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= 019041
(347 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 337 bits (864), Expect = 5e-93, Method: Compositional matrix adjust.
Identities = 162/239 (67%), Positives = 190/239 (79%)
Query: 2 TETEVKMYRARREITVEGHDVPRPIRIFQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMA 61
T EV+ YR +EITV GH+ P+P+ F EANFP ++VIA+ F EPT IQAQGWP+A
Sbjct: 4 TAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVA 63
Query: 62 LKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEAL 121
L G D++G+A+TGSGKTLSYLLPA VH++ QP L +G+GPI LVLAPTRELA Q+Q+ A
Sbjct: 64 LSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAA 123
Query: 122 KFGSRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLD 181
++ ++STCIYGGAPKGPQIRDL RGVEI IATPGRLID LE TNLRR TYLVLD
Sbjct: 124 EYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLD 183
Query: 182 EADRMLDMGFEPQIRKIVTQIRPDRQTLYWSATWPREVETLARQFLRNPYKVIIGSLEL 240
EADRMLDMGFEPQIRKIV QIRPDRQTL WSATWP+EV LA FL++ + IG+LEL
Sbjct: 184 EADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIGALEL 242
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 332 bits (850), Expect = 2e-91, Method: Compositional matrix adjust.
Identities = 159/236 (67%), Positives = 187/236 (79%)
Query: 2 TETEVKMYRARREITVEGHDVPRPIRIFQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMA 61
T EV+ YR +EITV GH+ P+P+ F EANFP ++VIA+ F EPT IQAQGWP+A
Sbjct: 18 TAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVA 77
Query: 62 LKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEAL 121
L G D++G+A+TGSGKTLSYLLPA VH++ QP L +G+GPI LVLAPTRELA Q+Q+ A
Sbjct: 78 LSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAA 137
Query: 122 KFGSRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLD 181
++ ++STCIYGGAPKGPQIRDL RGVEI IATPGRLID LE TNLRR TYLVLD
Sbjct: 138 EYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLD 197
Query: 182 EADRMLDMGFEPQIRKIVTQIRPDRQTLYWSATWPREVETLARQFLRNPYKVIIGS 237
EADRMLDMGFEPQIRKIV QIRPDRQTL WSATWP+EV LA FL++ + IG+
Sbjct: 198 EADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIGA 253
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 255 bits (652), Expect = 2e-68, Method: Compositional matrix adjust.
Identities = 149/344 (43%), Positives = 204/344 (59%), Gaps = 23/344 (6%)
Query: 15 ITVEGHDVPRPIRIFQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETG 74
+ G++ P I F + + + I + PTP+Q P+ + RDL+ A+TG
Sbjct: 3 VEATGNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTG 62
Query: 75 SGKTLSYLLPAFVHVSAQP-----RLVQGEG--------PIVLVLAPTRELAVQIQEEAL 121
SGKT ++LLP + + R ++ G PI LVLAPTRELAVQI EEA
Sbjct: 63 SGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEAR 122
Query: 122 KFGSRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLD 181
KF R+ +R +YGGA G QIRDL RG +++ATPGRL+DM+E L YLVLD
Sbjct: 123 KFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLD 182
Query: 182 EADRMLDMGFEPQIRKIVTQ--IRPD--RQTLYWSATWPREVETLARQFLRNPYKVIIGS 237
EADRMLDMGFEPQIR+IV Q + P R T+ +SAT+P+E++ LAR FL + +G
Sbjct: 183 EADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGR 242
Query: 238 LELKANQSINQVVEVVTEAEKYNSMFICRLIKLLKEVMDGSRILIFTETKKGCDQVTRQL 297
+ +++I Q V V E++K + L+ LL S L+F ETKKG D + L
Sbjct: 243 VG-STSENITQKVVWVEESDKRSF-----LLDLLNATGKDSLTLVFVETKKGADSLEDFL 296
Query: 298 RMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 341
+G+ SIHGD++Q +R+ L +FRSG+SPI+ AT VAARGL
Sbjct: 297 YHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGL 340
>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 = 241 bits (614), Expect = 6e-64, Method: Compositional matrix adjust.
Identities = 131/329 (39%), Positives = 198/329 (60%), Gaps = 10/329 (3%)
Query: 15 ITVEGHDVPRPIRIFQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETG 74
+ V G DVP+PI+ F A+ D ++ + K G+ PTPIQ P+ GRDL+ A+TG
Sbjct: 44 VKVTGSDVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTG 103
Query: 75 SGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCI 134
SGKT ++LLP + P ++ P V++++PTRELA+QI EA KF + ++ +
Sbjct: 104 SGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIV 163
Query: 135 YGGAPKGPQIRDLRRGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQ 194
YGG Q + RG +VIATPGRL+D ++ ++VLDEADRMLDMGF
Sbjct: 164 YGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSED 223
Query: 195 IRKIVTQI--RPDRQTLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEV 252
+R+I+T + RP+ QTL +SAT+P E++ +A +FL+N V IG + + + V +
Sbjct: 224 MRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIV----GGACSDVKQT 279
Query: 253 VTEAEKYNSMFICRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKN 312
+ E KY +LI++L E DG+ ++F ETK+G D + L +P SIHGD+
Sbjct: 280 IYEVNKYAKR--SKLIEILSEQADGT--IVFVETKRGADFLASFLSEKEFPTTSIHGDRL 335
Query: 313 QSERDWVLAEFRSGRSPIMTATDVAARGL 341
QS+R+ L +F++G ++ AT VA+RGL
Sbjct: 336 QSQREQALRDFKNGSMKVLIATSVASRGL 364
>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 = 228 bits (582), Expect = 3e-60, Method: Compositional matrix adjust.
Identities = 113/217 (52%), Positives = 156/217 (71%), Gaps = 5/217 (2%)
Query: 22 VPRPIRIFQEA--NFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTL 79
+P+P F++A +PD L+ I ++G ++PTPIQ+Q WP+ L+G DLI +A+TG+GKTL
Sbjct: 14 IPKPTCRFKDAFQQYPDL-LKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTL 72
Query: 80 SYLLPAFVHVSAQP-RLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGA 138
SYL+P F+H+ +QP Q GP +LVL PTRELA+ ++ E K+ S G++S CIYGG
Sbjct: 73 SYLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKY-SYKGLKSICIYGGR 131
Query: 139 PKGPQIRDLRRGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKI 198
+ QI D+ +GV+I+IATPGRL D+ NLR +TYLV+DEAD+MLDM FEPQIRKI
Sbjct: 132 NRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKI 191
Query: 199 VTQIRPDRQTLYWSATWPREVETLARQFLRNPYKVII 235
+ +RPDRQT+ SATWP V LA +L++P V +
Sbjct: 192 LLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>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 = 182 bits (463), Expect = 2e-46, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 170/314 (54%), Gaps = 20/314 (6%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGR-DLIGIAETGSGKTLSYLLPAFV 87
F E N D L I GF +PT IQ + P+ L +++ A TGSGKT S+ +P
Sbjct: 8 FNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE 67
Query: 88 HVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDL 147
V+ + G ++L PTRELA+Q+ +E ++ IYGG PQI+ L
Sbjct: 68 LVN------ENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKAL 121
Query: 148 RRGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQ 207
+ IV+ TPGR++D + NL+ V Y +LDEAD L+ GF + KI+ D++
Sbjct: 122 K-NANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKR 180
Query: 208 TLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRL 267
L +SAT PRE+ LA+++ Y I + K N +I Q V E E++ ++ CRL
Sbjct: 181 ILLFSATXPREILNLAKKYX-GDYSFI----KAKINANIEQSYVEVNENERFEAL--CRL 233
Query: 268 IKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGR 327
+K KE L+F +TK+ ++ LR G+ A +IHGD +QS+R+ V+ F+ +
Sbjct: 234 LK-NKEFYG----LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKK 288
Query: 328 SPIMTATDVAARGL 341
I+ ATDV +RG+
Sbjct: 289 IRILIATDVXSRGI 302
>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 = 181 bits (459), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 91/199 (45%), Positives = 126/199 (63%), Gaps = 8/199 (4%)
Query: 46 GFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQP----RLVQGEGP 101
+ PTPIQ P L+ RD++ A+TGSGKT ++L+P H+ Q R + P
Sbjct: 42 SYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYP 101
Query: 102 IVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRL 161
L+LAPTRELA+QI E+ KF +RS +YGGA QIR+++ G +++ATPGRL
Sbjct: 102 KCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRL 161
Query: 162 IDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRP----DRQTLYWSATWPR 217
+D +E +L Y+VLDEADRMLDMGFEPQIRKI+ + +RQTL +SAT+P+
Sbjct: 162 VDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPK 221
Query: 218 EVETLARQFLRNPYKVIIG 236
E++ LA FL N + +G
Sbjct: 222 EIQKLAADFLYNYIFMTVG 240
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 181 bits (459), Expect = 6e-46, Method: Compositional matrix adjust.
Identities = 109/313 (34%), Positives = 167/313 (53%), Gaps = 11/313 (3%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F + L I GF +P+ IQ + +KGRD+I +++G+GKT ++ +
Sbjct: 3 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQC 62
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
+ Q R Q L+LAPTRELAVQ+Q+ L G ++S GG G IR L
Sbjct: 63 LDIQVRETQA-----LILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLD 117
Query: 149 RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQT 208
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 118 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 177
Query: 209 LYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRLI 268
+ SAT P EV + +F+ +P ++++ EL + I Q V E E++ +C L
Sbjct: 178 VLISATLPHEVLEMTNKFMTDPIRILVKRDELTL-EGIKQFF-VAVEREEWKFDTLCDLY 235
Query: 269 KLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRS 328
+ + ++ +IF TK+ D +T ++R + S+HGD Q ER+ ++ EFRSG S
Sbjct: 236 ----DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGAS 291
Query: 329 PIMTATDVAARGL 341
++ +TDV ARGL
Sbjct: 292 RVLISTDVWARGL 304
>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 = 180 bits (456), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 108/313 (34%), Positives = 166/313 (53%), Gaps = 11/313 (3%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F + L I GF +P+ IQ + +KGRD+I +++G+GKT ++ +
Sbjct: 40 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 99
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
+ Q R Q L+LAPTRELAVQIQ+ L G ++ GG G IR L
Sbjct: 100 LDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 154
Query: 149 RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQT 208
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 155 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 214
Query: 209 LYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRLI 268
+ SAT P E+ + +F+ +P ++++ EL + I Q V E E++ +C L
Sbjct: 215 VLISATLPHEILEMTNKFMTDPIRILVKRDELTL-EGIKQFF-VAVEREEWKFDTLCDLY 272
Query: 269 KLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRS 328
+ + ++ +IF TK+ D +T ++R + S+HGD Q ER+ ++ EFRSG S
Sbjct: 273 ----DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGAS 328
Query: 329 PIMTATDVAARGL 341
++ +TDV ARGL
Sbjct: 329 RVLISTDVWARGL 341
>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 = 180 bits (456), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 108/313 (34%), Positives = 166/313 (53%), Gaps = 11/313 (3%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F + L I GF +P+ IQ + +KGRD+I +++G+GKT ++ +
Sbjct: 40 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 99
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
+ Q R Q L+LAPTRELAVQIQ+ L G ++ GG G IR L
Sbjct: 100 LDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 154
Query: 149 RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQT 208
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 155 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 214
Query: 209 LYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRLI 268
+ SAT P E+ + +F+ +P ++++ EL + I Q V E E++ +C L
Sbjct: 215 VLISATLPHEILEMTNKFMTDPIRILVKRDELTL-EGIKQFF-VAVEREEWKFDTLCDLY 272
Query: 269 KLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRS 328
+ + ++ +IF TK+ D +T ++R + S+HGD Q ER+ ++ EFRSG S
Sbjct: 273 ----DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGAS 328
Query: 329 PIMTATDVAARGL 341
++ +TDV ARGL
Sbjct: 329 RVLISTDVWARGL 341
>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 = 180 bits (456), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 108/313 (34%), Positives = 166/313 (53%), Gaps = 11/313 (3%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F + L I GF +P+ IQ + +KGRD+I +++G+GKT ++ +
Sbjct: 39 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 98
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
+ Q R Q L+LAPTRELAVQIQ+ L G ++ GG G IR L
Sbjct: 99 LDIQVRETQA-----LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 153
Query: 149 RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQT 208
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 154 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 213
Query: 209 LYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRLI 268
+ SAT P E+ + +F+ +P ++++ EL + I Q V E E++ +C L
Sbjct: 214 VLISATLPHEILEMTNKFMTDPIRILVKRDELTL-EGIKQFF-VAVEREEWKFDTLCDLY 271
Query: 269 KLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRS 328
+ + ++ +IF TK+ D +T ++R + S+HGD Q ER+ ++ EFRSG S
Sbjct: 272 ----DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGAS 327
Query: 329 PIMTATDVAARGL 341
++ +TDV ARGL
Sbjct: 328 RVLISTDVWARGL 340
>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 = 179 bits (455), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 106/300 (35%), Positives = 163/300 (54%), Gaps = 11/300 (3%)
Query: 42 IAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGP 101
I GF +P+ IQ + +KGRD+I +++G+GKT ++ + + Q R Q
Sbjct: 31 IYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQA--- 87
Query: 102 IVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRL 161
L+LAPTRELAVQIQ+ L G ++ GG G IR L G +V TPGR+
Sbjct: 88 --LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRV 145
Query: 162 IDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQTLYWSATWPREVET 221
DM+ + R + LVLDEAD ML+ GF+ QI + + P Q + SAT P E+
Sbjct: 146 FDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILE 205
Query: 222 LARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRLIKLLKEVMDGSRIL 281
+ +F+ +P ++++ EL + I Q V E E++ +C L + + ++ +
Sbjct: 206 MTNKFMTDPIRILVKRDELTL-EGIKQFF-VAVEREEWKFDTLCDLY----DTLTITQAV 259
Query: 282 IFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 341
IF TK+ D +T ++R + S+HGD Q ER+ ++ EFRSG S ++ +TDV ARGL
Sbjct: 260 IFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGL 319
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 178 bits (452), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 107/313 (34%), Positives = 166/313 (53%), Gaps = 11/313 (3%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F + L I GF +P+ IQ + +KGRD+I +++G+GKT ++ +
Sbjct: 3 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQC 62
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
+ Q R Q L+LAPTRELAVQ+Q+ L G ++ GG G IR L
Sbjct: 63 LDIQVRETQA-----LILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 117
Query: 149 RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQT 208
G +V TPGR+ DM+ + R + LVLDEAD ML+ GF+ QI + + P Q
Sbjct: 118 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 177
Query: 209 LYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRLI 268
+ SAT P E+ + +F+ +P ++++ EL + I Q V E E++ +C L
Sbjct: 178 VLISATLPHEILEMTNKFMTDPIRILVKRDELTL-EGIKQFF-VAVEREEWKFDTLCDLY 235
Query: 269 KLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRS 328
+ + ++ +IF TK+ D +T ++R + S+HGD Q ER+ ++ EFRSG S
Sbjct: 236 ----DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGAS 291
Query: 329 PIMTATDVAARGL 341
++ +TDV ARGL
Sbjct: 292 RVLISTDVWARGL 304
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 171 bits (433), Expect = 6e-43, Method: Compositional matrix adjust.
Identities = 99/233 (42%), Positives = 138/233 (59%), Gaps = 16/233 (6%)
Query: 16 TVEGHDVP----RPI------RIFQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGR 65
++E HD P +PI + F++ D E +LG+ +PT IQ + P+AL+GR
Sbjct: 22 SMEEHDSPTEASQPIVEEEETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGR 81
Query: 66 DLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGS 125
D+IG+AETGSGKT ++ LP + P+ + LVL PTRELA QI E+ GS
Sbjct: 82 DIIGLAETGSGKTGAFALPILNALLETPQRL-----FALVLTPTRELAFQISEQFEALGS 136
Query: 126 RAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRLIDMLE-AQHTNLRRVTYLVLDEAD 184
G++S I GG Q L + I+IATPGRLID LE + NLR + YLV+DEAD
Sbjct: 137 SIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEAD 196
Query: 185 RMLDMGFEPQIRKIVTQIRPDRQTLYWSATWPREVETLARQFLRNPYKVIIGS 237
R+L+M FE ++ KI+ I DR+T +SAT ++V+ L R L+NP K + S
Sbjct: 197 RILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAVSS 249
>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 = 169 bits (428), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 99/314 (31%), Positives = 167/314 (53%), Gaps = 12/314 (3%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F + N + L I GF +P+ IQ + +KG D+I A++G+GKT ++ +
Sbjct: 16 FDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQ 75
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
+ + Q LVLAPTRELA QIQ+ + G G GG +++ L+
Sbjct: 76 IELDLKATQA-----LVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQ 130
Query: 149 -RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQ 207
I++ TPGR+ DML ++ + + + VLDEAD ML GF+ QI I ++ + Q
Sbjct: 131 MEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQ 190
Query: 208 TLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRL 267
+ SAT P +V + ++F+R+P ++++ EL + I Q + E E++ +C L
Sbjct: 191 VVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTL-EGIRQFY-INVEREEWKLDTLCDL 248
Query: 268 IKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGR 327
E + ++ +IF T++ D +T ++ + ++HGD +Q ERD ++ EFRSG
Sbjct: 249 Y----ETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGS 304
Query: 328 SPIMTATDVAARGL 341
S ++ TD+ ARG+
Sbjct: 305 SRVLITTDLLARGI 318
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 168 bits (426), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 99/314 (31%), Positives = 167/314 (53%), Gaps = 12/314 (3%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F + N + L I GF +P+ IQ + +KG D+I A++G+GKT ++ +
Sbjct: 42 FDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQ 101
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
+ + Q LVLAPTRELA QIQ+ + G G GG +++ L+
Sbjct: 102 IELDLKATQA-----LVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQ 156
Query: 149 -RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQ 207
I++ TPGR+ DML ++ + + + VLDEAD ML GF+ QI I ++ + Q
Sbjct: 157 MEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQ 216
Query: 208 TLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRL 267
+ SAT P +V + ++F+R+P ++++ EL + I Q + E E++ +C L
Sbjct: 217 VVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTL-EGIRQFY-INVEREEWKLDTLCDL 274
Query: 268 IKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGR 327
E + ++ +IF T++ D +T ++ + ++HGD +Q ERD ++ EFRSG
Sbjct: 275 Y----ETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGS 330
Query: 328 SPIMTATDVAARGL 341
S ++ TD+ ARG+
Sbjct: 331 SRVLITTDLLARGI 344
>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 = 163 bits (413), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 100/313 (31%), Positives = 167/313 (53%), Gaps = 12/313 (3%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F + + L + GF EP+ IQ + ++G D++ A++G+GKT ++ + A
Sbjct: 24 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 83
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
+ + P L+LAPTRELA+QIQ+ + I+ GG LR
Sbjct: 84 IDTSVK-----APQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR 138
Query: 149 RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQT 208
+IV+ TPGR+ D ++ + ++ +LDEAD ML GF+ QI +I T + P Q
Sbjct: 139 DA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 197
Query: 209 LYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRLI 268
+ SAT P +V + +F+RNP ++++ EL + I Q V E E+Y + C +
Sbjct: 198 VLLSATMPNDVLEVTTKFMRNPVRILVKKDELTL-EGIKQFY-VNVEEEEYK--YEC--L 251
Query: 269 KLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRS 328
L + + ++ +IF T++ +++T +LR D + +I+ D Q ERD ++ EFRSG S
Sbjct: 252 TDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSS 311
Query: 329 PIMTATDVAARGL 341
I+ +TD+ ARG+
Sbjct: 312 RILISTDLLARGI 324
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 156 bits (394), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 99/313 (31%), Positives = 162/313 (51%), Gaps = 12/313 (3%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F + + L + GF EP+ IQ + ++G D++ A++G+GKT ++ + A
Sbjct: 23 FDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
+ + P L LAPTRELA+QIQ+ I+ GG LR
Sbjct: 83 IDTSVK-----APQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGLR 137
Query: 149 RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQT 208
+IV+ TPGR+ D ++ + ++ +LDEAD L GF+ QI +I T + P Q
Sbjct: 138 DA-QIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQV 196
Query: 209 LYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRLI 268
+ SAT P +V + +F RNP ++++ EL + I Q V E E+Y + C +
Sbjct: 197 VLLSATXPNDVLEVTTKFXRNPVRILVKKDELTL-EGIKQFY-VNVEEEEYK--YEC--L 250
Query: 269 KLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRS 328
L + + ++ +IF T++ +++T +LR D + +I+ D Q ERD + EFRSG S
Sbjct: 251 TDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSS 310
Query: 329 PIMTATDVAARGL 341
I+ +TD+ ARG+
Sbjct: 311 RILISTDLLARGI 323
>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 = 153 bits (387), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 85/202 (42%), Positives = 117/202 (57%), Gaps = 4/202 (1%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F++ LE + G PTPIQA P+AL+G+DLIG A TG+GKTL++ LP
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
++ P +G P LVL PTRELA+Q+ E ++ +YGG G Q L
Sbjct: 63 LA--PSQERGRKPRALVLTPTRELALQVASELTAVAPH--LKVVAVYGGTGYGKQKEALL 118
Query: 149 RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQT 208
RG + V+ATPGR +D L +L RV VLDEAD ML MGFE ++ +++ P RQT
Sbjct: 119 RGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQT 178
Query: 209 LYWSATWPREVETLARQFLRNP 230
L +SAT P + LA ++++NP
Sbjct: 179 LLFSATLPSWAKRLAERYMKNP 200
>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 = 152 bits (384), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 84/202 (41%), Positives = 117/202 (57%), Gaps = 4/202 (1%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F++ LE + G PTPI+A P+AL+G+DLIG A TG+GKTL++ LP
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
++ P +G P LVL PTRELA+Q+ E ++ +YGG G Q L
Sbjct: 63 LA--PSQERGRKPRALVLTPTRELALQVASELTAVAPH--LKVVAVYGGTGYGKQKEALL 118
Query: 149 RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQT 208
RG + V+ATPGR +D L +L RV VLDEAD ML MGFE ++ +++ P RQT
Sbjct: 119 RGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQT 178
Query: 209 LYWSATWPREVETLARQFLRNP 230
L +SAT P + LA ++++NP
Sbjct: 179 LLFSATLPSWAKRLAERYMKNP 200
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 148 bits (374), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 87/301 (28%), Positives = 152/301 (50%), Gaps = 15/301 (4%)
Query: 42 IAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGP 101
I + GF +P+PIQ + P+A+ GRD++ A+ G+GKT ++++P V + +Q
Sbjct: 36 IFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKVKPKLNKIQA--- 92
Query: 102 IVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRL 161
L++ PTRELA+Q + G GI GG I L V I++ TPGR+
Sbjct: 93 --LIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETVHILVGTPGRV 150
Query: 162 IDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQTLYWSATWPREVET 221
+D+ + +L + ++DEAD+ML F+ I +I++ + P Q+L +SAT+P V+
Sbjct: 151 LDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSATFPLTVKE 210
Query: 222 LARQFLRNPYKV-IIGSLELKANQSINQVVEVVTEAEKYNSMFICRLIKLLKEVMDGSRI 280
+ L PY++ ++ L LK I Q V E +K + + L + ++
Sbjct: 211 FMVKHLHKPYEINLMEELTLKG---ITQYYAFVEERQKLHCL------NTLFSKLQINQA 261
Query: 281 LIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARG 340
+IF + + + +++ G+ H Q ER+ V EFR G+ + +D+ RG
Sbjct: 262 IIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRG 321
Query: 341 L 341
+
Sbjct: 322 I 322
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 133 bits (335), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 78/208 (37%), Positives = 125/208 (60%), Gaps = 9/208 (4%)
Query: 29 FQEANFPDYC-------LEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSY 81
F++ +F C L+ I ++GF T IQ + L+GRDL+ A+TGSGKTL++
Sbjct: 49 FEDTSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAF 108
Query: 82 LLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKG 141
L+PA V + + R + G VL+L+PTRELA+Q + + I GG+ +
Sbjct: 109 LIPA-VELIVKLRFMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRS 167
Query: 142 PQIRDLRRGVEIVIATPGRLIDMLEAQHTNL-RRVTYLVLDEADRMLDMGFEPQIRKIVT 200
+ + L G+ I++ATPGRL+D ++ + + + LV+DEADR+LD+GFE ++++I+
Sbjct: 168 AEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIK 227
Query: 201 QIRPDRQTLYWSATWPREVETLARQFLR 228
+ RQT+ +SAT R+VE LAR L+
Sbjct: 228 LLPTRRQTMLFSATQTRKVEDLARISLK 255
>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 = 127 bits (318), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 96/328 (29%), Positives = 163/328 (49%), Gaps = 30/328 (9%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKG--RDLIGIAETGSGKTLSYLLPAF 86
F E L+ I + F +P+ IQ + P+ L R++I +++G+GKT ++ L
Sbjct: 7 FDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML 66
Query: 87 VHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGA-PKGPQIR 145
V+ + P + LAP+RELA Q E + G I S I + K QI
Sbjct: 67 TRVNPE-----DASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQI- 120
Query: 146 DLRRGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDM-GFEPQIRKIVTQIRP 204
++++ TPG ++D++ + L+++ VLDEAD MLD G Q ++ +
Sbjct: 121 ----NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPK 176
Query: 205 DRQTLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQ----SINQV-VEVVTEAEKY 259
D Q + +SAT+ V A++ + N +LEL+ N+ +I Q+ ++ EA+K+
Sbjct: 177 DTQLVLFSATFADAVRQYAKKIVPNA-----NTLELQTNEVNVDAIKQLYMDCKNEADKF 231
Query: 260 NSMFICRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWV 319
+ ++ L VM +IF TKK + + +L+ +G +HGD ERD +
Sbjct: 232 D------VLTELYGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRL 285
Query: 320 LAEFRSGRSPIMTATDVAARGLGRITVC 347
+ +FR GRS ++ T+V ARG+ TV
Sbjct: 286 IDDFREGRSKVLITTNVLARGIDIPTVS 313
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 127 bits (318), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 98/328 (29%), Positives = 164/328 (50%), Gaps = 30/328 (9%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKG--RDLIGIAETGSGKTLSYLLPAF 86
F E L+ I + F +P+ IQ + P+ L R++I +++G+GKT ++ L
Sbjct: 7 FDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML 66
Query: 87 VHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGA-PKGPQIR 145
V+ + P + LAP+RELA Q E + G I S I + K QI
Sbjct: 67 TRVNPE-----DASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQI- 120
Query: 146 DLRRGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDM-GFEPQIRKIVTQIRP 204
++++ TPG ++D++ + L+++ VLDEAD MLD G Q ++ +
Sbjct: 121 ----NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPK 176
Query: 205 DRQTLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQ----SINQV-VEVVTEAEKY 259
D Q + +SAT+ V A++ + N +LEL+ N+ +I Q+ ++ EA+K+
Sbjct: 177 DTQLVLFSATFADAVRQYAKKIVPNA-----NTLELQTNEVNVDAIKQLYMDCKNEADKF 231
Query: 260 NSMFICRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWV 319
+ L +L + GS I IF TKK + + +L+ +G +HGD ERD +
Sbjct: 232 DV-----LTELYGLMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRL 285
Query: 320 LAEFRSGRSPIMTATDVAARGLGRITVC 347
+ +FR GRS ++ T+V ARG+ TV
Sbjct: 286 IDDFREGRSKVLITTNVLARGIDIPTVS 313
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 125 bits (314), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 100/325 (30%), Positives = 169/325 (52%), Gaps = 26/325 (8%)
Query: 40 EVIAKLGFVEPTPIQAQGWP--MALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQ 97
+ I ++ F TP+Q + ++ + D+I A+TG+GKT ++L+P F H+ Q
Sbjct: 34 KAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 93
Query: 98 GEGPIVLVLAPTRELAVQIQEEALKFGS-RAGIRS-TCI--YGGAPKGPQIRDLRR-GVE 152
V+V APTR+LA+QI+ E K G++ C+ GG + + +
Sbjct: 94 YMVKAVIV-APTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPN 152
Query: 153 IVIATPGRLIDMLEAQHTN--LRRVTYLVLDEADRMLDMGFEPQIRKIV-------TQIR 203
IVIATPGRLID+LE +++N R V Y VLDEADR+L++GF + I ++
Sbjct: 153 IVIATPGRLIDVLE-KYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSA 211
Query: 204 PDRQTLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKY-NSM 262
+ +TL +SAT +V+ LA + + + +++ ++ ++ + V +EK+ NS+
Sbjct: 212 DNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSI 271
Query: 263 F--ICRLIKLLKEVMDGSRILIFTETKKG----CDQVTRQLRMDGWPALSIHGDKNQSER 316
F + + K +KE + +IF T K C + + + D P L HG Q++R
Sbjct: 272 FAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKITQNKR 330
Query: 317 DWVLAEFRSGRSPIMTATDVAARGL 341
++ F+ S I+ TDV ARG+
Sbjct: 331 TSLVKRFKKDESGILVCTDVGARGM 355
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 125 bits (314), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 91/302 (30%), Positives = 150/302 (49%), Gaps = 28/302 (9%)
Query: 40 EVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGE 99
+ I ++GF T +Q++ P+ L+G++++ A+TGSGKT +Y +P +
Sbjct: 7 QAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIP-----------ILEL 55
Query: 100 GPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPG 159
G LV+ PTREL Q+ G + +YGG P QI +R +IV+ATPG
Sbjct: 56 GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNA-DIVVATPG 114
Query: 160 RLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQTLYWSATWPREV 219
RL+D+ +L +++DEAD M +MGF I+ I+ Q + T +SAT P E+
Sbjct: 115 RLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEEI 174
Query: 220 ETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRLIKLLKEVMDGSR 279
+ + F+ N Y+ I + L N + V + + S ++ L+E D
Sbjct: 175 RKVVKDFITN-YEEIEACIGLA-----NVEHKFVHVKDDWRSK-----VQALRENKDKG- 222
Query: 280 ILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAAR 339
+++F T+ ++ R A+ + GD QS R+ + FR G ++ TDVA+R
Sbjct: 223 VIVFVRTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASR 278
Query: 340 GL 341
GL
Sbjct: 279 GL 280
>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 = 125 bits (314), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 100/325 (30%), Positives = 169/325 (52%), Gaps = 26/325 (8%)
Query: 40 EVIAKLGFVEPTPIQAQGWP--MALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQ 97
+ I ++ F TP+Q + ++ + D+I A+TG+GKT ++L+P F H+ Q
Sbjct: 85 KAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 144
Query: 98 GEGPIVLVLAPTRELAVQIQEEALKFGS-RAGIRS-TCI--YGGAPKGPQIRDLRR-GVE 152
V+V APTR+LA+QI+ E K G++ C+ GG + + +
Sbjct: 145 YMVKAVIV-APTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPN 203
Query: 153 IVIATPGRLIDMLEAQHTN--LRRVTYLVLDEADRMLDMGFEPQIRKIV-------TQIR 203
IVIATPGRLID+LE +++N R V Y VLDEADR+L++GF + I ++
Sbjct: 204 IVIATPGRLIDVLE-KYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSA 262
Query: 204 PDRQTLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKY-NSM 262
+ +TL +SAT +V+ LA + + + +++ ++ ++ + V +EK+ NS+
Sbjct: 263 DNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSI 322
Query: 263 F--ICRLIKLLKEVMDGSRILIFTETKKG----CDQVTRQLRMDGWPALSIHGDKNQSER 316
F + + K +KE + +IF T K C + + + D P L HG Q++R
Sbjct: 323 FAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKITQNKR 381
Query: 317 DWVLAEFRSGRSPIMTATDVAARGL 341
++ F+ S I+ TDV ARG+
Sbjct: 382 TSLVKRFKKDESGILVCTDVGARGM 406
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 125 bits (314), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 100/325 (30%), Positives = 169/325 (52%), Gaps = 26/325 (8%)
Query: 40 EVIAKLGFVEPTPIQAQGWP--MALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQ 97
+ I ++ F TP+Q + ++ + D+I A+TG+GKT ++L+P F H+ Q
Sbjct: 34 KAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 93
Query: 98 GEGPIVLVLAPTRELAVQIQEEALKFGS-RAGIRS-TCI--YGGAPKGPQIRDLRR-GVE 152
V+V APTR+LA+QI+ E K G++ C+ GG + + +
Sbjct: 94 YMVKAVIV-APTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPN 152
Query: 153 IVIATPGRLIDMLEAQHTN--LRRVTYLVLDEADRMLDMGFEPQIRKIV-------TQIR 203
IVIATPGRLID+LE +++N R V Y VLDEADR+L++GF + I ++
Sbjct: 153 IVIATPGRLIDVLE-KYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSA 211
Query: 204 PDRQTLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKY-NSM 262
+ +TL +SAT +V+ LA + + + +++ ++ ++ + V +EK+ NS+
Sbjct: 212 DNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSI 271
Query: 263 F--ICRLIKLLKEVMDGSRILIFTETKKG----CDQVTRQLRMDGWPALSIHGDKNQSER 316
F + + K +KE + +IF T K C + + + D P L HG Q++R
Sbjct: 272 FAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKITQNKR 330
Query: 317 DWVLAEFRSGRSPIMTATDVAARGL 341
++ F+ S I+ TDV ARG+
Sbjct: 331 TSLVKRFKKDESGILVCTDVGARGM 355
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 125 bits (314), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 81/306 (26%), Positives = 155/306 (50%), Gaps = 14/306 (4%)
Query: 39 LEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQG 98
L I GF P+ +Q + P A+ G D++ A++G GKT ++L Q V G
Sbjct: 19 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL----QQLEPVTG 74
Query: 99 EGPIVLVLAPTRELAVQIQEEALKFGSRA-GIRSTCIYGGAPKGPQIRDLRRGV-EIVIA 156
+ VLV+ TRELA QI +E +F ++ +GG L++ IV+
Sbjct: 75 QVS-VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVG 133
Query: 157 TPGRLIDMLEAQHTNLRRVTYLVLDEADRMLD-MGFEPQIRKIVTQIRPDRQTLYWSATW 215
TPGR++ + + NL+ + + +LDEAD+ML+ + +++I ++Q + +SAT
Sbjct: 134 TPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATL 193
Query: 216 PREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRLIKLLKEVM 275
+E+ + R+F+++P ++ + + Q + + EK +F L +V+
Sbjct: 194 SKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFD------LLDVL 247
Query: 276 DGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATD 335
+ ++++IF ++ + C + + L +PA++IH Q ER +F+ + I+ AT+
Sbjct: 248 EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATN 307
Query: 336 VAARGL 341
+ RG+
Sbjct: 308 LFGRGM 313
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 124 bits (312), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 88/294 (29%), Positives = 149/294 (50%), Gaps = 22/294 (7%)
Query: 53 IQAQGWPMALKG--RDLIGIAETGSGKTLSYLLPAFVHVSAQ-PRLVQGEGPIVLVLAPT 109
IQ + P+ L R++IG +++G+GKT ++ L V A P+ P + LAP+
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPK------PQAICLAPS 198
Query: 110 RELAVQIQEEALKFGSRAGIRSTC-IYGGAPKGPQIRDLRRGVEIVIATPGRLIDMLEAQ 168
RELA QI + + G +++ I PKG +I +IVI TPG ++D+++ +
Sbjct: 199 RELARQIMDVVTEMGKYTEVKTAFGIKDSVPKGAKI-----DAQIVIGTPGTVMDLMKRR 253
Query: 169 HTNLRRVTYLVLDEADRMLDM-GFEPQIRKIVTQIRPDRQTLYWSATWPREVETLARQFL 227
+ R + VLDEAD MLD G Q +I + + Q + +SAT+ VE A +F
Sbjct: 254 QLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFA 313
Query: 228 RNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRLIKLLKEVMDGSRILIFTETK 287
N ++ + + EL ++ +E KYN L++L + G I IF + K
Sbjct: 314 PNANEIRLKTEELSVEGIKQLYMDCQSEEHKYNV-----LVELYGLLTIGQSI-IFCKKK 367
Query: 288 KGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 341
+++ R++ DG + G+ ++RD ++ FR G S ++ T+V ARG+
Sbjct: 368 DTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGI 421
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 124 bits (310), Expect = 9e-29, Method: Compositional matrix adjust.
Identities = 80/306 (26%), Positives = 154/306 (50%), Gaps = 14/306 (4%)
Query: 39 LEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQG 98
L I GF P+ +Q + P A+ G D++ A++G GKT ++L Q V G
Sbjct: 20 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL----QQLEPVTG 75
Query: 99 EGPIVLVLAPTRELAVQIQEEALKFGSRA-GIRSTCIYGGAPKGPQIRDLRRGV-EIVIA 156
+ VLV+ TRELA QI +E +F ++ +GG L++ IV+
Sbjct: 76 QVS-VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVG 134
Query: 157 TPGRLIDMLEAQHTNLRRVTYLVLDEADRMLD-MGFEPQIRKIVTQIRPDRQTLYWSATW 215
TPGR++ + + NL+ + + +LDE D+ML+ + +++I ++Q + +SAT
Sbjct: 135 TPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATL 194
Query: 216 PREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRLIKLLKEVM 275
+E+ + R+F+++P ++ + + Q + + EK +F L +V+
Sbjct: 195 SKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFD------LLDVL 248
Query: 276 DGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATD 335
+ ++++IF ++ + C + + L +PA++IH Q ER +F+ + I+ AT+
Sbjct: 249 EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATN 308
Query: 336 VAARGL 341
+ RG+
Sbjct: 309 LFGRGM 314
>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 = 124 bits (310), Expect = 9e-29, Method: Compositional matrix adjust.
Identities = 68/206 (33%), Positives = 113/206 (54%), Gaps = 11/206 (5%)
Query: 34 FPDYCLEV-----IAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F DYCL+ I ++G+ +P+PIQ + P+AL GRD++ A+ G+GK+ +YL+P
Sbjct: 5 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLER 64
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSR-AGIRSTCIYGGAPKGPQIRDL 147
+ + +Q +V+ PTRELA+Q+ + ++ G + GG I L
Sbjct: 65 LDLKKDNIQA-----MVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRL 119
Query: 148 RRGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQ 207
V +VIATPGR++D+++ + V +VLDEAD++L F + I+ + +RQ
Sbjct: 120 DDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQ 179
Query: 208 TLYWSATWPREVETLARQFLRNPYKV 233
L +SAT+P V+ L PY++
Sbjct: 180 ILLYSATFPLSVQKFMNSHLEKPYEI 205
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 124 bits (310), Expect = 9e-29, Method: Compositional matrix adjust.
Identities = 80/306 (26%), Positives = 154/306 (50%), Gaps = 14/306 (4%)
Query: 39 LEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQG 98
L I GF P+ +Q + P A+ G D++ A++G GKT ++L Q V G
Sbjct: 20 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL----QQLEPVTG 75
Query: 99 EGPIVLVLAPTRELAVQIQEEALKFGSRA-GIRSTCIYGGAPKGPQIRDLRRGV-EIVIA 156
+ VLV+ TRELA QI +E +F ++ +GG L++ IV+
Sbjct: 76 QVS-VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVG 134
Query: 157 TPGRLIDMLEAQHTNLRRVTYLVLDEADRMLD-MGFEPQIRKIVTQIRPDRQTLYWSATW 215
TPGR++ + + NL+ + + +LDE D+ML+ + +++I ++Q + +SAT
Sbjct: 135 TPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATL 194
Query: 216 PREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRLIKLLKEVM 275
+E+ + R+F+++P ++ + + Q + + EK +F L +V+
Sbjct: 195 SKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFD------LLDVL 248
Query: 276 DGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATD 335
+ ++++IF ++ + C + + L +PA++IH Q ER +F+ + I+ AT+
Sbjct: 249 EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATN 308
Query: 336 VAARGL 341
+ RG+
Sbjct: 309 LFGRGM 314
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 119 bits (297), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 69/208 (33%), Positives = 112/208 (53%), Gaps = 6/208 (2%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F + N + L I GF +P+ IQ + +KG D+I A++G+GKT ++ +
Sbjct: 32 FDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQ 91
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
+ + + Q LVLAPTRELA QIQ+ L G G GG +++ L+
Sbjct: 92 LEIEFKETQA-----LVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQ 146
Query: 149 -RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQ 207
IV+ TPGR+ DML ++ + + + VLDEAD ML GF+ QI +I ++ Q
Sbjct: 147 AEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQ 206
Query: 208 TLYWSATWPREVETLARQFLRNPYKVII 235
+ SAT P +V + ++F+R+P ++++
Sbjct: 207 VVLLSATMPTDVLEVTKKFMRDPIRILV 234
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 119 bits (297), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 84/234 (35%), Positives = 123/234 (52%), Gaps = 30/234 (12%)
Query: 17 VEGHDVPRPIRIFQEAN------FPDYCLEVIAKLGFVEP-----TPIQAQGWPMALKGR 65
VE + R ++ +++ N F D+ L G E T IQ Q +AL+G+
Sbjct: 4 VERESISRLMQNYEKINVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGK 63
Query: 66 DLIGIAETGSGKTLSYLLPAFVHVSAQPRL--VQGEGPIVLVLAPTRELAVQIQEEALKF 123
D++G A+TGSGKTL++L+P + A RL +G VL+++PTRELA Q E K
Sbjct: 64 DVLGAAKTGSGKTLAFLVPV---LEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKV 120
Query: 124 GSRAGIRSTCIYGGAPKGPQIRDLRR------GVEIVIATPGRLI-DMLEAQHTNLRRVT 176
G + I GG +DL+ + I++ TPGRL+ M E + +
Sbjct: 121 GKNHDFSAGLIIGG-------KDLKHEAERINNINILVCTPGRLLQHMDETVSFHATDLQ 173
Query: 177 YLVLDEADRMLDMGFEPQIRKIVTQIRPDRQTLYWSATWPREVETLARQFLRNP 230
LVLDEADR+LDMGF + ++ + RQTL +SAT + V+ LAR L+NP
Sbjct: 174 MLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNP 227
>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 = 118 bits (296), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 73/206 (35%), Positives = 105/206 (50%), Gaps = 9/206 (4%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F F + +E I L F +PT IQ + P AL+G +G ++TG+GKT +YLLP
Sbjct: 6 FTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEK 65
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRA----GIRSTCIYGGAPKGPQI 144
+ + VQ ++ APTRELA QI E LK I + C+ GG K +
Sbjct: 66 IKPERAEVQA-----VITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKAL 120
Query: 145 RDLRRGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRP 204
L IVI TPGR+ D + Q ++ LV+DEAD LD GF + +I +
Sbjct: 121 EKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPK 180
Query: 205 DRQTLYWSATWPREVETLARQFLRNP 230
D Q L +SAT P +++ +++ NP
Sbjct: 181 DLQXLVFSATIPEKLKPFLKKYXENP 206
>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 = 117 bits (294), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 67/212 (31%), Positives = 110/212 (51%), Gaps = 6/212 (2%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F + + L + GF EP+ IQ + ++G D++ A++G+GKT ++ + A
Sbjct: 16 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 75
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
+ + P L+LAPTRELA+QIQ+ + I+ GG LR
Sbjct: 76 IDTSVK-----APQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR 130
Query: 149 RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQT 208
+IV+ TPGR+ D ++ + ++ +LDEAD ML GF+ QI +I T + P Q
Sbjct: 131 DA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 189
Query: 209 LYWSATWPREVETLARQFLRNPYKVIIGSLEL 240
+ SAT P +V + +F+RNP ++++ EL
Sbjct: 190 VLLSATMPNDVLEVTTKFMRNPVRILVKKDEL 221
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 116 bits (290), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 65/207 (31%), Positives = 108/207 (52%), Gaps = 6/207 (2%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F + + L + GF EP+ IQ + ++G D++ A++G+GKT ++ + A
Sbjct: 23 FDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
+ + P L+LAPTRELA+QIQ+ + I+ GG LR
Sbjct: 83 IDTSVK-----APQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR 137
Query: 149 RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQT 208
+IV+ TPGR+ D ++ + ++ +LDEAD ML GF+ QI +I T + P Q
Sbjct: 138 DA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 196
Query: 209 LYWSATWPREVETLARQFLRNPYKVII 235
+ SAT P +V + +F+RNP ++++
Sbjct: 197 VLLSATMPNDVLEVTTKFMRNPVRILV 223
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 115 bits (289), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 83/247 (33%), Positives = 126/247 (51%), Gaps = 21/247 (8%)
Query: 5 EVKMYRARREITVEGHDVPRPIRIFQ----EANFPDYCLEVIAKLGFVEPTPIQAQGWPM 60
++ R + +I V+G D+P PI FQ E L+ I GF PTPIQ Q P+
Sbjct: 3 KINFLRNKHKIHVQGTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPV 62
Query: 61 ALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEA 120
L GR+L+ A TGSGKTL++ +P + + QP +G L+++PTRELA QI E
Sbjct: 63 MLHGRELLASAPTGSGKTLAFSIPILMQLK-QP---ANKGFRALIISPTRELASQIHREL 118
Query: 121 LKFGSRAGIRSTCIYGGAPK----GPQIRDLRRGVEIVIATPGRLIDMLEAQ--HTNLRR 174
+K G R I+ A GP+ + +I++ TP RLI +L+ +L
Sbjct: 119 IKISEGTGFRIHMIHKAAVAAKKFGPKS---SKKFDILVTTPNRLIYLLKQDPPGIDLAS 175
Query: 175 VTYLVLDEADRMLD---MGFEPQIRKIVTQIRPDR-QTLYWSATWPREVETLARQFLRNP 230
V +LV+DE+D++ + GF Q+ I + + +SAT+ +VE + L N
Sbjct: 176 VEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNV 235
Query: 231 YKVIIGS 237
V IG+
Sbjct: 236 ISVSIGA 242
>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 = 110 bits (275), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 65/208 (31%), Positives = 101/208 (48%), Gaps = 6/208 (2%)
Query: 29 FQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVH 88
F + N + L I GF P+ IQ + + G D+I A++G+G T ++ +
Sbjct: 17 FDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQ 76
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLR 148
+ Q LVLAPTRELA QIQ + G G GG +++ L+
Sbjct: 77 IELDLXATQA-----LVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQXLQ 131
Query: 149 -RGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQ 207
I++ TPGR+ DML ++ + + VLDEAD ML GF QI I + + Q
Sbjct: 132 MEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQ 191
Query: 208 TLYWSATWPREVETLARQFLRNPYKVII 235
+ SAT P +V + F+R+P ++++
Sbjct: 192 VVLLSATMPSDVLEVTXXFMRDPIRILV 219
>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 = 99.8 bits (247), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 62/225 (27%), Positives = 113/225 (50%), Gaps = 13/225 (5%)
Query: 19 GHDVPRPIRIFQEANFPDYCLE-----VIAKLGFVEPTPIQAQGWPMALKGRDLIGIAET 73
G DV + F D+ L+ I GF P+ +Q + P A+ G D++ A++
Sbjct: 1 GSDVKGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKS 60
Query: 74 GSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRA-GIRST 132
G GKT ++L Q V G+ VLV+ TRELA QI +E +F ++
Sbjct: 61 GMGKTAVFVLATL----QQLEPVTGQVS-VLVMCHTRELAFQISKEYERFSKYMPNVKVA 115
Query: 133 CIYGGAPKGPQIRDLRRGV-EIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLD-MG 190
+GG L++ IV+ TPGR++ + + NL+ + + +LDE D+ML+ +
Sbjct: 116 VFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLD 175
Query: 191 FEPQIRKIVTQIRPDRQTLYWSATWPREVETLARQFLRNPYKVII 235
+++I ++Q + +SAT +E+ + R+F+++P ++ +
Sbjct: 176 MRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFV 220
>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 = 98.6 bits (244), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 62/201 (30%), Positives = 104/201 (51%), Gaps = 8/201 (3%)
Query: 39 LEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQG 98
LE + GF P+P+Q + P+ G DLI A++G+GKT F ++ +++
Sbjct: 36 LEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTC-----VFSTIALDSLVLEN 90
Query: 99 EGPIVLVLAPTRELAVQIQEEALKFGSRA-GIRSTCIYGGAPKGPQIRDLRRGVEIVIAT 157
+L+LAPTRE+AVQI G + G+ GG P L++ I + +
Sbjct: 91 LSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKK-CHIAVGS 149
Query: 158 PGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMG-FEPQIRKIVTQIRPDRQTLYWSATWP 216
PGR+ ++E + N + +LDEAD++L+ G F+ QI I + + +Q L SAT+P
Sbjct: 150 PGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVSATYP 209
Query: 217 REVETLARQFLRNPYKVIIGS 237
+ +++R+P V + S
Sbjct: 210 EFLANALTKYMRDPTFVRLNS 230
>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 = 91.3 bits (225), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 80/323 (24%), Positives = 150/323 (46%), Gaps = 23/323 (7%)
Query: 26 IRIFQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKG--RDLIGIAETGSGKTLSYLL 83
++ F+E L+ + +GF P+ IQ P+ L ++LI +++G+GKT +++L
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 84 PAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQ---IQEEALKFGSRAGIRSTCIYGGAPK 140
V + P L L+PT ELA+Q + E+ KF + +
Sbjct: 84 AMLSQVEPANKY-----PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLER 138
Query: 141 GPQIRDLRRGVEIVIATPGRLIDML-EAQHTNLRRVTYLVLDEADRML-DMGFEPQIRKI 198
G +I + +IVI TPG ++D + + + +++ VLDEAD M+ G + Q +I
Sbjct: 139 GQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 193
Query: 199 VTQIRPDRQTLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEK 258
+ + Q L +SAT+ V A++ + +P + + E + V + EK
Sbjct: 194 QRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEK 253
Query: 259 YNSMFICRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDW 318
+ ++ C L + ++ +IF T+K + +L +G + G+ +R
Sbjct: 254 FQAL--CNLYG----AITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAA 307
Query: 319 VLAEFRSGRSPIMTATDVAARGL 341
V+ FR G+ ++ T+V ARG+
Sbjct: 308 VIERFREGKEKVLVTTNVCARGI 330
>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 = 91.3 bits (225), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 80/323 (24%), Positives = 150/323 (46%), Gaps = 23/323 (7%)
Query: 26 IRIFQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKG--RDLIGIAETGSGKTLSYLL 83
++ F+E L+ + +GF P+ IQ P+ L ++LI +++G+GKT +++L
Sbjct: 61 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 120
Query: 84 PAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQ---IQEEALKFGSRAGIRSTCIYGGAPK 140
V + P L L+PT ELA+Q + E+ KF + +
Sbjct: 121 AMLSQVEPANKY-----PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLER 175
Query: 141 GPQIRDLRRGVEIVIATPGRLIDML-EAQHTNLRRVTYLVLDEADRML-DMGFEPQIRKI 198
G +I + +IVI TPG ++D + + + +++ VLDEAD M+ G + Q +I
Sbjct: 176 GQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 230
Query: 199 VTQIRPDRQTLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEK 258
+ + Q L +SAT+ V A++ + +P + + E + V + EK
Sbjct: 231 QRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEK 290
Query: 259 YNSMFICRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDW 318
+ ++ C L + ++ +IF T+K + +L +G + G+ +R
Sbjct: 291 FQAL--CNLYG----AITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAA 344
Query: 319 VLAEFRSGRSPIMTATDVAARGL 341
V+ FR G+ ++ T+V ARG+
Sbjct: 345 VIERFREGKEKVLVTTNVCARGI 367
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 90.9 bits (224), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 80/323 (24%), Positives = 150/323 (46%), Gaps = 23/323 (7%)
Query: 26 IRIFQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKG--RDLIGIAETGSGKTLSYLL 83
++ F+E L+ + +GF P+ IQ P+ L ++LI +++G+GKT +++L
Sbjct: 40 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 99
Query: 84 PAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQ---IQEEALKFGSRAGIRSTCIYGGAPK 140
V + P L L+PT ELA+Q + E+ KF + +
Sbjct: 100 AMLSQVEPANKY-----PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLER 154
Query: 141 GPQIRDLRRGVEIVIATPGRLIDML-EAQHTNLRRVTYLVLDEADRML-DMGFEPQIRKI 198
G +I + +IVI TPG ++D + + + +++ VLDEAD M+ G + Q +I
Sbjct: 155 GQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 209
Query: 199 VTQIRPDRQTLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEK 258
+ + Q L +SAT+ V A++ + +P + + E + V + EK
Sbjct: 210 QRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEK 269
Query: 259 YNSMFICRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDW 318
+ ++ C L + ++ +IF T+K + +L +G + G+ +R
Sbjct: 270 FQAL--CNLYG----AITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAA 323
Query: 319 VLAEFRSGRSPIMTATDVAARGL 341
V+ FR G+ ++ T+V ARG+
Sbjct: 324 VIERFREGKEKVLVTTNVCARGI 346
>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 = 90.5 bits (223), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 80/323 (24%), Positives = 149/323 (46%), Gaps = 23/323 (7%)
Query: 26 IRIFQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKG--RDLIGIAETGSGKTLSYLL 83
++ F+E L+ + +GF P+ IQ P+ L ++LI +++G+GKT +++L
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 84 PAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQ---IQEEALKFGSRAGIRSTCIYGGAPK 140
V + P L L+PT ELA+Q + E+ KF + +
Sbjct: 151 AMLSQVEPANKY-----PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLER 205
Query: 141 GPQIRDLRRGVEIVIATPGRLIDMLEA-QHTNLRRVTYLVLDEADRML-DMGFEPQIRKI 198
G +I + +IVI TPG ++D + + +++ VLDEAD M+ G + Q +I
Sbjct: 206 GQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 260
Query: 199 VTQIRPDRQTLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEK 258
+ + Q L +SAT+ V A++ + +P + + E + V + EK
Sbjct: 261 QRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEK 320
Query: 259 YNSMFICRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDW 318
+ ++ C L + ++ +IF T+K + +L +G + G+ +R
Sbjct: 321 FQAL--CNLYG----AITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAA 374
Query: 319 VLAEFRSGRSPIMTATDVAARGL 341
V+ FR G+ ++ T+V ARG+
Sbjct: 375 VIERFREGKEKVLVTTNVCARGI 397
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 82.0 bits (201), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 59/207 (28%), Positives = 101/207 (48%), Gaps = 14/207 (6%)
Query: 27 RIFQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKG--RDLIGIAETGSGKTLSYLLP 84
+ F E L+ I + F +P+ IQ + P+ L R++I +++G+GKT ++ L
Sbjct: 22 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 81
Query: 85 AFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGA-PKGPQ 143
V+ + P + LAP+RELA Q E + G I S I + K Q
Sbjct: 82 MLTRVNPE-----DASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQ 136
Query: 144 IRDLRRGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLD-MGFEPQIRKIVTQI 202
I ++++ TPG ++D++ + L+++ VLDEAD MLD G Q ++ +
Sbjct: 137 I-----NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFL 191
Query: 203 RPDRQTLYWSATWPREVETLARQFLRN 229
D Q + +SAT+ V A++ + N
Sbjct: 192 PKDTQLVLFSATFADAVRQYAKKIVPN 218
>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 = 76.6 bits (187), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 43/99 (43%), Positives = 60/99 (60%), Gaps = 5/99 (5%)
Query: 243 NQSINQVVEVVTEAEKYNSMFICRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGW 302
+++I Q V V E++K L+ LL S L+F ETKKG D + L +G+
Sbjct: 17 SENITQKVVWVEESDKR-----SFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGY 71
Query: 303 PALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 341
SIHGD++Q +R+ L +FRSG+SPI+ AT VAARGL
Sbjct: 72 ACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGL 110
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 57/212 (26%), Positives = 103/212 (48%), Gaps = 17/212 (8%)
Query: 26 IRIFQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALK--GRDLIGIAETGSGKTLSYLL 83
++ F+E L+ + +GF P+ IQ P+ L ++LI +++G+GKT +++L
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 84 PAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQ---IQEEALKFGSRAGIRSTCIYGGAPK 140
V + P L L+PT ELA+Q + E+ KF + +
Sbjct: 84 AMLSQVEPANKY-----PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLER 138
Query: 141 GPQIRDLRRGVEIVIATPGRLIDML-EAQHTNLRRVTYLVLDEADRML-DMGFEPQIRKI 198
G +I + +IVI TPG ++D + + + +++ VLDEAD M+ G + Q +I
Sbjct: 139 GQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 193
Query: 199 VTQIRPDRQTLYWSATWPREVETLARQFLRNP 230
+ + Q L +SAT+ V A++ + +P
Sbjct: 194 QRMLPRNCQMLLFSATFEDSVWKFAQKVVPDP 225
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 57/212 (26%), Positives = 103/212 (48%), Gaps = 17/212 (8%)
Query: 26 IRIFQEANFPDYCLEVIAKLGFVEPTPIQAQGWPMALKG--RDLIGIAETGSGKTLSYLL 83
++ F+E L+ + +GF P+ IQ P+ L ++LI +++G+GKT +++L
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 84 PAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQ---IQEEALKFGSRAGIRSTCIYGGAPK 140
V + P L L+PT ELA+Q + E+ KF + +
Sbjct: 151 AMLSQVEPANKY-----PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLER 205
Query: 141 GPQIRDLRRGVEIVIATPGRLIDML-EAQHTNLRRVTYLVLDEADRML-DMGFEPQIRKI 198
G +I + +IVI TPG ++D + + + +++ VLDEAD M+ G + Q +I
Sbjct: 206 GQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 260
Query: 199 VTQIRPDRQTLYWSATWPREVETLARQFLRNP 230
+ + Q L +SAT+ V A++ + +P
Sbjct: 261 QRMLPRNCQMLLFSATFEDSVWKFAQKVVPDP 292
>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 = 61.6 bits (148), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 30/68 (44%), Positives = 42/68 (61%)
Query: 274 VMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTA 333
V R ++FT TK +++ + L G PA ++HGD +Q ER+ VL FR G ++ A
Sbjct: 28 VASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVA 87
Query: 334 TDVAARGL 341
TDVAARGL
Sbjct: 88 TDVAARGL 95
>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 = 60.8 bits (146), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 29/68 (42%), Positives = 42/68 (61%)
Query: 274 VMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTA 333
V R ++FT TK +++ + L G PA ++HGD +Q ER+ V+ FR G ++ A
Sbjct: 25 VASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVA 84
Query: 334 TDVAARGL 341
TDVAARGL
Sbjct: 85 TDVAARGL 92
>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 = 58.9 bits (141), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 38/62 (61%)
Query: 280 ILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAAR 339
+LIF E K D + L + G A++IHG K+Q ER + FR G+ ++ ATDVA++
Sbjct: 57 VLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASK 116
Query: 340 GL 341
GL
Sbjct: 117 GL 118
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 57.8 bits (138), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 46/72 (63%)
Query: 271 LKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPI 330
L + + ++ +IF T++ +++T +LR D + +I+ D Q ERD ++ EFRSG S I
Sbjct: 24 LYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRI 83
Query: 331 MTATDVAARGLG 342
+ +TD+ ARG+
Sbjct: 84 LISTDLLARGID 95
>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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/77 (38%), Positives = 44/77 (57%), Gaps = 3/77 (3%)
Query: 268 IKLLKEVM---DGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFR 324
LLK+V+ + +IF TK+ +Q+T +L G+P IHG Q +R V+ EF+
Sbjct: 23 FSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFK 82
Query: 325 SGRSPIMTATDVAARGL 341
G + ATDVAARG+
Sbjct: 83 RGEYRYLVATDVAARGI 99
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 51/94 (54%), Gaps = 6/94 (6%)
Query: 254 TEAEKYNSMFICRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQ 313
EA+K++ L +L + GS I IF TKK + + +L+ +G +HGD
Sbjct: 18 NEADKFDV-----LTELYGLMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQT 71
Query: 314 SERDWVLAEFRSGRSPIMTATDVAARGLGRITVC 347
ERD ++ +FR GRS ++ T+V ARG+ TV
Sbjct: 72 QERDRLIDDFREGRSKVLITTNVLARGIDIPTVS 105
>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 = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 50/94 (53%), Gaps = 6/94 (6%)
Query: 254 TEAEKYNSMFICRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQ 313
EA+K++ L +L GS I IF TKK + + +L+ +G +HGD
Sbjct: 19 NEADKFDV-----LTELYGVXTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQT 72
Query: 314 SERDWVLAEFRSGRSPIMTATDVAARGLGRITVC 347
ERD ++ +FR GRS ++ T+V ARG+ TV
Sbjct: 73 QERDRLIDDFREGRSKVLITTNVLARGIDIPTVS 106
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 41/71 (57%), Gaps = 1/71 (1%)
Query: 277 GSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDV 336
GS I IF TKK + + +L+ +G +HGD ERD ++ +FR GRS ++ T+V
Sbjct: 38 GSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNV 96
Query: 337 AARGLGRITVC 347
ARG+ TV
Sbjct: 97 LARGIDIPTVS 107
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 56/124 (45%), Gaps = 4/124 (3%)
Query: 61 ALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEA 120
A+KG++ I A TG GKT LL H+ P QG+ V+ A + Q +
Sbjct: 16 AMKGKNTIICAPTGCGKTFVSLLICEHHLKKFP---QGQKGKVVFFANQIPVYEQNKSVF 72
Query: 121 LKFGSRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRLIDMLEAQHT-NLRRVTYLV 179
K+ R G R T I G + + + +I+I TP L++ L+ +L T ++
Sbjct: 73 SKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMI 132
Query: 180 LDEA 183
DE
Sbjct: 133 FDEC 136
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 56/124 (45%), Gaps = 4/124 (3%)
Query: 61 ALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEA 120
A+KG++ I A TG GKT LL H+ P QG+ V+ A + Q +
Sbjct: 25 AMKGKNTIICAPTGCGKTFVSLLICEHHLKKFP---QGQKGKVVFFANQIPVYEQNKSVF 81
Query: 121 LKFGSRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRLIDMLEAQHT-NLRRVTYLV 179
K+ R G R T I G + + + +I+I TP L++ L+ +L T ++
Sbjct: 82 SKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMI 141
Query: 180 LDEA 183
DE
Sbjct: 142 FDEC 145
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 56/124 (45%), Gaps = 4/124 (3%)
Query: 61 ALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEA 120
A+KG++ I A TG GKT LL H+ P QG+ V+ A + Q +
Sbjct: 24 AMKGKNTIICAPTGCGKTFVSLLICEHHLKKFP---QGQKGKVVFFANQIPVYEQQKSVF 80
Query: 121 LKFGSRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRLIDMLEAQHT-NLRRVTYLV 179
K+ R G R T I G + + + +I+I TP L++ L+ +L T ++
Sbjct: 81 SKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMI 140
Query: 180 LDEA 183
DE
Sbjct: 141 FDEC 144
>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 = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 64/294 (21%), Positives = 118/294 (40%), Gaps = 42/294 (14%)
Query: 52 PIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRE 111
P+Q + + + G+++ + TG GK+L Y LPA +G LV+ P
Sbjct: 47 PLQLETINVTMAGKEVFLVMPTGGGKSLCYQLPALC----------SDG-FTLVICPL-- 93
Query: 112 LAVQIQEEALKFGSRAGIRSTCIYGGAPK------GPQIRDLRRGVEIVIATPGRL---- 161
+ + E+ L + GI +T + + K ++ + ++++ TP ++
Sbjct: 94 --ISLMEDQLMVLKQLGISATMLNASSSKEHVKWVHAEMVNKNSELKLIYVTPEKIAKSK 151
Query: 162 --IDMLEAQHTNLRRVTYLVLDEADRMLDMG--FEPQIRK--IVTQIRPDRQTLYWSATW 215
+ LE + RR T + +DE G F P + I+ + P+ + +AT
Sbjct: 152 MFMSRLEKAY-EARRFTRIAVDEVHCCSQWGHDFRPDYKALGILKRQFPNASLIGLTATA 210
Query: 216 PREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICRLIKLLKEVM 275
V T A++ L I A+ + + V + FI ++KL+
Sbjct: 211 TNHVLTDAQKIL-----CIEKCFTFTASFNRPNLYYEVRQKPSNTEDFIEDIVKLINGRY 265
Query: 276 DGSRILIFTETKKGCDQVTRQLRMDGWPALSIHG-----DKNQSERDWVLAEFR 324
G +I+ ++K +QVT L+ G A + H DK R W E +
Sbjct: 266 KGQSGIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQ 319
>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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 53/104 (50%), Gaps = 11/104 (10%)
Query: 245 SINQVVEVVTEAEKY-NSMF--ICRLIKLLKEVMDGSRILIFTETKKG----CDQVTRQL 297
SI+Q V + +EK+ NS+F + + K +KE + +IF T K C + +
Sbjct: 1 SIDQSVVI---SEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEF 57
Query: 298 RMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 341
+ D P L HG Q++R ++ F+ S I+ TDV ARG+
Sbjct: 58 KKD-LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGM 100
>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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 53/104 (50%), Gaps = 11/104 (10%)
Query: 245 SINQVVEVVTEAEKY-NSMF--ICRLIKLLKEVMDGSRILIFTETKKG----CDQVTRQL 297
SI+Q V + +EK+ NS+F + + K +KE + +IF T K C + +
Sbjct: 1 SIDQSVVI---SEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEF 57
Query: 298 RMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 341
+ D P L HG Q++R ++ F+ S I+ TDV ARG+
Sbjct: 58 KKD-LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGM 100
>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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 53/104 (50%), Gaps = 11/104 (10%)
Query: 245 SINQVVEVVTEAEKY-NSMF--ICRLIKLLKEVMDGSRILIFTETKKG----CDQVTRQL 297
SI+Q V + +EK+ NS+F + + K +KE + +IF T K C + +
Sbjct: 1 SIDQSVVI---SEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEF 57
Query: 298 RMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 341
+ D P L HG Q++R ++ F+ S I+ TDV ARG+
Sbjct: 58 KKD-LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGM 100
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/115 (22%), Positives = 54/115 (46%), Gaps = 10/115 (8%)
Query: 228 RNPYKV-IIGSLELKANQSINQVVEVVTEAEKYNSMFICRLIKLLKEVMDGSRILIFTET 286
++PY++ ++ L LK + Q VTE +K + + L + ++ +IF +
Sbjct: 3 QDPYEINLMEELTLKG---VTQYYAYVTERQKVHCL------NTLFSRLQINQSIIFCNS 53
Query: 287 KKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 341
+ + + +++ G+ IH Q R+ V +FR+G + TD+ RG+
Sbjct: 54 SQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGI 108
>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 = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 267 LIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSG 326
L+ LLK+ + +R ++F ++ ++ LR G + G+ Q +R+ + G
Sbjct: 21 LVHLLKQ-PEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEG 79
Query: 327 RSPIMTATDVAARGL 341
R ++ ATDVAARG+
Sbjct: 80 RVNVLVATDVAARGI 94
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 44/76 (57%), Gaps = 1/76 (1%)
Query: 266 RLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRS 325
+L LL +V++ ++++IF ++ + C + + L +PA++IH Q ER +F+
Sbjct: 21 KLFDLL-DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKD 79
Query: 326 GRSPIMTATDVAARGL 341
+ I+ AT++ RG+
Sbjct: 80 FQRRILVATNLFGRGM 95
>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 = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 33/61 (54%)
Query: 281 LIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARG 340
+IF +T++ +T ++ DG + G+ +R ++ FR G+ ++ T+V ARG
Sbjct: 38 IIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARG 97
Query: 341 L 341
+
Sbjct: 98 I 98
>pdb|1GKU|B Chain B, Reverse Gyrase From Archaeoglobus Fulgidus
Length = 1054
Score = 34.7 bits (78), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 37/145 (25%), Positives = 59/145 (40%), Gaps = 18/145 (12%)
Query: 49 EPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAP 108
EP IQ L+ A TG GKT S+ L A + +G V+ P
Sbjct: 56 EPRAIQKMWAKRILRKESFAATAPTGVGKT-SFGL-------AMSLFLALKGKRCYVIFP 107
Query: 109 TRELAVQIQEEALKFGSRAGIRSTCI----YGGAPKGPQIRDLR--RGVEIVIATPGRLI 162
T L +Q E K+ +AG+ + + +G PK + ++ R +IVI T
Sbjct: 108 TSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTT---- 163
Query: 163 DMLEAQHTNLRRVTYLVLDEADRML 187
L + L ++ +D+ D +L
Sbjct: 164 QFLSKHYRELGHFDFIFVDDVDAIL 188
>pdb|1GL9|B Chain B, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
pdb|1GL9|C Chain C, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp
Length = 1054
Score = 34.7 bits (78), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 37/145 (25%), Positives = 59/145 (40%), Gaps = 18/145 (12%)
Query: 49 EPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAP 108
EP IQ L+ A TG GKT S+ L A + +G V+ P
Sbjct: 56 EPRAIQKMWAKRILRKESFAATAPTGVGKT-SFGL-------AMSLFLALKGKRCYVIFP 107
Query: 109 TRELAVQIQEEALKFGSRAGIRSTCI----YGGAPKGPQIRDLR--RGVEIVIATPGRLI 162
T L +Q E K+ +AG+ + + +G PK + ++ R +IVI T
Sbjct: 108 TSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTT---- 163
Query: 163 DMLEAQHTNLRRVTYLVLDEADRML 187
L + L ++ +D+ D +L
Sbjct: 164 QFLSKHYRELGHFDFIFVDDVDAIL 188
>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 = 34.3 bits (77), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 8/73 (10%)
Query: 277 GSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDK--------NQSERDWVLAEFRSGRS 328
S+I++FT ++ ++ +L DG A G +Q E+ +L EF G
Sbjct: 361 NSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEF 420
Query: 329 PIMTATDVAARGL 341
++ AT V GL
Sbjct: 421 NVLVATSVGEEGL 433
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 35/114 (30%), Positives = 56/114 (49%), Gaps = 10/114 (8%)
Query: 73 TGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRST 132
TG GKTL ++ A+ RL + G VL+LAPT+ L +Q E + + +
Sbjct: 32 TGLGKTLIAMM------IAEYRLTKYGGK-VLMLAPTKPLVLQHAESFRRLFNLPPEKIV 84
Query: 133 CIYGGAPKGPQIRDLRRG-VEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADR 185
+ G K P+ R ++++ATP + + L A +L V+ +V DEA R
Sbjct: 85 ALTG--EKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHR 136
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 34.3 bits (77), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 52/125 (41%), Gaps = 6/125 (4%)
Query: 61 ALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEA 120
A+ G++ + A TGSGKT +L H P G V+ LA T+ + Q+
Sbjct: 260 AINGKNALICAPTGSGKTFVSILICEHHFQNMP---AGRKAKVVFLA-TKVPVYEQQKNV 315
Query: 121 LKFG-SRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRLIDMLE-AQHTNLRRVTYL 178
K R G I G + + +I++ TP L++ E T+L T +
Sbjct: 316 FKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLM 375
Query: 179 VLDEA 183
+ DE
Sbjct: 376 IFDEC 380
>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
Length = 767
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 47/176 (26%), Positives = 70/176 (39%), Gaps = 24/176 (13%)
Query: 67 LIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQI-----QEEAL 121
++ + ETGSGKT +P FV P L E V P R A+ + +E +
Sbjct: 112 MVFVGETGSGKTTQ--IPQFVLFDEMPHL---ENTQVACTQPRRVAAMSVAQRVAEEMDV 166
Query: 122 KFGSRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLD 181
K G G + + I + T G L+ H +L R + ++LD
Sbjct: 167 KLGEEVGY--SIRFENKTSNKTI--------LKYMTDGMLLREAMEDH-DLSRYSCIILD 215
Query: 182 EA-DRMLDMGFEPQIRKIVTQIRPDRQTLYWSATWPREVETLARQFLRNPYKVIIG 236
EA +R L + K V + RPD + + SAT + E R F P + G
Sbjct: 216 EAHERTLATDILMGLLKQVVKRRPDLKIIIMSATL--DAEKFQRYFNDAPLLAVPG 269
>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
Length = 773
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 47/176 (26%), Positives = 70/176 (39%), Gaps = 24/176 (13%)
Query: 67 LIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQI-----QEEAL 121
++ + ETGSGKT +P FV P L E V P R A+ + +E +
Sbjct: 112 MVFVGETGSGKTTQ--IPQFVLFDEMPHL---ENTQVACTQPRRVAAMSVAQRVAEEMDV 166
Query: 122 KFGSRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLD 181
K G G + + I + T G L+ H +L R + ++LD
Sbjct: 167 KLGEEVGY--SIRFENKTSNKTI--------LKYMTDGMLLREAMEDH-DLSRYSCIILD 215
Query: 182 EA-DRMLDMGFEPQIRKIVTQIRPDRQTLYWSATWPREVETLARQFLRNPYKVIIG 236
EA +R L + K V + RPD + + SAT + E R F P + G
Sbjct: 216 EAHERTLATDILMGLLKQVVKRRPDLKIIIMSATL--DAEKFQRYFNDAPLLAVPG 269
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 52/125 (41%), Gaps = 6/125 (4%)
Query: 61 ALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEA 120
A+ G++ + A TGSGKT +L H P G V+ LA T+ + Q+
Sbjct: 19 AINGKNALICAPTGSGKTFVSILICEHHFQNMP---AGRKAKVVFLA-TKVPVYEQQKNV 74
Query: 121 LKFG-SRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRLIDMLE-AQHTNLRRVTYL 178
K R G I G + + +I++ TP L++ E T+L T +
Sbjct: 75 FKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLM 134
Query: 179 VLDEA 183
+ DE
Sbjct: 135 IFDEC 139
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 52/125 (41%), Gaps = 6/125 (4%)
Query: 61 ALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEA 120
A+ G++ + A TGSGKT +L H P G V+ LA T+ + Q+
Sbjct: 260 AINGKNALICAPTGSGKTFVSILICEHHFQNMP---AGRKAKVVFLA-TKVPVYEQQKNV 315
Query: 121 LKFG-SRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRLIDMLE-AQHTNLRRVTYL 178
K R G I G + + +I++ TP L++ E T+L T +
Sbjct: 316 FKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLM 375
Query: 179 VLDEA 183
+ DE
Sbjct: 376 IFDEC 380
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 65/296 (21%), Positives = 112/296 (37%), Gaps = 63/296 (21%)
Query: 71 AETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIR 130
+ GSGKT+ L + A G + PT LA+Q ++ S+ I
Sbjct: 396 GDVGSGKTVVAQLAILDNYEA--------GFQTAFMVPTSILAIQHYRRTVESFSKFNIH 447
Query: 131 STCIYGGAPKGPQIR---DLRRG-VEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRM 186
+ G + + LR G +++VI T L + + + + +++DE R
Sbjct: 448 VALLIGATTPSEKEKIKSGLRNGQIDVVIGTHA-----LIQEDVHFKNLGLVIIDEQHR- 501
Query: 187 LDMGFEPQIRKIVTQIRPDRQTLYWSAT-WPREVETLARQFLRNPYKVIIGSLE------ 239
F + R+ + TL SAT PR ++A F + +I +
Sbjct: 502 ----FGVKQREALMNKGKMVDTLVMSATPIPR---SMALAFYGDLDVTVIDEMPPGRKEV 554
Query: 240 ---LKANQSINQVVEVVTEAEKYNSMFICRLIKLLKEVMDGSRILIFTETKKGCDQVTRQ 296
L +N+V E V + EVM G + I + D++ +
Sbjct: 555 QTMLVPMDRVNEVYEFVRQ-----------------EVMRGGQAFIVYPLIEESDKLNVK 597
Query: 297 LRMDGWPALS-----------IHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 341
++ + LS +HG +Q E+D V+ EF GR I+ +T V G+
Sbjct: 598 SAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGI 653
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 28/120 (23%), Positives = 49/120 (40%), Gaps = 8/120 (6%)
Query: 51 TPIQAQGWPMAL-----KGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLV 105
+P++ + + + L KG++ I A TG GKT LL H+ P +G+
Sbjct: 1 SPLKPRNYQLELALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFAN 60
Query: 106 LAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRLIDML 165
P E + ++ R G I G ++ + +I+I TP L++ L
Sbjct: 61 QIPVYEQQATVFS---RYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNL 117
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%)
Query: 45 LGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFV 87
G+ + P Q + L GRD + + TG GK+L Y +PA +
Sbjct: 21 FGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALL 63
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 32.3 bits (72), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 64/311 (20%), Positives = 123/311 (39%), Gaps = 35/311 (11%)
Query: 45 LGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVL 104
G+ + P Q + L GRD + + TG GK+L Y +PA L+ G + +
Sbjct: 21 FGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL--------LLNG---LTV 69
Query: 105 VLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDL---RRG-VEIVIATPGR 160
V++P + + ++ + G+ + C+ + Q+ + R G + ++ P R
Sbjct: 70 VVSPL----ISLMKDQVDQLQANGVAAACLNSTQTREQQLEVMTGCRTGQIRLLYIAPER 125
Query: 161 LIDMLEAQHTNLRRVTYLVLDEADRMLDMG--FEPQIRKIVTQIRPDRQTLYWSATWPRE 218
L+ +H L +DEA + G F P+ + Q+R TL + A
Sbjct: 126 LMLDNFLEHLAHWNPVLLAVDEAHCISQWGHDFRPEYAAL-GQLRQRFPTLPFMALTATA 184
Query: 219 VETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNSMFICR-LIKLLKEVMD- 276
+T + +R L N + Q+ +Y M + L +L++ V +
Sbjct: 185 DDTTRQDIVR----------LLGLNDPLIQISSFDRPNIRYMLMEKFKPLDQLMRYVQEQ 234
Query: 277 -GSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATD 335
G +I+ ++ + +L+ G A + H + R V +F+ I+ AT
Sbjct: 235 RGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATV 294
Query: 336 VAARGLGRITV 346
G+ + V
Sbjct: 295 AFGMGINKPNV 305
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 32.3 bits (72), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 45/183 (24%), Positives = 70/183 (38%), Gaps = 18/183 (9%)
Query: 30 QEANFPDYCLEVIAKLGFVEPTPIQAQGWPMAL-KGRDLIGIAETGSGKTLSYLLPAFVH 88
++ P +E+I K G + P Q + L +G L+ + TGSGKTL
Sbjct: 11 EDLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTL------IAE 64
Query: 89 VSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALKFGS--RAGIRSTCIYGGAPKGPQIRD 146
+ L++ G + V P R L E+ L F G + G
Sbjct: 65 MGIISFLLKNGGKAIYV-TPLRALT---NEKYLTFKDWELIGFKVAMTSGDYDTDDA--- 117
Query: 147 LRRGVEIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDR 206
+ +I+I T +L + + L V Y VLDE + D P + + IR R
Sbjct: 118 WLKNYDIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDPERGPVVESVT--IRAKR 175
Query: 207 QTL 209
+ L
Sbjct: 176 RNL 178
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 32.0 bits (71), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 43/192 (22%), Positives = 84/192 (43%), Gaps = 17/192 (8%)
Query: 33 NFPDYCLEVIAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQ 92
+ Y + ++ + G E P QA+ G++L+ T +GKTL ++
Sbjct: 9 SISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTL------LAEMAMV 62
Query: 93 PRLVQGEGPIVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLRRG-V 151
++G + +V P R LA + + E+ K + G+R G + + RD G
Sbjct: 63 REAIKGGKSLYVV--PLRALAGE-KYESFKKWEKIGLR----IGISTGDYESRDEHLGDC 115
Query: 152 EIVIATPGRLIDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQTLY- 210
+I++ T + ++ + + ++ V+ LV+DE + + +VT++R + L
Sbjct: 116 DIIVTTSEKADSLIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRV 175
Query: 211 --WSATWPREVE 220
SAT P E
Sbjct: 176 IGLSATAPNVTE 187
>pdb|8OHM|A Chain A, Crystal Structure Of Rna Helicase From Genotype 1b
Hepatitis C Virus: Mechanism Of Unwinding Duplex Rna
Length = 435
Score = 31.2 bits (69), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 273 EVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIH 308
EV+ G R LIF +KK CD++ +L G A++ +
Sbjct: 168 EVIRGGRHLIFCHSKKKCDELAAKLSALGLNAVAYY 203
>pdb|1JR6|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
pdb|1ONB|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
Length = 142
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 273 EVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIH 308
EV+ G R LIF +KK CD++ +L G A++ +
Sbjct: 35 EVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYY 70
>pdb|1HEI|A Chain A, Structure Of The Hepatitis C Virus Rna Helicase Domain
pdb|1HEI|B Chain B, Structure Of The Hepatitis C Virus Rna Helicase Domain
Length = 451
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 273 EVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIH 308
EV+ G R LIF +KK CD++ +L G A++ +
Sbjct: 178 EVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYY 213
>pdb|1A1V|A Chain A, Hepatitis C Virus Ns3 Helicase Domain Complexed With
Single Stranded Sdna
Length = 476
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 273 EVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIH 308
EV+ G R LIF +KK CD++ +L G A++ +
Sbjct: 192 EVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYY 227
>pdb|2ZJO|A Chain A, Crystal Structure Of Hepatitis C Virus Ns3 Helicase With A
Novel Inhibitor
Length = 482
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 5/36 (13%)
Query: 273 EVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIH 308
E + G R LIF +KK CD++ +L AL IH
Sbjct: 202 ETIKGGRHLIFCHSKKKCDELAAKLS-----ALGIH 232
>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 = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 31/65 (47%)
Query: 277 GSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDV 336
R+L+ T TKK + +T L+ G +H + ER ++ + R G+ ++ ++
Sbjct: 451 NERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 510
Query: 337 AARGL 341
GL
Sbjct: 511 LREGL 515
>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 = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 31/65 (47%)
Query: 277 GSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDV 336
R+L+ T TKK + +T L+ G +H + ER ++ + R G+ ++ ++
Sbjct: 445 NERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 504
Query: 337 AARGL 341
GL
Sbjct: 505 LREGL 509
>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 = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 21/29 (72%)
Query: 313 QSERDWVLAEFRSGRSPIMTATDVAARGL 341
Q+E+ V+++FR+G+ ++ AT VA GL
Sbjct: 450 QNEQKEVISKFRTGKINLLIATTVAEEGL 478
>pdb|2HYD|A Chain A, Multidrug Abc Transporter Sav1866
pdb|2HYD|B Chain B, Multidrug Abc Transporter Sav1866
pdb|2ONJ|A Chain A, Structure Of The Multidrug Abc Transporter Sav1866 From S.
Aureus In Complex With Amp-Pnp
pdb|2ONJ|B Chain B, Structure Of The Multidrug Abc Transporter Sav1866 From S.
Aureus In Complex With Amp-Pnp
pdb|4A82|A Chain A, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|B Chain B, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|C Chain C, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|D Chain D, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966
Length = 578
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 37/167 (22%), Positives = 67/167 (40%), Gaps = 22/167 (13%)
Query: 63 KGRDLIGIAETGSGK-TLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEAL 121
KG + + +G GK TL L+P F V++ L+ G + R +Q++ +
Sbjct: 366 KGETVAFVGMSGGGKSTLINLIPRFYDVTSGQILIDGHNIKDFLTGSLRNQIGLVQQDNI 425
Query: 122 KFGSRAGIRSTCIYG--------------GAPKGPQIRDLRRGVEIVIATPGRLIDMLEA 167
F ++ + G A I +L +G + + G + +
Sbjct: 426 LFSDT--VKENILLGRPTATDEEVVEAAKMANAHDFIMNLPQGYDTEVGERGVKLSGGQK 483
Query: 168 QHTNLRRVTY-----LVLDEADRMLDMGFEPQIRKIVTQIRPDRQTL 209
Q ++ R+ L+LDEA LD+ E I++ + + DR TL
Sbjct: 484 QRLSIARIFLNNPPILILDEATSALDLESESIIQEALDVLSKDRTTL 530
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 21/29 (72%)
Query: 313 QSERDWVLAEFRSGRSPIMTATDVAARGL 341
Q+E+ V+++FR+G+ ++ AT VA GL
Sbjct: 200 QNEQREVISKFRTGKINLLIATTVAEEGL 228
>pdb|2BHR|A Chain A, Dengue Virus Rna Helicase
pdb|2BHR|B Chain B, Dengue Virus Rna Helicase
pdb|2BMF|A Chain A, Dengue Virus Rna Helicase At 2.4a
pdb|2BMF|B Chain B, Dengue Virus Rna Helicase At 2.4a
Length = 451
Score = 27.7 bits (60), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 29/49 (59%), Gaps = 8/49 (16%)
Query: 74 GSGKTLSYLLPAFVHVSAQPRLVQGEGPIVLVLAPTRELAVQIQEEALK 122
G+GKT YL PA V + + G L+LAPTR +A ++ EEAL+
Sbjct: 29 GAGKTKRYL-PAIVREAIK------RGLRTLILAPTRVVAAEM-EEALR 69
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 0.138 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,708,181
Number of Sequences: 62578
Number of extensions: 395246
Number of successful extensions: 1179
Number of sequences better than 100.0: 96
Number of HSP's better than 100.0 without gapping: 74
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 989
Number of HSP's gapped (non-prelim): 100
length of query: 347
length of database: 14,973,337
effective HSP length: 100
effective length of query: 247
effective length of database: 8,715,537
effective search space: 2152737639
effective search space used: 2152737639
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: 52 (24.6 bits)