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= 010709
(503 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 263 bits (673), Expect = 1e-70, Method: Compositional matrix adjust.
Identities = 147/353 (41%), Positives = 209/353 (59%), Gaps = 26/353 (7%)
Query: 117 PAPIESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFT 176
P IESF+D+ + IM +IE YTRPT +Q A+P+ RDL+ CA+TGSGKTAAF
Sbjct: 11 PPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFL 70
Query: 177 IPMIQHCVAQTP------------VGR-GDGPLALVLAPTRELAQQIEKEVKALSRSLDS 223
+P++ + P GR P++LVLAPTRELA QI +E + S
Sbjct: 71 LPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYR-SR 129
Query: 224 FKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLD 283
+ +V GG +I +Q +L G ++VATPGR +D +++G L +++LDEADRMLD
Sbjct: 130 VRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLD 189
Query: 284 MGFEPQIREVMQN--LPDK--HQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTAN 339
MGFEPQIR +++ +P K T++FSAT P EI+ LA+++L + + + VG+V S + N
Sbjct: 190 MGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSEN 249
Query: 340 VIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPLTIVFVERKTRCDEVSEALVAEGL 399
+ Q + V E++K + LT+VFVE K D + + L EG
Sbjct: 250 ITQKVVWVEESDK--------RSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGY 301
Query: 400 HAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
++HG R+Q DRE AL FR+G + ILVAT VA+RGLD+ V HV+N DLP
Sbjct: 302 ACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLP 354
>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 = 239 bits (609), Expect = 4e-63, Method: Compositional matrix adjust.
Identities = 141/355 (39%), Positives = 202/355 (56%), Gaps = 23/355 (6%)
Query: 104 NVDVTVASGSVPAPAPIESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLG 163
N+ V V VP P I+ FT L I+ ++ Y PT IQ ++PV SGRDL+
Sbjct: 41 NIPVKVTGSDVPQP--IQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMA 98
Query: 164 CAETGSGKTAAFTIPMIQHCVA---QTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRS 220
CA+TGSGKTAAF +P++ + + +GR P ++++PTRELA QI E + +
Sbjct: 99 CAQTGSGKTAAFLLPILSKLLEDPHELELGR---PQVVIVSPTRELAIQIFNEARKFA-- 153
Query: 221 LDSF-KTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEAD 279
+S+ K IV GGT+ Q + G +V+ATPGR LD + + + FV+LDEAD
Sbjct: 154 FESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEAD 213
Query: 280 RMLDMGFEPQIREVMQN--LPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPT 337
RMLDMGF +R +M + + +HQTL+FSAT P EI+ +A E+L + V V +G V
Sbjct: 214 RMLDMGFSEDMRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGAC 273
Query: 338 ANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPLTIVFVERKTRCDEVSEALVAE 397
++V Q + +V++ K + TIVFVE K D ++ L +
Sbjct: 274 SDVKQTIYEVNKYAKRSKLIEILSEQADG----------TIVFVETKRGADFLASFLSEK 323
Query: 398 GLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
++HG R QS RE ALRDF+NGS +L+AT VASRGLD+ + HV+N D+P
Sbjct: 324 EFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMP 378
>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 = 202 bits (513), Expect = 5e-52, Method: Compositional matrix adjust.
Identities = 98/218 (44%), Positives = 142/218 (65%), Gaps = 1/218 (0%)
Query: 116 APAPIESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAF 175
P P+ +F + ++M I +T PT+IQAQ PVALSG D++G A+TGSGKT ++
Sbjct: 24 CPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSY 83
Query: 176 TIPMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNI 235
+P I H Q + RGDGP+ LVLAPTRELAQQ+++ R+ K+ + GG
Sbjct: 84 LLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRAC-RLKSTCIYGGAPK 142
Query: 236 AEQRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQ 295
Q +L GV I +ATPGR +D L+ G T+L R ++++LDEADRMLDMGFEPQIR+++
Sbjct: 143 GPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVD 202
Query: 296 NLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKV 333
+ QTL++SAT P E+ LA+++L D + + +G +
Sbjct: 203 QIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIGAL 240
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 201 bits (512), Expect = 6e-52, Method: Compositional matrix adjust.
Identities = 101/230 (43%), Positives = 148/230 (64%), Gaps = 3/230 (1%)
Query: 102 RLNVDVTVASGSVPAPAPIESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDL 161
R + ++TV + P P+ +F + ++M I +T PT+IQAQ PVALSG D+
Sbjct: 26 RRSKEITVRGHN--CPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDM 83
Query: 162 LGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSL 221
+G A+TGSGKT ++ +P I H Q + RGDGP+ LVLAPTRELAQQ+++ R+
Sbjct: 84 VGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRAC 143
Query: 222 DSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRM 281
K+ + GG Q +L GV I +ATPGR +D L+ G T+L R ++++LDEADRM
Sbjct: 144 -RLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRM 202
Query: 282 LDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVG 331
LDMGFEPQIR+++ + QTL++SAT P E+ LA+++L D + + +G
Sbjct: 203 LDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIG 252
>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 = 192 bits (487), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 104/247 (42%), Positives = 152/247 (61%), Gaps = 9/247 (3%)
Query: 104 NVDVTVASGSVPAPAPIESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLG 163
++ V+V A IE+F ++ L P+I +I Y RPT IQ A+P L RD++
Sbjct: 6 SIPVSVTGPDYSATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMA 65
Query: 164 CAETGSGKTAAFTIPMIQHCVA----QTPVGRGDGPLALVLAPTRELAQQIEKEVKALSR 219
CA+TGSGKTAAF IP+I H V Q + P L+LAPTRELA QI E + S
Sbjct: 66 CAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSL 125
Query: 220 SLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEAD 279
+ ++ +V GG + Q E++ G ++VATPGR +D +++ SL +++LDEAD
Sbjct: 126 N-TPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEAD 184
Query: 280 RMLDMGFEPQIREVMQ--NLPD--KHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSS 335
RMLDMGFEPQIR++++ N+P QTL+FSAT P EI+ LA ++L + + + VG+V S
Sbjct: 185 RMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGS 244
Query: 336 PTANVIQ 342
+ ++ Q
Sbjct: 245 TSDSIKQ 251
>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 = 191 bits (485), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 115/340 (33%), Positives = 187/340 (55%), Gaps = 27/340 (7%)
Query: 120 IESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPM 179
++SF DM L S+++ I + + +P++IQ +A+ + G D++ A++G+GKTA F I +
Sbjct: 13 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISI 72
Query: 180 IQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQR 239
+Q + ALVLAPTRELAQQI+K V AL + + A +GGTN+ +
Sbjct: 73 LQQIELDLKATQ-----ALVLAPTRELAQQIQKVVMALGDYMGASCHA-CIGGTNVRAEV 126
Query: 240 SELRGGV-SIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLP 298
+L+ I+V TPGR D L + S + +LDEAD ML GF+ QI ++ Q L
Sbjct: 127 QKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLN 186
Query: 299 DKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXX 357
Q +L SATMP ++ + ++++ DP+++ V K + Q V E K+D
Sbjct: 187 SNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTL- 245
Query: 358 XXXXXXXXXXXKSCHPFP-LTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSD 412
C + LTI +F+ + + D ++E + A A+HG +Q +
Sbjct: 246 -------------CDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKE 292
Query: 413 RESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
R+ +R+FR+GS+ +L+ TD+ +RG+DV V+ V+N DLP
Sbjct: 293 RDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLP 332
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 190 bits (483), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 115/340 (33%), Positives = 187/340 (55%), Gaps = 27/340 (7%)
Query: 120 IESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPM 179
++SF DM L S+++ I + + +P++IQ +A+ + G D++ A++G+GKTA F I +
Sbjct: 39 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISI 98
Query: 180 IQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQR 239
+Q + ALVLAPTRELAQQI+K V AL + + A +GGTN+ +
Sbjct: 99 LQQIELDLKATQ-----ALVLAPTRELAQQIQKVVMALGDYMGASCHA-CIGGTNVRAEV 152
Query: 240 SELRGGV-SIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLP 298
+L+ I+V TPGR D L + S + +LDEAD ML GF+ QI ++ Q L
Sbjct: 153 QKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLN 212
Query: 299 DKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXX 357
Q +L SATMP ++ + ++++ DP+++ V K + Q V E K+D
Sbjct: 213 SNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTL- 271
Query: 358 XXXXXXXXXXXKSCHPFP-LTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSD 412
C + LTI +F+ + + D ++E + A A+HG +Q +
Sbjct: 272 -------------CDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKE 318
Query: 413 RESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
R+ +R+FR+GS+ +L+ TD+ +RG+DV V+ V+N DLP
Sbjct: 319 RDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLP 358
>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 = 186 bits (471), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 110/337 (32%), Positives = 186/337 (55%), Gaps = 26/337 (7%)
Query: 122 SFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQ 181
+F M L +++ I + + +P++IQ +A+ + GRD++ +++G+GKTA F+I ++Q
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
Query: 182 HCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSE 241
Q + AL+LAPTRELA QI+K + AL ++ + +GGTN+ E +
Sbjct: 99 CLDIQVRETQ-----ALILAPTRELAVQIQKGLLALGDYMN-VQCHACIGGTNVGEDIRK 152
Query: 242 LRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKH 301
L G +V TPGR D +++ + + ++LDEAD ML+ GF+ QI +V + LP
Sbjct: 153 LDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT 212
Query: 302 QTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXXXXX 360
Q +L SAT+P EI + +++TDP+++ V + + Q V E K D
Sbjct: 213 QVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTL---- 268
Query: 361 XXXXXXXXKSCHPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRES 415
C + LTI +F K + D ++E + ++HG Q +RES
Sbjct: 269 ----------CDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERES 318
Query: 416 ALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
+++FR+G++ +L++TDV +RGLDV V+ ++N DLP
Sbjct: 319 IMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLP 355
>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 = 186 bits (471), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 110/337 (32%), Positives = 186/337 (55%), Gaps = 26/337 (7%)
Query: 122 SFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQ 181
+F M L +++ I + + +P++IQ +A+ + GRD++ +++G+GKTA F+I ++Q
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
Query: 182 HCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSE 241
Q + AL+LAPTRELA QI+K + AL ++ + +GGTN+ E +
Sbjct: 99 CLDIQVRETQ-----ALILAPTRELAVQIQKGLLALGDYMN-VQCHACIGGTNVGEDIRK 152
Query: 242 LRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKH 301
L G +V TPGR D +++ + + ++LDEAD ML+ GF+ QI +V + LP
Sbjct: 153 LDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT 212
Query: 302 QTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXXXXX 360
Q +L SAT+P EI + +++TDP+++ V + + Q V E K D
Sbjct: 213 QVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTL---- 268
Query: 361 XXXXXXXXKSCHPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRES 415
C + LTI +F K + D ++E + ++HG Q +RES
Sbjct: 269 ----------CDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERES 318
Query: 416 ALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
+++FR+G++ +L++TDV +RGLDV V+ ++N DLP
Sbjct: 319 IMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLP 355
>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 = 186 bits (471), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 110/337 (32%), Positives = 186/337 (55%), Gaps = 26/337 (7%)
Query: 122 SFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQ 181
+F M L +++ I + + +P++IQ +A+ + GRD++ +++G+GKTA F+I ++Q
Sbjct: 17 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 76
Query: 182 HCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSE 241
Q + AL+LAPTRELA QI+K + AL ++ + +GGTN+ E +
Sbjct: 77 CLDIQVRETQ-----ALILAPTRELAVQIQKGLLALGDYMN-VQCHACIGGTNVGEDIRK 130
Query: 242 LRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKH 301
L G +V TPGR D +++ + + ++LDEAD ML+ GF+ QI +V + LP
Sbjct: 131 LDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT 190
Query: 302 QTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXXXXX 360
Q +L SAT+P EI + +++TDP+++ V + + Q V E K D
Sbjct: 191 QVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTL---- 246
Query: 361 XXXXXXXXKSCHPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRES 415
C + LTI +F K + D ++E + ++HG Q +RES
Sbjct: 247 ----------CDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERES 296
Query: 416 ALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
+++FR+G++ +L++TDV +RGLDV V+ ++N DLP
Sbjct: 297 IMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLP 333
>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 = 186 bits (471), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 110/337 (32%), Positives = 186/337 (55%), Gaps = 26/337 (7%)
Query: 122 SFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQ 181
+F M L +++ I + + +P++IQ +A+ + GRD++ +++G+GKTA F+I ++Q
Sbjct: 38 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 97
Query: 182 HCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSE 241
Q + AL+LAPTRELA QI+K + AL ++ + +GGTN+ E +
Sbjct: 98 CLDIQVRETQ-----ALILAPTRELAVQIQKGLLALGDYMN-VQCHACIGGTNVGEDIRK 151
Query: 242 LRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKH 301
L G +V TPGR D +++ + + ++LDEAD ML+ GF+ QI +V + LP
Sbjct: 152 LDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT 211
Query: 302 QTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXXXXX 360
Q +L SAT+P EI + +++TDP+++ V + + Q V E K D
Sbjct: 212 QVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTL---- 267
Query: 361 XXXXXXXXKSCHPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRES 415
C + LTI +F K + D ++E + ++HG Q +RES
Sbjct: 268 ----------CDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERES 317
Query: 416 ALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
+++FR+G++ +L++TDV +RGLDV V+ ++N DLP
Sbjct: 318 IMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLP 354
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 184 bits (467), Expect = 9e-47, Method: Compositional matrix adjust.
Identities = 107/337 (31%), Positives = 187/337 (55%), Gaps = 26/337 (7%)
Query: 122 SFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQ 181
+F M L +++ I + + +P++IQ +A+ + GRD++ +++G+GKTA F++ ++Q
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 182 HCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSE 241
Q + AL+LAPTRELA Q++K + AL ++ ++ +GGTN+ E +
Sbjct: 62 CLDIQVRETQ-----ALILAPTRELAVQVQKGLLALGDYMN-VQSHACIGGTNVGEDIRK 115
Query: 242 LRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKH 301
L G +V TPGR D +++ + + ++LDEAD ML+ GF+ QI +V + LP
Sbjct: 116 LDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT 175
Query: 302 QTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXXXXX 360
Q +L SAT+P E+ + +++TDP+++ V + + Q V E K D
Sbjct: 176 QVVLISATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTL---- 231
Query: 361 XXXXXXXXKSCHPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRES 415
C + LTI +F K + D ++E + ++HG Q +RES
Sbjct: 232 ----------CDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERES 281
Query: 416 ALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
+++FR+G++ +L++TDV +RGLDV V+ ++N DLP
Sbjct: 282 IMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLP 318
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 184 bits (467), Expect = 9e-47, Method: Compositional matrix adjust.
Identities = 108/337 (32%), Positives = 186/337 (55%), Gaps = 26/337 (7%)
Query: 122 SFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQ 181
+F M L +++ I + + +P++IQ +A+ + GRD++ +++G+GKTA F++ ++Q
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 182 HCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSE 241
Q + AL+LAPTRELA Q++K + AL ++ + +GGTN+ E +
Sbjct: 62 CLDIQVRETQ-----ALILAPTRELAVQVQKGLLALGDYMN-VQCHACIGGTNVGEDIRK 115
Query: 242 LRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKH 301
L G +V TPGR D +++ + + ++LDEAD ML+ GF+ QI +V + LP
Sbjct: 116 LDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPAT 175
Query: 302 QTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENE-KVDRXXXXX 360
Q +L SAT+P EI + +++TDP+++ V + + Q V E K D
Sbjct: 176 QVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTL---- 231
Query: 361 XXXXXXXXKSCHPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRES 415
C + LTI +F K + D ++E + ++HG Q +RES
Sbjct: 232 ----------CDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERES 281
Query: 416 ALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
+++FR+G++ +L++TDV +RGLDV V+ ++N DLP
Sbjct: 282 IMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLP 318
>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 = 184 bits (467), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 118/333 (35%), Positives = 180/333 (54%), Gaps = 23/333 (6%)
Query: 122 SFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGR-DLLGCAETGSGKTAAFTIPMI 180
+F ++ L +I+ I + +PT IQ + +P+ L+ +++ A TGSGKTA+F IP+I
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 181 QHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRS 240
+ V +G A++L PTRELA Q+ E+++L + + K A + GG I Q
Sbjct: 67 E------LVNENNGIEAIILTPTRELAIQVADEIESL-KGNKNLKIAKIYGGKAIYPQIK 119
Query: 241 ELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDK 300
L+ +IVV TPGR LDH+ +G +L V + ILDEAD L+ GF + +++
Sbjct: 120 ALKNA-NIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKD 178
Query: 301 HQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXX 360
+ LLFSAT P EI LA++Y D +K + AN+ Q +V+ENE+ +
Sbjct: 179 KRILLFSATXPREILNLAKKYXGDYSFIK----AKINANIEQSYVEVNENERFE------ 228
Query: 361 XXXXXXXXKSCHPFPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDF 420
K+ + L VF + K E++ L G A A+HG +QS RE +R F
Sbjct: 229 --ALCRLLKNKEFYGL--VFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLF 284
Query: 421 RNGSTNILVATDVASRGLDVMGVAHVVNLDLPK 453
+ IL+ATDV SRG+DV + V+N LP+
Sbjct: 285 KQKKIRILIATDVXSRGIDVNDLNCVINYHLPQ 317
>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 = 179 bits (454), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 122/395 (30%), Positives = 198/395 (50%), Gaps = 35/395 (8%)
Query: 96 IEEVRLRLNVDVTVASGSVPAPAPIESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVA 155
IEE +++ N D V F DM L ++++ + + + P++IQ +A+
Sbjct: 8 IEESQIQTNYDKVVYK-----------FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPI 56
Query: 156 LSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVK 215
+ G D+L A++G+GKT F+I +Q T V P AL+LAPTRELA QI+K V
Sbjct: 57 IEGHDVLAQAQSGTGKTGTFSIAALQRI--DTSVK---APQALMLAPTRELALQIQKVVM 111
Query: 216 ALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVIL 275
AL+ +D K +GGT+ E LR IVV TPGR D++Q+ ++ IL
Sbjct: 112 ALAFHMD-IKVHACIGGTSFVEDAEGLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFIL 169
Query: 276 DEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSS 335
DEAD ML GF+ QI ++ LP Q +L SATMP ++ + +++ +PV++ V K
Sbjct: 170 DEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDEL 229
Query: 336 PTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPLTIVFVERKTRCDEVSEALV 395
+ Q V E E ++F + + +E++ L
Sbjct: 230 TLEGIKQFYVNVEEEE--------YKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLR 281
Query: 396 AEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP--- 452
+ A++ Q +R++ +++FR+GS+ IL++TD+ +RG+DV V+ V+N DLP
Sbjct: 282 NDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANK 341
Query: 453 -----KVLLAASESLCTTSFNITTNLD-GDMKKLE 481
++ + N TN D G M++LE
Sbjct: 342 ENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELE 376
>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 = 177 bits (449), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 97/210 (46%), Positives = 127/210 (60%), Gaps = 5/210 (2%)
Query: 123 FTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQH 182
F D L P I++ + T PT IQA A+P+AL G+DL+G A TG+GKT AF +P+ +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 183 CVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSEL 242
RG P ALVL PTRELA Q+ E+ A++ L K V GGT +Q+ L
Sbjct: 63 LAPSQE--RGRKPRALVLTPTRELALQVASELTAVAPHL---KVVAVYGGTGYGKQKEAL 117
Query: 243 RGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQ 302
G VVATPGR LD+L+QG LSRV +LDEAD ML MGFE ++ ++ P Q
Sbjct: 118 LRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQ 177
Query: 303 TLLFSATMPVEIEALAQEYLTDPVQVKVGK 332
TLLFSAT+P + LA+ Y+ +PV + V K
Sbjct: 178 TLLFSATLPSWAKRLAERYMKNPVLINVIK 207
>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 = 176 bits (445), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 96/210 (45%), Positives = 127/210 (60%), Gaps = 5/210 (2%)
Query: 123 FTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQH 182
F D L P I++ + T PT I+A A+P+AL G+DL+G A TG+GKT AF +P+ +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 183 CVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSEL 242
RG P ALVL PTRELA Q+ E+ A++ L K V GGT +Q+ L
Sbjct: 63 LAPSQE--RGRKPRALVLTPTRELALQVASELTAVAPHL---KVVAVYGGTGYGKQKEAL 117
Query: 243 RGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQ 302
G VVATPGR LD+L+QG LSRV +LDEAD ML MGFE ++ ++ P Q
Sbjct: 118 LRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQ 177
Query: 303 TLLFSATMPVEIEALAQEYLTDPVQVKVGK 332
TLLFSAT+P + LA+ Y+ +PV + V K
Sbjct: 178 TLLFSATLPSWAKRLAERYMKNPVLINVIK 207
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 166 bits (421), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 111/357 (31%), Positives = 178/357 (49%), Gaps = 26/357 (7%)
Query: 96 IEEVRLRLNVDVTVASGSVPAPAPIESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVA 155
IEE +++ N D V F D L ++++ + + + P++IQ +A+
Sbjct: 7 IEESQIQTNYDKVVYK-----------FDDXELDENLLRGVFGYGFEEPSAIQQRAIXPI 55
Query: 156 LSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVK 215
+ G D+L A++G+GKT F+I +Q T V P AL LAPTRELA QI+K V
Sbjct: 56 IEGHDVLAQAQSGTGKTGTFSIAALQRI--DTSVK---APQALXLAPTRELALQIQKVVX 110
Query: 216 ALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVIL 275
AL+ D K +GGT+ E LR IVV TPGR D++Q+ ++ IL
Sbjct: 111 ALAFHXD-IKVHACIGGTSFVEDAEGLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKXFIL 168
Query: 276 DEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSS 335
DEAD L GF+ QI ++ LP Q +L SAT P ++ + ++ +PV++ V K
Sbjct: 169 DEADEXLSSGFKEQIYQIFTLLPPTTQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDEL 228
Query: 336 PTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPLTIVFVERKTRCDEVSEALV 395
+ Q V E E ++F + + +E++ L
Sbjct: 229 TLEGIKQFYVNVEEEE--------YKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLR 280
Query: 396 AEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
+ A++ Q +R++ ++FR+GS+ IL++TD+ +RG+DV V+ V+N DLP
Sbjct: 281 NDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLP 337
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 165 bits (418), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 101/332 (30%), Positives = 161/332 (48%), Gaps = 16/332 (4%)
Query: 122 SFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQ 181
+F D L ++ I + +P+ IQ +A+PVA++GRD+L A+ G+GKTAAF IP ++
Sbjct: 22 TFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLE 81
Query: 182 HCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSE 241
+ + AL++ PTRELA Q + V+ L + + GGTN+ +
Sbjct: 82 KVKPKL-----NKIQALIMVPTRELALQTSQVVRTLGKHC-GISCMVTTGGTNLRDDILR 135
Query: 242 LRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKH 301
L V I+V TPGR LD + LS S I+DEAD+ML F+ I +++ LP H
Sbjct: 136 LNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTH 195
Query: 302 QTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXX 361
Q+LLFSAT P+ ++ ++L P ++ + + + Q V E +K+
Sbjct: 196 QSLLFSATFPLTVKEFMVKHLHKPYEINLME-ELTLKGITQYYAFVEERQKLHCLNTLFS 254
Query: 362 XXXXXXXKSCHPFPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFR 421
I+F R + +++ + G H Q +R +FR
Sbjct: 255 KLQINQ---------AIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFR 305
Query: 422 NGSTNILVATDVASRGLDVMGVAHVVNLDLPK 453
G LV +D+ +RG+D+ V V+N D PK
Sbjct: 306 QGKVRTLVCSDLLTRGIDIQAVNVVINFDFPK 337
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 161 bits (408), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 104/342 (30%), Positives = 179/342 (52%), Gaps = 19/342 (5%)
Query: 116 APAPIESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAF 175
+P + F D L P +++ I + P+ +Q + +P A+ G D+L A++G GKTA F
Sbjct: 2 SPGHMSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVF 61
Query: 176 TIPMIQHCVAQTPVGRGDGPLA-LVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTN 234
+ +Q PV G ++ LV+ TRELA QI KE + S+ + + K A+ GG +
Sbjct: 62 VLATLQQL---EPVT---GQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLS 115
Query: 235 IAEQRSELRGGV-SIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLD-MGFEPQIRE 292
I + L+ IVV TPGR L + + +L + ILDEAD+ML+ + ++E
Sbjct: 116 IKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQE 175
Query: 293 VMQNLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQ-ILEKVSENE 351
+ + P + Q ++FSAT+ EI + ++++ DP+++ V + T + +Q K+ +NE
Sbjct: 176 IFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNE 235
Query: 352 KVDRXXXXXXXXXXXXXKSCHPFPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 411
K + F ++FV+ RC +++ LV + A+A+H G Q
Sbjct: 236 KNRKLFDLLDVL---------EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQE 286
Query: 412 DRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPK 453
+R S + F++ ILVAT++ RG+D+ V N D+P+
Sbjct: 287 ERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPE 328
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 157 bits (396), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 104/343 (30%), Positives = 179/343 (52%), Gaps = 20/343 (5%)
Query: 116 APAPIES-FTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAA 174
+P + S F D L P +++ I + P+ +Q + +P A+ G D+L A++G GKTA
Sbjct: 2 SPGHMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAV 61
Query: 175 FTIPMIQHCVAQTPVGRGDGPLA-LVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGT 233
F + +Q PV G ++ LV+ TRELA QI KE + S+ + + K A+ GG
Sbjct: 62 FVLATLQQL---EPVT---GQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGL 115
Query: 234 NIAEQRSELRGGV-SIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLD-MGFEPQIR 291
+I + L+ IVV TPGR L + + +L + ILDE D+ML+ + ++
Sbjct: 116 SIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQ 175
Query: 292 EVMQNLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQ-ILEKVSEN 350
E+ + P + Q ++FSAT+ EI + ++++ DP+++ V + T + +Q K+ +N
Sbjct: 176 EIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDN 235
Query: 351 EKVDRXXXXXXXXXXXXXKSCHPFPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQ 410
EK + F ++FV+ RC +++ LV + A+A+H G Q
Sbjct: 236 EKNRKLFDLLDVL---------EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQ 286
Query: 411 SDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPK 453
+R S + F++ ILVAT++ RG+D+ V N D+P+
Sbjct: 287 EERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPE 329
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 157 bits (396), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 104/343 (30%), Positives = 179/343 (52%), Gaps = 20/343 (5%)
Query: 116 APAPIES-FTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAA 174
+P + S F D L P +++ I + P+ +Q + +P A+ G D+L A++G GKTA
Sbjct: 2 SPGHMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAV 61
Query: 175 FTIPMIQHCVAQTPVGRGDGPLA-LVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGT 233
F + +Q PV G ++ LV+ TRELA QI KE + S+ + + K A+ GG
Sbjct: 62 FVLATLQQL---EPVT---GQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGL 115
Query: 234 NIAEQRSELRGGV-SIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLD-MGFEPQIR 291
+I + L+ IVV TPGR L + + +L + ILDE D+ML+ + ++
Sbjct: 116 SIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQ 175
Query: 292 EVMQNLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQ-ILEKVSEN 350
E+ + P + Q ++FSAT+ EI + ++++ DP+++ V + T + +Q K+ +N
Sbjct: 176 EIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDN 235
Query: 351 EKVDRXXXXXXXXXXXXXKSCHPFPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQ 410
EK + F ++FV+ RC +++ LV + A+A+H G Q
Sbjct: 236 EKNRKLFDLLDVL---------EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQ 286
Query: 411 SDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPK 453
+R S + F++ ILVAT++ RG+D+ V N D+P+
Sbjct: 287 EERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPE 329
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 152 bits (383), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 84/224 (37%), Positives = 140/224 (62%), Gaps = 7/224 (3%)
Query: 108 TVASGSVPAPAPIESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAET 167
T AS + ++F D+ + + + + +T+PT IQ +A+P+AL GRD++G AET
Sbjct: 30 TEASQPIVEEEETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAET 89
Query: 168 GSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTA 227
GSGKT AF +P++ + + +TP ALVL PTRELA QI ++ +AL S+ ++A
Sbjct: 90 GSGKTGAFALPIL-NALLETP----QRLFALVLTPTRELAFQISEQFEALGSSI-GVQSA 143
Query: 228 IVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQGNT-SLSRVSFVILDEADRMLDMGF 286
++VGG + Q L I++ATPGR +DHL+ +L + ++++DEADR+L+M F
Sbjct: 144 VIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDF 203
Query: 287 EPQIREVMQNLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKV 330
E ++ ++++ +P +T LFSATM +++ L + L +PV+ V
Sbjct: 204 ETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAV 247
>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 = 150 bits (380), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 86/217 (39%), Positives = 126/217 (58%), Gaps = 6/217 (2%)
Query: 117 PAPIESFTD-MCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAF 175
P P F D +P ++K I +PT IQ+QA P+ L G DL+ A+TG+GKT ++
Sbjct: 15 PKPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSY 74
Query: 176 TIPMIQHCVAQTPVGRG--DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGT 233
+P H +Q P+ R +GP LVL PTRELA +E E S K+ + GG
Sbjct: 75 LMPGFIHLDSQ-PISREQRNGPGMLVLTPTRELALHVEAECSKYSYK--GLKSICIYGGR 131
Query: 234 NIAEQRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREV 293
N Q ++ GV I++ATPGR D + +L ++++++DEAD+MLDM FEPQIR++
Sbjct: 132 NRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKI 191
Query: 294 MQNLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKV 330
+ ++ QT++ SAT P + LA YL DP+ V V
Sbjct: 192 LLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 149 bits (376), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 105/311 (33%), Positives = 162/311 (52%), Gaps = 31/311 (9%)
Query: 145 TSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTR 204
T +Q++ +P+ L G++++ A+TGSGKTAA+ IP+++ G +LV+ PTR
Sbjct: 18 TEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL-----------GMKSLVVTPTR 66
Query: 205 ELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQGN 264
EL +Q+ ++ + R +D+ K A V GG Q + +R IVVATPGR LD +G
Sbjct: 67 ELTRQVASHIRDIGRYMDT-KVAEVYGGMPYKAQINRVRNA-DIVVATPGRLLDLWSKGV 124
Query: 265 TSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIEALAQEYLTD 324
LS VI+DEAD M +MGF I+ ++ ++ T LFSAT+P EI + ++++T+
Sbjct: 125 IDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKVVKDFITN 184
Query: 325 PVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPLTIVFVERK 384
++ + ANV V ++ + K IVFV +
Sbjct: 185 YEEI---EACIGLANVEHKFVHVKDDWR-----SKVQALRENKDKGV------IVFVRTR 230
Query: 385 TRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVA 444
R + LV +A+ L G QS R + FR G ++L+ TDVASRGLD+ V
Sbjct: 231 NRVAK----LVRLFDNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVE 286
Query: 445 HVVNLDLPKVL 455
V+N D P+ L
Sbjct: 287 KVINFDAPQDL 297
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 141 bits (356), Expect = 7e-34, Method: Compositional matrix adjust.
Identities = 79/212 (37%), Positives = 129/212 (60%), Gaps = 4/212 (1%)
Query: 120 IESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPM 179
I F+D L +K ++ +Y T IQ Q + +AL G+D+LG A+TGSGKT AF +P+
Sbjct: 24 ITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPV 83
Query: 180 IQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQR 239
++ + + DG L+++PTRELA Q + ++ + ++ D F +++GG ++ +
Sbjct: 84 LE-ALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHD-FSAGLIIGGKDLKHE- 140
Query: 240 SELRGGVSIVVATPGRFLDHLQQG-NTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLP 298
+E ++I+V TPGR L H+ + + + + ++LDEADR+LDMGF + V++NLP
Sbjct: 141 AERINNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLP 200
Query: 299 DKHQTLLFSATMPVEIEALAQEYLTDPVQVKV 330
K QTLLFSAT ++ LA+ L +P V V
Sbjct: 201 KKRQTLLFSATQTKSVKDLARLSLKNPEYVWV 232
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 141 bits (355), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 79/214 (36%), Positives = 127/214 (59%), Gaps = 7/214 (3%)
Query: 120 IESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPM 179
+++F DM L S+++ I + + +P++IQ +A+ + G D++ A++G+GKTA F I +
Sbjct: 29 VDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISI 88
Query: 180 IQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQR 239
+Q + + ALVLAPTRELAQQI+K + AL + + A +GGTN+ +
Sbjct: 89 LQQLEIEFKETQ-----ALVLAPTRELAQQIQKVILALGDYMGATCHA-CIGGTNVRNEM 142
Query: 240 SELRGGV-SIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLP 298
+L+ IVV TPGR D L + S + +LDEAD ML GF+ QI E+ Q L
Sbjct: 143 QKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLN 202
Query: 299 DKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGK 332
Q +L SATMP ++ + ++++ DP+++ V K
Sbjct: 203 TSIQVVLLSATMPTDVLEVTKKFMRDPIRILVKK 236
>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 = 139 bits (349), Expect = 5e-33, Method: Compositional matrix adjust.
Identities = 69/206 (33%), Positives = 117/206 (56%), Gaps = 5/206 (2%)
Query: 123 FTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQH 182
F D CL ++ I + +P+ IQ +++P+ALSGRD+L A+ G+GK+ A+ IP+++
Sbjct: 5 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLER 64
Query: 183 CVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSEL 242
+ D A+V+ PTRELA Q+ + +S+ + K GGTN+ + L
Sbjct: 65 LDL-----KKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRL 119
Query: 243 RGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQ 302
V +V+ATPGR LD +++G + V ++LDEAD++L F + +++ LP Q
Sbjct: 120 DDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQ 179
Query: 303 TLLFSATMPVEIEALAQEYLTDPVQV 328
LL+SAT P+ ++ +L P ++
Sbjct: 180 ILLYSATFPLSVQKFMNSHLEKPYEI 205
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 137 bits (345), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 78/202 (38%), Positives = 131/202 (64%), Gaps = 7/202 (3%)
Query: 122 SFTDMC--LHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPM 179
SF +C ++ + +K I+ +T T IQ +++ L GRDLL A+TGSGKT AF IP
Sbjct: 53 SFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPA 112
Query: 180 IQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKAL-SRSLDSFKTAIVVGGTNIAEQ 238
++ V + R +G L+L+PTRELA Q +K L + + ++ +++GG+N + +
Sbjct: 113 VELIVKLRFMPR-NGTGVLILSPTRELAMQTFGVLKELMTHHVHTY--GLIMGGSNRSAE 169
Query: 239 RSELRGGVSIVVATPGRFLDHLQQGNTSLSR-VSFVILDEADRMLDMGFEPQIREVMQNL 297
+L G++I+VATPGR LDH+Q + + + +++DEADR+LD+GFE +++++++ L
Sbjct: 170 AQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLL 229
Query: 298 PDKHQTLLFSATMPVEIEALAQ 319
P + QT+LFSAT ++E LA+
Sbjct: 230 PTRRQTMLFSATQTRKVEDLAR 251
>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 = 135 bits (341), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 80/213 (37%), Positives = 123/213 (57%), Gaps = 7/213 (3%)
Query: 120 IESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPM 179
+ F DM L ++++ + + + P++IQ +A+ + G D+L A++G+GKT F+I
Sbjct: 13 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 72
Query: 180 IQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQR 239
+Q T V P AL+LAPTRELA QI+K V AL+ +D K +GGT+ E
Sbjct: 73 LQRI--DTSV---KAPQALMLAPTRELALQIQKVVMALAFHMD-IKVHACIGGTSFVEDA 126
Query: 240 SELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPD 299
LR IVV TPGR D++Q+ ++ ILDEAD ML GF+ QI ++ LP
Sbjct: 127 EGLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPP 185
Query: 300 KHQTLLFSATMPVEIEALAQEYLTDPVQVKVGK 332
Q +L SATMP ++ + +++ +PV++ V K
Sbjct: 186 TTQVVLLSATMPNDVLEVTTKFMRNPVRILVKK 218
>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 = 134 bits (337), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 99/339 (29%), Positives = 175/339 (51%), Gaps = 23/339 (6%)
Query: 118 APIESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAF 175
A +SF ++ L P ++K I ++ +P+ IQ +A+P+ L R+++ +++G+GKTAAF
Sbjct: 2 AMAKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAF 61
Query: 176 TIPMIQHCVAQTPVGRGDG-PLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTN 234
++ M+ T V D P A+ LAP+RELA+Q + V+ + + + ++V +
Sbjct: 62 SLTML------TRVNPEDASPQAICLAPSRELARQTLEVVQEMGK-FTKITSQLIVPDS- 113
Query: 235 IAEQRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDM-GFEPQIREV 293
E+ ++ ++V TPG LD +++ L ++ +LDEAD MLD G Q V
Sbjct: 114 -FEKNKQINA--QVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRV 170
Query: 294 MQNLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKV 353
+ LP Q +LFSAT + A++ + + +++ + + + I+ L +NE
Sbjct: 171 KRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLEL-QTNEVNVDAIKQLYMDCKNE-A 228
Query: 354 DRXXXXXXXXXXXXXKSCHPFPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDR 413
D+ S +I+FV K + + L +EG LHG +R
Sbjct: 229 DKFDVLTELYGVMTIGS------SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQER 282
Query: 414 ESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
+ + DFR G + +L+ T+V +RG+D+ V+ VVN DLP
Sbjct: 283 DRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLP 321
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 134 bits (337), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 99/339 (29%), Positives = 175/339 (51%), Gaps = 23/339 (6%)
Query: 118 APIESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAF 175
A +SF ++ L P ++K I ++ +P+ IQ +A+P+ L R+++ +++G+GKTAAF
Sbjct: 2 AMAKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAF 61
Query: 176 TIPMIQHCVAQTPVGRGDG-PLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTN 234
++ M+ T V D P A+ LAP+RELA+Q + V+ + + + ++V +
Sbjct: 62 SLTML------TRVNPEDASPQAICLAPSRELARQTLEVVQEMGK-FTKITSQLIVPDS- 113
Query: 235 IAEQRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDM-GFEPQIREV 293
E+ ++ ++V TPG LD +++ L ++ +LDEAD MLD G Q V
Sbjct: 114 -FEKNKQINA--QVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRV 170
Query: 294 MQNLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKV 353
+ LP Q +LFSAT + A++ + + +++ + + + I+ L +NE
Sbjct: 171 KRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLEL-QTNEVNVDAIKQLYMDCKNE-A 228
Query: 354 DRXXXXXXXXXXXXXKSCHPFPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDR 413
D+ S +I+FV K + + L +EG LHG +R
Sbjct: 229 DKFDVLTELYGLMTIGS------SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQER 282
Query: 414 ESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
+ + DFR G + +L+ T+V +RG+D+ V+ VVN DLP
Sbjct: 283 DRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLP 321
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 134 bits (336), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 79/211 (37%), Positives = 121/211 (57%), Gaps = 7/211 (3%)
Query: 120 IESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPM 179
+ F DM L +++ + + + P++IQ +A+ + G D+L A++G+GKT F+I
Sbjct: 20 VYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 79
Query: 180 IQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQR 239
+Q T V P AL+LAPTRELA QI+K V AL+ +D K +GGT+ E
Sbjct: 80 LQRI--DTSV---KAPQALMLAPTRELALQIQKVVMALAFHMD-IKVHACIGGTSFVEDA 133
Query: 240 SELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPD 299
LR IVV TPGR D++Q+ ++ ILDEAD ML GF+ QI ++ LP
Sbjct: 134 EGLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPP 192
Query: 300 KHQTLLFSATMPVEIEALAQEYLTDPVQVKV 330
Q +L SATMP ++ + +++ +PV++ V
Sbjct: 193 TTQVVLLSATMPNDVLEVTTKFMRNPVRILV 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 = 127 bits (320), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 76/212 (35%), Positives = 118/212 (55%), Gaps = 7/212 (3%)
Query: 120 IESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPM 179
++SF DM L S+++ I + + P++IQ +A+ + G D++ A++G+G TA F I +
Sbjct: 14 VDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISI 73
Query: 180 IQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQR 239
+Q + ALVLAPTRELAQQI+ V AL + + A +GGTN+ +
Sbjct: 74 LQQIELDLXATQ-----ALVLAPTRELAQQIQXVVMALGDYMGASCHA-CIGGTNVRAEV 127
Query: 240 SELRGGV-SIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLP 298
L+ I+V TPGR D L + S + +LDEAD ML GF QI ++ Q L
Sbjct: 128 QXLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLN 187
Query: 299 DKHQTLLFSATMPVEIEALAQEYLTDPVQVKV 330
Q +L SATMP ++ + ++ DP+++ V
Sbjct: 188 SNTQVVLLSATMPSDVLEVTXXFMRDPIRILV 219
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 125 bits (315), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 93/316 (29%), Positives = 153/316 (48%), Gaps = 33/316 (10%)
Query: 146 SIQAQAMPVALSG--RDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPT 203
IQ +A+P+ LS R+++G +++G+GKTAAF + M+ A P P A+ LAP+
Sbjct: 144 KIQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVP-----KPQAICLAPS 198
Query: 204 RELAQQIEKEVKALSRSLDSFKTAI-----VVGGTNIAEQRSELRGGVSIVVATPGRFLD 258
RELA+QI V + + + KTA V G I Q IV+ TPG +D
Sbjct: 199 RELARQIMDVVTEMGKYTE-VKTAFGIKDSVPKGAKIDAQ---------IVIGTPGTVMD 248
Query: 259 HLQQGNTSLSRVSFVILDEADRMLDM-GFEPQIREVMQNLPDKHQTLLFSATMPVEIEAL 317
+++ + +LDEAD MLD G Q + LP Q +LFSAT +E
Sbjct: 249 LMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKY 308
Query: 318 AQEYLTDPVQVKVGKVSSPTANVIQI-LEKVSENEKVDRXXXXXXXXXXXXXKSCHPFPL 376
A+ + + ++++ + Q+ ++ SE K +
Sbjct: 309 AERFAPNANEIRLKTEELSVEGIKQLYMDCQSEEHKYN---------VLVELYGLLTIGQ 359
Query: 377 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 436
+I+F ++K +E++ + A+G L G + R++ + FR G++ +LV T+V +R
Sbjct: 360 SIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIAR 419
Query: 437 GLDVMGVAHVVNLDLP 452
G+DV V VVN D+P
Sbjct: 420 GIDVSQVNLVVNYDMP 435
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 122 bits (305), Expect = 6e-28, Method: Compositional matrix adjust.
Identities = 105/349 (30%), Positives = 172/349 (49%), Gaps = 25/349 (7%)
Query: 128 LHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRD--LLGCAETGSGKTAAFTIPMIQHCVA 185
L I K I E+ T +Q + + LS D ++ A+TG+GKT AF IP+ QH +
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLI- 86
Query: 186 QTPVGRGDGPLALVLAPTRELAQQIEKEVKA---LSRSLDSFKTAIVVGGTNI---AEQR 239
T A+++APTR+LA QIE EVK ++ L + +VGGT+ +
Sbjct: 87 NTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKM 146
Query: 240 SELRGGVSIVVATPGRFLDHLQQGNTSLSR-VSFVILDEADRMLDMGFEPQIREVMQNLP 298
++LR +IV+ATPGR +D L++ + R V + +LDEADR+L++GF + + L
Sbjct: 147 NKLRP--NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILN 204
Query: 299 DKH-------QTLLFSATMPVEIEALAQEYLTDPVQVKVGKV--SSPTANVIQILEKVSE 349
+K+ +TLLFSAT+ +++ LA + + + V + P A+ +I + V
Sbjct: 205 EKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHE-RIDQSVVI 263
Query: 350 NEKVDRXXXXXXXXXXXXXKSCHPFPLTIVF---VERKTRCDEVSEALVAEGLHAVALHG 406
+EK K I+F V+ + + + + L + HG
Sbjct: 264 SEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHG 323
Query: 407 GRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKVL 455
Q+ R S ++ F+ + ILV TDV +RG+D V V+ + +P L
Sbjct: 324 KITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSEL 372
>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 = 1e-27, Method: Compositional matrix adjust.
Identities = 105/349 (30%), Positives = 172/349 (49%), Gaps = 25/349 (7%)
Query: 128 LHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRD--LLGCAETGSGKTAAFTIPMIQHCVA 185
L I K I E+ T +Q + + LS D ++ A+TG+GKT AF IP+ QH +
Sbjct: 79 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLI- 137
Query: 186 QTPVGRGDGPLALVLAPTRELAQQIEKEVKA---LSRSLDSFKTAIVVGGTNI---AEQR 239
T A+++APTR+LA QIE EVK ++ L + +VGGT+ +
Sbjct: 138 NTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKM 197
Query: 240 SELRGGVSIVVATPGRFLDHLQQGNTSLSR-VSFVILDEADRMLDMGFEPQIREVMQNLP 298
++LR +IV+ATPGR +D L++ + R V + +LDEADR+L++GF + + L
Sbjct: 198 NKLRP--NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILN 255
Query: 299 DKH-------QTLLFSATMPVEIEALAQEYLTDPVQVKVGKV--SSPTANVIQILEKVSE 349
+K+ +TLLFSAT+ +++ LA + + + V + P A+ +I + V
Sbjct: 256 EKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHE-RIDQSVVI 314
Query: 350 NEKVDRXXXXXXXXXXXXXKSCHPFPLTIVF---VERKTRCDEVSEALVAEGLHAVALHG 406
+EK K I+F V+ + + + + L + HG
Sbjct: 315 SEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHG 374
Query: 407 GRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKVL 455
Q+ R S ++ F+ + ILV TDV +RG+D V V+ + +P L
Sbjct: 375 KITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSEL 423
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 120 bits (302), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 105/349 (30%), Positives = 172/349 (49%), Gaps = 25/349 (7%)
Query: 128 LHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRD--LLGCAETGSGKTAAFTIPMIQHCVA 185
L I K I E+ T +Q + + LS D ++ A+TG+GKT AF IP+ QH +
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLI- 86
Query: 186 QTPVGRGDGPLALVLAPTRELAQQIEKEVKA---LSRSLDSFKTAIVVGGTNI---AEQR 239
T A+++APTR+LA QIE EVK ++ L + +VGGT+ +
Sbjct: 87 NTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKM 146
Query: 240 SELRGGVSIVVATPGRFLDHLQQGNTSLSR-VSFVILDEADRMLDMGFEPQIREVMQNLP 298
++LR +IV+ATPGR +D L++ + R V + +LDEADR+L++GF + + L
Sbjct: 147 NKLRP--NIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILN 204
Query: 299 DKH-------QTLLFSATMPVEIEALAQEYLTDPVQVKVGKV--SSPTANVIQILEKVSE 349
+K+ +TLLFSAT+ +++ LA + + + V + P A+ +I + V
Sbjct: 205 EKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHE-RIDQSVVI 263
Query: 350 NEKVDRXXXXXXXXXXXXXKSCHPFPLTIVF---VERKTRCDEVSEALVAEGLHAVALHG 406
+EK K I+F V+ + + + + L + HG
Sbjct: 264 SEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHG 323
Query: 407 GRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKVL 455
Q+ R S ++ F+ + ILV TDV +RG+D V V+ + +P L
Sbjct: 324 KITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSEL 372
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 120 bits (301), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 97/343 (28%), Positives = 164/343 (47%), Gaps = 32/343 (9%)
Query: 120 IESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTI 177
++SF ++ L P +++ + + RP+ IQ A+P+ L+ ++L+ +++G+GKTAAF +
Sbjct: 40 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 99
Query: 178 PMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAE 237
M+ P + P L L+PT ELA Q K ++ + + K A V G +
Sbjct: 100 AMLSQV---EPANKY--PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKL-- 152
Query: 238 QRSELRGGVSIVVATPGRFLDHLQQGN-TSLSRVSFVILDEADRML-DMGFEPQIREVMQ 295
+R + + IV+ TPG LD + ++ +LDEAD M+ G + Q + +
Sbjct: 153 ERGQ-KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQR 211
Query: 296 NLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDR 355
LP Q LLFSAT + AQ+ + DP NVI++ + + + +
Sbjct: 212 MLPRNCQMLLFSATFEDSVWKFAQKVVPDP-------------NVIKLKREEETLDTIKQ 258
Query: 356 XXXXXXXXXXXXXKSCHPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQ 410
C+ + +TI +F + ++ L EG H VAL G
Sbjct: 259 YYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEG-HQVALLSGEMM 317
Query: 411 SDRESA-LRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
++ +A + FR G +LV T+V +RG+DV V+ V+N DLP
Sbjct: 318 VEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 360
>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 = 120 bits (301), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 98/345 (28%), Positives = 164/345 (47%), Gaps = 36/345 (10%)
Query: 120 IESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTI 177
++SF ++ L P +++ + + RP+ IQ A+P+ L+ ++L+ +++G+GKTAAF +
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 178 PMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNI-- 235
M+ P + P L L+PT ELA Q K ++ + + K A V G +
Sbjct: 84 AMLSQV---EPANKY--PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLER 138
Query: 236 AEQRSELRGGVSIVVATPGRFLDHLQQGN-TSLSRVSFVILDEADRML-DMGFEPQIREV 293
++ SE IV+ TPG LD + ++ +LDEAD M+ G + Q +
Sbjct: 139 GQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 193
Query: 294 MQNLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKV 353
+ LP Q LLFSAT + AQ+ + DP NVI++ + + +
Sbjct: 194 QRMLPRNCQMLLFSATFEDSVWKFAQKVVPDP-------------NVIKLKREEETLDTI 240
Query: 354 DRXXXXXXXXXXXXXKSCHPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGR 408
+ C+ + +TI +F + ++ L EG H VAL G
Sbjct: 241 KQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEG-HQVALLSGE 299
Query: 409 NQSDRESA-LRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
++ +A + FR G +LV T+V +RG+DV V+ V+N DLP
Sbjct: 300 MMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 344
>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 = 120 bits (301), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 97/343 (28%), Positives = 164/343 (47%), Gaps = 32/343 (9%)
Query: 120 IESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTI 177
++SF ++ L P +++ + + RP+ IQ A+P+ L+ ++L+ +++G+GKTAAF +
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 178 PMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAE 237
M+ P + P L L+PT ELA Q K ++ + + K A V G +
Sbjct: 151 AMLSQV---EPANKY--PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKL-- 203
Query: 238 QRSELRGGVSIVVATPGRFLDHLQQGN-TSLSRVSFVILDEADRML-DMGFEPQIREVMQ 295
+R + + IV+ TPG LD + ++ +LDEAD M+ G + Q + +
Sbjct: 204 ERGQ-KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQR 262
Query: 296 NLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDR 355
LP Q LLFSAT + AQ+ + DP NVI++ + + + +
Sbjct: 263 MLPRNCQMLLFSATFEDSVWKFAQKVVPDP-------------NVIKLKREEETLDTIKQ 309
Query: 356 XXXXXXXXXXXXXKSCHPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGRNQ 410
C+ + +TI +F + ++ L EG H VAL G
Sbjct: 310 YYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEG-HQVALLSGEMM 368
Query: 411 SDRESA-LRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
++ +A + FR G +LV T+V +RG+DV V+ V+N DLP
Sbjct: 369 VEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 411
>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 = 120 bits (301), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 98/345 (28%), Positives = 164/345 (47%), Gaps = 36/345 (10%)
Query: 120 IESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTI 177
++SF ++ L P +++ + + RP+ IQ A+P+ L+ ++L+ +++G+GKTAAF +
Sbjct: 61 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 120
Query: 178 PMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNI-- 235
M+ P + P L L+PT ELA Q K ++ + + K A V G +
Sbjct: 121 AMLSQV---EPANKY--PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLER 175
Query: 236 AEQRSELRGGVSIVVATPGRFLDHLQQGN-TSLSRVSFVILDEADRML-DMGFEPQIREV 293
++ SE IV+ TPG LD + ++ +LDEAD M+ G + Q +
Sbjct: 176 GQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 230
Query: 294 MQNLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKV 353
+ LP Q LLFSAT + AQ+ + DP NVI++ + + +
Sbjct: 231 QRMLPRNCQMLLFSATFEDSVWKFAQKVVPDP-------------NVIKLKREEETLDTI 277
Query: 354 DRXXXXXXXXXXXXXKSCHPF-PLTI----VFVERKTRCDEVSEALVAEGLHAVALHGGR 408
+ C+ + +TI +F + ++ L EG H VAL G
Sbjct: 278 KQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEG-HQVALLSGE 336
Query: 409 NQSDRESA-LRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
++ +A + FR G +LV T+V +RG+DV V+ V+N DLP
Sbjct: 337 MMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLP 381
>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 = 114 bits (285), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 69/212 (32%), Positives = 117/212 (55%), Gaps = 9/212 (4%)
Query: 122 SFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQ 181
F D L P +++ I + P+ +Q + +P A+ G D+L A++G GKTA F + +Q
Sbjct: 15 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 74
Query: 182 HCVAQTPVGRGDGPLA-LVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRS 240
PV G ++ LV+ TRELA QI KE + S+ + + K A+ GG +I +
Sbjct: 75 QL---EPV---TGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEE 128
Query: 241 ELRGGV-SIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLD-MGFEPQIREVMQNLP 298
L+ IVV TPGR L + + +L + ILDE D+ML+ + ++E+ + P
Sbjct: 129 VLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTP 188
Query: 299 DKHQTLLFSATMPVEIEALAQEYLTDPVQVKV 330
+ Q ++FSAT+ EI + ++++ DP+++ V
Sbjct: 189 HEKQVMMFSATLSKEIRPVCRKFMQDPMEIFV 220
>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 = 105 bits (263), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 63/212 (29%), Positives = 111/212 (52%), Gaps = 8/212 (3%)
Query: 122 SFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQ 181
FT P I++ I+ + +PT IQ + +P AL G +G ++TG+GKT A+ +P+ +
Sbjct: 5 QFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXE 64
Query: 182 HCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAI---VVGGTNIAEQ 238
+ + A++ APTRELA QI E +++ + + ++GGT+ +
Sbjct: 65 KIKPERAEVQ-----AVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKA 119
Query: 239 RSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLP 298
+L IV+ TPGR D +++ + +++DEAD LD GF + ++ P
Sbjct: 120 LEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXP 179
Query: 299 DKHQTLLFSATMPVEIEALAQEYLTDPVQVKV 330
Q L+FSAT+P +++ ++Y +P V V
Sbjct: 180 KDLQXLVFSATIPEKLKPFLKKYXENPTFVHV 211
>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 = 102 bits (255), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 64/214 (29%), Positives = 113/214 (52%), Gaps = 17/214 (7%)
Query: 123 FTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQH 182
F + L +++ + + RP+ +Q +A+P+ G DL+ A++G+GKT F+ +
Sbjct: 26 FESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDS 85
Query: 183 CVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSEL 242
V + + L+LAPTRE+A QI + A+ ++ + + +GGT +++ ++ L
Sbjct: 86 LVLENLSTQ-----ILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRL 140
Query: 243 RGGVSIVVATPGRF-----LDHLQQGNTSLSRVSFVILDEADRMLDMG-FEPQIREVMQN 296
+ I V +PGR LD+L G+ + ILDEAD++L+ G F+ QI + +
Sbjct: 141 K-KCHIAVGSPGRIKQLIELDYLNPGS-----IRLFILDEADKLLEEGSFQEQINWIYSS 194
Query: 297 LPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKV 330
LP Q L SAT P + +Y+ DP V++
Sbjct: 195 LPASKQMLAVSATYPEFLANALTKYMRDPTFVRL 228
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 71/233 (30%), Positives = 122/233 (52%), Gaps = 22/233 (9%)
Query: 117 PAPIESFTDM----CLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKT 172
P PI +F + ++ ++++I + PT IQ QA+PV L GR+LL A TGSGKT
Sbjct: 21 PDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKT 80
Query: 173 AAFTIPMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIV--- 229
AF+IP++ + P +G AL+++PTRELA QI +E+ +S F+ ++
Sbjct: 81 LAFSIPILMQL--KQPANKGFR--ALIISPTRELASQIHRELIKISEG-TGFRIHMIHKA 135
Query: 230 -VGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQG--NTSLSRVSFVILDEADRMLD--- 283
V + S+ I+V TP R + L+Q L+ V ++++DE+D++ +
Sbjct: 136 AVAAKKFGPKSSK---KFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGK 192
Query: 284 MGFEPQIREV-MQNLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGKVSS 335
GF Q+ + + K + +FSAT ++E + L + + V +G +S
Sbjct: 193 TGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNVISVSIGARNS 245
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 95.1 bits (235), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 65/204 (31%), Positives = 113/204 (55%), Gaps = 15/204 (7%)
Query: 121 ESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTIP 178
+SF ++ L P ++K I ++ +P+ IQ +A+P+ L R+++ +++G+GKTAAF++
Sbjct: 22 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLT 81
Query: 179 MIQHCVAQTPVGRGDG-PLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAE 237
M+ T V D P A+ LAP+RELA+Q + V+ + + + ++V + E
Sbjct: 82 ML------TRVNPEDASPQAICLAPSRELARQTLEVVQEMGK-FTKITSQLIVPDS--FE 132
Query: 238 QRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLD-MGFEPQIREVMQN 296
+ ++ V +V TPG LD +++ L ++ +LDEAD MLD G Q V +
Sbjct: 133 KNKQINAQV--IVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRF 190
Query: 297 LPDKHQTLLFSATMPVEIEALAQE 320
LP Q +LFSAT + A++
Sbjct: 191 LPKDTQLVLFSATFADAVRQYAKK 214
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 93.6 bits (231), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 65/217 (29%), Positives = 112/217 (51%), Gaps = 12/217 (5%)
Query: 120 IESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTI 177
++SF ++ L P +++ + + RP+ IQ A+P+ L+ ++L+ +++G+GKTAAF +
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 178 PMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAE 237
M+ P + P L L+PT ELA Q K ++ + + K A V G +
Sbjct: 151 AMLSQV---EPANKY--PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKL-- 203
Query: 238 QRSELRGGVSIVVATPGRFLDHLQQGN-TSLSRVSFVILDEADRML-DMGFEPQIREVMQ 295
+R + + IV+ TPG LD + ++ +LDEAD M+ G + Q + +
Sbjct: 204 ERGQ-KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQR 262
Query: 296 NLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGK 332
LP Q LLFSAT + AQ+ + DP +K+ +
Sbjct: 263 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKR 299
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 93.2 bits (230), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 65/217 (29%), Positives = 112/217 (51%), Gaps = 12/217 (5%)
Query: 120 IESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSG--RDLLGCAETGSGKTAAFTI 177
++SF ++ L P +++ + + RP+ IQ A+P+ L+ ++L+ +++G+GKTAAF +
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 178 PMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAE 237
M+ P + P L L+PT ELA Q K ++ + + K A V G +
Sbjct: 84 AMLSQV---EPANKY--PQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKL-- 136
Query: 238 QRSELRGGVSIVVATPGRFLDHLQQGN-TSLSRVSFVILDEADRML-DMGFEPQIREVMQ 295
+R + + IV+ TPG LD + ++ +LDEAD M+ G + Q + +
Sbjct: 137 ERGQ-KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQR 195
Query: 296 NLPDKHQTLLFSATMPVEIEALAQEYLTDPVQVKVGK 332
LP Q LLFSAT + AQ+ + DP +K+ +
Sbjct: 196 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKR 232
>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 = 86.3 bits (212), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 36/79 (45%), Positives = 55/79 (69%)
Query: 375 PLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVA 434
P ++F E+K D + E L+ +G+ AVA+HGG++Q +R A+ FR G ++LVATDVA
Sbjct: 55 PPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVA 114
Query: 435 SRGLDVMGVAHVVNLDLPK 453
S+GLD + HV+N D+P+
Sbjct: 115 SKGLDFPAIQHVINYDMPE 133
>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 = 85.5 bits (210), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 41/78 (52%), Positives = 52/78 (66%)
Query: 375 PLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVA 434
LT+VFVE K D + + L EG ++HG R+Q DRE AL FR+G + ILVAT VA
Sbjct: 47 SLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVA 106
Query: 435 SRGLDVMGVAHVVNLDLP 452
+RGLD+ V HV+N DLP
Sbjct: 107 ARGLDISNVKHVINFDLP 124
>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 = 65.1 bits (157), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 47/77 (61%)
Query: 377 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 436
+IVFV ++ R E++ L G++ L G Q R A++ G N+LVATDVA+R
Sbjct: 33 SIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAAR 92
Query: 437 GLDVMGVAHVVNLDLPK 453
G+D+ V+HV N D+P+
Sbjct: 93 GIDIPDVSHVFNFDMPR 109
>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 = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 34/76 (44%), Positives = 46/76 (60%)
Query: 377 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 436
+VF K +E+++ L+ G A ALHG +Q +RE L FR G +LVATDVA+R
Sbjct: 34 AMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAAR 93
Query: 437 GLDVMGVAHVVNLDLP 452
GLD+ V VV+ LP
Sbjct: 94 GLDIPQVDLVVHYRLP 109
>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 = 62.8 bits (151), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 32/76 (42%), Positives = 46/76 (60%)
Query: 377 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 436
+VF K +E+++ L+ G A ALHG +Q +RE + FR G +LVATDVA+R
Sbjct: 31 AMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAAR 90
Query: 437 GLDVMGVAHVVNLDLP 452
GLD+ V VV+ +P
Sbjct: 91 GLDIPQVDLVVHYRMP 106
>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 = 60.1 bits (144), Expect = 2e-09, Method: Composition-based stats.
Identities = 28/75 (37%), Positives = 44/75 (58%)
Query: 378 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRG 437
I+F K +++++ L G +HGG Q DR + +F+ G LVATDVA+RG
Sbjct: 39 IIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARG 98
Query: 438 LDVMGVAHVVNLDLP 452
+D+ ++ V+N DLP
Sbjct: 99 IDIENISLVINYDLP 113
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 58.9 bits (141), Expect = 7e-09, Method: Composition-based stats.
Identities = 32/113 (28%), Positives = 62/113 (54%), Gaps = 9/113 (7%)
Query: 378 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRG 437
++F + + +E++ L + A++ Q +R++ +++FR+GS+ IL++TD+ +RG
Sbjct: 34 VIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARG 93
Query: 438 LDVMGVAHVVNLDLP--------KVLLAASESLCTTSFNITTNLD-GDMKKLE 481
+DV V+ V+N DLP ++ + N TN D G M++LE
Sbjct: 94 IDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELE 146
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 44/76 (57%)
Query: 377 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 436
+I+FV K + + L +EG LHG +R+ + DFR G + +L+ T+V +R
Sbjct: 38 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 97
Query: 437 GLDVMGVAHVVNLDLP 452
G+D+ V+ VVN DLP
Sbjct: 98 GIDIPTVSMVVNYDLP 113
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 44/76 (57%)
Query: 377 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 436
+I+FV K + + L +EG LHG +R+ + DFR G + +L+ T+V +R
Sbjct: 40 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 99
Query: 437 GLDVMGVAHVVNLDLP 452
G+D+ V+ VVN DLP
Sbjct: 100 GIDIPTVSXVVNYDLP 115
>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 = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 44/76 (57%)
Query: 377 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 436
+I+FV K + + L +EG LHG +R+ + DFR G + +L+ T+V +R
Sbjct: 39 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 98
Query: 437 GLDVMGVAHVVNLDLP 452
G+D+ V+ VVN DLP
Sbjct: 99 GIDIPTVSXVVNYDLP 114
>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 = 55.8 bits (133), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 39/78 (50%)
Query: 377 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 436
+I+F R + +++ + G +H Q R DFRNG LV TD+ +R
Sbjct: 47 SIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTR 106
Query: 437 GLDVMGVAHVVNLDLPKV 454
G+D+ V V+N D PK+
Sbjct: 107 GIDIQAVNVVINFDFPKL 124
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 55.1 bits (131), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 46/80 (57%)
Query: 374 FPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDV 433
F ++FV+ RC +++ LV + A+A+H G Q +R S + F++ ILVAT++
Sbjct: 31 FNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNL 90
Query: 434 ASRGLDVMGVAHVVNLDLPK 453
RG+D+ V N D+P+
Sbjct: 91 FGRGMDIERVNIAFNYDMPE 110
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 73/340 (21%), Positives = 133/340 (39%), Gaps = 56/340 (16%)
Query: 131 SIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVG 190
++++ ++ RP Q + + LSGRD L TG GK+ + IP +
Sbjct: 15 QVLQETFGYQQFRPG--QEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALLL-------- 64
Query: 191 RGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELR-----GG 245
L +V++P L + +++A + A + T EQ+ E+ G
Sbjct: 65 ---NGLTVVVSPLISLXKDQVDQLQA------NGVAAACLNSTQTREQQLEVXTGCRTGQ 115
Query: 246 VSIVVATPGR-----FLDHLQQGNTSLSRVSFVILDEADRMLDMG--FEPQIREVMQNLP 298
+ ++ P R FL+HL N L + +DEA + G F P+ + Q L
Sbjct: 116 IRLLYIAPERLXLDNFLEHLAHWNPVL-----LAVDEAHCISQWGHDFRPEYAALGQ-LR 169
Query: 299 DKHQTLLFSATMPVEIEALAQEY-----LTDPVQVKVGKVSSPTANVIQILEKVSENEKV 353
+ TL F A + Q+ L DP+ +++ P + EK +++
Sbjct: 170 QRFPTLPFXALTATADDTTRQDIVRLLGLNDPL-IQISSFDRPNIRYX-LXEKFKPLDQL 227
Query: 354 DRXXXXXXXXXXXXXKSCHPFPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDR 413
R I++ + + ++ + L ++G+ A A H G + R
Sbjct: 228 XRYVQEQRGKS------------GIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVR 275
Query: 414 ESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPK 453
F+ I+VAT G++ V VV+ D+P+
Sbjct: 276 ADVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPR 315
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 73/340 (21%), Positives = 135/340 (39%), Gaps = 56/340 (16%)
Query: 131 SIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVG 190
++++ ++ RP Q + + LSGRD L TG GK+ + IP +
Sbjct: 15 QVLQETFGYQQFRPG--QEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALLL-------- 64
Query: 191 RGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSEL-----RGG 245
L +V++P L + +++A + A + T EQ+ E+ G
Sbjct: 65 ---NGLTVVVSPLISLMKDQVDQLQA------NGVAAACLNSTQTREQQLEVMTGCRTGQ 115
Query: 246 VSIVVATPGR-----FLDHLQQGNTSLSRVSFVILDEADRMLDMG--FEPQIREVMQNLP 298
+ ++ P R FL+HL N L + +DEA + G F P+ + Q L
Sbjct: 116 IRLLYIAPERLMLDNFLEHLAHWNPVL-----LAVDEAHCISQWGHDFRPEYAALGQ-LR 169
Query: 299 DKHQTLLFSATMPVEIEALAQEY-----LTDPVQVKVGKVSSPTANVIQILEKVSENEKV 353
+ TL F A + Q+ L DP+ +++ P + ++EK +++
Sbjct: 170 QRFPTLPFMALTATADDTTRQDIVRLLGLNDPL-IQISSFDRPNIRYM-LMEKFKPLDQL 227
Query: 354 DRXXXXXXXXXXXXXKSCHPFPLTIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDR 413
R I++ + + ++ + L ++G+ A A H G + R
Sbjct: 228 MRYVQEQRGKS------------GIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVR 275
Query: 414 ESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPK 453
F+ I+VAT G++ V VV+ D+P+
Sbjct: 276 ADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPR 315
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 49.3 bits (116), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 40/75 (53%)
Query: 378 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRG 437
I+F + + ++ ++ +G L G R S ++ FR+G +L+ T+V +RG
Sbjct: 38 IIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARG 97
Query: 438 LDVMGVAHVVNLDLP 452
+DV V VVN DLP
Sbjct: 98 IDVKQVTIVVNFDLP 112
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 75/315 (23%), Positives = 130/315 (41%), Gaps = 49/315 (15%)
Query: 139 HEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLAL 198
H+ R I + M L G + GSGKT + ++ + A G
Sbjct: 377 HQEIRNDMISEKPMNRLLQG-------DVGSGKTVVAQLAILDNYEA--------GFQTA 421
Query: 199 VLAPTRELA-QQIEKEVKALSRSLDSFKTAIVVGGTNIAEQ---RSELRGG-VSIVVATP 253
+ PT LA Q + V++ S+ + A+++G T +E+ +S LR G + +V+ T
Sbjct: 422 FMVPTSILAIQHYRRTVESFSKF--NIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTH 479
Query: 254 GRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVE 313
L Q + + VI+DE R F + RE + N TL+ SAT P+
Sbjct: 480 A-----LIQEDVHFKNLGLVIIDEQHR-----FGVKQREALMNKGKMVDTLVMSAT-PIP 528
Query: 314 IEALAQEYLTDPVQVKVGKVSSPTANVIQILEKVSENEKVDRXXXXXXXXXXXXXKSCHP 373
++A + D + V V P +Q + + ++V+ ++
Sbjct: 529 -RSMALAFYGD-LDVTVIDEMPPGRKEVQTM--LVPMDRVNEVYEFVRQEVMRGGQAFIV 584
Query: 374 FPLTIVFVERKTRCD-----EVSEALVAEGLHAVAL---HGGRNQSDRESALRDFRNGST 425
+PL +E + + E+ E L E L HG +Q +++ + +F G
Sbjct: 585 YPL----IEESDKLNVKSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRY 640
Query: 426 NILVATDVASRGLDV 440
+ILV+T V G+DV
Sbjct: 641 DILVSTTVIEVGIDV 655
>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 = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 31/57 (54%)
Query: 399 LHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKVL 455
L + HG Q+ R S ++ F+ + ILV TDV +RG+D V V+ + +P L
Sbjct: 61 LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSEL 117
>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 = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 31/57 (54%)
Query: 399 LHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKVL 455
L + HG Q+ R S ++ F+ + ILV TDV +RG+D V V+ + +P L
Sbjct: 61 LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSEL 117
>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 = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 31/57 (54%)
Query: 399 LHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLPKVL 455
L + HG Q+ R S ++ F+ + ILV TDV +RG+D V V+ + +P L
Sbjct: 61 LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSEL 117
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 44/92 (47%), Gaps = 1/92 (1%)
Query: 387 CDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHV 446
+E++ LV G+ A LH + R++ +RD R G + LV ++ GLD+ V+ V
Sbjct: 453 AEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLV 512
Query: 447 VNLDLPKV-LLAASESLCTTSFNITTNLDGDM 477
LD K L + SL T N G++
Sbjct: 513 AILDADKEGFLRSERSLIQTIGRAARNARGEV 544
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 44/92 (47%), Gaps = 1/92 (1%)
Query: 387 CDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHV 446
+E++ LV G+ A LH + R++ +RD R G + LV ++ GLD+ V+ V
Sbjct: 452 AEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLV 511
Query: 447 VNLDLPKV-LLAASESLCTTSFNITTNLDGDM 477
LD K L + SL T N G++
Sbjct: 512 AILDADKEGFLRSERSLIQTIGRAARNARGEV 543
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 55/115 (47%), Gaps = 11/115 (9%)
Query: 167 TGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKT 226
TG GKT +I +A+ + + G + L+LAPT+ L Q ++ R +
Sbjct: 32 TGLGKT------LIAMMIAEYRLTKYGGKV-LMLAPTKPLVLQ---HAESFRRLFNLPPE 81
Query: 227 AIV-VGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADR 280
IV + G E+RS+ ++VATP + L G SL VS ++ DEA R
Sbjct: 82 KIVALTGEKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHR 136
Score = 37.7 bits (86), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 37/78 (47%), Gaps = 8/78 (10%)
Query: 378 IVFVERKTRCDEVSEALVAEGLHAVALHG--------GRNQSDRESALRDFRNGSTNILV 429
IVF + ++ LV +G+ A G G +Q +++ L +F G N+LV
Sbjct: 365 IVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLV 424
Query: 430 ATDVASRGLDVMGVAHVV 447
AT V GLDV V VV
Sbjct: 425 ATSVGEEGLDVPEVDLVV 442
>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 = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 41/150 (27%), Positives = 63/150 (42%), Gaps = 23/150 (15%)
Query: 139 HEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLAL 198
+E + S Q + A++G++ L CA TGSGKT +I + +H P GR +
Sbjct: 244 YETKKARSYQIELAQPAINGKNALICAPTGSGKTFV-SILICEHHFQNMPAGR---KAKV 299
Query: 199 VLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVS---------IV 249
V T+ + +K V FK G ++ E VS I+
Sbjct: 300 VFLATKVPVYEQQKNV---------FKHHFERQGYSVQGISGENFSNVSVEKVIEDSDII 350
Query: 250 VATPGRFLDHLQQGN-TSLSRVSFVILDEA 278
V TP ++ + G TSLS + +I DE
Sbjct: 351 VVTPQILVNSFEDGTLTSLSIFTLMIFDEC 380
>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 = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 63/149 (42%), Gaps = 23/149 (15%)
Query: 139 HEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLAL 198
+E + S Q + A++G++ L CA TGSGKT +I + +H P GR +
Sbjct: 244 YETKKARSYQIELAQPAINGKNALICAPTGSGKTFV-SILICEHHFQNMPAGR---KAKV 299
Query: 199 VLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVS---------IV 249
V T+ + +K V FK G ++ E VS I+
Sbjct: 300 VFLATKVPVYEQQKNV---------FKHHFERQGYSVQGISGENFSNVSVEKVIEDSDII 350
Query: 250 VATPGRFLDHLQQGN-TSLSRVSFVILDE 277
V TP ++ + G TSLS + +I DE
Sbjct: 351 VVTPQILVNSFEDGTLTSLSIFTLMIFDE 379
>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 = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 40/142 (28%), Positives = 62/142 (43%), Gaps = 9/142 (6%)
Query: 140 EYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALV 199
E + S Q + A++G++ L CA TGSGKT +I + +H P GR + L
Sbjct: 4 ETKKARSYQIELAQPAINGKNALICAPTGSGKTFV-SILICEHHFQNMPAGRKAKVVFLA 62
Query: 200 L-APTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSE-LRGGVSIVVATPGRFL 257
P E + + K R S + + G N + E + I+V TP +
Sbjct: 63 TKVPVYEQQKNVFKH--HFERQGYSVQG---ISGENFSNVSVEKVIEDSDIIVVTPQILV 117
Query: 258 DHLQQGN-TSLSRVSFVILDEA 278
+ + G TSLS + +I DE
Sbjct: 118 NSFEDGTLTSLSIFTLMIFDEC 139
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 45/100 (45%), Gaps = 1/100 (1%)
Query: 377 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 436
T+V K +++++ L G+ LH +R +RD R G ++LV ++
Sbjct: 447 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 506
Query: 437 GLDVMGVAHVVNLDLPKV-LLAASESLCTTSFNITTNLDG 475
GLD+ V+ V LD K L + SL T N +G
Sbjct: 507 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANG 546
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 45/100 (45%), Gaps = 1/100 (1%)
Query: 377 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 436
T+V K +++++ L G+ LH +R +RD R G ++LV ++
Sbjct: 448 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 507
Query: 437 GLDVMGVAHVVNLDLPKV-LLAASESLCTTSFNITTNLDG 475
GLD+ V+ V LD K L + SL T N +G
Sbjct: 508 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANG 547
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 45/100 (45%), Gaps = 1/100 (1%)
Query: 377 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 436
T+V K +++++ L G+ LH +R +RD R G ++LV ++
Sbjct: 448 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 507
Query: 437 GLDVMGVAHVVNLDLPKV-LLAASESLCTTSFNITTNLDG 475
GLD+ V+ V LD K L + SL T N +G
Sbjct: 508 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANG 547
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 37.7 bits (86), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 45/100 (45%), Gaps = 1/100 (1%)
Query: 377 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 436
T+V K +++++ L G+ LH +R +RD R G ++LV ++
Sbjct: 473 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 532
Query: 437 GLDVMGVAHVVNLDLPKV-LLAASESLCTTSFNITTNLDG 475
GLD+ V+ V LD K L + SL T N +G
Sbjct: 533 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANG 572
>pdb|1T5L|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
pdb|1T5L|B Chain B, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
Length = 658
Score = 37.7 bits (86), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 45/100 (45%), Gaps = 1/100 (1%)
Query: 377 TIVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASR 436
T+V K +++++ L G+ LH +R +RD R G ++LV ++
Sbjct: 448 TLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 507
Query: 437 GLDVMGVAHVVNLDLPKV-LLAASESLCTTSFNITTNLDG 475
GLD+ V+ V LD K L + SL T N +G
Sbjct: 508 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANG 547
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 36.6 bits (83), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 33/145 (22%), Positives = 63/145 (43%), Gaps = 5/145 (3%)
Query: 135 DIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDG 194
D + +P + Q + A+ G++ + CA TG GKT ++ + +H + + P G+ G
Sbjct: 4 DTNLYSPFKPRNYQLELALPAMKGKNTIICAPTGCGKTFV-SLLICEHHLKKFPQGQ-KG 61
Query: 195 PLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPG 254
+ QQ K R ++ + G T ++ I++ TP
Sbjct: 62 KVVFFANQIPVYEQQKSVFSKYFERH--GYRVTGISGATAENVPVEQIVENNDIIILTPQ 119
Query: 255 RFLDHLQQGNT-SLSRVSFVILDEA 278
+++L++G SLS + +I DE
Sbjct: 120 ILVNNLKKGTIPSLSIFTLMIFDEC 144
>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 = 36.6 bits (83), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 34/135 (25%), Positives = 57/135 (42%), Gaps = 23/135 (17%)
Query: 148 QAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTRELA 207
QA+A+ SG++LL T +GKT + M++ + G +L + P R LA
Sbjct: 30 QAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAI--------KGGKSLYVVPLRALA 81
Query: 208 QQIEKEVKALSRSLDSFKTAIVVG-----GTNIAEQRSELRGGVSIVVATPGRFLDHLQQ 262
+ +SFK +G T E R E G I+V T + ++
Sbjct: 82 GE----------KYESFKKWEKIGLRIGISTGDYESRDEHLGDCDIIVTTSEKADSLIRN 131
Query: 263 GNTSLSRVSFVILDE 277
+ + VS +++DE
Sbjct: 132 RASWIKAVSCLVVDE 146
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 36.2 bits (82), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 35/141 (24%), Positives = 63/141 (44%), Gaps = 15/141 (10%)
Query: 143 RPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAP 202
+P + Q + A G++ + CA TG GKT ++ + +H + + P G+ G +
Sbjct: 4 KPRNYQLELALPAKKGKNTIICAPTGCGKTFV-SLLICEHHLKKFPCGQ-KGKVVF---- 57
Query: 203 TRELAQQI---EKEVKALSRSLD--SFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFL 257
A QI E++ SR + + A + G T+ + + I++ TP +
Sbjct: 58 ---FANQIPVYEQQATVFSRYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILV 114
Query: 258 DHLQQGNT-SLSRVSFVILDE 277
++L G SLS + I DE
Sbjct: 115 NNLNNGAIPSLSVFTLXIFDE 135
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 36.2 bits (82), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 35/154 (22%), Positives = 69/154 (44%), Gaps = 15/154 (9%)
Query: 131 SIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVG 190
S + D + +P + Q + A+ G++ + CA TG GKT ++ + +H + + P G
Sbjct: 1 SEVSDTNLYSPFKPRNYQLELALPAMKGKNTIICAPTGCGKTFV-SLLICEHHLKKFPQG 59
Query: 191 RGDGPLALVLAPTRELAQQI---EKEVKALSRSLD--SFKTAIVVGGTNIAEQRSELRGG 245
+ G + A QI E+ S+ + ++ + G T ++
Sbjct: 60 Q-KGKVVF-------FANQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVEN 111
Query: 246 VSIVVATPGRFLDHLQQGNT-SLSRVSFVILDEA 278
I++ TP +++L++G SLS + +I DE
Sbjct: 112 NDIIILTPQILVNNLKKGTIPSLSIFTLMIFDEC 145
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 35.8 bits (81), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 33/142 (23%), Positives = 65/142 (45%), Gaps = 15/142 (10%)
Query: 143 RPTSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAP 202
+P + Q + A+ G++ + CA TG GKT ++ + +H + + P G+ G +
Sbjct: 4 KPRNYQLELALPAMKGKNTIICAPTGCGKTFV-SLLICEHHLKKFPQGQ-KGKVVF---- 57
Query: 203 TRELAQQI---EKEVKALSRSLD--SFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFL 257
A QI E+ S+ + ++ + G T ++ I++ TP +
Sbjct: 58 ---FANQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILV 114
Query: 258 DHLQQGNT-SLSRVSFVILDEA 278
++L++G SLS + +I DE
Sbjct: 115 NNLKKGTIPSLSIFTLMIFDEC 136
>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 = 35.4 bits (80), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 42/93 (45%), Gaps = 1/93 (1%)
Query: 384 KTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGV 443
K +++++ L G+ LH +R +RD R G ++LV ++ GLD+ V
Sbjct: 461 KKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEV 520
Query: 444 AHVVNLDLPKV-LLAASESLCTTSFNITTNLDG 475
+ V LD K L + SL T N +G
Sbjct: 521 SLVAILDADKEGFLRSERSLIQTIGRAARNAEG 553
>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 = 35.4 bits (80), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 42/93 (45%), Gaps = 1/93 (1%)
Query: 384 KTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDVMGV 443
K +++++ L G+ LH +R +RD R G ++LV ++ GLD+ V
Sbjct: 455 KKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEV 514
Query: 444 AHVVNLDLPKV-LLAASESLCTTSFNITTNLDG 475
+ V LD K L + SL T N +G
Sbjct: 515 SLVAILDADKEGFLRSERSLIQTIGRAARNAEG 547
>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 = 35.0 bits (79), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 24/42 (57%)
Query: 410 QSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDL 451
Q++++ + FR G N+L+AT VA GLD+ V+ L
Sbjct: 450 QNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 491
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 42/194 (21%), Positives = 74/194 (38%), Gaps = 28/194 (14%)
Query: 120 IESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVALSGRDLLGCAETGSGKT--AAFTI 177
IE+F ++ +P+ E + Q +A+ G + A T +GKT A + I
Sbjct: 22 IENFDELIPNPARSWPFELDTF------QKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAI 75
Query: 178 PMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAE 237
M + +T + +P + L+ Q + + + D ++ G I
Sbjct: 76 AMAHRNMTKT----------IYTSPIKALSNQ---KFRDFKETFDDVNIGLITGDVQINP 122
Query: 238 QRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLDMGFEPQIREVMQNL 297
+ ++ T L +G + V FVI DE + D EV+ L
Sbjct: 123 D-------ANCLIMTTEILRSMLYRGADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIML 175
Query: 298 PDKHQTLLFSATMP 311
P + +L SAT+P
Sbjct: 176 PQHVKFILLSATVP 189
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 39/159 (24%), Positives = 66/159 (41%), Gaps = 24/159 (15%)
Query: 138 FHEYTRPTSIQAQAMPVAL-SGRDLLGCAETGSGKTAAFTIPMI----QHCVAQTPVGRG 192
F + IQ++ AL + +LL CA TG+GKT + M+ +H +
Sbjct: 74 FEGFKTLNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVD 133
Query: 193 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELR------GGV 246
D + + +AP R L Q++ + SF + G +AE + +
Sbjct: 134 DFKI-IYIAPMRSLVQEM----------VGSFGKRLATYGITVAELTGDHQLCKEEISAT 182
Query: 247 SIVVATPGRFLDHLQQGN--TSLSRVSFVILDEADRMLD 283
I+V TP ++ ++G T V +ILDE + D
Sbjct: 183 QIIVCTPEKWDIITRKGGERTYTQLVRLIILDEIHLLHD 221
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 39/159 (24%), Positives = 66/159 (41%), Gaps = 24/159 (15%)
Query: 138 FHEYTRPTSIQAQAMPVAL-SGRDLLGCAETGSGKTAAFTIPMI----QHCVAQTPVGRG 192
F + IQ++ AL + +LL CA TG+GKT + M+ +H +
Sbjct: 74 FEGFKTLNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVD 133
Query: 193 DGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELR------GGV 246
D + + +AP R L Q++ + SF + G +AE + +
Sbjct: 134 DFKI-IYIAPMRSLVQEM----------VGSFGKRLATYGITVAELTGDHQLCKEEISAT 182
Query: 247 SIVVATPGRFLDHLQQGN--TSLSRVSFVILDEADRMLD 283
I+V TP ++ ++G T V +ILDE + D
Sbjct: 183 QIIVCTPEKWDIITRKGGERTYTQLVRLIILDEIHLLHD 221
>pdb|2ZJO|A Chain A, Crystal Structure Of Hepatitis C Virus Ns3 Helicase With A
Novel Inhibitor
Length = 482
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 378 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 411
++F K +CDE++ L A G+HAVA + G + S
Sbjct: 210 LIFCHSKKKCDELAAKLSALGIHAVAYYRGLDVS 243
>pdb|1A1V|A Chain A, Hepatitis C Virus Ns3 Helicase Domain Complexed With
Single Stranded Sdna
Length = 476
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 23/34 (67%)
Query: 378 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 411
++F K +CDE++ LVA G++AVA + G + S
Sbjct: 200 LIFCHSKKKCDELAAKLVALGINAVAYYRGLDVS 233
>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 = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 23/34 (67%)
Query: 378 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 411
++F K +CDE++ LVA G++AVA + G + S
Sbjct: 186 LIFCHSKKKCDELAAKLVALGINAVAYYRGLDVS 219
>pdb|2V3A|A Chain A, Crystal Structure Of Rubredoxin Reductase From Pseudomonas
Aeruginosa.
pdb|2V3B|A Chain A, Crystal Structure Of The Electron Transfer Complex
Rubredoxin - Rubredoxin Reductase From Pseudomonas
Aeruginosa
Length = 384
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 39/87 (44%), Gaps = 7/87 (8%)
Query: 97 EEVRLRLNVDVTVASGSVPAPAPIESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVAL 156
EEVR R D+ +A G+ P P+E L+P + D+E +Y R A V L
Sbjct: 98 EEVRYR---DLVLAWGAEPIRVPVEGDAQDALYP--INDLE--DYARFRQAAAGKRRVLL 150
Query: 157 SGRDLLGCAETGSGKTAAFTIPMIQHC 183
G L+GC + + + ++ C
Sbjct: 151 LGAGLIGCEFANDLSSGGYQLDVVAPC 177
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 33.1 bits (74), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 23/42 (54%)
Query: 410 QSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDL 451
Q+++ + FR G N+L+AT VA GLD+ V+ L
Sbjct: 200 QNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>pdb|8OHM|A Chain A, Crystal Structure Of Rna Helicase From Genotype 1b
Hepatitis C Virus: Mechanism Of Unwinding Duplex Rna
Length = 435
Score = 32.3 bits (72), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 378 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 411
++F K +CDE++ L A GL+AVA + G + S
Sbjct: 176 LIFCHSKKKCDELAAKLSALGLNAVAYYRGLDVS 209
>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 = 0.61, Method: Composition-based stats.
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 7/61 (11%)
Query: 378 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRG 437
++F K +CDE++ LVA G++AVA + G + S + NG ++VATD G
Sbjct: 43 LIFCHSKKKCDELAAKLVALGINAVAYYRGLDVSVIPT------NGDV-VVVATDALMTG 95
Query: 438 L 438
Sbjct: 96 F 96
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 32.0 bits (71), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 39/169 (23%), Positives = 68/169 (40%), Gaps = 20/169 (11%)
Query: 147 IQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTREL 206
Q A+ G +L A T +GKT + ++ +AQ+ + + +P + L
Sbjct: 90 FQDTAISCIDRGESVLVSAHTSAGKTV-----VAEYAIAQSLKNK---QRVIYTSPIKAL 141
Query: 207 AQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQGNTS 266
+ Q +E+ A + ++ G I +V T L +G+
Sbjct: 142 SNQKYRELLA-----EFGDVGLMTGDITINPD-------AGCLVMTTEILRSMLYRGSEV 189
Query: 267 LSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIE 315
+ V++VI DE M D E + LPDK + + SAT+P +E
Sbjct: 190 MREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAME 238
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 32.0 bits (71), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 39/169 (23%), Positives = 68/169 (40%), Gaps = 20/169 (11%)
Query: 147 IQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQTPVGRGDGPLALVLAPTREL 206
Q A+ G +L A T +GKT + ++ +AQ+ + + +P + L
Sbjct: 188 FQDTAISCIDRGESVLVSAHTSAGKTV-----VAEYAIAQSLKNK---QRVIYTSPIKAL 239
Query: 207 AQQIEKEVKALSRSLDSFKTAIVVGGTNIAEQRSELRGGVSIVVATPGRFLDHLQQGNTS 266
+ Q +E+ A + ++ G I +V T L +G+
Sbjct: 240 SNQKYRELLA-----EFGDVGLMTGDITINPD-------AGCLVMTTEILRSMLYRGSEV 287
Query: 267 LSRVSFVILDEADRMLDMGFEPQIREVMQNLPDKHQTLLFSATMPVEIE 315
+ V++VI DE M D E + LPDK + + SAT+P +E
Sbjct: 288 MREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAME 336
>pdb|2F55|A Chain A, Two Hepatitis C Virus Ns3 Helicase Domains Complexed With
The Same Strand Of Dna
pdb|2F55|B Chain B, Two Hepatitis C Virus Ns3 Helicase Domains Complexed With
The Same Strand Of Dna
pdb|2F55|C Chain C, Two Hepatitis C Virus Ns3 Helicase Domains Complexed With
The Same Strand Of Dna
Length = 435
Score = 31.6 bits (70), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 378 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 411
++F K +CDE++ L GL+AVA + G + S
Sbjct: 176 LIFCHSKKKCDELAAKLTGLGLNAVAYYRGLDVS 209
>pdb|3KQL|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQL|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQN|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|C Chain C, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|D Chain D, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|E Chain E, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|F Chain F, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
Length = 437
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 378 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 411
++F K +CDE++ L GL+AVA + G + S
Sbjct: 177 LIFCHSKKKCDELAAKLSGLGLNAVAYYRGLDVS 210
>pdb|3KQH|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQH|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQK|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQK|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
Length = 436
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 378 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQS 411
++F K +CDE++ L GL+AVA + G + S
Sbjct: 177 LIFCHSKKKCDELAAKLSGLGLNAVAYYRGLDVS 210
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 397 EGLHAVALHGGRN--QSDRESALRDFRNGSTNILVATDVASRGLDVMGVAHVVNLDLP 452
EG+ A H G + + DR +A + +L+ +++ S G + +H V DLP
Sbjct: 527 EGIRAAVFHEGXSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHXVXFDLP 584
>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 = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/78 (23%), Positives = 36/78 (46%)
Query: 378 IVFVERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRG 437
I++ + ++V+ +L G+HA A H D+ + R + ++VAT G
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMG 330
Query: 438 LDVMGVAHVVNLDLPKVL 455
+D V V++ + K +
Sbjct: 331 IDKPDVRFVIHHSMSKSM 348
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 39/166 (23%), Positives = 69/166 (41%), Gaps = 16/166 (9%)
Query: 119 PIESFTDMCLHPSIMKDIEFHEYTRPTSIQAQAMPVAL-SGRDLLGCAETGSGKTAAFTI 177
PIE D+ L ++++ I+ + Q +A+ L G LL + TGSGKT +
Sbjct: 9 PIE---DLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEM 65
Query: 178 PMIQHCVAQTPVGRGDGPLALVLAPTRELAQQIEKEVKALSRSLDSFKTAIVVGGTNIAE 237
+I + +G A+ + P R L EK + L FK A+ G + +
Sbjct: 66 GIISFLLK-------NGGKAIYVTPLRALTN--EKYLTFKDWELIGFKVAMTSGDYDTDD 116
Query: 238 QRSELRGGVSIVVATPGRFLDHLQQGNTSLSRVSFVILDEADRMLD 283
+ I++ T + + L+ V++ +LDE + D
Sbjct: 117 AWLK---NYDIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLND 159
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 28.9 bits (63), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 381 VERKTRCDEVSEALVAEGLHAVALHGGRNQSDRESALRDFRNGSTNILVATDVASRGLDV 440
VE + E LV E A+ HG + + E + DF + N+LV T + G+D+
Sbjct: 822 VENIQKAAERLAELVPEARIAIG-HGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDI 880
>pdb|3U44|A Chain A, Crystal Structure Of Addab-Dna Complex
pdb|3U4Q|A Chain A, Structure Of Addab-Dna Complex At 2.8 Angstroms
Length = 1232
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%)
Query: 145 TSIQAQAMPVALSGRDLLGCAETGSGKTAAFTIPMIQHCVAQ 186
T Q + +G+D+L A GSGKTA MI+ A+
Sbjct: 10 TWTDDQWNAIVSTGQDILVAAAAGSGKTAVLVERMIRKITAE 51
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
0.320 0.134 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,039,625
Number of Sequences: 62578
Number of extensions: 456958
Number of successful extensions: 1245
Number of sequences better than 100.0: 109
Number of HSP's better than 100.0 without gapping: 95
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 985
Number of HSP's gapped (non-prelim): 134
length of query: 503
length of database: 14,973,337
effective HSP length: 103
effective length of query: 400
effective length of database: 8,527,803
effective search space: 3411121200
effective search space used: 3411121200
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)