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= 019337
(342 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 (865), 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 = 261 bits (668), Expect = 3e-70, Method: Compositional matrix adjust.
Identities = 149/339 (43%), Positives = 204/339 (60%), Gaps = 18/339 (5%)
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 LELKANQSINQVVEVVTEAEKYNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGW 297
+ +++I Q V V E++K + L+ LL S L+F ETKKG D + L +G+
Sbjct: 243 VG-STSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGY 301
Query: 298 PALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 336
SIHGD++Q +R+ L +FRSG+SPI+ AT VAARGL
Sbjct: 302 ACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGL 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 = 244 bits (624), Expect = 4e-65, Method: Compositional matrix adjust.
Identities = 131/324 (40%), Positives = 198/324 (61%), Gaps = 5/324 (1%)
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 + A + Q +
Sbjct: 224 MRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVG-GACSDVKQTIYE 282
Query: 253 VTEAEKYNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERD 312
V + K ++LI++L E DG+ ++F ETK+G D + L +P SIHGD+ QS+R+
Sbjct: 283 VNKYAKRSKLIEILSEQADGT--IVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQRE 340
Query: 313 WVLAEFRSGRSPIMTATDVAARGL 336
L +F++G ++ AT VA+RGL
Sbjct: 341 QALRDFKNGSMKVLIATSVASRGL 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 = 229 bits (583), Expect = 2e-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|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 182 bits (461), Expect = 3e-46, Method: Compositional matrix adjust.
Identities = 108/308 (35%), Positives = 164/308 (53%), Gaps = 6/308 (1%)
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 LYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKE 268
+ SAT P EV + +F+ +P ++++ EL V V E K++ L L +
Sbjct: 178 VLISATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY-D 236
Query: 269 VMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTA 328
+ ++ +IF TK+ D +T ++R + S+HGD Q ER+ ++ EFRSG S ++ +
Sbjct: 237 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 296
Query: 329 TDVAARGL 336
TDV ARGL
Sbjct: 297 TDVWARGL 304
>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 = 181 bits (460), Expect = 4e-46, Method: Compositional matrix adjust.
Identities = 110/309 (35%), Positives = 166/309 (53%), Gaps = 15/309 (4%)
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 TLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLK 267
L +SAT PRE+ LA+++ Y I + K N +I Q V E E++ L +LLK
Sbjct: 181 ILLFSATXPREILNLAKKY-XGDYSFI----KAKINANIEQSYVEVNENERFEALCRLLK 235
Query: 268 EVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMT 327
L+F +TK+ ++ LR G+ A +IHGD +QS+R+ V+ F+ + I+
Sbjct: 236 NKEFYG--LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILI 293
Query: 328 ATDVAARGL 336
ATDV +RG+
Sbjct: 294 ATDVXSRGI 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 (460), Expect = 4e-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|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 = 181 bits (459), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 105/295 (35%), Positives = 160/295 (54%), Gaps = 6/295 (2%)
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 LARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKEVMDGSRILIFTET 281
+ +F+ +P ++++ EL V V E K++ L L + + ++ +IF T
Sbjct: 206 MTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY-DTLTITQAVIFCNT 264
Query: 282 KKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 336
K+ D +T ++R + S+HGD Q ER+ ++ EFRSG S ++ +TDV ARGL
Sbjct: 265 KRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGL 319
>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 = 181 bits (459), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 163/308 (52%), Gaps = 6/308 (1%)
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 LYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKE 268
+ SAT P E+ + +F+ +P ++++ EL V V E K++ L L +
Sbjct: 214 VLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY-D 272
Query: 269 VMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTA 328
+ ++ +IF TK+ D +T ++R + S+HGD Q ER+ ++ EFRSG S ++ +
Sbjct: 273 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 332
Query: 329 TDVAARGL 336
TDV ARGL
Sbjct: 333 TDVWARGL 340
>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 = 181 bits (459), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 163/308 (52%), Gaps = 6/308 (1%)
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 LYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKE 268
+ SAT P E+ + +F+ +P ++++ EL V V E K++ L L +
Sbjct: 215 VLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY-D 273
Query: 269 VMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTA 328
+ ++ +IF TK+ D +T ++R + S+HGD Q ER+ ++ EFRSG S ++ +
Sbjct: 274 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 333
Query: 329 TDVAARGL 336
TDV ARGL
Sbjct: 334 TDVWARGL 341
>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 = 181 bits (459), Expect = 6e-46, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 163/308 (52%), Gaps = 6/308 (1%)
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 LYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKE 268
+ SAT P E+ + +F+ +P ++++ EL V V E K++ L L +
Sbjct: 215 VLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY-D 273
Query: 269 VMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTA 328
+ ++ +IF TK+ D +T ++R + S+HGD Q ER+ ++ EFRSG S ++ +
Sbjct: 274 TLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIS 333
Query: 329 TDVAARGL 336
TDV ARGL
Sbjct: 334 TDVWARGL 341
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 180 bits (456), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 104/295 (35%), Positives = 160/295 (54%), Gaps = 6/295 (2%)
Query: 42 IAKLGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGP 101
I GF +P+ IQ + +KGRD+I +++G+GKT ++ + + Q R Q
Sbjct: 16 IYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQVRETQA--- 72
Query: 102 IVLVLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIRDLRRGVEIVIATPGRL 161
L+LAPTRELAVQ+Q+ L G ++ GG G IR L G +V TPGR+
Sbjct: 73 --LILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRV 130
Query: 162 IDMLEAQHTNLRRVTYLVLDEADRMLDMGFEPQIRKIVTQIRPDRQTLYWSATWPREVET 221
DM+ + R + LVLDEAD ML+ GF+ QI + + P Q + SAT P E+
Sbjct: 131 FDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILE 190
Query: 222 LARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKEVMDGSRILIFTET 281
+ +F+ +P ++++ EL V V E K++ L L + + ++ +IF T
Sbjct: 191 MTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY-DTLTITQAVIFCNT 249
Query: 282 KKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 336
K+ D +T ++R + S+HGD Q ER+ ++ EFRSG S ++ +TDV ARGL
Sbjct: 250 KRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGL 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 (429), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 163/309 (52%), Gaps = 7/309 (2%)
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 TLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLK 267
+ SAT P +V + ++F+R+P ++++ EL + V E K + L L
Sbjct: 191 VVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLY- 249
Query: 268 EVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMT 327
E + ++ +IF T++ D +T ++ + ++HGD +Q ERD ++ EFRSG S ++
Sbjct: 250 ETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLI 309
Query: 328 ATDVAARGL 336
TD+ ARG+
Sbjct: 310 TTDLLARGI 318
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 169 bits (429), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 163/309 (52%), Gaps = 7/309 (2%)
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 TLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLK 267
+ SAT P +V + ++F+R+P ++++ EL + V E K + L L
Sbjct: 217 VVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLY- 275
Query: 268 EVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMT 327
E + ++ +IF T++ D +T ++ + ++HGD +Q ERD ++ EFRSG S ++
Sbjct: 276 ETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLI 335
Query: 328 ATDVAARGL 336
TD+ ARG+
Sbjct: 336 TTDLLARGI 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 = 167 bits (423), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 99/308 (32%), Positives = 161/308 (52%), Gaps = 7/308 (2%)
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 LYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKE 268
+ SAT P +V + +F+RNP ++++ EL V V E KY L L
Sbjct: 198 VLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDS 257
Query: 269 VMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTA 328
+ ++ +IF T++ +++T +LR D + +I+ D Q ERD ++ EFRSG S I+ +
Sbjct: 258 I-SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILIS 316
Query: 329 TDVAARGL 336
TD+ ARG+
Sbjct: 317 TDLLARGI 324
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 159 bits (403), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 98/308 (31%), Positives = 156/308 (50%), Gaps = 7/308 (2%)
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 LYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKE 268
+ SAT P +V + +F RNP ++++ EL V V E KY L L
Sbjct: 197 VLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDS 256
Query: 269 VMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTA 328
+ ++ +IF T++ +++T +LR D + +I+ D Q ERD + EFRSG S I+ +
Sbjct: 257 I-SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILIS 315
Query: 329 TDVAARGL 336
TD+ ARG+
Sbjct: 316 TDLLARGI 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 = 152 bits (383), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 88/296 (29%), Positives = 153/296 (51%), Gaps = 10/296 (3%)
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-IIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKEVMDGSRILIFTE 280
+ L PY++ ++ L LK I Q V E +K + L L + + ++ +IF
Sbjct: 211 FMVKHLHKPYEINLMEELTLKG---ITQYYAFVEERQKLHCLNTLFSK-LQINQAIIFCN 266
Query: 281 TKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 336
+ + + +++ G+ H Q ER+ V EFR G+ + +D+ RG+
Sbjct: 267 STNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGI 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 = 132 bits (332), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 98/323 (30%), Positives = 164/323 (50%), Gaps = 25/323 (7%)
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 NRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFR 319
+ L +L + GS I IF TKK + + +L+ +G +HGD ERD ++ +FR
Sbjct: 232 DVLTELYGVMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFR 290
Query: 320 SGRSPIMTATDVAARGLGRITVC 342
GRS ++ T+V ARG+ TV
Sbjct: 291 EGRSKVLITTNVLARGIDIPTVS 313
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 132 bits (332), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 98/323 (30%), Positives = 164/323 (50%), Gaps = 25/323 (7%)
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 NRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFR 319
+ L +L + GS I IF TKK + + +L+ +G +HGD ERD ++ +FR
Sbjct: 232 DVLTELYGLMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFR 290
Query: 320 SGRSPIMTATDVAARGLGRITVC 342
GRS ++ T+V ARG+ TV
Sbjct: 291 EGRSKVLITTNVLARGIDIPTVS 313
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 130 bits (328), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 88/289 (30%), Positives = 149/289 (51%), Gaps = 17/289 (5%)
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 RNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKEVMDGSRILIFTETKKGCDQ 287
N ++ + + EL ++ +E KYN L++L + G I IF + K ++
Sbjct: 314 PNANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSI-IFCKKKDTAEE 372
Query: 288 VTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 336
+ R++ DG + G+ ++RD ++ FR G S ++ T+V ARG+
Sbjct: 373 IARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGI 421
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 130 bits (328), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 82/301 (27%), Positives = 156/301 (51%), Gaps = 9/301 (2%)
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 PREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKEVMDGSRI 275
+E+ + R+F+++P ++ + + Q + + EK +L LL +V++ +++
Sbjct: 194 SKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL-DVLEFNQV 252
Query: 276 LIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARG 335
+IF ++ + C + + L +PA++IH Q ER +F+ + I+ AT++ RG
Sbjct: 253 VIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRG 312
Query: 336 L 336
+
Sbjct: 313 M 313
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 129 bits (325), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 90/297 (30%), Positives = 149/297 (50%), Gaps = 23/297 (7%)
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 ETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKEVMDGSRILIFT 279
+ + F+ N Y+ I + L N + V + + ++ L+E D +++F
Sbjct: 175 RKVVKDFITN-YEEIEACIGLA-----NVEHKFVHVKDDWRSKVQALRENKDKG-VIVFV 227
Query: 280 ETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 336
T+ ++ R A+ + GD QS R+ + FR G ++ TDVA+RGL
Sbjct: 228 RTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGL 280
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 129 bits (324), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 81/301 (26%), Positives = 155/301 (51%), Gaps = 9/301 (2%)
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 PREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKEVMDGSRI 275
+E+ + R+F+++P ++ + + Q + + EK +L LL +V++ +++
Sbjct: 195 SKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL-DVLEFNQV 253
Query: 276 LIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARG 335
+IF ++ + C + + L +PA++IH Q ER +F+ + I+ AT++ RG
Sbjct: 254 VIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRG 313
Query: 336 L 336
+
Sbjct: 314 M 314
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 129 bits (324), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 81/301 (26%), Positives = 155/301 (51%), Gaps = 9/301 (2%)
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 PREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKEVMDGSRI 275
+E+ + R+F+++P ++ + + Q + + EK +L LL +V++ +++
Sbjct: 195 SKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL-DVLEFNQV 253
Query: 276 LIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARG 335
+IF ++ + C + + L +PA++IH Q ER +F+ + I+ AT++ RG
Sbjct: 254 VIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRG 313
Query: 336 L 336
+
Sbjct: 314 M 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 (311), Expect = 8e-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|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 = 121 bits (303), Expect = 6e-28, Method: Compositional matrix adjust.
Identities = 98/325 (30%), Positives = 164/325 (50%), Gaps = 31/325 (9%)
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 PDRQTLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLI 263
+ +TL +SAT +V+ LA + + + +++ ++ ++ + V +EK+ I
Sbjct: 263 DNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSI 322
Query: 264 --------KLLKEVMDGSRILIFTETKKG----CDQVTRQLRMDGWPALSIHGDKNQSER 311
K +KE + +IF T K C + + + D P L HG Q++R
Sbjct: 323 FAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKITQNKR 381
Query: 312 DWVLAEFRSGRSPIMTATDVAARGL 336
++ F+ S I+ TDV ARG+
Sbjct: 382 TSLVKRFKKDESGILVCTDVGARGM 406
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 121 bits (303), Expect = 6e-28, Method: Compositional matrix adjust.
Identities = 98/325 (30%), Positives = 164/325 (50%), Gaps = 31/325 (9%)
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 PDRQTLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLI 263
+ +TL +SAT +V+ LA + + + +++ ++ ++ + V +EK+ I
Sbjct: 212 DNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSI 271
Query: 264 --------KLLKEVMDGSRILIFTETKKG----CDQVTRQLRMDGWPALSIHGDKNQSER 311
K +KE + +IF T K C + + + D P L HG Q++R
Sbjct: 272 FAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKITQNKR 330
Query: 312 DWVLAEFRSGRSPIMTATDVAARGL 336
++ F+ S I+ TDV ARG+
Sbjct: 331 TSLVKRFKKDESGILVCTDVGARGM 355
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 121 bits (303), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 98/325 (30%), Positives = 164/325 (50%), Gaps = 31/325 (9%)
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 PDRQTLYWSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLI 263
+ +TL +SAT +V+ LA + + + +++ ++ ++ + V +EK+ I
Sbjct: 212 DNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSI 271
Query: 264 --------KLLKEVMDGSRILIFTETKKG----CDQVTRQLRMDGWPALSIHGDKNQSER 311
K +KE + +IF T K C + + + D P L HG Q++R
Sbjct: 272 FAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKITQNKR 330
Query: 312 DWVLAEFRSGRSPIMTATDVAARGL 336
++ F+ S I+ TDV ARG+
Sbjct: 331 TSLVKRFKKDESGILVCTDVGARGM 355
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 119 bits (298), 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 = 3e-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 = 8e-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|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 116 bits (290), 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|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|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 = 4e-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 = 94.0 bits (232), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 80/318 (25%), Positives = 148/318 (46%), Gaps = 18/318 (5%)
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 YNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEF 318
+ L L + ++ +IF T+K + +L +G + G+ +R V+ F
Sbjct: 254 FQALCNLYGAIT-IAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERF 312
Query: 319 RSGRSPIMTATDVAARGL 336
R G+ ++ T+V ARG+
Sbjct: 313 REGKEKVLVTTNVCARGI 330
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 93.6 bits (231), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 80/318 (25%), Positives = 148/318 (46%), Gaps = 18/318 (5%)
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 YNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEF 318
+ L L + ++ +IF T+K + +L +G + G+ +R V+ F
Sbjct: 270 FQALCNLYGAIT-IAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERF 328
Query: 319 RSGRSPIMTATDVAARGL 336
R G+ ++ T+V ARG+
Sbjct: 329 REGKEKVLVTTNVCARGI 346
>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 = 93.6 bits (231), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 80/318 (25%), Positives = 148/318 (46%), Gaps = 18/318 (5%)
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 YNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEF 318
+ L L + ++ +IF T+K + +L +G + G+ +R V+ F
Sbjct: 291 FQALCNLYGAIT-IAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERF 349
Query: 319 RSGRSPIMTATDVAARGL 336
R G+ ++ T+V ARG+
Sbjct: 350 REGKEKVLVTTNVCARGI 367
>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 = 93.2 bits (230), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 80/318 (25%), Positives = 147/318 (46%), Gaps = 18/318 (5%)
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 YNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEF 318
+ L L + ++ +IF T+K + +L +G + G+ +R V+ F
Sbjct: 321 FQALCNLYGAIT-IAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERF 379
Query: 319 RSGRSPIMTATDVAARGL 336
R G+ ++ T+V ARG+
Sbjct: 380 REGKEKVLVTTNVCARGI 397
>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 = 82.8 bits (203), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 43/94 (45%), Positives = 61/94 (64%)
Query: 243 NQSINQVVEVVTEAEKYNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSI 302
+++I Q V V E++K + L+ LL S L+F ETKKG D + L +G+ SI
Sbjct: 17 SENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSI 76
Query: 303 HGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 336
HGD++Q +R+ L +FRSG+SPI+ AT VAARGL
Sbjct: 77 HGDRSQRDREEALHQFRSGKSPILVATAVAARGL 110
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 82.4 bits (202), Expect = 3e-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|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
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 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|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|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 = 61.6 bits (148), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 35/95 (36%), Positives = 53/95 (55%), Gaps = 2/95 (2%)
Query: 242 ANQSINQVVEVVTEAEKYNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALS 301
A+ + Q VE V E K L++ L++ +LIF E K D + L + G A++
Sbjct: 26 ASLDVIQEVEYVKEEAKMVYLLECLQKT--PPPVLIFAEKKADVDAIHEYLLLKGVEAVA 83
Query: 302 IHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 336
IHG K+Q ER + FR G+ ++ ATDVA++GL
Sbjct: 84 IHGGKDQEERTKAIEAFREGKKDVLVATDVASKGL 118
>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: 269 VMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTA 328
V R ++FT TK +++ + L G PA ++HGD +Q ER+ VL FR G ++ A
Sbjct: 28 VASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVA 87
Query: 329 TDVAARGL 336
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 = 61.2 bits (147), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 29/68 (42%), Positives = 42/68 (61%)
Query: 269 VMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTA 328
V R ++FT TK +++ + L G PA ++HGD +Q ER+ V+ FR G ++ A
Sbjct: 25 VASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVA 84
Query: 329 TDVAARGL 336
TDVAARGL
Sbjct: 85 TDVAARGL 92
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/88 (36%), Positives = 51/88 (57%), Gaps = 1/88 (1%)
Query: 250 VEVVTEAEKYNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQS 309
V V E KY L L + ++ +IF T++ +++T +LR D + +I+ D Q
Sbjct: 9 VNVEEEEYKYECLTDLYDSI-SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQ 67
Query: 310 ERDWVLAEFRSGRSPIMTATDVAARGLG 337
ERD ++ EFRSG S I+ +TD+ ARG+
Sbjct: 68 ERDTIMKEFRSGSSRILISTDLLARGID 95
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/89 (37%), Positives = 51/89 (57%), Gaps = 1/89 (1%)
Query: 254 TEAEKYNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDW 313
EA+K++ L +L + GS I IF TKK + + +L+ +G +HGD ERD
Sbjct: 18 NEADKFDVLTELYGLMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDR 76
Query: 314 VLAEFRSGRSPIMTATDVAARGLGRITVC 342
++ +FR GRS ++ T+V ARG+ TV
Sbjct: 77 LIDDFREGRSKVLITTNVLARGIDIPTVS 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 = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/89 (37%), Positives = 50/89 (56%), Gaps = 1/89 (1%)
Query: 254 TEAEKYNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDW 313
EA+K++ L +L GS I IF TKK + + +L+ +G +HGD ERD
Sbjct: 19 NEADKFDVLTELYGVXTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDR 77
Query: 314 VLAEFRSGRSPIMTATDVAARGLGRITVC 342
++ +FR GRS ++ T+V ARG+ TV
Sbjct: 78 LIDDFREGRSKVLITTNVLARGIDIPTVS 106
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 33/89 (37%), Positives = 50/89 (56%), Gaps = 1/89 (1%)
Query: 254 TEAEKYNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDW 313
EA+K++ L +L GS I IF TKK + + +L+ +G +HGD ERD
Sbjct: 20 NEADKFDVLTELYGLXTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDR 78
Query: 314 VLAEFRSGRSPIMTATDVAARGLGRITVC 342
++ +FR GRS ++ T+V ARG+ TV
Sbjct: 79 LIDDFREGRSKVLITTNVLARGIDIPTVS 107
>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 = 54.7 bits (130), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 35/96 (36%), Positives = 53/96 (55%), Gaps = 7/96 (7%)
Query: 244 QSINQVVEVVTEAEKYNRLIKLLKEVM---DGSRILIFTETKKGCDQVTRQLRMDGWPAL 300
++I V V E K++ LLK+V+ + +IF TK+ +Q+T +L G+P
Sbjct: 8 RNIEHAVIQVREENKFS----LLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCD 63
Query: 301 SIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 336
IHG Q +R V+ EF+ G + ATDVAARG+
Sbjct: 64 KIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGI 99
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 45.8 bits (107), 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|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|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
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: 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|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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/110 (25%), Positives = 52/110 (47%), Gaps = 5/110 (4%)
Query: 228 RNPYKV-IIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKEVMDGSRILIFTETKKGCD 286
++PY++ ++ L LK + Q VTE +K + L L + I IF + + +
Sbjct: 3 QDPYEINLMEELTLKG---VTQYYAYVTERQKVHCLNTLFSRLQINQSI-IFCNSSQRVE 58
Query: 287 QVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 336
+ +++ G+ IH Q R+ V +FR+G + TD+ RG+
Sbjct: 59 LLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGI 108
>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 = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 62/290 (21%), Positives = 117/290 (40%), Gaps = 39/290 (13%)
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 PREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKY-NRLIKLLKEVMDGSR 274
V T A++ L K + +V + + E + ++KL+ G
Sbjct: 211 TNHVLTDAQKILCIE-KCFTFTASFNRPNLYYEVRQKPSNTEDFIEDIVKLINGRYKGQS 269
Query: 275 ILIFTETKKGCDQVTRQLRMDGWPALSIHG-----DKNQSERDWVLAEFR 319
+I+ ++K +QVT L+ G A + H DK R W E +
Sbjct: 270 GIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQ 319
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 48/84 (57%), Gaps = 1/84 (1%)
Query: 253 VTEAEKYNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERD 312
+ + EK +L LL +V++ ++++IF ++ + C + + L +PA++IH Q ER
Sbjct: 13 LKDNEKNRKLFDLL-DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERL 71
Query: 313 WVLAEFRSGRSPIMTATDVAARGL 336
+F+ + I+ AT++ RG+
Sbjct: 72 SRYQQFKDFQRRILVATNLFGRGM 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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 257 EKYNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLA 316
+KY L + + G I IF +T++ +T ++ DG + G+ +R ++
Sbjct: 20 DKYQALCNIYGSITIGQAI-IFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQ 78
Query: 317 EFRSGRSPIMTATDVAARGL 336
FR G+ ++ T+V ARG+
Sbjct: 79 RFRDGKEKVLITTNVCARGI 98
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 5/77 (6%)
Query: 264 KLLKEVMDGSRILIFTETKKG----CDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFR 319
K +KE + +IF T K C + + + D P L HG Q++R ++ F+
Sbjct: 25 KQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKITQNKRTSLVKRFK 83
Query: 320 SGRSPIMTATDVAARGL 336
S I+ TDV ARG+
Sbjct: 84 KDESGILVCTDVGARGM 100
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 5/77 (6%)
Query: 264 KLLKEVMDGSRILIFTETKKG----CDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFR 319
K +KE + +IF T K C + + + D P L HG Q++R ++ F+
Sbjct: 25 KQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKITQNKRTSLVKRFK 83
Query: 320 SGRSPIMTATDVAARGL 336
S I+ TDV ARG+
Sbjct: 84 KDESGILVCTDVGARGM 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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 5/77 (6%)
Query: 264 KLLKEVMDGSRILIFTETKKG----CDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFR 319
K +KE + +IF T K C + + + D P L HG Q++R ++ F+
Sbjct: 25 KQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD-LPILEFHGKITQNKRTSLVKRFK 83
Query: 320 SGRSPIMTATDVAARGL 336
S I+ TDV ARG+
Sbjct: 84 KDESGILVCTDVGARGM 100
>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: 262 LIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSG 321
L+ LLK+ + +R ++F ++ ++ LR G + G+ Q +R+ + G
Sbjct: 21 LVHLLKQ-PEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEG 79
Query: 322 RSPIMTATDVAARGL 336
R ++ ATDVAARG+
Sbjct: 80 RVNVLVATDVAARGI 94
>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 = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 27/107 (25%), Positives = 50/107 (46%), Gaps = 11/107 (10%)
Query: 241 KANQSINQVVEVVTEAEKYNRLIKLLKEVMD---GSRILIFTETKKGCDQVTRQLRMDGW 297
KA + Q E+ + K ++L ++++E + S+I++FT ++ ++ +L DG
Sbjct: 327 KAISLLVQAKEIGLDHPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGI 386
Query: 298 PALSIHGDK--------NQSERDWVLAEFRSGRSPIMTATDVAARGL 336
A G +Q E+ +L EF G ++ AT V GL
Sbjct: 387 KAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGL 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|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 65/284 (22%), Positives = 116/284 (40%), Gaps = 44/284 (15%)
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--LKAN 243
F + R+ + TL SAT PR ++A F + +I + K
Sbjct: 502 ----FGVKQREALMNKGKMVDTLVMSATPIPR---SMALAFYGDLDVTVIDEMPPGRKEV 554
Query: 244 QSINQVVEVVTEAEKYNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALS-- 301
Q++ ++ V E ++ R +EVM G + I + D++ + ++ + LS
Sbjct: 555 QTMLVPMDRVNEVYEFVR-----QEVMRGGQAFIVYPLIEESDKLNVKSAVEMYEYLSKE 609
Query: 302 ---------IHGDKNQSERDWVLAEFRSGRSPIMTATDVAARGL 336
+HG +Q E+D V+ EF GR I+ +T V G+
Sbjct: 610 VFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGI 653
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 65/309 (21%), Positives = 126/309 (40%), Gaps = 36/309 (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 VETLARQFLR----NPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKEVMD--G 272
+T + +R N + I S + +I ++ EK+ L +L++ V + G
Sbjct: 185 DDTTRQDIVRLLGLNDPLIQISSFD---RPNIRYML-----MEKFKPLDQLMRYVQEQRG 236
Query: 273 SRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVA 332
+I+ ++ + +L+ G A + H + R V +F+ I+ AT
Sbjct: 237 KSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAF 296
Query: 333 ARGLGRITV 341
G+ + V
Sbjct: 297 GMGINKPNV 305
>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 = 35.0 bits (79), Expect = 0.064, 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|1GKU|B Chain B, Reverse Gyrase From Archaeoglobus Fulgidus
Length = 1054
Score = 34.7 bits (78), Expect = 0.069, 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|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 = 34.7 bits (78), Expect = 0.078, 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|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 = 34.3 bits (77), Expect = 0.10, 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|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 65/309 (21%), Positives = 122/309 (39%), Gaps = 36/309 (11%)
Query: 45 LGFVEPTPIQAQGWPMALKGRDLIGIAETGSGKTLSYLLPAFVHVSAQPRLVQGEGPIVL 104
G+ + P Q + L GRD + + TG GK+L Y +PA L+ G + +
Sbjct: 21 FGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPAL--------LLNG---LTV 69
Query: 105 VLAPTRELAVQIQEEALKFGSRAGIRSTCIYGGAPKGPQIR---DLRRG-VEIVIATPGR 160
V++P + + ++ + G+ + C+ + Q+ R G + ++ P R
Sbjct: 70 VVSPL----ISLXKDQVDQLQANGVAAACLNSTQTREQQLEVXTGCRTGQIRLLYIAPER 125
Query: 161 LIDMLEAQHTNLRRVTYLVLDEADRMLDMG--FEPQIRKIVTQIRPDRQTLYWSATWPRE 218
L +H L +DEA + G F P+ + Q+R TL + A
Sbjct: 126 LXLDNFLEHLAHWNPVLLAVDEAHCISQWGHDFRPEYAAL-GQLRQRFPTLPFXALTATA 184
Query: 219 VETLARQFLR----NPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIKLLKEVMD--G 272
+T + +R N + I S + +I + EK+ L +L + V + G
Sbjct: 185 DDTTRQDIVRLLGLNDPLIQISSFD---RPNIRYXL-----XEKFKPLDQLXRYVQEQRG 236
Query: 273 SRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDVA 332
+I+ ++ + +L+ G A + H + R V +F+ I+ AT
Sbjct: 237 KSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAF 296
Query: 333 ARGLGRITV 341
G+ + V
Sbjct: 297 GXGINKPNV 305
>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 = 34.3 bits (77), Expect = 0.11, 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 = 34.3 bits (77), Expect = 0.11, 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|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 = 34.3 bits (77), Expect = 0.11, 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|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 32/139 (23%), Positives = 55/139 (39%), Gaps = 9/139 (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
Query: 166 EAQHT-NLRRVTYLVLDEA 183
+L T + DE
Sbjct: 118 NNGAIPSLSVFTLXIFDEC 136
>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 = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 58/268 (21%), Positives = 116/268 (43%), Gaps = 22/268 (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 --WSATWPREVETLARQFLRNPYKVIIGSLELKANQSINQVVEVVTEAEKYNRLIK---L 265
SAT P V +A + Y + L +E+ A +R +K L
Sbjct: 176 IGLSATAPN-VTEIAEWLDADYYVSDWRPVPLVEGVLCEGTLELFDGAFSTSRRVKFEEL 234
Query: 266 LKE-VMDGSRILIFTETKKGCDQVTRQL 292
++E V + +L+F T++G ++ +L
Sbjct: 235 VEECVAENGGVLVFESTRRGAEKTAVKL 262
>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 = 32.3 bits (72), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 259 YNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIH 303
Y + I L EV+ G R LIF +KK CD++ +L G A++ +
Sbjct: 28 YGKAIPL--EVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYY 70
>pdb|1A1V|A Chain A, Hepatitis C Virus Ns3 Helicase Domain Complexed With
Single Stranded Sdna
Length = 476
Score = 32.3 bits (72), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 2/49 (4%)
Query: 255 EAEKYNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIH 303
E Y + I L EV+ G R LIF +KK CD++ +L G A++ +
Sbjct: 181 EIPFYGKAIPL--EVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYY 227
>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 = 0.44, 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|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 = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 2/49 (4%)
Query: 255 EAEKYNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIH 303
E Y + I L EV+ G R LIF +KK CD++ +L G A++ +
Sbjct: 167 EIPFYGKAIPL--EVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYY 213
>pdb|8OHM|A Chain A, Crystal Structure Of Rna Helicase From Genotype 1b
Hepatitis C Virus: Mechanism Of Unwinding Duplex Rna
Length = 435
Score = 31.6 bits (70), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 2/49 (4%)
Query: 255 EAEKYNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIH 303
E Y + I + EV+ G R LIF +KK CD++ +L G A++ +
Sbjct: 157 EIPFYGKAIPI--EVIRGGRHLIFCHSKKKCDELAAKLSALGLNAVAYY 203
>pdb|2ZJO|A Chain A, Crystal Structure Of Hepatitis C Virus Ns3 Helicase With A
Novel Inhibitor
Length = 482
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 7/45 (15%)
Query: 259 YNRLIKLLKEVMDGSRILIFTETKKGCDQVTRQLRMDGWPALSIH 303
Y + I + E + G R LIF +KK CD++ +L AL IH
Sbjct: 195 YGKAIPI--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: 272 GSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDV 331
R+L+ T TKK + +T L+ G +H + ER ++ + R G+ ++ ++
Sbjct: 451 NERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 510
Query: 332 AARGL 336
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: 272 GSRILIFTETKKGCDQVTRQLRMDGWPALSIHGDKNQSERDWVLAEFRSGRSPIMTATDV 331
R+L+ T TKK + +T L+ G +H + ER ++ + R G+ ++ ++
Sbjct: 445 NERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINL 504
Query: 332 AARGL 336
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: 308 QSERDWVLAEFRSGRSPIMTATDVAARGL 336
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 = 28.9 bits (63), Expect = 3.8, 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 = 6.1, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 21/29 (72%)
Query: 308 QSERDWVLAEFRSGRSPIMTATDVAARGL 336
Q+E+ V+++FR+G+ ++ AT VA GL
Sbjct: 200 QNEQREVISKFRTGKINLLIATTVAEEGL 228
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
0.321 0.138 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,587,954
Number of Sequences: 62578
Number of extensions: 392275
Number of successful extensions: 1219
Number of sequences better than 100.0: 99
Number of HSP's better than 100.0 without gapping: 74
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 1029
Number of HSP's gapped (non-prelim): 103
length of query: 342
length of database: 14,973,337
effective HSP length: 100
effective length of query: 242
effective length of database: 8,715,537
effective search space: 2109159954
effective search space used: 2109159954
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)