60/186 (32%), Positives = 86/186 (46%), Gaps = 42/186 (22%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KP++IQ ++ + GRD+I +Q+G+GKT + +I Q C + +
Sbjct: 57 GFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ------CLDIQVRETQ-- 108
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
AL+LAPTRELA QIQ + M ++
Sbjct: 109 --------------------------------ALILAPTRELAVQIQKGLLALGDYMNVQ 136
Query: 162 -HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
HAC+ GGT+ R L G +V TPGR+ D + + I LVLDEAD ML+
Sbjct: 137 CHACI-GGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK 195
Query: 221 GFEPQI 226
GF+ QI
Sbjct: 196 GFKEQI 201
>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 = 105 bits (261), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 83/271 (30%), Positives = 129/271 (47%), Gaps = 31/271 (11%)
Query: 236 RDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRH 295
R L G +V TPGR+ D + + I LVLDEAD ML+ GF+ QI + R+
Sbjct: 129 RKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVY---RY 185
Query: 296 AHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMT- 354
P V L + IL T+ RI L + D + G + + +
Sbjct: 186 LPPATQVVLISATLPHEILEMTNKFMTDPIRI----LVKRDELTLEGIKQFFVAVEREEW 241
Query: 355 RFNT-CVFLGYVLYFWFILVAGIER---WVFMEINHNGTETKHYGVSSSLYRAMGIHGDK 410
+F+T C + ++ +R W+ ++ ++ VSS +HGD
Sbjct: 242 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRE-----ANFTVSS-------MHGDM 289
Query: 411 SQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARS 470
Q R+ +++FRSG VLI++DV +RGLDV + ++NYD P+N E Y+HRIGR+ R
Sbjct: 290 PQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRY 349
Query: 471 TKTGISYTLFTPLNGNKAQDLIDILNEAHQF 501
+ G++ +N K D I IL + Q+
Sbjct: 350 GRKGVA------INFVKNDD-IRILRDIEQY 373
Score = 85.5 bits (210), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 60/186 (32%), Positives = 86/186 (46%), Gaps = 42/186 (22%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KP++IQ ++ + GRD+I +Q+G+GKT + +I Q C + +
Sbjct: 35 GFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ------CLDIQVRETQ-- 86
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
AL+LAPTRELA QIQ + M ++
Sbjct: 87 --------------------------------ALILAPTRELAVQIQKGLLALGDYMNVQ 114
Query: 162 -HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
HAC+ GGT+ R L G +V TPGR+ D + + I LVLDEAD ML+
Sbjct: 115 CHACI-GGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK 173
Query: 221 GFEPQI 226
GF+ QI
Sbjct: 174 GFKEQI 179
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 104 bits (260), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 76/246 (30%), Positives = 119/246 (48%), Gaps = 24/246 (9%)
Query: 236 RDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRH 295
R L G +V TPGR+ D + + I LVLDEAD ML+ GF+ QI + R+
Sbjct: 114 RKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVY---RY 170
Query: 296 AHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMT- 354
P V L + IL T+ RI L + D + G + + +
Sbjct: 171 LPPATQVVLISATLPHEILEMTNKFMTDPIRI----LVKRDELTLEGIKQFFVAVEREEW 226
Query: 355 RFNT-CVFLGYVLYFWFILVAGIER---WVFMEINHNGTETKHYGVSSSLYRAMGIHGDK 410
+F+T C + ++ +R W+ ++ ++ VSS +HGD
Sbjct: 227 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRE-----ANFTVSS-------MHGDM 274
Query: 411 SQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARS 470
Q R+ +++FRSG VLI++DV +RGLDV + ++NYD P+N E Y+HRIGR+ R
Sbjct: 275 PQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRY 334
Query: 471 TKTGIS 476
+ G++
Sbjct: 335 GRKGVA 340
Score = 84.7 bits (208), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 58/186 (31%), Positives = 86/186 (46%), Gaps = 42/186 (22%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KP++IQ ++ + GRD+I +Q+G+GKT + ++ Q C + +
Sbjct: 20 GFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ------CLDIQVRETQ-- 71
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
AL+LAPTRELA Q+Q + M ++
Sbjct: 72 --------------------------------ALILAPTRELAVQVQKGLLALGDYMNVQ 99
Query: 162 -HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
HAC+ GGT+ R L G +V TPGR+ D + + I LVLDEAD ML+
Sbjct: 100 CHACI-GGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK 158
Query: 221 GFEPQI 226
GF+ QI
Sbjct: 159 GFKEQI 164
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 104 bits (259), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 75/246 (30%), Positives = 119/246 (48%), Gaps = 24/246 (9%)
Query: 236 RDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRH 295
R L G +V TPGR+ D + + I LVLDEAD ML+ GF+ QI + R+
Sbjct: 114 RKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVY---RY 170
Query: 296 AHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMT- 354
P V L + +L T+ RI L + D + G + + +
Sbjct: 171 LPPATQVVLISATLPHEVLEMTNKFMTDPIRI----LVKRDELTLEGIKQFFVAVEREEW 226
Query: 355 RFNT-CVFLGYVLYFWFILVAGIER---WVFMEINHNGTETKHYGVSSSLYRAMGIHGDK 410
+F+T C + ++ +R W+ ++ ++ VSS +HGD
Sbjct: 227 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRE-----ANFTVSS-------MHGDM 274
Query: 411 SQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARS 470
Q R+ +++FRSG VLI++DV +RGLDV + ++NYD P+N E Y+HRIGR+ R
Sbjct: 275 PQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRY 334
Query: 471 TKTGIS 476
+ G++
Sbjct: 335 GRKGVA 340
Score = 84.7 bits (208), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 58/186 (31%), Positives = 86/186 (46%), Gaps = 42/186 (22%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KP++IQ ++ + GRD+I +Q+G+GKT + ++ Q C + +
Sbjct: 20 GFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ------CLDIQVRETQ-- 71
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
AL+LAPTRELA Q+Q + M ++
Sbjct: 72 --------------------------------ALILAPTRELAVQVQKGLLALGDYMNVQ 99
Query: 162 -HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
HAC+ GGT+ R L G +V TPGR+ D + + I LVLDEAD ML+
Sbjct: 100 SHACI-GGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNK 158
Query: 221 GFEPQI 226
GF+ QI
Sbjct: 159 GFKEQI 164
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 101 bits (252), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 117/445 (26%), Positives = 181/445 (40%), Gaps = 113/445 (25%)
Query: 47 TSIQAQSWPICLSGRD--LIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWN 104
T +Q ++ LS D +I A+TG+GKT +
Sbjct: 45 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFA---------------------------- 76
Query: 105 NNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQA-VISIFSRTMRIR-H 162
+++P H++ K + A+++APTR+LA QI+A V I ++ +
Sbjct: 77 -------FLIPIFQHLINT-KFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKY 128
Query: 163 AC--LYGGT------SKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNR-ITYLVLDE 213
AC L GGT +KM + R IV+ATPGRLID LE + R + Y VLDE
Sbjct: 129 ACVSLVGGTDFRAAMNKMNKLR-----PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDE 183
Query: 214 ADRMLDMGFEPQIRKIIQMTRTRDLCRGAEI-VVATPGRLIDFLESGTTNV-NRITYLVL 271
ADR+L++GF + I + ++ I + L D ++ N+ N+ L L
Sbjct: 184 ADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFL 243
Query: 272 DEADRMLDMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLESGTTNVNRITYLV 331
D D+ EP+ AH + S+ ISE+ F S V I +
Sbjct: 244 DTVDKN-----EPE----------AHERIDQSVVISEK------FANSIFAAVEHIKKQI 282
Query: 332 LDEADRMLDMGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTET 391
+ + F P + +F + FL +L F I
Sbjct: 283 KERDSNYKAIIFAPTV-------KFTS--FLCSILKNEFKKDLPI--------------- 318
Query: 392 KHYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNY 451
+ HG +Q R ++ F+ +L+ +DV +RG+D ++ V+
Sbjct: 319 ------------LEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQI 366
Query: 452 DFPDNTENYVHRIGRTARSTKTGIS 476
P NY+HRIGRTARS K G S
Sbjct: 367 GVPSELANYIHRIGRTARSGKEGSS 391
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 101 bits (252), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 100/439 (22%), Positives = 173/439 (39%), Gaps = 116/439 (26%)
Query: 41 SGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEES 100
+G+ KP+ IQ ++ P+ ++GRD++ A+ G+GKT +
Sbjct: 39 AGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAA------------------------ 74
Query: 101 SWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRI 160
+++P L + PKL + AL++ PTRELA Q V+ +
Sbjct: 75 -----------FVIPTLEKV--KPKLNKIQ---ALIMVPTRELALQTSQVVRTLGK---- 114
Query: 161 RHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
+ G S M T G TN+ R L L+E
Sbjct: 115 -----HCGISCMVTT-----------------------GGTNL-RDDILRLNET------ 139
Query: 221 GFEPQIRKIIQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 280
I+V TPGR++D +++ + ++DEAD+ML
Sbjct: 140 ---------------------VHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSR 178
Query: 281 GFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVLDEADRMLD 340
F+ I +I+ H + LF + T+ F+ ++++ + L E
Sbjct: 179 DFKTIIEQILSFLPPTHQSL---LFSATFPLTVKEFM---VKHLHKPYEINLME------ 226
Query: 341 MGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTETKHYGVSSSL 400
E ++ I Q F + L F + + +F + N E ++
Sbjct: 227 ---ELTLKGITQYYAFVEERQKLHCLNTLFSKLQINQAIIFCN-STNRVELLAKKITDLG 282
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
Y H Q R++ +FR G + L+ SD+ +RG+D++ + V+N+DFP E Y
Sbjct: 283 YSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETY 342
Query: 461 VHRIGRTARSTKTGISYTL 479
+HRIGR+ R G++ L
Sbjct: 343 LHRIGRSGRFGHLGLAINL 361
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 101 bits (251), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 119/449 (26%), Positives = 184/449 (40%), Gaps = 114/449 (25%)
Query: 47 TSIQAQSWPICLSGRD--LIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWN 104
T +Q ++ LS D +I A+TG+GKT +
Sbjct: 45 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFA---------------------------- 76
Query: 105 NNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQA-VISIFSRTMRIR-H 162
+++P H++ K + A+++APTR+LA QI+A V I ++ +
Sbjct: 77 -------FLIPIFQHLINT-KFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKY 128
Query: 163 AC--LYGGT------SKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNR-ITYLVLDE 213
AC L GGT +KM + R IV+ATPGRLID LE + R + Y VLDE
Sbjct: 129 ACVSLVGGTDFRAAMNKMNKLR-----PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDE 183
Query: 214 ADRMLDMGFEPQIRKIIQMTRTRDLCRGAEI-VVATPGRLIDFLESGTTNV-NRITYLVL 271
ADR+L++GF + I + ++ I + L D ++ N+ N+ L L
Sbjct: 184 ADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFL 243
Query: 272 DEADRMLDMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLESGTTNVNRITYLV 331
D D+ EP+ AH + S+ ISE+ F S V I +
Sbjct: 244 DTVDKN-----EPE----------AHERIDQSVVISEK------FANSIFAAVEHIKKQI 282
Query: 332 LDEADRMLDMGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTET 391
+ + F P + +F + FL +L F
Sbjct: 283 KERDSNYKAIIFAPTV-------KFTS--FLCSILKNEF--------------------K 313
Query: 392 KHYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNY 451
K + + HG +Q R ++ F+ +L+ +DV +RG+D ++ V+
Sbjct: 314 KDLPI-------LEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQI 366
Query: 452 DFPDNTENYVHRIGRTARSTKTGISYTLF 480
P NY+HRIGRTARS K G S LF
Sbjct: 367 GVPSELANYIHRIGRTARSGKEG-SSVLF 394
>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 = 100 bits (250), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 117/445 (26%), Positives = 181/445 (40%), Gaps = 113/445 (25%)
Query: 47 TSIQAQSWPICLSGRD--LIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWN 104
T +Q ++ LS D +I A+TG+GKT +
Sbjct: 96 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFA---------------------------- 127
Query: 105 NNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQA-VISIFSRTMRIR-H 162
+++P H++ K + A+++APTR+LA QI+A V I ++ +
Sbjct: 128 -------FLIPIFQHLINT-KFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKY 179
Query: 163 AC--LYGGT------SKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNR-ITYLVLDE 213
AC L GGT +KM + R IV+ATPGRLID LE + R + Y VLDE
Sbjct: 180 ACVSLVGGTDFRAAMNKMNKLR-----PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDE 234
Query: 214 ADRMLDMGFEPQIRKIIQMTRTRDLCRGAEI-VVATPGRLIDFLESGTTNV-NRITYLVL 271
ADR+L++GF + I + ++ I + L D ++ N+ N+ L L
Sbjct: 235 ADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFL 294
Query: 272 DEADRMLDMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLESGTTNVNRITYLV 331
D D+ EP+ AH + S+ ISE+ F S V I +
Sbjct: 295 DTVDKN-----EPE----------AHERIDQSVVISEK------FANSIFAAVEHIKKQI 333
Query: 332 LDEADRMLDMGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFMEINHNGTET 391
+ + F P + +F + FL +L F I
Sbjct: 334 KERDSNYKAIIFAPTV-------KFTS--FLCSILKNEFKKDLPI--------------- 369
Query: 392 KHYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNY 451
+ HG +Q R ++ F+ +L+ +DV +RG+D ++ V+
Sbjct: 370 ------------LEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQI 417
Query: 452 DFPDNTENYVHRIGRTARSTKTGIS 476
P NY+HRIGRTARS K G S
Sbjct: 418 GVPSELANYIHRIGRTARSGKEGSS 442
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 99.4 bits (246), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 107/477 (22%), Positives = 187/477 (39%), Gaps = 125/477 (26%)
Query: 17 PYFRSGYINVLIASDVASRGLGKNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLS 76
P SG+ + L+ ++ + + G+ P+ +Q + P + G D++ A++G GKT
Sbjct: 3 PGHMSGFRDFLLKPELLRAIV--DCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKT-- 58
Query: 77 LTIENTQVARGSQCGRSNTSKEESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIA-L 135
A++ + + +LE G ++ L
Sbjct: 59 ---------------------------------------AVFVLATLQQLEPVTGQVSVL 79
Query: 136 VLAPTRELAQQIQAVISIFSRTM-RIRHACLYGGTSKMYQTRDLCRGA-EIVVATPGRLI 193
V+ TRELA QI FS+ M ++ A +GG S L + IVV TPGR++
Sbjct: 80 VMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRIL 139
Query: 194 DFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRTRDLCRGAEIVVATPGRLI 253
+ + N+ I + +LDEAD+ML+ Q+ RD+ EI TP
Sbjct: 140 ALARNKSLNLKHIKHFILDEADKMLE-----------QLDMRRDV---QEIFRMTPHEKQ 185
Query: 254 DFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTI 313
+ S T L P RK +Q P+ +F+ +
Sbjct: 186 VMMFSAT-----------------LSKEIRPVCRKFMQ--------DPMEIFVDDETKLT 220
Query: 314 LHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILV 373
LH L+ + +E +R L F+ ++ + FN V I V
Sbjct: 221 LHGLQQYYVKLKD------NEKNRKL---FD-----LLDVLEFNQVV----------IFV 256
Query: 374 AGIERWVFME---INHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVL 430
++R + + + N + A+ IH Q R + F+ +L
Sbjct: 257 KSVQRCIALAQLLVEQN-------------FPAIAIHRGMPQEERLSRYQQFKDFQRRIL 303
Query: 431 IASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARSTKTGISYTLFTPLNGNK 487
+A+++ RG+D+E + NYD P++++ Y+HR+ R R G++ T + N K
Sbjct: 304 VATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAK 360
>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 = 97.8 bits (242), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 54/114 (47%), Positives = 68/114 (59%), Gaps = 11/114 (9%)
Query: 402 RAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYV 461
A+ IHG K Q R + + FR G +VL+A+DVAS+GLD I++V+NYD P+ ENYV
Sbjct: 80 EAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYV 139
Query: 462 HRIGRTARSTKTGISYTLFTPLNGNKA------QDLIDILNEAHQFVPDRLLLL 509
HRIGRT S TGI+ T NKA DL +L EA Q VP L +L
Sbjct: 140 HRIGRTGCSGNTGIATTFI-----NKACDESVLMDLKALLLEAKQKVPPVLQVL 188
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 97.4 bits (241), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 102/454 (22%), Positives = 176/454 (38%), Gaps = 123/454 (27%)
Query: 40 NSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEE 99
+ G+ P+ +Q + P + G D++ A++G GKT
Sbjct: 25 DCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKT------------------------- 59
Query: 100 SSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIA-LVLAPTRELAQQIQAVISIFSRTM 158
A++ + + +LE G ++ LV+ TRELA QI FS+ M
Sbjct: 60 ----------------AVFVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYM 103
Query: 159 -RIRHACLYGGTSKMYQTRDLCRGA-EIVVATPGRLIDFLESGTTNVNRITYLVLDEADR 216
++ A +GG S L + IVV TPGR++ + + N+ I + +LDE D+
Sbjct: 104 PNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDK 163
Query: 217 MLDMGFEPQIRKIIQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADR 276
ML+ Q+ RD+ EI TP + S T
Sbjct: 164 MLE-----------QLDMRRDV---QEIFRMTPHEKQVMMFSAT---------------- 193
Query: 277 MLDMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLESGTTNVNRITYLVLDEAD 336
L P RK +Q P+ +F+ + LH L+ + +E +
Sbjct: 194 -LSKEIRPVCRKFMQ--------DPMEIFVDDETKLTLHGLQQYYVKLKD------NEKN 238
Query: 337 RMLDMGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILVAGIERWVFME---INHNGTETKH 393
R L F+ ++ + FN V I V ++R + + + N
Sbjct: 239 RKL---FD-----LLDVLEFNQVV----------IFVKSVQRCIALAQLLVEQN------ 274
Query: 394 YGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDF 453
+ A+ IH Q R + F+ +L+A+++ RG+D+E + NYD
Sbjct: 275 -------FPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDM 327
Query: 454 PDNTENYVHRIGRTARSTKTGISYTLFTPLNGNK 487
P++++ Y+HR+ R R G++ T + N K
Sbjct: 328 PEDSDTYLHRVARAGRFGTKGLAITFVSDENDAK 361
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 97.4 bits (241), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 105/476 (22%), Positives = 186/476 (39%), Gaps = 125/476 (26%)
Query: 18 YFRSGYINVLIASDVASRGLGKNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSL 77
+ SG+ + L+ ++ + + G+ P+ +Q + P + G D++ A++G GKT
Sbjct: 5 HMSSGFRDFLLKPELLRAIV--DCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKT--- 59
Query: 78 TIENTQVARGSQCGRSNTSKEESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIA-LV 136
A++ + + +LE G ++ LV
Sbjct: 60 --------------------------------------AVFVLATLQQLEPVTGQVSVLV 81
Query: 137 LAPTRELAQQIQAVISIFSRTM-RIRHACLYGGTSKMYQTRDLCRGA-EIVVATPGRLID 194
+ TRELA QI FS+ M ++ A +GG S L + IVV TPGR++
Sbjct: 82 MCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILA 141
Query: 195 FLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRTRDLCRGAEIVVATPGRLID 254
+ + N+ I + +LDE D+ML+ Q+ RD+ EI TP
Sbjct: 142 LARNKSLNLKHIKHFILDECDKMLE-----------QLDMRRDV---QEIFRMTPHEKQV 187
Query: 255 FLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTIL 314
+ S T L P RK +Q P+ +F+ + L
Sbjct: 188 MMFSAT-----------------LSKEIRPVCRKFMQ--------DPMEIFVDDETKLTL 222
Query: 315 HFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRFNTCVFLGYVLYFWFILVA 374
H L+ + +E +R L F+ ++ + FN V I V
Sbjct: 223 HGLQQYYVKLKD------NEKNRKL---FD-----LLDVLEFNQVV----------IFVK 258
Query: 375 GIERWVFME---INHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLI 431
++R + + + N + A+ IH Q R + F+ +L+
Sbjct: 259 SVQRCIALAQLLVEQN-------------FPAIAIHRGMPQEERLSRYQQFKDFQRRILV 305
Query: 432 ASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARSTKTGISYTLFTPLNGNK 487
A+++ RG+D+E + NYD P++++ Y+HR+ R R G++ T + N K
Sbjct: 306 ATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAK 361
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 65/202 (32%), Positives = 104/202 (51%), Gaps = 43/202 (21%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
K G+ T IQ +S L GRDL+ A+TGSGKTL+
Sbjct: 70 KEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLA---------------------- 107
Query: 99 ESSWWNNNVVDVKYILPALYHILK---MPKLEEGDGPIALVLAPTRELAQQIQAVISIFS 155
+++PA+ I+K MP+ +G L+L+PTRELA Q V+
Sbjct: 108 -------------FLIPAVELIVKLRFMPR----NGTGVLILSPTRELAMQTFGVLKELM 150
Query: 156 RTMRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNR-ITYLVLDEA 214
+ + GG+++ + + L G I+VATPGRL+D +++ + + + LV+DEA
Sbjct: 151 THHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEA 210
Query: 215 DRMLDMGFEPQIRKIIQMTRTR 236
DR+LD+GFE ++++II++ TR
Sbjct: 211 DRILDVGFEEELKQIIKLLPTR 232
Score = 53.5 bits (127), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 43/58 (74%), Gaps = 1/58 (1%)
Query: 236 RDLCRGAEIVVATPGRLIDFLESGTTNVNR-ITYLVLDEADRMLDMGFEPQIRKIIQM 292
+ L G I+VATPGRL+D +++ + + + LV+DEADR+LD+GFE ++++II++
Sbjct: 171 QKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKL 228
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/34 (52%), Positives = 28/34 (82%), Gaps = 2/34 (5%)
Query: 330 LVLDEADRMLDMGFEPQIRKIIQM--TRFNTCVF 361
LV+DEADR+LD+GFE ++++II++ TR T +F
Sbjct: 205 LVIDEADRILDVGFEEELKQIIKLLPTRRQTMLF 238
>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 = 92.8 bits (229), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 67/192 (34%), Positives = 97/192 (50%), Gaps = 43/192 (22%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ +P++IQ ++ + G D++ AQ+G+GKT + +I Q R +TS
Sbjct: 41 GFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQ--------RIDTS----- 87
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
VK P AL+LAPTRELA QIQ V+ + M I+
Sbjct: 88 --------VK-------------------APQALMLAPTRELALQIQKVVMALAFHMDIK 120
Query: 162 -HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
HAC+ GGTS + L R A+IVV TPGR+ D ++ ++I +LDEAD ML
Sbjct: 121 VHACI-GGTSFVEDAEGL-RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSS 178
Query: 221 GFEPQIRKIIQM 232
GF+ QI +I +
Sbjct: 179 GFKEQIYQIFTL 190
Score = 90.5 bits (223), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 63/223 (28%), Positives = 104/223 (46%), Gaps = 14/223 (6%)
Query: 240 RGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRHAHPV 299
R A+IVV TPGR+ D ++ ++I +LDEAD ML GF+ QI +I + P
Sbjct: 138 RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTL---LPPT 194
Query: 300 VPVSLFISERRDTILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRFNTC 359
V L + + +L TT R +L + D + G + + + C
Sbjct: 195 TQVVLLSATMPNDVLEV----TTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYEC 250
Query: 360 VFLGYVLYFWFILVAGIERWVFMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTL 419
L + ++ + +F E + + + I+ D Q RD +
Sbjct: 251 ------LTDLYDSISVTQAVIFCN-TRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIM 303
Query: 420 RDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVH 462
++FRSG +LI++D+ +RG+DV+ + V+NYD P N ENY+H
Sbjct: 304 KEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 346
>pdb|1QDE|A Chain A, Crystal Structure Of The Atpase Domain Of Translation
Initiation Factor 4a From Saccharomyces Cerevisiae-The
Prototype Of The Dead Box Protein Family
Length = 224
Score = 92.0 bits (227), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 67/192 (34%), Positives = 97/192 (50%), Gaps = 43/192 (22%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ +P++IQ ++ + G D++ AQ+G+GKT + +I Q R +TS
Sbjct: 33 GFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQ--------RIDTS----- 79
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
VK P AL+LAPTRELA QIQ V+ + M I+
Sbjct: 80 --------VK-------------------APQALMLAPTRELALQIQKVVMALAFHMDIK 112
Query: 162 -HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
HAC+ GGTS + L R A+IVV TPGR+ D ++ ++I +LDEAD ML
Sbjct: 113 VHACI-GGTSFVEDAEGL-RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSS 170
Query: 221 GFEPQIRKIIQM 232
GF+ QI +I +
Sbjct: 171 GFKEQIYQIFTL 182
Score = 48.9 bits (115), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 37/64 (57%)
Query: 240 RGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRHAHPV 299
R A+IVV TPGR+ D ++ ++I +LDEAD ML GF+ QI +I + V
Sbjct: 130 RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 189
Query: 300 VPVS 303
V +S
Sbjct: 190 VLLS 193
Score = 32.3 bits (72), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 22/38 (57%)
Query: 325 NRITYLVLDEADRMLDMGFEPQIRKIIQMTRFNTCVFL 362
++I +LDEAD ML GF+ QI +I + T V L
Sbjct: 154 DKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVL 191
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 91.7 bits (226), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 65/192 (33%), Positives = 96/192 (50%), Gaps = 43/192 (22%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ +P++IQ ++ + G D++ AQ+G+GKT + +I Q R +TS +
Sbjct: 40 GFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQ--------RIDTSVK--- 88
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
P AL+LAPTRELA QIQ V+ + M I+
Sbjct: 89 -----------------------------APQALMLAPTRELALQIQKVVMALAFHMDIK 119
Query: 162 -HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
HAC+ GGTS + L R A+IVV TPGR+ D ++ ++I +LDEAD ML
Sbjct: 120 VHACI-GGTSFVEDAEGL-RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSS 177
Query: 221 GFEPQIRKIIQM 232
GF+ QI +I +
Sbjct: 178 GFKEQIYQIFTL 189
Score = 48.5 bits (114), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 37/64 (57%)
Query: 240 RGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRHAHPV 299
R A+IVV TPGR+ D ++ ++I +LDEAD ML GF+ QI +I + V
Sbjct: 137 RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 196
Query: 300 VPVS 303
V +S
Sbjct: 197 VLLS 200
Score = 32.3 bits (72), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 22/38 (57%)
Query: 325 NRITYLVLDEADRMLDMGFEPQIRKIIQMTRFNTCVFL 362
++I +LDEAD ML GF+ QI +I + T V L
Sbjct: 161 DKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVL 198
>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 = 89.7 bits (221), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 69/249 (27%), Positives = 111/249 (44%), Gaps = 29/249 (11%)
Query: 242 AEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM-GFEPQIRKIIQMTRHAHPVV 300
A+++V TPG ++D + + +I VLDEAD MLD G Q I++ R
Sbjct: 122 AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQC---IRVKRFLPKDT 178
Query: 301 PVSLFISERRDTILHFLESGTTNVNRI---TYLVLDEADRMLDMGFEPQIRKIIQMTRFN 357
+ LF + D + + + N N + T V +A + L M + + K +T
Sbjct: 179 QLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELY 238
Query: 358 TCVFLGYVLYFWFILVAGIERWVFMEINHNGTETKHYG-VSSSLYRAMGIHGDKSQWNRD 416
+ +G + F + T YG + S + +HGD RD
Sbjct: 239 GVMTIGSSIIF---------------VATKKTANVLYGKLKSEGHEVSILHGDLQTQERD 283
Query: 417 QTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPD------NTENYVHRIGRTARS 470
+ + DFR G VLI ++V +RG+D+ + VVNYD P + Y+HRIGRT R
Sbjct: 284 RLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRF 343
Query: 471 TKTGISYTL 479
+ G++ +
Sbjct: 344 GRKGVAISF 352
Score = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 62/252 (24%), Positives = 110/252 (43%), Gaps = 64/252 (25%)
Query: 43 YGKPTSIQAQSWPICLSG--RDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEES 100
+ KP+ IQ ++ P+ L R++I +Q+G+GKT + ++ T + R + E++
Sbjct: 25 FQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL--TMLTR--------VNPEDA 74
Query: 101 SWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRI 160
S P A+ LAP+RELA+Q V+ + +I
Sbjct: 75 S------------------------------PQAICLAPSRELARQTLEVVQEMGKFTKI 104
Query: 161 RHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
+ + + ++ A+++V TPG ++D + + +I VLDEAD MLD
Sbjct: 105 TSQLIVPDSFE----KNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQ 160
Query: 221 G-----------FEPQIRKIIQMTRT-RDLCRG-AEIVVATPGRLIDFLESGTTNVNRIT 267
F P+ +++ + T D R A+ +V L L++ NV+ I
Sbjct: 161 QGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTL--ELQTNEVNVDAIK 218
Query: 268 YLVLD---EADR 276
L +D EAD+
Sbjct: 219 QLYMDCKNEADK 230
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 89.7 bits (221), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 69/196 (35%), Positives = 91/196 (46%), Gaps = 43/196 (21%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KP++IQ ++ C+ G D+I AQ+G+GKT + I
Sbjct: 49 GFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAI---------------------- 86
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
IL+ ++E + ALVLAPTRELAQQIQ VI M
Sbjct: 87 -----------------SILQQLEIEFKETQ-ALVLAPTRELAQQIQKVILALGDYMGAT 128
Query: 162 -HACLYGGTSKMYQTRDL-CRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLD 219
HAC+ GGT+ + + L IVV TPGR+ D L + I VLDEAD ML
Sbjct: 129 CHACI-GGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLS 187
Query: 220 MGFEPQIRKIIQMTRT 235
GF+ QI +I Q T
Sbjct: 188 RGFKDQIYEIFQKLNT 203
Score = 46.2 bits (108), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/60 (45%), Positives = 33/60 (55%)
Query: 244 IVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRHAHPVVPVS 303
IVV TPGR+ D L + I VLDEAD ML GF+ QI +I Q + VV +S
Sbjct: 152 IVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVLLS 211
Score = 32.7 bits (73), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 327 ITYLVLDEADRMLDMGFEPQIRKIIQMTRFNTCV 360
I VLDEAD ML GF+ QI +I Q + NT +
Sbjct: 174 IKMFVLDEADEMLSRGFKDQIYEIFQ--KLNTSI 205
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 89.7 bits (221), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 69/249 (27%), Positives = 111/249 (44%), Gaps = 29/249 (11%)
Query: 242 AEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM-GFEPQIRKIIQMTRHAHPVV 300
A+++V TPG ++D + + +I VLDEAD MLD G Q I++ R
Sbjct: 122 AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQC---IRVKRFLPKDT 178
Query: 301 PVSLFISERRDTILHFLESGTTNVNRI---TYLVLDEADRMLDMGFEPQIRKIIQMTRFN 357
+ LF + D + + + N N + T V +A + L M + + K +T
Sbjct: 179 QLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELY 238
Query: 358 TCVFLGYVLYFWFILVAGIERWVFMEINHNGTETKHYG-VSSSLYRAMGIHGDKSQWNRD 416
+ +G + F + T YG + S + +HGD RD
Sbjct: 239 GLMTIGSSIIF---------------VATKKTANVLYGKLKSEGHEVSILHGDLQTQERD 283
Query: 417 QTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPD------NTENYVHRIGRTARS 470
+ + DFR G VLI ++V +RG+D+ + VVNYD P + Y+HRIGRT R
Sbjct: 284 RLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRF 343
Query: 471 TKTGISYTL 479
+ G++ +
Sbjct: 344 GRKGVAISF 352
Score = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 62/252 (24%), Positives = 110/252 (43%), Gaps = 64/252 (25%)
Query: 43 YGKPTSIQAQSWPICLSG--RDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEES 100
+ KP+ IQ ++ P+ L R++I +Q+G+GKT + ++ T + R + E++
Sbjct: 25 FQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL--TMLTR--------VNPEDA 74
Query: 101 SWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRI 160
S P A+ LAP+RELA+Q V+ + +I
Sbjct: 75 S------------------------------PQAICLAPSRELARQTLEVVQEMGKFTKI 104
Query: 161 RHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
+ + + ++ A+++V TPG ++D + + +I VLDEAD MLD
Sbjct: 105 TSQLIVPDSFE----KNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQ 160
Query: 221 G-----------FEPQIRKIIQMTRT-RDLCRG-AEIVVATPGRLIDFLESGTTNVNRIT 267
F P+ +++ + T D R A+ +V L L++ NV+ I
Sbjct: 161 QGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTL--ELQTNEVNVDAIK 218
Query: 268 YLVLD---EADR 276
L +D EAD+
Sbjct: 219 QLYMDCKNEADK 230
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 88.2 bits (217), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 64/192 (33%), Positives = 95/192 (49%), Gaps = 43/192 (22%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ +P++IQ ++ + G D++ AQ+G+GKT + +I Q R +TS
Sbjct: 40 GFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQ--------RIDTS----- 86
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
+K P+ AL LAPTRELA QIQ V+ + I+
Sbjct: 87 -------------------VKAPQ--------ALXLAPTRELALQIQKVVXALAFHXDIK 119
Query: 162 -HACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
HAC+ GGTS + L R A+IVV TPGR+ D ++ ++I +LDEAD L
Sbjct: 120 VHACI-GGTSFVEDAEGL-RDAQIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSS 177
Query: 221 GFEPQIRKIIQM 232
GF+ QI +I +
Sbjct: 178 GFKEQIYQIFTL 189
Score = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 62/223 (27%), Positives = 102/223 (45%), Gaps = 14/223 (6%)
Query: 240 RGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRHAHPV 299
R A+IVV TPGR+ D ++ ++I +LDEAD L GF+ QI +I + P
Sbjct: 137 RDAQIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTL---LPPT 193
Query: 300 VPVSLFISERRDTILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRFNTC 359
V L + + +L TT R +L + D + G + + + C
Sbjct: 194 TQVVLLSATXPNDVLEV----TTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYEC 249
Query: 360 VFLGYVLYFWFILVAGIERWVFMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTL 419
L + ++ + +F E + + + I+ D Q RD
Sbjct: 250 ------LTDLYDSISVTQAVIFCNTRRK-VEELTTKLRNDKFTVSAIYSDLPQQERDTIX 302
Query: 420 RDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVH 462
++FRSG +LI++D+ +RG+DV+ + V+NYD P N ENY+H
Sbjct: 303 KEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIH 345
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 82.4 bits (202), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 71/245 (28%), Positives = 107/245 (43%), Gaps = 27/245 (11%)
Query: 242 AEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM-GFEPQIRKIIQMTRHAHPVV 300
A+IV+ TPG ++D ++ + I VLDEAD MLD G Q +I + +V
Sbjct: 236 AQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIV 295
Query: 301 PVSLFISERRDTILHFLESGTTNVNRI---TYLVLDEADRMLDMGFEPQIRKIIQMTRFN 357
S SER + + E N N I T + E + L M + + K +N
Sbjct: 296 LFSATFSER---VEKYAERFAPNANEIRLKTEELSVEGIKQLYMDCQSEEHK------YN 346
Query: 358 TCVFLGYVLYFWFILVAGIERWVFMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQ 417
V L +L ++ ++ EI T H + G+ RD
Sbjct: 347 VLVELYGLLTIGQSIIFCKKKDTAEEIARRMTADGHT--------VACLTGNLEGAQRDA 398
Query: 418 TLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFP------DNTENYVHRIGRTARST 471
+ FR G VL+ ++V +RG+DV + VVNYD P + + Y+HRIGRT R
Sbjct: 399 IMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFG 458
Query: 472 KTGIS 476
+ G+S
Sbjct: 459 RVGVS 463
Score = 60.5 bits (145), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 62/224 (27%), Positives = 101/224 (45%), Gaps = 55/224 (24%)
Query: 49 IQAQSWPICLSG--RDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESSWWNNN 106
IQ ++ P+ LS R++IG +Q+G+GKT + + T ++R
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFAL--TMLSR-------------------- 182
Query: 107 VVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIRHACLY 166
VD +PK P A+ LAP+RELA+QI V++ + ++ A +
Sbjct: 183 -VDAS-----------VPK------PQAICLAPSRELARQIMDVVTEMGKYTEVKTA--F 222
Query: 167 GGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLD-MGFEPQ 225
G + + + A+IV+ TPG ++D ++ + I VLDEAD MLD G Q
Sbjct: 223 GIKDSVPKGAKI--DAQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQ 280
Query: 226 IRKIIQMTRTRDLCRGAEIVVATPG---RLIDFLESGTTNVNRI 266
+I + L R +IV+ + R+ + E N N I
Sbjct: 281 SMRIKHL-----LPRNTQIVLFSATFSERVEKYAERFAPNANEI 319
>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 = 80.9 bits (198), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 64/192 (33%), Positives = 85/192 (44%), Gaps = 43/192 (22%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ P++IQ ++ C+ G D+I AQ+G+G T + I
Sbjct: 34 GFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAIS--------------------- 72
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRIR 161
IL+ +L+ ALVLAPTRELAQQIQ V+ M
Sbjct: 73 ------------------ILQQIELDL-XATQALVLAPTRELAQQIQXVVMALGDYMGAS 113
Query: 162 -HACLYGGTSKMYQTRDL-CRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLD 219
HAC+ GGT+ + + L I+V TPGR+ D L + I VLDEAD ML
Sbjct: 114 CHACI-GGTNVRAEVQXLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLS 172
Query: 220 MGFEPQIRKIIQ 231
GF QI I Q
Sbjct: 173 RGFXDQIYDIFQ 184
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/60 (43%), Positives = 30/60 (50%)
Query: 244 IVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRHAHPVVPVS 303
I+V TPGR+ D L + I VLDEAD ML GF QI I Q VV +S
Sbjct: 137 IIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQVVLLS 196
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 19/36 (52%), Positives = 19/36 (52%)
Query: 327 ITYLVLDEADRMLDMGFEPQIRKIIQMTRFNTCVFL 362
I VLDEAD ML GF QI I Q NT V L
Sbjct: 159 IXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQVVL 194
>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 = 79.0 bits (193), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 57/190 (30%), Positives = 88/190 (46%), Gaps = 41/190 (21%)
Query: 42 GYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEESS 101
G+ KP+ IQ +S PI LSGRD++ A+ G+GK+ +
Sbjct: 22 GWEKPSPIQEESIPIALSGRDILARAKNGTGKSGA------------------------- 56
Query: 102 WWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMR-I 160
Y++P L L + K D A+V+ PTRELA Q+ + S+ M
Sbjct: 57 ----------YLIPLLER-LDLKK----DNIQAMVIVPTRELALQVSQICIQVSKHMGGA 101
Query: 161 RHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDM 220
+ GGT+ L +V+ATPGR++D ++ G V+ + +VLDEAD++L
Sbjct: 102 KVMATTGGTNLRDDIMRLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQ 161
Query: 221 GFEPQIRKII 230
F + II
Sbjct: 162 DFVQIMEDII 171
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%)
Query: 313 ILHFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRFNTCVFL 362
IL ++ G V+ + +VLDEAD++L F + II N + L
Sbjct: 133 ILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILL 182
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 78.2 bits (191), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 62/204 (30%), Positives = 94/204 (46%), Gaps = 51/204 (25%)
Query: 35 RGLGKNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSN 94
+GL + + Y T IQ Q+ + L G+D++G A+TGSGKTL+ +
Sbjct: 38 KGL-QEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVP-------------- 82
Query: 95 TSKEESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIF 154
+L ALY + + DG L+++PTRELA Q V+
Sbjct: 83 ------------------VLEALYRL----QWTSTDGLGVLIISPTRELAYQTFEVLRKV 120
Query: 155 SRTMRIRHACLYGGTSKMYQTRDLCRGAE------IVVATPGRLIDFL-ESGTTNVNRIT 207
+ + GG +DL AE I+V TPGRL+ + E+ + + +
Sbjct: 121 GKNHDFSAGLIIGG-------KDLKHEAERINNINILVCTPGRLLQHMDETVSFHATDLQ 173
Query: 208 YLVLDEADRMLDMGFEPQIRKIIQ 231
LVLDEADR+LDMGF + +I+
Sbjct: 174 MLVLDEADRILDMGFADTMNAVIE 197
Score = 35.8 bits (81), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 24/38 (63%)
Query: 315 HFLESGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQ 352
H E+ + + + LVLDEADR+LDMGF + +I+
Sbjct: 160 HMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIE 197
>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 = 75.5 bits (184), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 52/74 (70%)
Query: 406 IHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIG 465
+ G+ Q R++ ++ G +NVL+A+DVA+RG+D+ D+ +V N+D P + + Y+HRIG
Sbjct: 60 LEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIG 119
Query: 466 RTARSTKTGISYTL 479
RTAR+ + G + +L
Sbjct: 120 RTARAGRKGTAISL 133
>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 = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 34/83 (40%), Positives = 49/83 (59%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
Y IHG Q +R + +F+ G L+A+DVA+RG+D+E+I V+NYD P E+Y
Sbjct: 60 YPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESY 119
Query: 461 VHRIGRTARSTKTGISYTLFTPL 483
VHR GRT R+ G + + T
Sbjct: 120 VHRTGRTGRAGNKGKAISFVTAF 142
>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 = 72.8 bits (177), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 59/188 (31%), Positives = 77/188 (40%), Gaps = 44/188 (23%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKE 98
K + KPT IQ + P L G +G +QTG+GKT +
Sbjct: 20 KTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHA---------------------- 57
Query: 99 ESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQ----AVISIF 154
Y+LP I P+ E A++ APTRELA QI +
Sbjct: 58 -------------YLLPIXEKI--KPERAEVQ---AVITAPTRELATQIYHETLKITKFC 99
Query: 155 SRTMRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEA 214
+ I CL GGT K L IV+ TPGR+ DF+ +V+ LV+DEA
Sbjct: 100 PKDRXIVARCLIGGTDKQKALEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEA 159
Query: 215 DRMLDMGF 222
D LD GF
Sbjct: 160 DLXLDXGF 167
>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 = 72.4 bits (176), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 31/86 (36%), Positives = 50/86 (58%)
Query: 396 VSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPD 455
+S Y IH Q +R++ DFR+G L+ +D+ +RG+D++ + V+N+DFP
Sbjct: 64 ISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPK 123
Query: 456 NTENYVHRIGRTARSTKTGISYTLFT 481
E Y+HRIGR+ R G++ L T
Sbjct: 124 LAETYLHRIGRSGRFGHLGLAINLIT 149
>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 = 72.0 bits (175), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 74/291 (25%), Positives = 126/291 (43%), Gaps = 37/291 (12%)
Query: 207 TY-LVLDEADRMLDMG-FEPQIRKIIQMTRTRDLCRG----AEIVVATPGRLIDFLES-G 259
TY L L + MG F P++ K+ R L RG +IV+ TPG ++D+
Sbjct: 171 TYELALQTGKVIEQMGKFYPEL-KLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLK 229
Query: 260 TTNVNRITYLVLDEADRML-DMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLE 318
+ +I VLDEAD M+ G + Q +I +M ++ LF + D++ F +
Sbjct: 230 FIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQML---LFSATFEDSVWKFAQ 286
Query: 319 SGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRFNT-CVFLGYVLYFWFILVAGIE 377
+ N I L + LD + + + +F C G + ++
Sbjct: 287 KVVPDPNVIK---LKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTR 343
Query: 378 R---WVFMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASD 434
+ W+ E++ G ++ + G+ R + FR G VL+ ++
Sbjct: 344 KTASWLAAELSKEG------------HQVALLSGEMMVEQRAAVIERFREGKEKVLVTTN 391
Query: 435 VASRGLDVEDIKYVVNYDFP------DNTENYVHRIGRTARSTKTGISYTL 479
V +RG+DVE + V+N+D P + E Y+HRIGRT R K G++ +
Sbjct: 392 VCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 442
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 50/186 (26%), Positives = 74/186 (39%), Gaps = 57/186 (30%)
Query: 42 GYGKPTSIQAQSWPICLS--GRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEE 99
G+ +P+ IQ + P+ L+ ++LI +Q+G+GKT + + A SQ +N
Sbjct: 111 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL-----AMLSQVEPAN----- 160
Query: 100 SSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMR 159
KY P L L+PT ELA Q VI +
Sbjct: 161 -----------KY-------------------PQCLCLSPTYELALQTGKVIEQMGK--- 187
Query: 160 IRHACLYGGTSKMYQTR--DLCRG----AEIVVATPGRLIDFLES-GTTNVNRITYLVLD 212
Y Y R L RG +IV+ TPG ++D+ + +I VLD
Sbjct: 188 -----FYPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLD 242
Query: 213 EADRML 218
EAD M+
Sbjct: 243 EADVMI 248
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 71.6 bits (174), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 74/291 (25%), Positives = 126/291 (43%), Gaps = 37/291 (12%)
Query: 207 TY-LVLDEADRMLDMG-FEPQIRKIIQMTRTRDLCRG----AEIVVATPGRLIDFLES-G 259
TY L L + MG F P++ K+ R L RG +IV+ TPG ++D+
Sbjct: 120 TYELALQTGKVIEQMGKFYPEL-KLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLK 178
Query: 260 TTNVNRITYLVLDEADRML-DMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLE 318
+ +I VLDEAD M+ G + Q +I +M ++ LF + D++ F +
Sbjct: 179 FIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQML---LFSATFEDSVWKFAQ 235
Query: 319 SGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRFNT-CVFLGYVLYFWFILVAGIE 377
+ N I L + LD + + + +F C G + ++
Sbjct: 236 KVVPDPNVIK---LKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTR 292
Query: 378 R---WVFMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASD 434
+ W+ E++ G ++ + G+ R + FR G VL+ ++
Sbjct: 293 KTASWLAAELSKEG------------HQVALLSGEMMVEQRAAVIERFREGKEKVLVTTN 340
Query: 435 VASRGLDVEDIKYVVNYDFP------DNTENYVHRIGRTARSTKTGISYTL 479
V +RG+DVE + V+N+D P + E Y+HRIGRT R K G++ +
Sbjct: 341 VCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 391
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 50/186 (26%), Positives = 74/186 (39%), Gaps = 57/186 (30%)
Query: 42 GYGKPTSIQAQSWPICLS--GRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEE 99
G+ +P+ IQ + P+ L+ ++LI +Q+G+GKT + + A SQ +N
Sbjct: 60 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL-----AMLSQVEPAN----- 109
Query: 100 SSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMR 159
KY P L L+PT ELA Q VI +
Sbjct: 110 -----------KY-------------------PQCLCLSPTYELALQTGKVIEQMGK--- 136
Query: 160 IRHACLYGGTSKMYQTR--DLCRG----AEIVVATPGRLIDFLES-GTTNVNRITYLVLD 212
Y Y R L RG +IV+ TPG ++D+ + +I VLD
Sbjct: 137 -----FYPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLD 191
Query: 213 EADRML 218
EAD M+
Sbjct: 192 EADVMI 197
>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 = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 74/291 (25%), Positives = 126/291 (43%), Gaps = 37/291 (12%)
Query: 207 TY-LVLDEADRMLDMG-FEPQIRKIIQMTRTRDLCRG----AEIVVATPGRLIDFLES-G 259
TY L L + MG F P++ K+ R L RG +IV+ TPG ++D+
Sbjct: 104 TYELALQTGKVIEQMGKFYPEL-KLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLK 162
Query: 260 TTNVNRITYLVLDEADRML-DMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLE 318
+ +I VLDEAD M+ G + Q +I +M ++ LF + D++ F +
Sbjct: 163 FIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQML---LFSATFEDSVWKFAQ 219
Query: 319 SGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRFNT-CVFLGYVLYFWFILVAGIE 377
+ N I L + LD + + + +F C G + ++
Sbjct: 220 KVVPDPNVIK---LKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTR 276
Query: 378 R---WVFMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASD 434
+ W+ E++ G ++ + G+ R + FR G VL+ ++
Sbjct: 277 KTASWLAAELSKEG------------HQVALLSGEMMVEQRAAVIERFREGKEKVLVTTN 324
Query: 435 VASRGLDVEDIKYVVNYDFP------DNTENYVHRIGRTARSTKTGISYTL 479
V +RG+DVE + V+N+D P + E Y+HRIGRT R K G++ +
Sbjct: 325 VCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 375
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 50/186 (26%), Positives = 74/186 (39%), Gaps = 57/186 (30%)
Query: 42 GYGKPTSIQAQSWPICLS--GRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEE 99
G+ +P+ IQ + P+ L+ ++LI +Q+G+GKT + + A SQ +N
Sbjct: 44 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL-----AMLSQVEPAN----- 93
Query: 100 SSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMR 159
KY P L L+PT ELA Q VI +
Sbjct: 94 -----------KY-------------------PQCLCLSPTYELALQTGKVIEQMGK--- 120
Query: 160 IRHACLYGGTSKMYQTR--DLCRG----AEIVVATPGRLIDFLES-GTTNVNRITYLVLD 212
Y Y R L RG +IV+ TPG ++D+ + +I VLD
Sbjct: 121 -----FYPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLD 175
Query: 213 EADRML 218
EAD M+
Sbjct: 176 EADVMI 181
>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 = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 74/291 (25%), Positives = 126/291 (43%), Gaps = 37/291 (12%)
Query: 207 TY-LVLDEADRMLDMG-FEPQIRKIIQMTRTRDLCRG----AEIVVATPGRLIDFLES-G 259
TY L L + MG F P++ K+ R L RG +IV+ TPG ++D+
Sbjct: 141 TYELALQTGKVIEQMGKFYPEL-KLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLK 199
Query: 260 TTNVNRITYLVLDEADRML-DMGFEPQIRKIIQMTRHAHPVVPVSLFISERRDTILHFLE 318
+ +I VLDEAD M+ G + Q +I +M ++ LF + D++ F +
Sbjct: 200 FIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQML---LFSATFEDSVWKFAQ 256
Query: 319 SGTTNVNRITYLVLDEADRMLDMGFEPQIRKIIQMTRFNT-CVFLGYVLYFWFILVAGIE 377
+ N I L + LD + + + +F C G + ++
Sbjct: 257 KVVPDPNVIK---LKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTR 313
Query: 378 R---WVFMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASD 434
+ W+ E++ G ++ + G+ R + FR G VL+ ++
Sbjct: 314 KTASWLAAELSKEG------------HQVALLSGEMMVEQRAAVIERFREGKEKVLVTTN 361
Query: 435 VASRGLDVEDIKYVVNYDFP------DNTENYVHRIGRTARSTKTGISYTL 479
V +RG+DVE + V+N+D P + E Y+HRIGRT R K G++ +
Sbjct: 362 VCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 412
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 50/186 (26%), Positives = 74/186 (39%), Gaps = 57/186 (30%)
Query: 42 GYGKPTSIQAQSWPICLS--GRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEE 99
G+ +P+ IQ + P+ L+ ++LI +Q+G+GKT + + A SQ +N
Sbjct: 81 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL-----AMLSQVEPAN----- 130
Query: 100 SSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMR 159
KY P L L+PT ELA Q VI +
Sbjct: 131 -----------KY-------------------PQCLCLSPTYELALQTGKVIEQMGK--- 157
Query: 160 IRHACLYGGTSKMYQTR--DLCRG----AEIVVATPGRLIDFLES-GTTNVNRITYLVLD 212
Y Y R L RG +IV+ TPG ++D+ + +I VLD
Sbjct: 158 -----FYPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLD 212
Query: 213 EADRML 218
EAD M+
Sbjct: 213 EADVMI 218
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 69.7 bits (169), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 34/93 (36%), Positives = 50/93 (53%)
Query: 370 FILVAGIERWVFMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINV 429
+ VA +R + TE G+ + A +HGD SQ R++ + FR G + V
Sbjct: 22 LLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRV 81
Query: 430 LIASDVASRGLDVEDIKYVVNYDFPDNTENYVH 462
L+A+DVA+RGLD+ + VV+Y PD E Y H
Sbjct: 82 LVATDVAARGLDIPQVDLVVHYRMPDRAEAYQH 114
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 16/19 (84%)
Query: 19 FRSGYINVLIASDVASRGL 37
FR G + VL+A+DVA+RGL
Sbjct: 74 FRQGEVRVLVATDVAARGL 92
>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 = 68.9 bits (167), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 35/93 (37%), Positives = 50/93 (53%)
Query: 370 FILVAGIERWVFMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINV 429
+ VA +R + TE G+ + A +HGD SQ R++ L FR G + V
Sbjct: 25 LLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRV 84
Query: 430 LIASDVASRGLDVEDIKYVVNYDFPDNTENYVH 462
L+A+DVA+RGLD+ + VV+Y PD E Y H
Sbjct: 85 LVATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 16/19 (84%)
Query: 19 FRSGYINVLIASDVASRGL 37
FR G + VL+A+DVA+RGL
Sbjct: 77 FRQGEVRVLVATDVAARGL 95
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 59/197 (29%), Positives = 89/197 (45%), Gaps = 47/197 (23%)
Query: 40 NSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEE 99
++G+ PT IQ Q+ P+ L GR+L+ A TGSGKTL+ +I
Sbjct: 46 DAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSI-------------------- 85
Query: 100 SSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQ-AVISIFSRT- 157
P L LK P G AL+++PTRELA QI +I I T
Sbjct: 86 ---------------PILMQ-LKQP---ANKGFRALIISPTRELASQIHRELIKISEGTG 126
Query: 158 MRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVN--RITYLVLDEAD 215
RI +K + + + +I+V TP RLI L+ ++ + +LV+DE+D
Sbjct: 127 FRIHMIHKAAVAAKKFGPKS-SKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESD 185
Query: 216 RMLD---MGFEPQIRKI 229
++ + GF Q+ I
Sbjct: 186 KLFEDGKTGFRDQLASI 202
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 66.2 bits (160), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 41/62 (66%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
+ I+ D Q RD +++FRSG +LI++D+ +RG+DV+ + V+NYD P N ENY
Sbjct: 55 FTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENY 114
Query: 461 VH 462
+H
Sbjct: 115 IH 116
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 65.1 bits (157), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 32/85 (37%), Positives = 47/85 (55%), Gaps = 6/85 (7%)
Query: 406 IHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPD------NTEN 459
+HGD RD+ + DFR G VLI ++V +RG+D+ + VVNYD P +
Sbjct: 65 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPAT 124
Query: 460 YVHRIGRTARSTKTGISYTLFTPLN 484
Y+HRIGRT R + G++ + N
Sbjct: 125 YIHRIGRTGRFGRKGVAISFVHDKN 149
>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 = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 32/85 (37%), Positives = 47/85 (55%), Gaps = 6/85 (7%)
Query: 406 IHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPD------NTEN 459
+HGD RD+ + DFR G VLI ++V +RG+D+ + VVNYD P +
Sbjct: 66 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPAT 125
Query: 460 YVHRIGRTARSTKTGISYTLFTPLN 484
Y+HRIGRT R + G++ + N
Sbjct: 126 YIHRIGRTGRFGRKGVAISFVHDKN 150
>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 = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 52/199 (26%), Positives = 84/199 (42%), Gaps = 61/199 (30%)
Query: 39 KNSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTL--------SLTIEN--TQVARGS 88
+ +G+ +P+ +Q ++ P+ G DLI A++G+GKT SL +EN TQ+
Sbjct: 40 RAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVLENLSTQI---- 95
Query: 89 QCGRSNTSKEESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQ 148
L+LAPTRE+A QI
Sbjct: 96 ----------------------------------------------LILAPTREIAVQIH 109
Query: 149 AVISIFSRTMRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITY 208
+VI+ M ++ G + + Q + + I V +PGR+ +E N I
Sbjct: 110 SVITAIGIKMEGLECHVFIGGTPLSQDKTRLKKCHIAVGSPGRIKQLIELDYLNPGSIRL 169
Query: 209 LVLDEADRMLDMG-FEPQI 226
+LDEAD++L+ G F+ QI
Sbjct: 170 FILDEADKLLEEGSFQEQI 188
Score = 36.2 bits (82), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 240 RGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLDMG-FEPQI 286
+ I V +PGR+ +E N I +LDEAD++L+ G F+ QI
Sbjct: 141 KKCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQI 188
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 32/85 (37%), Positives = 47/85 (55%), Gaps = 6/85 (7%)
Query: 406 IHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPD------NTEN 459
+HGD RD+ + DFR G VLI ++V +RG+D+ + VVNYD P +
Sbjct: 67 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPAT 126
Query: 460 YVHRIGRTARSTKTGISYTLFTPLN 484
Y+HRIGRT R + G++ + N
Sbjct: 127 YIHRIGRTGRFGRKGVAISFVHDKN 151
>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 = 62.8 bits (151), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 50/198 (25%), Positives = 87/198 (43%), Gaps = 45/198 (22%)
Query: 40 NSGYGKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEE 99
+ G+ P+ +Q + P + G D++ A++G GKT
Sbjct: 31 DCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKT------------------------- 65
Query: 100 SSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIA-LVLAPTRELAQQIQAVISIFSRTM 158
A++ + + +LE G ++ LV+ TRELA QI FS+ M
Sbjct: 66 ----------------AVFVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYM 109
Query: 159 -RIRHACLYGGTSKMYQTRDLCRGA-EIVVATPGRLIDFLESGTTNVNRITYLVLDEADR 216
++ A +GG S L + IVV TPGR++ + + N+ I + +LDE D+
Sbjct: 110 PNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDK 169
Query: 217 MLD-MGFEPQIRKIIQMT 233
ML+ + +++I +MT
Sbjct: 170 MLEQLDMRRDVQEIFRMT 187
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 244 IVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLD-MGFEPQIRKIIQMTRHAHPVVPV 302
IVV TPGR++ + + N+ I + +LDE D+ML+ + +++I +MT H V+
Sbjct: 137 IVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMF 196
Query: 303 SLFISE 308
S +S+
Sbjct: 197 SATLSK 202
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 43/77 (55%), Gaps = 1/77 (1%)
Query: 404 MGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHR 463
+ HG +Q R ++ F+ +L+ +DV +RG+D ++ V+ P NY+HR
Sbjct: 64 LEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHR 123
Query: 464 IGRTARSTKTGISYTLF 480
IGRTARS K G S LF
Sbjct: 124 IGRTARSGKEG-SSVLF 139
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 43/77 (55%), Gaps = 1/77 (1%)
Query: 404 MGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHR 463
+ HG +Q R ++ F+ +L+ +DV +RG+D ++ V+ P NY+HR
Sbjct: 64 LEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHR 123
Query: 464 IGRTARSTKTGISYTLF 480
IGRTARS K G S LF
Sbjct: 124 IGRTARSGKEG-SSVLF 139
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 43/77 (55%), Gaps = 1/77 (1%)
Query: 404 MGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHR 463
+ HG +Q R ++ F+ +L+ +DV +RG+D ++ V+ P NY+HR
Sbjct: 64 LEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHR 123
Query: 464 IGRTARSTKTGISYTLF 480
IGRTARS K G S LF
Sbjct: 124 IGRTARSGKEG-SSVLF 139
>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 = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 47/81 (58%), Gaps = 6/81 (7%)
Query: 406 IHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFP------DNTEN 459
+ G+ + R ++ FR G VLI ++V +RG+DV+ + VVN+D P + E
Sbjct: 64 LSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYET 123
Query: 460 YVHRIGRTARSTKTGISYTLF 480
Y+HRIGRT R K G+++ +
Sbjct: 124 YLHRIGRTGRFGKKGLAFNMI 144
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 58.9 bits (141), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 44/179 (24%), Positives = 77/179 (43%), Gaps = 46/179 (25%)
Query: 43 YGKPTSIQAQSWPICLSG--RDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEES 100
+ KP+ IQ ++ P+ L R++I +Q+G+GKT + ++ + R N
Sbjct: 42 FQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL--------TMLTRVNP----- 88
Query: 101 SWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMRI 160
E P A+ LAP+RELA+Q V+ + +I
Sbjct: 89 ---------------------------EDASPQAICLAPSRELARQTLEVVQEMGKFTKI 121
Query: 161 RHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLD 219
+ + + ++ A+++V TPG ++D + + +I VLDEAD MLD
Sbjct: 122 TSQLIVPDSFE----KNKQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLD 176
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 24/39 (61%)
Query: 241 GAEIVVATPGRLIDFLESGTTNVNRITYLVLDEADRMLD 279
A+++V TPG ++D + + +I VLDEAD MLD
Sbjct: 138 NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLD 176
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 46/87 (52%)
Query: 401 YRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENY 460
+ A+ IH Q R + F+ +L+A+++ RG+D+E + NYD P++++ Y
Sbjct: 56 FPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTY 115
Query: 461 VHRIGRTARSTKTGISYTLFTPLNGNK 487
+HR+ R R G++ T + N K
Sbjct: 116 LHRVARAGRFGTKGLAITFVSDENDAK 142
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 50/186 (26%), Positives = 74/186 (39%), Gaps = 57/186 (30%)
Query: 42 GYGKPTSIQAQSWPICLS--GRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEE 99
G+ +P+ IQ + P+ L+ ++LI +Q+G+GKT + + A SQ +N
Sbjct: 111 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL-----AMLSQVEPAN----- 160
Query: 100 SSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMR 159
KY P L L+PT ELA Q VI +
Sbjct: 161 -----------KY-------------------PQCLCLSPTYELALQTGKVIEQMGK--- 187
Query: 160 IRHACLYGGTSKMYQTR--DLCRG----AEIVVATPGRLIDFLES-GTTNVNRITYLVLD 212
Y Y R L RG +IV+ TPG ++D+ + +I VLD
Sbjct: 188 -----FYPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLD 242
Query: 213 EADRML 218
EAD M+
Sbjct: 243 EADVMI 248
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 50/186 (26%), Positives = 74/186 (39%), Gaps = 57/186 (30%)
Query: 42 GYGKPTSIQAQSWPICLS--GRDLIGIAQTGSGKTLSLTIENTQVARGSQCGRSNTSKEE 99
G+ +P+ IQ + P+ L+ ++LI +Q+G+GKT + + A SQ +N
Sbjct: 44 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL-----AMLSQVEPAN----- 93
Query: 100 SSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAVISIFSRTMR 159
KY P L L+PT ELA Q VI +
Sbjct: 94 -----------KY-------------------PQCLCLSPTYELALQTGKVIEQMGK--- 120
Query: 160 IRHACLYGGTSKMYQTR--DLCRG----AEIVVATPGRLIDFLES-GTTNVNRITYLVLD 212
Y Y R L RG +IV+ TPG ++D+ + +I VLD
Sbjct: 121 -----FYPELKLAYAVRGNKLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLD 175
Query: 213 EADRML 218
EAD M+
Sbjct: 176 EADVMI 181
>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 = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 44/92 (47%), Gaps = 4/92 (4%)
Query: 378 RWVFMEINHNGTETKHYGVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVAS 437
+ + E+ +G + K + +S G+ SQ + L +F G NVL+A+ V
Sbjct: 375 KKIVNELVKDGIKAKRFVGQASKENDRGL----SQREQKLILDEFARGEFNVLVATSVGE 430
Query: 438 RGLDVEDIKYVVNYDFPDNTENYVHRIGRTAR 469
GLDV ++ VV Y+ + + R GRT R
Sbjct: 431 EGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR 462
Score = 32.0 bits (71), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 46/87 (52%), Gaps = 3/87 (3%)
Query: 131 GPIALVLAPTRELA-QQIQAVISIFSRTMRIRHACLYGGTSKMYQTRDLCRGAEIVVATP 189
G L+LAPT+ L Q ++ +F+ + L G S +++ R A+++VATP
Sbjct: 52 GGKVLMLAPTKPLVLQHAESFRRLFNLPPE-KIVALTGEKSPEERSKAWAR-AKVIVATP 109
Query: 190 GRLIDFLESGTTNVNRITYLVLDEADR 216
+ + L +G ++ ++ +V DEA R
Sbjct: 110 QTIENDLLAGRISLEDVSLIVFDEAHR 136
>pdb|1E69|A Chain A, Smc Head Domain From Thermotoga Maritima
pdb|1E69|B Chain B, Smc Head Domain From Thermotoga Maritima
pdb|1E69|C Chain C, Smc Head Domain From Thermotoga Maritima
pdb|1E69|D Chain D, Smc Head Domain From Thermotoga Maritima
pdb|1E69|E Chain E, Smc Head Domain From Thermotoga Maritima
pdb|1E69|F Chain F, Smc Head Domain From Thermotoga Maritima
Length = 322
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 35/134 (26%), Positives = 62/134 (46%), Gaps = 10/134 (7%)
Query: 210 VLDEADRMLDMGFEPQIRKIIQMTRTRDLCRGAEIVVATPGRLIDFLESGTTNVNRITYL 269
++ EA +LD GFE IRK + + L G E + L +E + +
Sbjct: 191 IVSEAKSILDAGFEISIRKPGRRDQKLSLLSGGEKALVGLALLFALME-----IKPSPFY 245
Query: 270 VLDEADRMLDMGFEPQIRKII-QMTRHAHPVVPVSLFISERRDTILHFLESGTTNVNRIT 328
VLDE D LD + ++++ + ++H +V I +LH G T VN ++
Sbjct: 246 VLDEVDSPLDDYNAERFKRLLKENSKHTQFIVITHNKIVMEAADLLH----GVTMVNGVS 301
Query: 329 YLVLDEADRMLDMG 342
+V E +++L++G
Sbjct: 302 AIVPVEVEKILEVG 315
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 31/57 (54%)
Query: 411 SQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRT 467
+Q + + + FR+G IN+LIA+ VA GLD+++ V+ Y N V GR
Sbjct: 449 TQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARGRA 505
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 43/90 (47%), Gaps = 5/90 (5%)
Query: 395 GVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFP 454
G+S++ Y A G+ + R F+ + +++A+ G++ ++++VV++D P
Sbjct: 260 GISAAAYHA-GLENNV----RADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIP 314
Query: 455 DNTENYVHRIGRTARSTKTGISYTLFTPLN 484
N E+Y GR R + + P +
Sbjct: 315 RNIESYYQETGRAGRDGLPAEAMLFYDPAD 344
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 33/70 (47%)
Query: 411 SQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARS 470
S+ R++ L FR+G +++S V G+DV D V + Y+ R+GR R
Sbjct: 379 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRP 438
Query: 471 TKTGISYTLF 480
+K L+
Sbjct: 439 SKGKKEAVLY 448
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 43/90 (47%), Gaps = 5/90 (5%)
Query: 395 GVSSSLYRAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFP 454
G+S++ Y A G+ + R F+ + +++A+ G++ ++++VV++D P
Sbjct: 260 GISAAAYHA-GLENNV----RADVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIP 314
Query: 455 DNTENYVHRIGRTARSTKTGISYTLFTPLN 484
N E+Y GR R + + P +
Sbjct: 315 RNIESYYQETGRAGRDGLPAEAXLFYDPAD 344
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 33/70 (47%)
Query: 411 SQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTARS 470
S+ R++ L FR+G +++S V G+DV D V + Y+ R+GR R
Sbjct: 144 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRP 203
Query: 471 TKTGISYTLF 480
+K L+
Sbjct: 204 SKGKKEAVLY 213
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 37.7 bits (86), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 27/41 (65%)
Query: 411 SQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNY 451
+Q + + + FR+G IN+LIA+ VA GLD+++ V+ Y
Sbjct: 199 TQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 239
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 37.0 bits (84), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 5/76 (6%)
Query: 402 RAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYD-----FPDN 456
RA +H + + R +RD R G+ + L+ ++ GLD+ ++ V D F +
Sbjct: 466 RARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLVAILDADKEGFLRS 525
Query: 457 TENYVHRIGRTARSTK 472
+ + IGR AR+ +
Sbjct: 526 ERSLIQTIGRAARNAR 541
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 37.0 bits (84), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 37/76 (48%), Gaps = 5/76 (6%)
Query: 402 RAMGIHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYD-----FPDN 456
RA +H + + R +RD R G+ + L+ ++ GLD+ ++ V D F +
Sbjct: 465 RARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLVAILDADKEGFLRS 524
Query: 457 TENYVHRIGRTARSTK 472
+ + IGR AR+ +
Sbjct: 525 ERSLIQTIGRAARNAR 540
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 37.0 bits (84), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 5/71 (7%)
Query: 404 MGIHGDKSQWN---RDQTL--RDFRSGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTE 458
+GIH N D+T R + + I V++A+ G+D D+++V+++ + E
Sbjct: 290 LGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSME 349
Query: 459 NYVHRIGRTAR 469
NY GR R
Sbjct: 350 NYYQESGRAGR 360
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 33.5 bits (75), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Query: 419 LRDFR-SGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGR-TARSTK 472
L FR SG N+LIA+ VA G+D+ + V+ Y++ N + GR AR +K
Sbjct: 444 LEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGRGRARDSK 499
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 33.5 bits (75), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 5/71 (7%)
Query: 406 IHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYD-----FPDNTENY 460
+H + R + +RD R G +VL+ ++ GLD+ ++ V D F + +
Sbjct: 475 LHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSL 534
Query: 461 VHRIGRTARST 471
+ IGR AR+
Sbjct: 535 IQTIGRAARNA 545
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 33.5 bits (75), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 5/71 (7%)
Query: 406 IHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYD-----FPDNTENY 460
+H + R + +RD R G +VL+ ++ GLD+ ++ V D F + +
Sbjct: 500 LHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSL 559
Query: 461 VHRIGRTARST 471
+ IGR AR+
Sbjct: 560 IQTIGRAARNA 570
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 33.5 bits (75), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 5/71 (7%)
Query: 406 IHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYD-----FPDNTENY 460
+H + R + +RD R G +VL+ ++ GLD+ ++ V D F + +
Sbjct: 474 LHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSL 533
Query: 461 VHRIGRTARST 471
+ IGR AR+
Sbjct: 534 IQTIGRAARNA 544
>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 = 33.5 bits (75), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 5/71 (7%)
Query: 406 IHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYD-----FPDNTENY 460
+H + R + +RD R G +VL+ ++ GLD+ ++ V D F + +
Sbjct: 475 LHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSL 534
Query: 461 VHRIGRTARST 471
+ IGR AR+
Sbjct: 535 IQTIGRAARNA 545
>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 = 33.5 bits (75), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 5/71 (7%)
Query: 406 IHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYD-----FPDNTENY 460
+H + R + +RD R G +VL+ ++ GLD+ ++ V D F + +
Sbjct: 475 LHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSL 534
Query: 461 VHRIGRTARST 471
+ IGR AR+
Sbjct: 535 IQTIGRAARNA 545
>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 = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 26/111 (23%), Positives = 49/111 (44%), Gaps = 13/111 (11%)
Query: 406 IHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYD-----FPDNTENY 460
+H + R + +RD R G +VL+ ++ GLD+ ++ V D F + +
Sbjct: 481 LHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSL 540
Query: 461 VHRIGRTARSTK-------TGISYTLFTPLNGNK-AQDLIDILNEAHQFVP 503
+ IGR AR+ + I+ ++ +N K ++ + NE H P
Sbjct: 541 IQTIGRAARNAEGRVIMYADKITKSMEIAINETKRRREQQERFNEEHGITP 591
>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 = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 26/111 (23%), Positives = 49/111 (44%), Gaps = 13/111 (11%)
Query: 406 IHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDVEDIKYVVNYD-----FPDNTENY 460
+H + R + +RD R G +VL+ ++ GLD+ ++ V D F + +
Sbjct: 475 LHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSL 534
Query: 461 VHRIGRTARSTK-------TGISYTLFTPLNGNK-AQDLIDILNEAHQFVP 503
+ IGR AR+ + I+ ++ +N K ++ + NE H P
Sbjct: 535 IQTIGRAARNAEGRVIMYADKITKSMEIAINETKRRREQQERFNEEHGITP 585
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 32.0 bits (71), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 424 SGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGR-TARSTKT 473
SG N+LIA+ VA G+D+ V+ Y++ N + GR AR +K
Sbjct: 450 SGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSKC 500
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 27/136 (19%), Positives = 59/136 (43%), Gaps = 20/136 (14%)
Query: 80 ENTQVARGSQCGRSNTSKEESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAP 139
+NT + + CG++ S +L +H+ K P+ ++G + A
Sbjct: 20 KNTIICAPTGCGKTFVS----------------LLICEHHLKKFPQGQKGK---VVFFAN 60
Query: 140 TRELAQQIQAVISIFSRTMRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESG 199
+ +Q ++V S + R + G T++ + +I++ TP L++ L+ G
Sbjct: 61 QIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKG 120
Query: 200 T-TNVNRITYLVLDEA 214
T +++ T ++ DE
Sbjct: 121 TIPSLSIFTLMIFDEC 136
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 32.0 bits (71), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 424 SGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGR-TARSTKT 473
SG N+LIA+ VA G+D+ V+ Y++ N + GR AR +K
Sbjct: 458 SGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSKC 508
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 27/136 (19%), Positives = 59/136 (43%), Gaps = 20/136 (14%)
Query: 80 ENTQVARGSQCGRSNTSKEESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAP 139
+NT + + CG++ S +L +H+ K P+ ++G + A
Sbjct: 28 KNTIICAPTGCGKTFVS----------------LLICEHHLKKFPQGQKGK---VVFFAN 68
Query: 140 TRELAQQIQAVISIFSRTMRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESG 199
+ +Q ++V S + R + G T++ + +I++ TP L++ L+ G
Sbjct: 69 QIPVYEQQKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKG 128
Query: 200 T-TNVNRITYLVLDEA 214
T +++ T ++ DE
Sbjct: 129 TIPSLSIFTLMIFDEC 144
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 32.0 bits (71), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 424 SGYINVLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGR-TARSTKT 473
SG N+LIA+ VA G+D+ V+ Y++ N + GR AR +K
Sbjct: 459 SGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSKC 509
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 27/136 (19%), Positives = 59/136 (43%), Gaps = 20/136 (14%)
Query: 80 ENTQVARGSQCGRSNTSKEESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAP 139
+NT + + CG++ S +L +H+ K P+ ++G + A
Sbjct: 29 KNTIICAPTGCGKTFVS----------------LLICEHHLKKFPQGQKGK---VVFFAN 69
Query: 140 TRELAQQIQAVISIFSRTMRIRHACLYGGTSKMYQTRDLCRGAEIVVATPGRLIDFLESG 199
+ +Q ++V S + R + G T++ + +I++ TP L++ L+ G
Sbjct: 70 QIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKG 129
Query: 200 T-TNVNRITYLVLDEA 214
T +++ T ++ DE
Sbjct: 130 TIPSLSIFTLMIFDEC 145
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 23/37 (62%)
Query: 406 IHGDKSQWNRDQTLRDFRSGYINVLIASDVASRGLDV 442
+HG SQ +D+ + +F G ++L+++ V G+DV
Sbjct: 619 MHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDV 655
>pdb|1K78|A Chain A, Pax5(1-149)+ets-1(331-440)+dna
pdb|1K78|E Chain E, Pax5(1-149)+ets-1(331-440)+dna
pdb|1K78|I Chain I, Pax5(1-149)+ets-1(331-440)+dna
pdb|1MDM|A Chain A, Inhibited Fragment Of Ets-1 And Paired Domain Of Pax5
Bound To Dna
Length = 149
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 44/101 (43%), Gaps = 7/101 (6%)
Query: 142 ELAQQIQAVISIFSRTMRIRHACLYGGTSKMYQTRDL----CRGAEIVVATPGRLIDFLE 197
ELA Q I SR +R+ H C+ + Y+T + G++ VATP + E
Sbjct: 43 ELAHQGVRPCDI-SRQLRVSHGCVSKILGRYYETGSIKPGVIGGSKPKVATPKVVEKIAE 101
Query: 198 SGTTNVNRITYLVLDE--ADRMLDMGFEPQIRKIIQMTRTR 236
N + + D A+R+ D P + I ++ RT+
Sbjct: 102 YKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRIIRTK 142
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 29.6 bits (65), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 429 VLIASDVASRGLDVEDIKYVVNYDFPDNTENYVHRIGRTAR 469
VL+ S++ S G + + + V +D P N + RIGR R
Sbjct: 559 VLLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDR 599
>pdb|2CXX|A Chain A, Crystal Structure Of A Probable Gtp-binding Protein Engb
pdb|2CXX|B Chain B, Crystal Structure Of A Probable Gtp-binding Protein Engb
pdb|2CXX|C Chain C, Crystal Structure Of A Probable Gtp-binding Protein Engb
Length = 190
Score = 28.9 bits (63), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 43/87 (49%), Gaps = 13/87 (14%)
Query: 258 SGTTNVNRITYLVLDEADRMLDMGFEPQI-RKIIQMTRHAHPVVPVSLF---------IS 307
+G +NV + T L+ + + G P + RKII++ H ++ F +
Sbjct: 7 AGRSNVGKST-LIYRLTGKKVRRGKRPGVTRKIIEIEWKNHKIIDXPGFGFXXGLPKEVQ 65
Query: 308 ER-RDTILHFLESGTTNVNRITYLVLD 333
ER +D I+HF+E N++ + LV+D
Sbjct: 66 ERIKDEIVHFIEDNAKNID-VAVLVVD 91
>pdb|1PJB|A Chain A, L-alanine Dehydrogenase
pdb|1SAY|A Chain A, L-Alanine Dehydrogenase Complexed With Pyruvate
pdb|1PJC|A Chain A, L-Alanine Dehydrogenase Complexed With Nad
Length = 361
Score = 28.5 bits (62), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 32/115 (27%), Positives = 49/115 (42%), Gaps = 17/115 (14%)
Query: 44 GKPTSIQAQSWPICLSGRDLIGIAQTGSGKTLSLTIENTQVARGS--------QCGRSNT 95
G P I+ Q + + LS + + + G ++ IE TQ G+ Q G
Sbjct: 4 GVPKEIKNQEFRVGLSPSSVRTLVEAGH----TVFIE-TQAGIGAGFADQDYVQAGAQVV 58
Query: 96 SKEESSWWNNNVVDVKYILPALYHILKMPKLEEGDGPIALVLAPTRELAQQIQAV 150
+ +W VV VK LPA Y +++ +L L LA REL +Q+ V
Sbjct: 59 PSAKDAWSREMVVKVKEPLPAEYDLMQKDQLLF----TYLHLAAARELTEQLMRV 109
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
0.322 0.137 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,636,939
Number of Sequences: 62578
Number of extensions: 661801
Number of successful extensions: 1706
Number of sequences better than 100.0: 99
Number of HSP's better than 100.0 without gapping: 89
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1346
Number of HSP's gapped (non-prelim): 306
length of query: 537
length of database: 14,973,337
effective HSP length: 103
effective length of query: 434
effective length of database: 8,527,803
effective search space: 3701066502
effective search space used: 3701066502
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)