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= 008956
(547 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 = 301 bits (772), Expect = 5e-82, Method: Compositional matrix adjust.
Identities = 168/406 (41%), Positives = 246/406 (60%), Gaps = 21/406 (5%)
Query: 10 GDEVPPPFMSFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKT 69
G+ PP SF ++ + ++ PTP+Q + PI + RD++A A+TGSGKT
Sbjct: 7 GNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKT 66
Query: 70 LGYLLPGFIH---------LKRCRNDPRLG-----PTVLVLSPTRELATQIQDEAVKFGK 115
+LLP L+ + + R G P LVL+PTRELA QI +EA KF
Sbjct: 67 AAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSY 126
Query: 116 SSRISCTCLYGGAPKGPQLKDIDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADR 175
SR+ +YGGA G Q++D++RG ++VATPGRL D++E +I L+ YLVLDEADR
Sbjct: 127 RSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADR 186
Query: 176 MLDMGFEPQIRKIVKE--VPAR--RQTLMYTATWPREVRKIAADLLVNPVQVNIGNVDEL 231
MLDMGFEPQIR+IV++ +P + R T+M++AT+P+E++ +A D L + + +G V
Sbjct: 187 MLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGST 246
Query: 232 AANKAITQHIEVLAPMDKHRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQ-FGAA 290
+ N ITQ + + DK L +L + S +VF TKK D L L + +
Sbjct: 247 SEN--ITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACT 304
Query: 291 AIHGDKSQSERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRI 350
+IHGD+SQ +R+ L+QFR+G+SP+LVAT VAARGLDI +++ V+N+D P+ +E+YVHRI
Sbjct: 305 SIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRI 364
Query: 351 XXXXXXXXXXVAYTFFGDQDSRYASDLIKLLEGAKQQVPRELRDMA 396
+A +FF +++ DL+ LL AKQ+VP L +MA
Sbjct: 365 GRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENMA 410
>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 = 278 bits (712), Expect = 5e-75, Method: Compositional matrix adjust.
Identities = 164/389 (42%), Positives = 232/389 (59%), Gaps = 9/389 (2%)
Query: 10 GDEVPPPFMSFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKT 69
G +VP P F + ++ V+ +G+ PTPIQ S P+ RD++A A+TGSGKT
Sbjct: 48 GSDVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKT 107
Query: 70 LGYLLPGFIHLKRCRNDPRLG-PTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGA 128
+LLP L ++ LG P V+++SPTRELA QI +EA KF S + +YGG
Sbjct: 108 AAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGT 167
Query: 129 PKGPQLKDIDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKI 188
Q + I RG +V+ATPGRL D ++ I+ ++VLDEADRMLDMGF +R+I
Sbjct: 168 SFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRI 227
Query: 189 VKEVPAR--RQTLMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAP 246
+ V R QTLM++AT+P E++++A + L N V V IG V A + Q I +
Sbjct: 228 MTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVG--GACSDVKQTIYEVNK 285
Query: 247 MDKHRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLT-RQFGAAAIHGDKSQSERDYVL 305
K +L +IL Q G+ IVF TK+ D LA L+ ++F +IHGD+ QS+R+ L
Sbjct: 286 YAKRSKLIEILSEQADGT--IVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQAL 343
Query: 306 NQFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTF 365
F+ G VL+AT VA+RGLDIK+I+ V+NYD P+ ++DYVHRI A +F
Sbjct: 344 RDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSF 403
Query: 366 FG-DQDSRYASDLIKLLEGAKQQVPRELR 393
F ++D A+DL+K+LEG+ Q VP LR
Sbjct: 404 FDPEKDRAIAADLVKILEGSGQTVPDFLR 432
>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 = 250 bits (638), Expect = 2e-66, Method: Compositional matrix adjust.
Identities = 116/228 (50%), Positives = 161/228 (70%), Gaps = 7/228 (3%)
Query: 6 LIFQGDEVPPPFMSFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTG 65
+ +G P P ++F FP ++ + F+ PT IQAQ WP+AL D+V +A+TG
Sbjct: 17 ITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTG 76
Query: 66 SGKTLGYLLPGFIHLKRCRNDPRL----GPTVLVLSPTRELATQIQDEAVKFGKSSRISC 121
SGKTL YLLP +H+ + P L GP LVL+PTRELA Q+Q A ++ ++ R+
Sbjct: 77 SGKTLSYLLPAIVHIN---HQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKS 133
Query: 122 TCLYGGAPKGPQLKDIDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGF 181
TC+YGGAPKGPQ++D++RGV+I +ATPGRL D LE + +L + +YLVLDEADRMLDMGF
Sbjct: 134 TCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGF 193
Query: 182 EPQIRKIVKEVPARRQTLMYTATWPREVRKIAADLLVNPVQVNIGNVD 229
EPQIRKIV ++ RQTLM++ATWP+EVR++A D L + + +NIG ++
Sbjct: 194 EPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIGALE 241
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 249 bits (636), Expect = 3e-66, Method: Compositional matrix adjust.
Identities = 116/225 (51%), Positives = 159/225 (70%), Gaps = 7/225 (3%)
Query: 6 LIFQGDEVPPPFMSFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTG 65
+ +G P P ++F FP ++ + F+ PT IQAQ WP+AL D+V +A+TG
Sbjct: 31 ITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTG 90
Query: 66 SGKTLGYLLPGFIHLKRCRNDPRL----GPTVLVLSPTRELATQIQDEAVKFGKSSRISC 121
SGKTL YLLP +H+ + P L GP LVL+PTRELA Q+Q A ++ ++ R+
Sbjct: 91 SGKTLSYLLPAIVHIN---HQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKS 147
Query: 122 TCLYGGAPKGPQLKDIDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGF 181
TC+YGGAPKGPQ++D++RGV+I +ATPGRL D LE + +L + +YLVLDEADRMLDMGF
Sbjct: 148 TCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGF 207
Query: 182 EPQIRKIVKEVPARRQTLMYTATWPREVRKIAADLLVNPVQVNIG 226
EPQIRKIV ++ RQTLM++ATWP+EVR++A D L + + +NIG
Sbjct: 208 EPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIG 252
>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 = 208 bits (530), Expect = 6e-54, Method: Compositional matrix adjust.
Identities = 104/216 (48%), Positives = 147/216 (68%), Gaps = 4/216 (1%)
Query: 13 VPPPFMSF-DATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLG 71
+P P F DA P+LL+ + G PTPIQ+Q+WPI LQ D++ +A+TG+GKTL
Sbjct: 14 IPKPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLS 73
Query: 72 YLLPGFIHL--KRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAP 129
YL+PGFIHL + + R GP +LVL+PTRELA ++ E K+ + C+YGG
Sbjct: 74 YLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSYKG-LKSICIYGGRN 132
Query: 130 KGPQLKDIDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIV 189
+ Q++DI +GVDI++ATPGRLND+ ++L ++YLV+DEAD+MLDM FEPQIRKI+
Sbjct: 133 RNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKIL 192
Query: 190 KEVPARRQTLMYTATWPREVRKIAADLLVNPVQVNI 225
+V RQT+M +ATWP VR++A L +P+ V +
Sbjct: 193 LDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>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 = 206 bits (525), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 116/380 (30%), Positives = 201/380 (52%), Gaps = 11/380 (2%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFI 78
+FD G +LLR ++ GF P+ IQ ++ ++ RD++A +++G+GKT + I
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATF----SI 94
Query: 79 HLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDID 138
+ +C + L+L+PTRELA QIQ + G + C GG G ++ +D
Sbjct: 95 SVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 154
Query: 139 RGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQT 198
G +V TPGR+ D++ R + + LVLDEAD ML+ GF+ QI + + +P Q
Sbjct: 155 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 214
Query: 199 LMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQI-- 256
++ +AT P E+ ++ + +P+++ + DEL + I Q +A + + + +
Sbjct: 215 VLISATLPHEILEMTNKFMTDPIRILVKR-DELTL-EGIKQFF--VAVEREEWKFDTLCD 270
Query: 257 LRSQEPGSKIIVFCSTKKMCDQLARNLTR-QFGAAAIHGDKSQSERDYVLNQFRAGRSPV 315
L ++ ++FC+TK+ D L + F +++HGD Q ER+ ++ +FR+G S V
Sbjct: 271 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 330
Query: 316 LVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQDSRYAS 375
L++TDV ARGLD+ + +++NYD P E Y+HRI VA F + D R
Sbjct: 331 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 390
Query: 376 DLIKLLEGAKQQVPRELRDM 395
D+ + ++P + D+
Sbjct: 391 DIEQYYSTQIDEMPMNVADL 410
>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 = 206 bits (524), Expect = 3e-53, Method: Compositional matrix adjust.
Identities = 116/380 (30%), Positives = 201/380 (52%), Gaps = 11/380 (2%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFI 78
+FD G +LLR ++ GF P+ IQ ++ ++ RD++A +++G+GKT + I
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATF----SI 94
Query: 79 HLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDID 138
+ +C + L+L+PTRELA QIQ + G + C GG G ++ +D
Sbjct: 95 SVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 154
Query: 139 RGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQT 198
G +V TPGR+ D++ R + + LVLDEAD ML+ GF+ QI + + +P Q
Sbjct: 155 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 214
Query: 199 LMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQI-- 256
++ +AT P E+ ++ + +P+++ + DEL + I Q +A + + + +
Sbjct: 215 VLISATLPHEILEMTNKFMTDPIRILVKR-DELTL-EGIKQFF--VAVEREEWKFDTLCD 270
Query: 257 LRSQEPGSKIIVFCSTKKMCDQLARNLTR-QFGAAAIHGDKSQSERDYVLNQFRAGRSPV 315
L ++ ++FC+TK+ D L + F +++HGD Q ER+ ++ +FR+G S V
Sbjct: 271 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 330
Query: 316 LVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQDSRYAS 375
L++TDV ARGLD+ + +++NYD P E Y+HRI VA F + D R
Sbjct: 331 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 390
Query: 376 DLIKLLEGAKQQVPRELRDM 395
D+ + ++P + D+
Sbjct: 391 DIEQYYSTQIDEMPMNVADL 410
>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 = 206 bits (524), Expect = 3e-53, Method: Compositional matrix adjust.
Identities = 116/380 (30%), Positives = 201/380 (52%), Gaps = 11/380 (2%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFI 78
+FD G +LLR ++ GF P+ IQ ++ ++ RD++A +++G+GKT + I
Sbjct: 17 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATF----SI 72
Query: 79 HLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDID 138
+ +C + L+L+PTRELA QIQ + G + C GG G ++ +D
Sbjct: 73 SVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 132
Query: 139 RGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQT 198
G +V TPGR+ D++ R + + LVLDEAD ML+ GF+ QI + + +P Q
Sbjct: 133 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 192
Query: 199 LMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQI-- 256
++ +AT P E+ ++ + +P+++ + DEL + I Q +A + + + +
Sbjct: 193 VLISATLPHEILEMTNKFMTDPIRILVKR-DELTL-EGIKQFF--VAVEREEWKFDTLCD 248
Query: 257 LRSQEPGSKIIVFCSTKKMCDQLARNLTR-QFGAAAIHGDKSQSERDYVLNQFRAGRSPV 315
L ++ ++FC+TK+ D L + F +++HGD Q ER+ ++ +FR+G S V
Sbjct: 249 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 308
Query: 316 LVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQDSRYAS 375
L++TDV ARGLD+ + +++NYD P E Y+HRI VA F + D R
Sbjct: 309 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 368
Query: 376 DLIKLLEGAKQQVPRELRDM 395
D+ + ++P + D+
Sbjct: 369 DIEQYYSTQIDEMPMNVADL 388
>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 = 206 bits (524), Expect = 3e-53, Method: Compositional matrix adjust.
Identities = 116/380 (30%), Positives = 201/380 (52%), Gaps = 11/380 (2%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFI 78
+FD G +LLR ++ GF P+ IQ ++ ++ RD++A +++G+GKT + I
Sbjct: 38 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATF----SI 93
Query: 79 HLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDID 138
+ +C + L+L+PTRELA QIQ + G + C GG G ++ +D
Sbjct: 94 SVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 153
Query: 139 RGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQT 198
G +V TPGR+ D++ R + + LVLDEAD ML+ GF+ QI + + +P Q
Sbjct: 154 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 213
Query: 199 LMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQI-- 256
++ +AT P E+ ++ + +P+++ + DEL + I Q +A + + + +
Sbjct: 214 VLISATLPHEILEMTNKFMTDPIRILVKR-DELTL-EGIKQFF--VAVEREEWKFDTLCD 269
Query: 257 LRSQEPGSKIIVFCSTKKMCDQLARNLTR-QFGAAAIHGDKSQSERDYVLNQFRAGRSPV 315
L ++ ++FC+TK+ D L + F +++HGD Q ER+ ++ +FR+G S V
Sbjct: 270 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 329
Query: 316 LVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQDSRYAS 375
L++TDV ARGLD+ + +++NYD P E Y+HRI VA F + D R
Sbjct: 330 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILR 389
Query: 376 DLIKLLEGAKQQVPRELRDM 395
D+ + ++P + D+
Sbjct: 390 DIEQYYSTQIDEMPMNVADL 409
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 205 bits (521), Expect = 7e-53, Method: Compositional matrix adjust.
Identities = 114/380 (30%), Positives = 201/380 (52%), Gaps = 11/380 (2%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFI 78
+FD G +LLR ++ GF P+ IQ ++ ++ RD++A +++G+GKT + +
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATF----SV 57
Query: 79 HLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDID 138
+ +C + L+L+PTRELA Q+Q + G + C GG G ++ +D
Sbjct: 58 SVLQCLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 117
Query: 139 RGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQT 198
G +V TPGR+ D++ R + + LVLDEAD ML+ GF+ QI + + +P Q
Sbjct: 118 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 177
Query: 199 LMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQI-- 256
++ +AT P E+ ++ + +P+++ + DEL + I Q +A + + + +
Sbjct: 178 VLISATLPHEILEMTNKFMTDPIRILVKR-DELTL-EGIKQFF--VAVEREEWKFDTLCD 233
Query: 257 LRSQEPGSKIIVFCSTKKMCDQLARNLTR-QFGAAAIHGDKSQSERDYVLNQFRAGRSPV 315
L ++ ++FC+TK+ D L + F +++HGD Q ER+ ++ +FR+G S V
Sbjct: 234 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 293
Query: 316 LVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQDSRYAS 375
L++TDV ARGLD+ + +++NYD P E Y+HRI VA F + D R
Sbjct: 294 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLR 353
Query: 376 DLIKLLEGAKQQVPRELRDM 395
D+ + ++P + D+
Sbjct: 354 DIEQYYSTQIDEMPMNVADL 373
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 201 bits (511), Expect = 8e-52, Method: Compositional matrix adjust.
Identities = 114/380 (30%), Positives = 200/380 (52%), Gaps = 11/380 (2%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFI 78
+FD G +LLR ++ GF P+ IQ ++ ++ RD++A +++G+GKT + +
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATF----SV 57
Query: 79 HLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDID 138
+ +C + L+L+PTRELA Q+Q + G + GG G ++ +D
Sbjct: 58 SVLQCLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLD 117
Query: 139 RGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQT 198
G +V TPGR+ D++ R + + LVLDEAD ML+ GF+ QI + + +P Q
Sbjct: 118 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 177
Query: 199 LMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQI-- 256
++ +AT P EV ++ + +P+++ + DEL + I Q +A + + + +
Sbjct: 178 VLISATLPHEVLEMTNKFMTDPIRILVKR-DELTL-EGIKQFF--VAVEREEWKFDTLCD 233
Query: 257 LRSQEPGSKIIVFCSTKKMCDQLARNLTR-QFGAAAIHGDKSQSERDYVLNQFRAGRSPV 315
L ++ ++FC+TK+ D L + F +++HGD Q ER+ ++ +FR+G S V
Sbjct: 234 LYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRV 293
Query: 316 LVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQDSRYAS 375
L++TDV ARGLD+ + +++NYD P E Y+HRI VA F + D R
Sbjct: 294 LISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLR 353
Query: 376 DLIKLLEGAKQQVPRELRDM 395
D+ + ++P + D+
Sbjct: 354 DIEQYYSTQIDEMPMNVADL 373
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 194 bits (494), Expect = 7e-50, Method: Compositional matrix adjust.
Identities = 112/334 (33%), Positives = 181/334 (54%), Gaps = 11/334 (3%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFI 78
+F+ ELL + AGF P+PIQ ++ P+A+ RDI+A AK G+GKT +++P
Sbjct: 22 TFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLE 81
Query: 79 HLKRCRNDPRLGPT-VLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDI 137
+K P+L L++ PTRELA Q GK ISC GG + +
Sbjct: 82 KVK-----PKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRL 136
Query: 138 DRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQ 197
+ V I+V TPGR+ D+ + L+ S ++DEAD+ML F+ I +I+ +P Q
Sbjct: 137 NETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQ 196
Query: 198 TLMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQIL 257
+L+++AT+P V++ L P ++N+ ++EL K ITQ+ + K L +
Sbjct: 197 SLLFSATFPLTVKEFMVKHLHKPYEINL--MEELTL-KGITQYYAFVEERQKLHCLNTLF 253
Query: 258 RSQEPGSKIIVFCSTKKMCDQLARNLT-RQFGAAAIHGDKSQSERDYVLNQFRAGRSPVL 316
S+ ++ I+FC++ + LA+ +T + H Q ER+ V ++FR G+ L
Sbjct: 254 -SKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTL 312
Query: 317 VATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRI 350
V +D+ RG+DI+ + VV+N+DFP E Y+HRI
Sbjct: 313 VCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRI 346
>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 = 192 bits (489), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 117/340 (34%), Positives = 183/340 (53%), Gaps = 24/340 (7%)
Query: 17 FMSFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSR-DIVAIAKTGSGKTLGYLLP 75
+ +F+ +L + N GF PT IQ + P+ L +IVA A+TGSGKT + +P
Sbjct: 5 YXNFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIP 64
Query: 76 GFIHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLK 135
I L N G ++L+PTRELA Q+ DE + + +YGG PQ+K
Sbjct: 65 -LIELVNENN----GIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIK 119
Query: 136 DIDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPAR 195
+ + +IVV TPGR+ D + ++L V Y +LDEAD L+ GF + KI+
Sbjct: 120 AL-KNANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKD 178
Query: 196 RQTLMYTATWPREV----RKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHR 251
++ L+++AT PRE+ +K D ++N N+++ ++EV ++
Sbjct: 179 KRILLFSATXPREILNLAKKYXGDYSFIKAKIN-ANIEQ--------SYVEV-NENERFE 228
Query: 252 RLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTR-QFGAAAIHGDKSQSERDYVLNQFRA 310
L ++L+++E +VFC TK+ +LA L F A AIHGD SQS+R+ V+ F+
Sbjct: 229 ALCRLLKNKEFYG--LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQ 286
Query: 311 GRSPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRI 350
+ +L+ATDV +RG+D+ D+ V+NY P E Y HRI
Sbjct: 287 KKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRI 326
>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 = 190 bits (482), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 102/232 (43%), Positives = 146/232 (62%), Gaps = 11/232 (4%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFI 78
+FD P + + A + PTPIQ + P L+ RDI+A A+TGSGKT +L+P
Sbjct: 24 NFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIIN 83
Query: 79 HL-----KRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQ 133
HL + R P L+L+PTRELA QI E+ KF ++ + +YGGA Q
Sbjct: 84 HLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQ 143
Query: 134 LKDIDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKE-- 191
++++ G ++VATPGRL D +E +ISL Y+VLDEADRMLDMGFEPQIRKI++E
Sbjct: 144 IREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESN 203
Query: 192 VPA--RRQTLMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHI 241
+P+ RQTLM++AT+P+E++K+AAD L N + + +G V + + +I Q I
Sbjct: 204 MPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVG--STSDSIKQEI 253
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 189 bits (480), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 116/379 (30%), Positives = 198/379 (52%), Gaps = 8/379 (2%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFI 78
SFD LLR ++ GF P+ IQ ++ ++ D++A A++G+GKT + +
Sbjct: 41 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAIS--- 97
Query: 79 HLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDID 138
L++ D + LVL+PTRELA QIQ + G SC GG +++ +
Sbjct: 98 ILQQIELDLK-ATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQ 156
Query: 139 RGV-DIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQ 197
I+V TPGR+ D+L R +S + VLDEAD ML GF+ QI I +++ + Q
Sbjct: 157 MEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQ 216
Query: 198 TLMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQIL 257
++ +AT P +V ++ + +P+++ + +EL +I V K L +
Sbjct: 217 VVLLSATMPSDVLEVTKKFMRDPIRILVKK-EELTLEGIRQFYINVEREEWKLDTLCDLY 275
Query: 258 RSQEPGSKIIVFCSTKKMCDQLARNL-TRQFGAAAIHGDKSQSERDYVLNQFRAGRSPVL 316
+ ++ ++F +T++ D L + R F +A+HGD Q ERD ++ +FR+G S VL
Sbjct: 276 ETLTI-TQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVL 334
Query: 317 VATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQDSRYASD 376
+ TD+ ARG+D++ + +V+NYD PT E+Y+HRI VA ++D R D
Sbjct: 335 ITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRD 394
Query: 377 LIKLLEGAKQQVPRELRDM 395
+ + +++P + D+
Sbjct: 395 IETFYNTSIEEMPLNVADL 413
>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 = 189 bits (479), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 116/379 (30%), Positives = 198/379 (52%), Gaps = 8/379 (2%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFI 78
SFD LLR ++ GF P+ IQ ++ ++ D++A A++G+GKT + +
Sbjct: 15 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAIS--- 71
Query: 79 HLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDID 138
L++ D + LVL+PTRELA QIQ + G SC GG +++ +
Sbjct: 72 ILQQIELDLK-ATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQ 130
Query: 139 RGV-DIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQ 197
I+V TPGR+ D+L R +S + VLDEAD ML GF+ QI I +++ + Q
Sbjct: 131 MEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQ 190
Query: 198 TLMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQIL 257
++ +AT P +V ++ + +P+++ + +EL +I V K L +
Sbjct: 191 VVLLSATMPSDVLEVTKKFMRDPIRILVKK-EELTLEGIRQFYINVEREEWKLDTLCDLY 249
Query: 258 RSQEPGSKIIVFCSTKKMCDQLARNL-TRQFGAAAIHGDKSQSERDYVLNQFRAGRSPVL 316
+ ++ ++F +T++ D L + R F +A+HGD Q ERD ++ +FR+G S VL
Sbjct: 250 ETLTI-TQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVL 308
Query: 317 VATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQDSRYASD 376
+ TD+ ARG+D++ + +V+NYD PT E+Y+HRI VA ++D R D
Sbjct: 309 ITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRD 368
Query: 377 LIKLLEGAKQQVPRELRDM 395
+ + +++P + D+
Sbjct: 369 IETFYNTSIEEMPLNVADL 387
>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 = 187 bits (474), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 115/374 (30%), Positives = 194/374 (51%), Gaps = 8/374 (2%)
Query: 20 FDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIH 79
FD LLR V GF P+ IQ ++ ++ D++A A++G+GKT + +
Sbjct: 24 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA--- 80
Query: 80 LKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDIDR 139
L+R + P L+L+PTRELA QIQ + I GG + + R
Sbjct: 81 LQRIDTSVK-APQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-R 138
Query: 140 GVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQTL 199
IVV TPGR+ D ++ RR +++ +LDEAD ML GF+ QI +I +P Q +
Sbjct: 139 DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVV 198
Query: 200 MYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQILRS 259
+ +AT P +V ++ + NPV++ + DEL ++ V K+ L + S
Sbjct: 199 LLSATMPNDVLEVTTKFMRNPVRILVKK-DELTLEGIKQFYVNVEEEEYKYECLTDLYDS 257
Query: 260 QEPGSKIIVFCSTKKMCDQLARNL-TRQFGAAAIHGDKSQSERDYVLNQFRAGRSPVLVA 318
++ ++FC+T++ ++L L +F +AI+ D Q ERD ++ +FR+G S +L++
Sbjct: 258 ISV-TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILIS 316
Query: 319 TDVAARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQDSRYASDLI 378
TD+ ARG+D++ + +V+NYD P E+Y+HRI VA F ++D +L
Sbjct: 317 TDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELE 376
Query: 379 KLLEGAKQQVPREL 392
K +++P ++
Sbjct: 377 KFYSTQIEELPSDI 390
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 180 bits (456), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 114/374 (30%), Positives = 189/374 (50%), Gaps = 8/374 (2%)
Query: 20 FDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIH 79
FD LLR V GF P+ IQ ++ ++ D++A A++G+GKT + +
Sbjct: 23 FDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAA--- 79
Query: 80 LKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDIDR 139
L+R + P L L+PTRELA QIQ I GG + + R
Sbjct: 80 LQRIDTSVK-APQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGL-R 137
Query: 140 GVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQTL 199
IVV TPGR+ D ++ RR +++ +LDEAD L GF+ QI +I +P Q +
Sbjct: 138 DAQIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVV 197
Query: 200 MYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQILRS 259
+ +AT P +V ++ NPV++ + DEL ++ V K+ L + S
Sbjct: 198 LLSATXPNDVLEVTTKFXRNPVRILVKK-DELTLEGIKQFYVNVEEEEYKYECLTDLYDS 256
Query: 260 QEPGSKIIVFCSTKKMCDQLARNL-TRQFGAAAIHGDKSQSERDYVLNQFRAGRSPVLVA 318
++ ++FC+T++ ++L L +F +AI+ D Q ERD + +FR+G S +L++
Sbjct: 257 ISV-TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILIS 315
Query: 319 TDVAARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQDSRYASDLI 378
TD+ ARG+D++ + +V+NYD P E+Y+HRI VA F ++D +L
Sbjct: 316 TDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAXRELE 375
Query: 379 KLLEGAKQQVPREL 392
K +++P ++
Sbjct: 376 KFYSTQIEELPSDI 389
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 176 bits (445), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 107/318 (33%), Positives = 166/318 (52%), Gaps = 22/318 (6%)
Query: 33 VHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRNDPRLGPT 92
+ GF + T +Q+++ P+ LQ +++V AKTGSGKT Y +P LG
Sbjct: 9 IREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPIL----------ELGMK 58
Query: 93 VLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDIDRGVDIVVATPGRLN 152
LV++PTREL Q+ G+ +YGG P Q+ + R DIVVATPGRL
Sbjct: 59 SLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRV-RNADIVVATPGRLL 117
Query: 153 DILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQTLMYTATWPREVRKI 212
D+ I L+ +++DEAD M +MGF I+ I+ + R+ T +++AT P E+RK+
Sbjct: 118 DLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKV 177
Query: 213 AADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQILRSQEPGSKIIVFCST 272
D + N ++ E A +H V D +++ + +++ G +IVF T
Sbjct: 178 VKDFITNYEEI------EACIGLANVEHKFVHVKDDWRSKVQALRENKDKG--VIVFVRT 229
Query: 273 KKMCDQLARNLTRQFGAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDVAARGLDIKDIR 332
+ +L R A + GD QS R+ ++ FR G +L+ TDVA+RGLDI +
Sbjct: 230 RNRVAKLVRLFD---NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVE 286
Query: 333 VVVNYDFPTGVEDYVHRI 350
V+N+D P + Y+HRI
Sbjct: 287 KVINFDAPQDLRTYIHRI 304
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 169 bits (429), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 111/377 (29%), Positives = 199/377 (52%), Gaps = 14/377 (3%)
Query: 27 PELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRND 86
PELLR + + GF P+ +Q + P A+ D++ AK+G GKT ++L L +
Sbjct: 16 PELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL-----E 70
Query: 87 PRLGP-TVLVLSPTRELATQIQDEAVKFGKSS-RISCTCLYGGAPKGPQLKDIDRGV-DI 143
P G +VLV+ TRELA QI E +F K + +GG + + + I
Sbjct: 71 PVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHI 130
Query: 144 VVATPGRLNDILEMRRISLNQVSYLVLDEADRMLD-MGFEPQIRKIVKEVPARRQTLMYT 202
VV TPGR+ + + ++L + + +LDEAD+ML+ + +++I + P +Q +M++
Sbjct: 131 VVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMMFS 190
Query: 203 ATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQILRSQEP 262
AT +E+R + + +P+++ + + +L + + Q+ L +K+R+L +L E
Sbjct: 191 ATLSKEIRPVCRKFMQDPMEIFVDDETKLTLH-GLQQYYVKLKDNEKNRKLFDLLDVLE- 248
Query: 263 GSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDV 321
+++++F + + C LA+ L Q F A AIH Q ER QF+ + +LVAT++
Sbjct: 249 FNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNL 308
Query: 322 AARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQ-DSRYASDLIKL 380
RG+DI+ + + NYD P + Y+HR+ +A TF D+ D++ +D+
Sbjct: 309 FGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDR 368
Query: 381 LEGAKQQVPRELRDMAS 397
E ++P E+ D++S
Sbjct: 369 FEVNISELPDEI-DISS 384
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 168 bits (426), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 110/377 (29%), Positives = 198/377 (52%), Gaps = 14/377 (3%)
Query: 27 PELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRND 86
PELLR + + GF P+ +Q + P A+ D++ AK+G GKT ++L L +
Sbjct: 17 PELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL-----E 71
Query: 87 PRLGP-TVLVLSPTRELATQIQDEAVKFGKSS-RISCTCLYGGAPKGPQLKDIDRGV-DI 143
P G +VLV+ TRELA QI E +F K + +GG + + + I
Sbjct: 72 PVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHI 131
Query: 144 VVATPGRLNDILEMRRISLNQVSYLVLDEADRMLD-MGFEPQIRKIVKEVPARRQTLMYT 202
VV TPGR+ + + ++L + + +LDE D+ML+ + +++I + P +Q +M++
Sbjct: 132 VVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFS 191
Query: 203 ATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQILRSQEP 262
AT +E+R + + +P+++ + + +L + + Q+ L +K+R+L +L E
Sbjct: 192 ATLSKEIRPVCRKFMQDPMEIFVDDETKLTLH-GLQQYYVKLKDNEKNRKLFDLLDVLE- 249
Query: 263 GSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDV 321
+++++F + + C LA+ L Q F A AIH Q ER QF+ + +LVAT++
Sbjct: 250 FNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNL 309
Query: 322 AARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQ-DSRYASDLIKL 380
RG+DI+ + + NYD P + Y+HR+ +A TF D+ D++ +D+
Sbjct: 310 FGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDR 369
Query: 381 LEGAKQQVPRELRDMAS 397
E ++P E+ D++S
Sbjct: 370 FEVNISELPDEI-DISS 385
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 168 bits (426), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 110/377 (29%), Positives = 198/377 (52%), Gaps = 14/377 (3%)
Query: 27 PELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRND 86
PELLR + + GF P+ +Q + P A+ D++ AK+G GKT ++L L +
Sbjct: 17 PELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL-----E 71
Query: 87 PRLGP-TVLVLSPTRELATQIQDEAVKFGKSS-RISCTCLYGGAPKGPQLKDIDRGV-DI 143
P G +VLV+ TRELA QI E +F K + +GG + + + I
Sbjct: 72 PVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHI 131
Query: 144 VVATPGRLNDILEMRRISLNQVSYLVLDEADRMLD-MGFEPQIRKIVKEVPARRQTLMYT 202
VV TPGR+ + + ++L + + +LDE D+ML+ + +++I + P +Q +M++
Sbjct: 132 VVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFS 191
Query: 203 ATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQILRSQEP 262
AT +E+R + + +P+++ + + +L + + Q+ L +K+R+L +L E
Sbjct: 192 ATLSKEIRPVCRKFMQDPMEIFVDDETKLTLH-GLQQYYVKLKDNEKNRKLFDLLDVLE- 249
Query: 263 GSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDV 321
+++++F + + C LA+ L Q F A AIH Q ER QF+ + +LVAT++
Sbjct: 250 FNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNL 309
Query: 322 AARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQ-DSRYASDLIKL 380
RG+DI+ + + NYD P + Y+HR+ +A TF D+ D++ +D+
Sbjct: 310 FGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDR 369
Query: 381 LEGAKQQVPRELRDMAS 397
E ++P E+ D++S
Sbjct: 370 FEVNISELPDEI-DISS 385
>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 = 167 bits (423), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 120/369 (32%), Positives = 191/369 (51%), Gaps = 32/369 (8%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQS--RDIVAIAKTGSGKTLGYLLPG 76
SFD G PELL+ ++ F P+ IQ ++ P+ L + R+++A +++G+GKT + L
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 77 FIHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGA-PKGPQLK 135
+ N P + L+P+RELA Q + + GK ++I+ + + K Q+
Sbjct: 66 LTRV----NPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQI- 120
Query: 136 DIDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDM-GFEPQIRKIVKEVPA 194
++V TPG + D++ + + L ++ VLDEAD MLD G Q ++ + +P
Sbjct: 121 ----NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPK 176
Query: 195 RRQTLMYTATWPREVRKIAADLLVNP----VQVNIGNVDELAANKAITQ-HIEVLAPMDK 249
Q ++++AT+ VR+ A ++ N +Q N NVD AI Q +++ DK
Sbjct: 177 DTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVD------AIKQLYMDCKNEADK 230
Query: 250 HRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQFGAAAI-HGDKSQSERDYVLNQF 308
L ++ GS II F +TKK + L L + +I HGD ERD +++ F
Sbjct: 231 FDVLTELYGVMTIGSSII-FVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDF 289
Query: 309 RAGRSPVLVATDVAARGLDIKDIRVVVNYDFPT---GVED---YVHRIXXXXXXXXXXVA 362
R GRS VL+ T+V ARG+DI + +VVNYD PT G D Y+HRI VA
Sbjct: 290 REGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVA 349
Query: 363 YTFFGDQDS 371
+F D++S
Sbjct: 350 ISFVHDKNS 358
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 167 bits (422), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 120/369 (32%), Positives = 191/369 (51%), Gaps = 32/369 (8%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQS--RDIVAIAKTGSGKTLGYLLPG 76
SFD G PELL+ ++ F P+ IQ ++ P+ L + R+++A +++G+GKT + L
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 77 FIHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGA-PKGPQLK 135
+ N P + L+P+RELA Q + + GK ++I+ + + K Q+
Sbjct: 66 LTRV----NPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQI- 120
Query: 136 DIDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDM-GFEPQIRKIVKEVPA 194
++V TPG + D++ + + L ++ VLDEAD MLD G Q ++ + +P
Sbjct: 121 ----NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPK 176
Query: 195 RRQTLMYTATWPREVRKIAADLLVNP----VQVNIGNVDELAANKAITQ-HIEVLAPMDK 249
Q ++++AT+ VR+ A ++ N +Q N NVD AI Q +++ DK
Sbjct: 177 DTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVD------AIKQLYMDCKNEADK 230
Query: 250 HRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQFGAAAI-HGDKSQSERDYVLNQF 308
L ++ GS II F +TKK + L L + +I HGD ERD +++ F
Sbjct: 231 FDVLTELYGLMTIGSSII-FVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDF 289
Query: 309 RAGRSPVLVATDVAARGLDIKDIRVVVNYDFPT---GVED---YVHRIXXXXXXXXXXVA 362
R GRS VL+ T+V ARG+DI + +VVNYD PT G D Y+HRI VA
Sbjct: 290 REGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVA 349
Query: 363 YTFFGDQDS 371
+F D++S
Sbjct: 350 ISFVHDKNS 358
>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 = 157 bits (398), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 84/208 (40%), Positives = 121/208 (58%), Gaps = 3/208 (1%)
Query: 18 MSFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGF 77
M F PE+L +H G ++PTPIQA + P+AL+ +D++ A+TG+GKTL + LP
Sbjct: 1 MEFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIA 60
Query: 78 IHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDI 137
L + R P LVL+PTRELA Q+ E + + +YGG G Q + +
Sbjct: 61 ERLAPSQERGR-KPRALVLTPTRELALQVASELTAV--APHLKVVAVYGGTGYGKQKEAL 117
Query: 138 DRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQ 197
RG D VVATPGR D L + L++V VLDEAD ML MGFE ++ ++ P RQ
Sbjct: 118 LRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQ 177
Query: 198 TLMYTATWPREVRKIAADLLVNPVQVNI 225
TL+++AT P +++A + NPV +N+
Sbjct: 178 TLLFSATLPSWAKRLAERYMKNPVLINV 205
>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 = 156 bits (394), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 83/208 (39%), Positives = 121/208 (58%), Gaps = 3/208 (1%)
Query: 18 MSFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGF 77
M F PE+L +H G ++PTPI+A + P+AL+ +D++ A+TG+GKTL + LP
Sbjct: 1 MEFKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIA 60
Query: 78 IHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDI 137
L + R P LVL+PTRELA Q+ E + + +YGG G Q + +
Sbjct: 61 ERLAPSQERGR-KPRALVLTPTRELALQVASELTAV--APHLKVVAVYGGTGYGKQKEAL 117
Query: 138 DRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQ 197
RG D VVATPGR D L + L++V VLDEAD ML MGFE ++ ++ P RQ
Sbjct: 118 LRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQ 177
Query: 198 TLMYTATWPREVRKIAADLLVNPVQVNI 225
TL+++AT P +++A + NPV +N+
Sbjct: 178 TLLFSATLPSWAKRLAERYMKNPVLINV 205
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 105/352 (29%), Positives = 182/352 (51%), Gaps = 30/352 (8%)
Query: 29 LLREVHNA----GFSSPTPIQAQSWPIALQSRD--IVAIAKTGSGKTLGYLLPGFIHLKR 82
L +E+H A F TP+Q ++ L S D ++A AKTG+GKT +L+P F HL
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 83 CRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSS----RISCTCLYGGAPKGPQLKDID 138
+ D + ++++PTR+LA QI+ E K + + +C L GG + ++
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 139 R-GVDIVVATPGRLNDILEMRRISLNQ-VSYLVLDEADRMLDMGFE---PQIRKIVKEVP 193
+ +IV+ATPGRL D+LE + V Y VLDEADR+L++GF I I+ E
Sbjct: 148 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 207
Query: 194 ARR----QTLMYTATWPREVRKIAADLLVNPVQVNIGNVD--ELAANKAITQHIEVLAPM 247
++ +TL+++AT +V+K+A +++ + + VD E A++ I Q + +
Sbjct: 208 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 267
Query: 248 DKH-----RRLEQILRSQEPGSKIIVFCSTKK----MCDQLARNLTRQFGAAAIHGDKSQ 298
+++ ++ ++ K I+F T K +C L + HG +Q
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 327
Query: 299 SERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRI 350
++R ++ +F+ S +LV TDV ARG+D ++ V+ P+ + +Y+HRI
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRI 379
>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 = 149 bits (377), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 105/352 (29%), Positives = 182/352 (51%), Gaps = 30/352 (8%)
Query: 29 LLREVHNA----GFSSPTPIQAQSWPIALQSRD--IVAIAKTGSGKTLGYLLPGFIHLKR 82
L +E+H A F TP+Q ++ L S D ++A AKTG+GKT +L+P F HL
Sbjct: 79 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 138
Query: 83 CRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSS----RISCTCLYGGAPKGPQLKDID 138
+ D + ++++PTR+LA QI+ E K + + +C L GG + ++
Sbjct: 139 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 198
Query: 139 R-GVDIVVATPGRLNDILEMRRISLNQ-VSYLVLDEADRMLDMGFE---PQIRKIVKEVP 193
+ +IV+ATPGRL D+LE + V Y VLDEADR+L++GF I I+ E
Sbjct: 199 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 258
Query: 194 ARR----QTLMYTATWPREVRKIAADLLVNPVQVNIGNVD--ELAANKAITQHIEVLAPM 247
++ +TL+++AT +V+K+A +++ + + VD E A++ I Q + +
Sbjct: 259 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 318
Query: 248 DKH-----RRLEQILRSQEPGSKIIVFCSTKK----MCDQLARNLTRQFGAAAIHGDKSQ 298
+++ ++ ++ K I+F T K +C L + HG +Q
Sbjct: 319 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 378
Query: 299 SERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRI 350
++R ++ +F+ S +LV TDV ARG+D ++ V+ P+ + +Y+HRI
Sbjct: 379 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRI 430
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 148 bits (374), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 105/352 (29%), Positives = 182/352 (51%), Gaps = 30/352 (8%)
Query: 29 LLREVHNA----GFSSPTPIQAQSWPIALQSRD--IVAIAKTGSGKTLGYLLPGFIHLKR 82
L +E+H A F TP+Q ++ L S D ++A AKTG+GKT +L+P F HL
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 83 CRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSS----RISCTCLYGGAPKGPQLKDID 138
+ D + ++++PTR+LA QI+ E K + + +C L GG + ++
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 139 R-GVDIVVATPGRLNDILEMRRISLNQ-VSYLVLDEADRMLDMGFE---PQIRKIVKEVP 193
+ +IV+ATPGRL D+LE + V Y VLDEADR+L++GF I I+ E
Sbjct: 148 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 207
Query: 194 ARR----QTLMYTATWPREVRKIAADLLVNPVQVNIGNVD--ELAANKAITQHIEVLAPM 247
++ +TL+++AT +V+K+A +++ + + VD E A++ I Q + +
Sbjct: 208 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 267
Query: 248 DKH-----RRLEQILRSQEPGSKIIVFCSTKK----MCDQLARNLTRQFGAAAIHGDKSQ 298
+++ ++ ++ K I+F T K +C L + HG +Q
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 327
Query: 299 SERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRI 350
++R ++ +F+ S +LV TDV ARG+D ++ V+ P+ + +Y+HRI
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRI 379
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 139 bits (349), Expect = 5e-33, Method: Compositional matrix adjust.
Identities = 98/340 (28%), Positives = 167/340 (49%), Gaps = 24/340 (7%)
Query: 44 IQAQSWPIALQS--RDIVAIAKTGSGKTLGYLLPGFIHLKRCRNDPRL-GPTVLVLSPTR 100
IQ ++ P+ L + R+++ +++G+GKT + L R D + P + L+P+R
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTML-----SRVDASVPKPQAICLAPSR 199
Query: 101 ELATQIQDEAVKFGKSSRISCTC-LYGGAPKGPQLKDIDRGVDIVVATPGRLNDILEMRR 159
ELA QI D + GK + + + PKG ++ IV+ TPG + D+++ R+
Sbjct: 200 ELARQIMDVVTEMGKYTEVKTAFGIKDSVPKGAKID-----AQIVIGTPGTVMDLMKRRQ 254
Query: 160 ISLNQVSYLVLDEADRMLDM-GFEPQIRKIVKEVPARRQTLMYTATWPREVRKIAADLLV 218
+ + VLDEAD MLD G Q +I +P Q ++++AT+ V K A
Sbjct: 255 LDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAP 314
Query: 219 NPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQILRSQEPGSKIIVFCSTKKMCDQ 278
N ++ + +EL+ +++ + K+ L ++ G II FC K ++
Sbjct: 315 NANEIRL-KTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSII-FCKKKDTAEE 372
Query: 279 LARNLTRQ-FGAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVVNY 337
+AR +T A + G+ ++RD +++ FR G S VLV T+V ARG+D+ + +VVNY
Sbjct: 373 IARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNY 432
Query: 338 DFPTGV------EDYVHRIXXXXXXXXXXVAYTFFGDQDS 371
D P + Y+HRI V+ F D+ S
Sbjct: 433 DMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDKKS 472
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 137 bits (344), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 73/185 (39%), Positives = 115/185 (62%), Gaps = 1/185 (0%)
Query: 30 LREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRNDPRL 89
L+ + GF++ T IQ +S L+ RD++A AKTGSGKTL +L+P + + R PR
Sbjct: 66 LKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRN 125
Query: 90 GPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDIDRGVDIVVATPG 149
G VL+LSPTRELA Q + + + GG+ + + + + G++I+VATPG
Sbjct: 126 GTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPG 185
Query: 150 RLNDILEMR-RISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQTLMYTATWPRE 208
RL D ++ + LV+DEADR+LD+GFE ++++I+K +P RRQT++++AT R+
Sbjct: 186 RLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSATQTRK 245
Query: 209 VRKIA 213
V +A
Sbjct: 246 VEDLA 250
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 135 bits (340), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 80/210 (38%), Positives = 120/210 (57%), Gaps = 5/210 (2%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFI 78
+F G L G++ PT IQ ++ P+ALQ RDI+ +A+TGSGKT + LP
Sbjct: 44 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILN 103
Query: 79 HLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDID 138
L RL LVL+PTRELA QI ++ G S + + GG Q +
Sbjct: 104 AL--LETPQRL--FALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALA 159
Query: 139 RGVDIVVATPGRLNDILE-MRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQ 197
+ I++ATPGRL D LE + +L + YLV+DEADR+L+M FE ++ KI+K +P R+
Sbjct: 160 KKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRK 219
Query: 198 TLMYTATWPREVRKIAADLLVNPVQVNIGN 227
T +++AT ++V+K+ L NPV+ + +
Sbjct: 220 TFLFSATMTKKVQKLQRAALKNPVKCAVSS 249
>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 = 132 bits (331), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 96/346 (27%), Positives = 176/346 (50%), Gaps = 25/346 (7%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQS--RDIVAIAKTGSGKTLGYLLPG 76
SF+ P+LL+ V+ GF+ P+ IQ + P+ L ++++A +++G+GKT ++L
Sbjct: 63 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 122
Query: 77 FIHLKRCRNDPRLGPTVLVLSPTRELATQ---IQDEAVKFGKSSRISCTCLYGGAPKGPQ 133
++ P+ L LSPT ELA Q + ++ KF +++ +G +
Sbjct: 123 LSQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 178
Query: 134 LKDIDRGVDIVVATPGRLNDIL-EMRRISLNQVSYLVLDEADRML-DMGFEPQIRKIVKE 191
+ + IV+ TPG + D +++ I ++ VLDEAD M+ G + Q +I +
Sbjct: 179 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 233
Query: 192 VPARRQTLMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHR 251
+P Q L+++AT+ V K A ++ +P + + +E I Q+ + + D+
Sbjct: 234 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL--DTIKQYYVLCSSRDEKF 291
Query: 252 RLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHGDKSQSERDYVLNQFRA 310
+ L ++ ++FC T+K LA L+++ A + G+ +R V+ +FR
Sbjct: 292 QALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE 351
Query: 311 GRSPVLVATDVAARGLDIKDIRVVVNYDFPTGV------EDYVHRI 350
G+ VLV T+V ARG+D++ + VV+N+D P E Y+HRI
Sbjct: 352 GKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 397
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 132 bits (331), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 96/346 (27%), Positives = 176/346 (50%), Gaps = 25/346 (7%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQS--RDIVAIAKTGSGKTLGYLLPG 76
SF+ P+LL+ V+ GF+ P+ IQ + P+ L ++++A +++G+GKT ++L
Sbjct: 42 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 101
Query: 77 FIHLKRCRNDPRLGPTVLVLSPTRELATQ---IQDEAVKFGKSSRISCTCLYGGAPKGPQ 133
++ P+ L LSPT ELA Q + ++ KF +++ +G +
Sbjct: 102 LSQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 157
Query: 134 LKDIDRGVDIVVATPGRLNDIL-EMRRISLNQVSYLVLDEADRML-DMGFEPQIRKIVKE 191
+ + IV+ TPG + D +++ I ++ VLDEAD M+ G + Q +I +
Sbjct: 158 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 212
Query: 192 VPARRQTLMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHR 251
+P Q L+++AT+ V K A ++ +P + + +E I Q+ + + D+
Sbjct: 213 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL--DTIKQYYVLCSSRDEKF 270
Query: 252 RLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHGDKSQSERDYVLNQFRA 310
+ L ++ ++FC T+K LA L+++ A + G+ +R V+ +FR
Sbjct: 271 QALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE 330
Query: 311 GRSPVLVATDVAARGLDIKDIRVVVNYDFPTGV------EDYVHRI 350
G+ VLV T+V ARG+D++ + VV+N+D P E Y+HRI
Sbjct: 331 GKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 376
>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 = 131 bits (330), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 96/346 (27%), Positives = 176/346 (50%), Gaps = 25/346 (7%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQS--RDIVAIAKTGSGKTLGYLLPG 76
SF+ P+LL+ V+ GF+ P+ IQ + P+ L ++++A +++G+GKT ++L
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 85
Query: 77 FIHLKRCRNDPRLGPTVLVLSPTRELATQ---IQDEAVKFGKSSRISCTCLYGGAPKGPQ 133
++ P+ L LSPT ELA Q + ++ KF +++ +G +
Sbjct: 86 LSQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 141
Query: 134 LKDIDRGVDIVVATPGRLNDIL-EMRRISLNQVSYLVLDEADRML-DMGFEPQIRKIVKE 191
+ + IV+ TPG + D +++ I ++ VLDEAD M+ G + Q +I +
Sbjct: 142 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 196
Query: 192 VPARRQTLMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHR 251
+P Q L+++AT+ V K A ++ +P + + +E I Q+ + + D+
Sbjct: 197 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL--DTIKQYYVLCSSRDEKF 254
Query: 252 RLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHGDKSQSERDYVLNQFRA 310
+ L ++ ++FC T+K LA L+++ A + G+ +R V+ +FR
Sbjct: 255 QALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFRE 314
Query: 311 GRSPVLVATDVAARGLDIKDIRVVVNYDFPTGV------EDYVHRI 350
G+ VLV T+V ARG+D++ + VV+N+D P E Y+HRI
Sbjct: 315 GKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 360
>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 = 131 bits (329), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 99/360 (27%), Positives = 181/360 (50%), Gaps = 27/360 (7%)
Query: 7 IFQGDEVPPPF--MSFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQS--RDIVAIA 62
+ Q D P + SF+ P+LL+ V+ GF+ P+ IQ + P+ L ++++A +
Sbjct: 79 VLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQS 138
Query: 63 KTGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVLSPTRELATQ---IQDEAVKFGKSSRI 119
++G+GKT ++L ++ P+ L LSPT ELA Q + ++ KF ++
Sbjct: 139 QSGTGKTAAFVLAMLSQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKL 194
Query: 120 SCTCLYGGAPKGPQLKDIDRGVDIVVATPGRLNDIL-EMRRISLNQVSYLVLDEADRML- 177
+ +G ++ + IV+ TPG + D +++ I ++ VLDEAD M+
Sbjct: 195 AYAVRGNKLERGQKISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIA 249
Query: 178 DMGFEPQIRKIVKEVPARRQTLMYTATWPREVRKIAADLLVNPVQVNIGNVDELAANKAI 237
G + Q +I + +P Q L+++AT+ V K A ++ +P + + +E I
Sbjct: 250 TQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETL--DTI 307
Query: 238 TQHIEVLAPMDKHRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHGDK 296
Q+ + + D+ + L ++ ++FC T+K LA L+++ A + G+
Sbjct: 308 KQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEM 367
Query: 297 SQSERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPTGV------EDYVHRI 350
+R V+ +FR G+ VLV T+V ARG+D++ + VV+N+D P E Y+HRI
Sbjct: 368 MVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRI 427
>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 = 128 bits (321), Expect = 9e-30, Method: Compositional matrix adjust.
Identities = 67/166 (40%), Positives = 101/166 (60%), Gaps = 1/166 (0%)
Query: 232 AANKAITQHIEVLAPMDKHRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQ-FGAA 290
+ ++ ITQ + + DK L +L + S +VF TKK D L L + +
Sbjct: 15 STSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACT 74
Query: 291 AIHGDKSQSERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRI 350
+IHGD+SQ +R+ L+QFR+G+SP+LVAT VAARGLDI +++ V+N+D P+ +E+YVHRI
Sbjct: 75 SIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRI 134
Query: 351 XXXXXXXXXXVAYTFFGDQDSRYASDLIKLLEGAKQQVPRELRDMA 396
+A +FF +++ DL+ LL AKQ+VP L +MA
Sbjct: 135 GRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENMA 180
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 125 bits (315), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 76/199 (38%), Positives = 114/199 (57%), Gaps = 4/199 (2%)
Query: 25 FP--PELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIHLKR 82
FP + L+ + A + T IQ Q+ +ALQ +D++ AKTGSGKTL +L+P L R
Sbjct: 30 FPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYR 89
Query: 83 CRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDIDRGVD 142
+ G VL++SPTRELA Q + K GK+ S + GG + + I+ ++
Sbjct: 90 LQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERIN-NIN 148
Query: 143 IVVATPGR-LNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQTLMY 201
I+V TPGR L + E + LVLDEADR+LDMGF + +++ +P +RQTL++
Sbjct: 149 ILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLF 208
Query: 202 TATWPREVRKIAADLLVNP 220
+AT + V+ +A L NP
Sbjct: 209 SATQTKSVKDLARLSLKNP 227
>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 = 121 bits (303), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 71/208 (34%), Positives = 114/208 (54%), Gaps = 9/208 (4%)
Query: 20 FDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIH 79
F+ ELL + G+ P+PIQ +S PIAL RDI+A AK G+GK+ YL+P
Sbjct: 5 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLER 64
Query: 80 LKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGK---SSRISCTCLYGGAPKGPQLKD 136
L +++ + +V+ PTRELA Q+ ++ K +++ T GG +
Sbjct: 65 LDLKKDNIQ----AMVIVPTRELALQVSQICIQVSKHMGGAKVMATT--GGTNLRDDIMR 118
Query: 137 IDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARR 196
+D V +V+ATPGR+ D+++ ++ V +VLDEAD++L F + I+ +P R
Sbjct: 119 LDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNR 178
Query: 197 QTLMYTATWPREVRKIAADLLVNPVQVN 224
Q L+Y+AT+P V+K L P ++N
Sbjct: 179 QILLYSATFPLSVQKFMNSHLEKPYEIN 206
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 112 bits (279), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 75/229 (32%), Positives = 120/229 (52%), Gaps = 14/229 (6%)
Query: 9 QGDEVPPPFMSFDAT----GFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKT 64
QG ++P P +F LL+ + +AGF PTPIQ Q+ P+ L R+++A A T
Sbjct: 16 QGTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPT 75
Query: 65 GSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCL 124
GSGKTL + +P + LK+ N G L++SPTRELA+QI E +K + + +
Sbjct: 76 GSGKTLAFSIPILMQLKQPANK---GFRALIISPTRELASQIHRELIKISEGTGFRIHMI 132
Query: 125 YGGAPKGPQLK-DIDRGVDIVVATPGRLNDILEMR--RISLNQVSYLVLDEADRMLD--- 178
+ A + + DI+V TP RL +L+ I L V +LV+DE+D++ +
Sbjct: 133 HKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGK 192
Query: 179 MGFEPQIRKIVKEVPARR-QTLMYTATWPREVRKIAADLLVNPVQVNIG 226
GF Q+ I + + + M++AT+ +V + L N + V+IG
Sbjct: 193 TGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNVISVSIG 241
>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 = 112 bits (279), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 69/205 (33%), Positives = 105/205 (51%), Gaps = 8/205 (3%)
Query: 25 FPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCR 84
F P ++ + F PT IQ + P AL+ V ++TG+GKT YLLP +K R
Sbjct: 11 FQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKIKPER 70
Query: 85 NDPRLGPTVLVLSPTRELATQIQDEAVKFGKSS----RISCTCLYGGAPKGPQLKDIDRG 140
+ + ++ +PTRELATQI E +K K I CL GG K L+ ++
Sbjct: 71 AEVQ----AVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLNVQ 126
Query: 141 VDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQTLM 200
IV+ TPGR+ND + + + ++ LV+DEAD LD GF + +I P Q L+
Sbjct: 127 PHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKDLQXLV 186
Query: 201 YTATWPREVRKIAADLLVNPVQVNI 225
++AT P +++ NP V++
Sbjct: 187 FSATIPEKLKPFLKKYXENPTFVHV 211
>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 = 111 bits (277), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 70/213 (32%), Positives = 109/213 (51%), Gaps = 6/213 (2%)
Query: 20 FDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIH 79
FD LLR V GF P+ IQ ++ ++ D++A A++G+GKT + +
Sbjct: 16 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA--- 72
Query: 80 LKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDIDR 139
L+R + P L+L+PTRELA QIQ + I GG + + R
Sbjct: 73 LQRIDTSVK-APQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-R 130
Query: 140 GVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQTL 199
IVV TPGR+ D ++ RR +++ +LDEAD ML GF+ QI +I +P Q +
Sbjct: 131 DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVV 190
Query: 200 MYTATWPREVRKIAADLLVNPVQVNIGNVDELA 232
+ +AT P +V ++ + NPV++ + DEL
Sbjct: 191 LLSATMPNDVLEVTTKFMRNPVRILVKK-DELT 222
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 111 bits (277), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 67/204 (32%), Positives = 106/204 (51%), Gaps = 5/204 (2%)
Query: 20 FDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIH 79
FD +LLR V GF P+ IQ ++ ++ D++A A++G+GKT + +
Sbjct: 23 FDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA--- 79
Query: 80 LKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDIDR 139
L+R + P L+L+PTRELA QIQ + I GG + + R
Sbjct: 80 LQRIDTSVK-APQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-R 137
Query: 140 GVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQTL 199
IVV TPGR+ D ++ RR +++ +LDEAD ML GF+ QI +I +P Q +
Sbjct: 138 DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVV 197
Query: 200 MYTATWPREVRKIAADLLVNPVQV 223
+ +AT P +V ++ + NPV++
Sbjct: 198 LLSATMPNDVLEVTTKFMRNPVRI 221
>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 = 110 bits (275), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 65/225 (28%), Positives = 118/225 (52%), Gaps = 14/225 (6%)
Query: 10 GDEVPPPFMSFDATGF-----PPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKT 64
G +V ++S ++GF PELLR + + GF P+ +Q + P A+ D++ AK+
Sbjct: 1 GSDVKGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKS 60
Query: 65 GSGKTLGYLLPGFIHLKRCRNDPRLGP-TVLVLSPTRELATQIQDEAVKFGKSS-RISCT 122
G GKT ++L L +P G +VLV+ TRELA QI E +F K +
Sbjct: 61 GMGKTAVFVLATLQQL-----EPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVA 115
Query: 123 CLYGGAPKGPQLKDIDRGV-DIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLD-MG 180
+GG + + + IVV TPGR+ + + ++L + + +LDE D+ML+ +
Sbjct: 116 VFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLD 175
Query: 181 FEPQIRKIVKEVPARRQTLMYTATWPREVRKIAADLLVNPVQVNI 225
+++I + P +Q +M++AT +E+R + + +P+++ +
Sbjct: 176 MRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFV 220
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 109 bits (273), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 68/223 (30%), Positives = 115/223 (51%), Gaps = 9/223 (4%)
Query: 6 LIFQGDEVPPPFM----SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAI 61
L FQG + + +FD LLR ++ GF P+ IQ ++ ++ D++A
Sbjct: 14 LYFQGGVIESNWNEIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQ 73
Query: 62 AKTGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISC 121
A++G+GKT + + L+ + + LVL+PTRELA QIQ + G +C
Sbjct: 74 AQSGTGKTATFAISILQQLEIEFKETQ----ALVLAPTRELAQQIQKVILALGDYMGATC 129
Query: 122 TCLYGGAPKGPQLKDID-RGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMG 180
GG +++ + IVV TPGR+ D+L R +S + VLDEAD ML G
Sbjct: 130 HACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRG 189
Query: 181 FEPQIRKIVKEVPARRQTLMYTATWPREVRKIAADLLVNPVQV 223
F+ QI +I +++ Q ++ +AT P +V ++ + +P+++
Sbjct: 190 FKDQIYEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRI 232
>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 = 105 bits (263), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 65/206 (31%), Positives = 105/206 (50%), Gaps = 5/206 (2%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFI 78
SFD LLR ++ GF P+ IQ ++ + D++A A++G+G T + +
Sbjct: 16 SFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAIS--- 72
Query: 79 HLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDID 138
L++ D LVL+PTRELA QIQ + G SC GG +++ +
Sbjct: 73 ILQQIELD-LXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQXLQ 131
Query: 139 RGV-DIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQ 197
I+V TPGR+ D+L R +S + VLDEAD ML GF QI I + + + Q
Sbjct: 132 MEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQ 191
Query: 198 TLMYTATWPREVRKIAADLLVNPVQV 223
++ +AT P +V ++ + +P+++
Sbjct: 192 VVLLSATMPSDVLEVTXXFMRDPIRI 217
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 97.4 bits (241), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 59/204 (28%), Positives = 109/204 (53%), Gaps = 11/204 (5%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQS--RDIVAIAKTGSGKTLGYLLPG 76
SFD G PELL+ ++ F P+ IQ ++ P+ L + R+++A +++G+GKT + L
Sbjct: 23 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 82
Query: 77 FIHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKD 136
+ N P + L+P+RELA Q + + GK ++I+ + + + K+
Sbjct: 83 LTRV----NPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE----KN 134
Query: 137 IDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLD-MGFEPQIRKIVKEVPAR 195
++V TPG + D++ + + L ++ VLDEAD MLD G Q ++ + +P
Sbjct: 135 KQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKD 194
Query: 196 RQTLMYTATWPREVRKIAADLLVN 219
Q ++++AT+ VR+ A ++ N
Sbjct: 195 TQLVLFSATFADAVRQYAKKIVPN 218
>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 = 95.9 bits (237), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 62/210 (29%), Positives = 105/210 (50%), Gaps = 7/210 (3%)
Query: 20 FDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIH 79
F++ +L + AGF P+P+Q ++ P+ D++ AK+G+GKT + I
Sbjct: 26 FESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVF---STIA 82
Query: 80 LKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFG-KSSRISCTCLYGGAPKGPQLKDID 138
L + L +L+L+PTRE+A QI G K + C GG P Q K
Sbjct: 83 LDSLVLE-NLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLS-QDKTRL 140
Query: 139 RGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMG-FEPQIRKIVKEVPARRQ 197
+ I V +PGR+ ++E+ ++ + +LDEAD++L+ G F+ QI I +PA +Q
Sbjct: 141 KKCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQ 200
Query: 198 TLMYTATWPREVRKIAADLLVNPVQVNIGN 227
L +AT+P + + +P V + +
Sbjct: 201 MLAVSATYPEFLANALTKYMRDPTFVRLNS 230
>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 = 92.0 bits (227), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 60/160 (37%), Positives = 81/160 (50%), Gaps = 4/160 (2%)
Query: 232 AANKAITQHIEVLAPMDKHRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLT-RQFGAA 290
AA+ + Q +E + K L + L+ P +++F K D + L + A
Sbjct: 25 AASLDVIQEVEYVKEEAKMVYLLECLQKTPP--PVLIFAEKKADVDAIHEYLLLKGVEAV 82
Query: 291 AIHGDKSQSERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRI 350
AIHG K Q ER + FR G+ VLVATDVA++GLD I+ V+NYD P +E+YVHRI
Sbjct: 83 AIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRI 142
Query: 351 XXXXXXXXXXVAYTFFGDQ-DSRYASDLIKLLEGAKQQVP 389
+A TF D DL LL AKQ+VP
Sbjct: 143 GRTGCSGNTGIATTFINKACDESVLMDLKALLLEAKQKVP 182
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 89.7 bits (221), Expect = 4e-18, Method: Composition-based stats.
Identities = 41/130 (31%), Positives = 77/130 (59%), Gaps = 1/130 (0%)
Query: 264 SKIIVFCSTKKMCDQLARNLTR-QFGAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDVA 322
++ ++FC+T++ ++L L +F +AI+ D Q ERD ++ +FR+G S +L++TD+
Sbjct: 31 TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLL 90
Query: 323 ARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQDSRYASDLIKLLE 382
ARG+D++ + +V+NYD P E+Y+HRI VA F ++D +L K
Sbjct: 91 ARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYS 150
Query: 383 GAKQQVPREL 392
+++P ++
Sbjct: 151 TQIEELPSDI 160
>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 = 85.9 bits (211), Expect = 6e-17, Method: Composition-based stats.
Identities = 49/131 (37%), Positives = 72/131 (54%), Gaps = 2/131 (1%)
Query: 248 DKHRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTR-QFGAAAIHGDKSQSERDYVLN 306
+K L+ +L ++ P S I+FC TK+ +QL L + IHG Q +R V+N
Sbjct: 21 NKFSLLKDVLMTENPDS-CIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMN 79
Query: 307 QFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFF 366
+F+ G LVATDVAARG+DI++I +V+NYD P E YVHR A +F
Sbjct: 80 EFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFV 139
Query: 367 GDQDSRYASDL 377
+ R+ +D+
Sbjct: 140 TAFEKRFLADI 150
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 77.8 bits (190), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 52/131 (39%), Positives = 70/131 (53%), Gaps = 8/131 (6%)
Query: 248 DKHRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQFGAAAI-HGDKSQSERDYVLN 306
DK L ++ GS II F +TKK + L L + +I HGD ERD +++
Sbjct: 21 DKFDVLTELYGLMTIGSSII-FVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLID 79
Query: 307 QFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPT---GVED---YVHRIXXXXXXXXXX 360
FR GRS VL+ T+V ARG+DI + +VVNYD PT G D Y+HRI
Sbjct: 80 DFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKG 139
Query: 361 VAYTFFGDQDS 371
VA +F D++S
Sbjct: 140 VAISFVHDKNS 150
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 59/219 (26%), Positives = 112/219 (51%), Gaps = 16/219 (7%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQS--RDIVAIAKTGSGKTLGYLLPG 76
SF+ P+LL+ V+ GF+ P+ IQ + P+ L ++++A +++G+GKT ++L
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 85
Query: 77 FIHLKRCRNDPRLGPTVLVLSPTRELATQ---IQDEAVKFGKSSRISCTCLYGGAPKGPQ 133
++ P+ L LSPT ELA Q + ++ KF +++ +G +
Sbjct: 86 LSQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 141
Query: 134 LKDIDRGVDIVVATPGRLNDIL-EMRRISLNQVSYLVLDEADRML-DMGFEPQIRKIVKE 191
+ + IV+ TPG + D +++ I ++ VLDEAD M+ G + Q +I +
Sbjct: 142 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 196
Query: 192 VPARRQTLMYTATWPREVRKIAADLLVNPVQVNIGNVDE 230
+P Q L+++AT+ V K A ++ +P + + +E
Sbjct: 197 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEE 235
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 77.0 bits (188), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 58/209 (27%), Positives = 108/209 (51%), Gaps = 16/209 (7%)
Query: 19 SFDATGFPPELLREVHNAGFSSPTPIQAQSWPIALQS--RDIVAIAKTGSGKTLGYLLPG 76
SF+ P+LL+ V+ GF+ P+ IQ + P+ L ++++A +++G+GKT ++L
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 152
Query: 77 FIHLKRCRNDPRLGPTVLVLSPTRELATQ---IQDEAVKFGKSSRISCTCLYGGAPKGPQ 133
++ P+ L LSPT ELA Q + ++ KF +++ +G +
Sbjct: 153 LSQVEPANKYPQ----CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 208
Query: 134 LKDIDRGVDIVVATPGRLNDIL-EMRRISLNQVSYLVLDEADRML-DMGFEPQIRKIVKE 191
+ + IV+ TPG + D +++ I ++ VLDEAD M+ G + Q +I +
Sbjct: 209 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 263
Query: 192 VPARRQTLMYTATWPREVRKIAADLLVNP 220
+P Q L+++AT+ V K A ++ +P
Sbjct: 264 LPRNCQMLLFSATFEDSVWKFAQKVVPDP 292
>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 = 76.6 bits (187), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 41/85 (48%), Positives = 53/85 (62%), Gaps = 1/85 (1%)
Query: 265 KIIVFCSTKKMCDQLARNLTR-QFGAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDVAA 323
+ +VF TK +++A+ L R A A+HGD SQ ER+ V+ FR G VLVATDVAA
Sbjct: 30 RAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAA 89
Query: 324 RGLDIKDIRVVVNYDFPTGVEDYVH 348
RGLDI + +VV+Y P E Y H
Sbjct: 90 RGLDIPQVDLVVHYRMPDRAEAYQH 114
>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 = 76.6 bits (187), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 52/131 (39%), Positives = 69/131 (52%), Gaps = 8/131 (6%)
Query: 248 DKHRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQFGAAAI-HGDKSQSERDYVLN 306
DK L ++ GS II F +TKK + L L + +I HGD ERD +++
Sbjct: 22 DKFDVLTELYGVXTIGSSII-FVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLID 80
Query: 307 QFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPT---GVED---YVHRIXXXXXXXXXX 360
FR GRS VL+ T+V ARG+DI + VVNYD PT G D Y+HRI
Sbjct: 81 DFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKG 140
Query: 361 VAYTFFGDQDS 371
VA +F D++S
Sbjct: 141 VAISFVHDKNS 151
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 76.6 bits (187), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 52/131 (39%), Positives = 69/131 (52%), Gaps = 8/131 (6%)
Query: 248 DKHRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQFGAAAI-HGDKSQSERDYVLN 306
DK L ++ GS II F +TKK + L L + +I HGD ERD +++
Sbjct: 23 DKFDVLTELYGLXTIGSSII-FVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLID 81
Query: 307 QFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPT---GVED---YVHRIXXXXXXXXXX 360
FR GRS VL+ T+V ARG+DI + VVNYD PT G D Y+HRI
Sbjct: 82 DFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKG 141
Query: 361 VAYTFFGDQDS 371
VA +F D++S
Sbjct: 142 VAISFVHDKNS 152
>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 = 76.3 bits (186), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 42/85 (49%), Positives = 53/85 (62%), Gaps = 1/85 (1%)
Query: 265 KIIVFCSTKKMCDQLARNLTR-QFGAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDVAA 323
+ +VF TK +++A+ L R A A+HGD SQ ER+ VL FR G VLVATDVAA
Sbjct: 33 RAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAA 92
Query: 324 RGLDIKDIRVVVNYDFPTGVEDYVH 348
RGLDI + +VV+Y P E Y H
Sbjct: 93 RGLDIPQVDLVVHYRLPDRAEAYQH 117
>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 = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 42/133 (31%), Positives = 74/133 (55%), Gaps = 5/133 (3%)
Query: 219 NPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQILRSQEPGSKIIVFCSTKKMCDQ 278
+P ++N+ ++EL K +TQ+ + K L + S+ ++ I+FC++ + +
Sbjct: 4 DPYEINL--MEELTL-KGVTQYYAYVTERQKVHCLNTLF-SRLQINQSIIFCNSSQRVEL 59
Query: 279 LARNLTRQ-FGAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVVNY 337
LA+ +++ + IH Q R+ V + FR G LV TD+ RG+DI+ + VV+N+
Sbjct: 60 LAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINF 119
Query: 338 DFPTGVEDYVHRI 350
DFP E Y+HRI
Sbjct: 120 DFPKLAETYLHRI 132
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 70.9 bits (172), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 49/164 (29%), Positives = 86/164 (52%), Gaps = 4/164 (2%)
Query: 236 AITQHIEVLAPMDKHRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHG 294
+ Q+ L +K+R+L +L E +++++F + + C LA+ L Q F A AIH
Sbjct: 5 GLQQYYVKLKDNEKNRKLFDLLDVLE-FNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHR 63
Query: 295 DKSQSERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXX 354
Q ER QF+ + +LVAT++ RG+DI+ + + NYD P + Y+HR+
Sbjct: 64 GMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAG 123
Query: 355 XXXXXXVAYTFFGDQ-DSRYASDLIKLLEGAKQQVPRELRDMAS 397
+A TF D+ D++ +D+ E ++P E+ D++S
Sbjct: 124 RFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI-DISS 166
>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 = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 37/96 (38%), Positives = 54/96 (56%), Gaps = 3/96 (3%)
Query: 257 LRSQEPGSKIIVFCSTKKMCDQLARNLTRQFGA--AAIHGDKSQSERDYVLNQFRAGRSP 314
L Q ++ IVF ++ +LA N R+ G + G+ Q +R+ + + GR
Sbjct: 24 LLKQPEATRSIVFVRKRERVHELA-NWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVN 82
Query: 315 VLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRI 350
VLVATDVAARG+DI D+ V N+D P + Y+HRI
Sbjct: 83 VLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRI 118
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 36/110 (32%), Positives = 59/110 (53%), Gaps = 8/110 (7%)
Query: 248 DKHRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHGDKSQSERDYVLN 306
DK++ L I S G II FC T++ L + + + + G+ + +R ++
Sbjct: 20 DKYQALCNIYGSITIGQAII-FCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQ 78
Query: 307 QFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPT------GVEDYVHRI 350
+FR G+ VL+ T+V ARG+D+K + +VVN+D P E Y+HRI
Sbjct: 79 RFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRI 128
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 77/328 (23%), Positives = 144/328 (43%), Gaps = 47/328 (14%)
Query: 37 GFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVL 96
G+ P Q + L RD + + TG GK+L Y +P + L +V+
Sbjct: 22 GYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALL----------LNGLTVVV 71
Query: 97 SPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDIDRG----VDIVVATPGRL- 151
SP L + ++D+ + +++ ++ CL + QL+ + + ++ P RL
Sbjct: 72 SP---LISLMKDQVDQL-QANGVAAACLNSTQTREQQLEVMTGCRTGQIRLLYIAPERLM 127
Query: 152 -NDILEMRRISLNQVSYLVLDEADRMLDMG--FEP------QIRKIVKEVPARRQTLMYT 202
++ LE ++ L +DEA + G F P Q+R+ +P + T
Sbjct: 128 LDNFLE--HLAHWNPVLLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTLP----FMALT 181
Query: 203 ATWPREVRKIAADLL-VNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQILR--S 259
AT R+ LL +N + I + D + M+K + L+Q++R
Sbjct: 182 ATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYML---------MEKFKPLDQLMRYVQ 232
Query: 260 QEPGSKIIVFCSTK-KMCDQLARNLTRQFGAAAIHGDKSQSERDYVLNQFRAGRSPVLVA 318
++ G I++C+++ K+ D AR ++ AAA H + R V +F+ ++VA
Sbjct: 233 EQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVA 292
Query: 319 TDVAARGLDIKDIRVVVNYDFPTGVEDY 346
T G++ ++R VV++D P +E Y
Sbjct: 293 TVAFGMGINKPNVRFVVHFDIPRNIESY 320
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 76/322 (23%), Positives = 136/322 (42%), Gaps = 35/322 (10%)
Query: 37 GFSSPTPIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVL 96
G+ P Q + L RD + + TG GK+L Y +P + L +V+
Sbjct: 22 GYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALL----------LNGLTVVV 71
Query: 97 SPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDIDRG-----VDIVVATPGRL 151
SP L D+ +++ ++ CL + QL ++ G + ++ P RL
Sbjct: 72 SPLISLXKDQVDQL----QANGVAAACLNSTQTREQQL-EVXTGCRTGQIRLLYIAPERL 126
Query: 152 NDILEMRRISLNQVSYLVLDEADRMLDMG--FEPQIRKIVKEVPARRQTLMY---TATWP 206
+ ++ L +DEA + G F P+ + ++ R TL + TAT
Sbjct: 127 XLDNFLEHLAHWNPVLLAVDEAHCISQWGHDFRPEYAAL-GQLRQRFPTLPFXALTATAD 185
Query: 207 REVRKIAADLL-VNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQILRSQEPGSK 265
R+ LL +N + I + D + E P+D+ R Q ++ G
Sbjct: 186 DTTRQDIVRLLGLNDPLIQISSFDRPNIRYXLX---EKFKPLDQLXRYVQ----EQRGKS 238
Query: 266 IIVFCSTK-KMCDQLARNLTRQFGAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDVAAR 324
I++C+++ K+ D AR ++ AAA H + R V +F+ ++VAT
Sbjct: 239 GIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGX 298
Query: 325 GLDIKDIRVVVNYDFPTGVEDY 346
G++ ++R VV++D P +E Y
Sbjct: 299 GINKPNVRFVVHFDIPRNIESY 320
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 51/98 (52%), Gaps = 4/98 (4%)
Query: 257 LRSQEPGSKIIVFCSTKK----MCDQLARNLTRQFGAAAIHGDKSQSERDYVLNQFRAGR 312
++ ++ K I+F T K +C L + HG +Q++R ++ +F+
Sbjct: 27 IKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDE 86
Query: 313 SPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRI 350
S +LV TDV ARG+D ++ V+ P+ + +Y+HRI
Sbjct: 87 SGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRI 124
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 51/98 (52%), Gaps = 4/98 (4%)
Query: 257 LRSQEPGSKIIVFCSTKK----MCDQLARNLTRQFGAAAIHGDKSQSERDYVLNQFRAGR 312
++ ++ K I+F T K +C L + HG +Q++R ++ +F+
Sbjct: 27 IKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDE 86
Query: 313 SPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRI 350
S +LV TDV ARG+D ++ V+ P+ + +Y+HRI
Sbjct: 87 SGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRI 124
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 51/98 (52%), Gaps = 4/98 (4%)
Query: 257 LRSQEPGSKIIVFCSTKK----MCDQLARNLTRQFGAAAIHGDKSQSERDYVLNQFRAGR 312
++ ++ K I+F T K +C L + HG +Q++R ++ +F+
Sbjct: 27 IKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDE 86
Query: 313 SPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRI 350
S +LV TDV ARG+D ++ V+ P+ + +Y+HRI
Sbjct: 87 SGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRI 124
>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 = 52.4 bits (124), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 39/109 (35%), Positives = 61/109 (55%), Gaps = 14/109 (12%)
Query: 247 MDKHRRL--EQILRSQEPGSKIIVFC----STKKMCDQLARN---LTRQFGAAAIHGDK- 296
MDK + + EQ+ R Q SKIIVF + KK+ ++L ++ R G A+ D+
Sbjct: 345 MDKLKEIIREQLQRKQ--NSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRG 402
Query: 297 -SQSERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVVNYD-FPTGV 343
SQ E+ +L++F G VLVAT V GLD+ ++ +VV Y+ P+ +
Sbjct: 403 LSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAI 451
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 35/112 (31%), Positives = 49/112 (43%), Gaps = 7/112 (6%)
Query: 64 TGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTC 123
TG GKTL ++ L + G VL+L+PT+ L Q + +
Sbjct: 32 TGLGKTLIAMMIAEYRL------TKYGGKVLMLAPTKPLVLQHAESFRRLFNLPPEKIVA 85
Query: 124 LYGGAPKGPQLKDIDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADR 175
L G + K R ++VATP + + L RISL VS +V DEA R
Sbjct: 86 LTGEKSPEERSKAWARA-KVIVATPQTIENDLLAGRISLEDVSLIVFDEAHR 136
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 49.7 bits (117), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 68/291 (23%), Positives = 119/291 (40%), Gaps = 45/291 (15%)
Query: 64 TGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTC 123
GSGKT+ L ++ G + PT LA Q V+ I
Sbjct: 398 VGSGKTVVAQLA-------ILDNYEAGFQTAFMVPTSILAIQHYRRTVESFSKFNIHVAL 450
Query: 124 LYGGAPKGPQLKDIDRG-----VDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLD 178
L G + K I G +D+V+ T + + + + + L +++DE R
Sbjct: 451 LIGATTPSEKEK-IKSGLRNGQIDVVIGTHALIQEDVHFKNLGL-----VIIDEQHR--- 501
Query: 179 MGFEPQIRKIVKEVPARRQTLMYTAT-WPREVRKIAADLLVNPVQVNIGNVDELAANKAI 237
F + R+ + TL+ +AT PR + L +++ +DE+ +
Sbjct: 502 --FGVKQREALMNKGKMVDTLVMSATPIPRSMA------LAFYGDLDVTVIDEMPPGRKE 553
Query: 238 TQHIEVLAPMDKHRRLEQILRSQ--EPGSKIIVF-----------CSTKKMCDQLARNLT 284
Q + L PMD+ + + +R + G IV+ S +M + L++ +
Sbjct: 554 VQTM--LVPMDRVNEVYEFVRQEVMRGGQAFIVYPLIEESDKLNVKSAVEMYEYLSKEVF 611
Query: 285 RQFGAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVV 335
+F +HG SQ E+D V+ +F GR +LV+T V G+D+ V+V
Sbjct: 612 PEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMV 662
>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 = 48.9 bits (115), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 56/105 (53%), Gaps = 16/105 (15%)
Query: 253 LEQILRSQEPGSKIIVFCSTKKMCDQLARNLTR-----QFGAAAIH----GDKS------ 297
+EQ R++E ++ I+F T++ L++ +T + G A H G S
Sbjct: 391 MEQYTRTEE-SARGIIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMT 449
Query: 298 QSERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPTG 342
Q+E+ V+++FR G+ +L+AT VA GLDIK+ +V+ Y T
Sbjct: 450 QNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTN 494
>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 = 45.1 bits (105), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 83/390 (21%), Positives = 152/390 (38%), Gaps = 53/390 (13%)
Query: 43 PIQAQSWPIALQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVLSPTREL 102
P+Q ++ + + +++ + TG GK+L Y LP C + G T LV+ P L
Sbjct: 47 PLQLETINVTMAGKEVFLVMPTGGGKSLCYQLPAL-----CSD----GFT-LVICP---L 93
Query: 103 ATQIQDEAVKFGKSSRISCTCLYGGAPK------GPQLKDIDRGVDIVVATP-------- 148
+ ++D+ + K IS T L + K ++ + + + ++ TP
Sbjct: 94 ISLMEDQLMVL-KQLGISATMLNASSSKEHVKWVHAEMVNKNSELKLIYVTPEKIAKSKM 152
Query: 149 --GRLNDILEMRRISLNQVSYLVLDEADRMLDMG--FEPQIRK--IVKEVPARRQTLMYT 202
RL E RR + + +DE G F P + I+K + T
Sbjct: 153 FMSRLEKAYEARRFT-----RIAVDEVHCCSQWGHDFRPDYKALGILKRQFPNASLIGLT 207
Query: 203 ATWPREVRKIAADLLVNPVQVNIGNVDELAANKAITQHIEV-LAPMDKHRRLEQILR--- 258
AT V A +L A+ + EV P + +E I++
Sbjct: 208 ATATNHVLTDAQKILCIEKCFTFT-----ASFNRPNLYYEVRQKPSNTEDFIEDIVKLIN 262
Query: 259 SQEPGSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHGDKSQSERDYVLNQFRAGRSPVLV 317
+ G I++C ++K +Q+ +L A A H + ++ V ++ A V+V
Sbjct: 263 GRYKGQSGIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVV 322
Query: 318 ATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRIXXXXXXXXXXVAYTFFGDQDSRYASDL 377
AT G+D D+R V+++ +E+Y ++G D S +
Sbjct: 323 ATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILYYGFGDIFRISSM 382
Query: 378 IKLLEGAKQQVPRELRDMASRGGGMGRPRR 407
+ ++E QQ +L +M S + + RR
Sbjct: 383 V-VMENVGQQ---KLYEMVSYCQNISKCRR 408
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 34/103 (33%), Positives = 54/103 (52%), Gaps = 16/103 (15%)
Query: 254 EQILRSQEPGSKIIVFCSTKKMCDQLARNLT--RQF---GAAAIH----GDKS------Q 298
E R++E II F T++ L++ +T ++F G A H G S Q
Sbjct: 142 EHFTRTEESARGII-FTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAGHSSEFKPXTQ 200
Query: 299 SERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPT 341
+E+ V+++FR G+ +L+AT VA GLDIK+ +V+ Y T
Sbjct: 201 NEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVT 243
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 50/103 (48%), Gaps = 5/103 (4%)
Query: 248 DKHRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQFGAAAIHGDKSQSERDYVLNQ 307
+K R+L +IL KII+F ++L +++ F AI S+ ER+ +L
Sbjct: 335 NKIRKLREILERHRK-DKIIIFTR----HNELVYRISKVFLIPAITHRTSREEREEILEG 389
Query: 308 FRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRI 350
FR GR +V++ V G+D+ D V V +Y+ R+
Sbjct: 390 FRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRL 432
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 50/103 (48%), Gaps = 5/103 (4%)
Query: 248 DKHRRLEQILRSQEPGSKIIVFCSTKKMCDQLARNLTRQFGAAAIHGDKSQSERDYVLNQ 307
+K R+L +IL KII+F ++L +++ F AI S+ ER+ +L
Sbjct: 100 NKIRKLREILERHRK-DKIIIFTR----HNELVYRISKVFLIPAITHRTSREEREEILEG 154
Query: 308 FRAGRSPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVHRI 350
FR GR +V++ V G+D+ D V V +Y+ R+
Sbjct: 155 FRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRL 197
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 75/388 (19%), Positives = 142/388 (36%), Gaps = 70/388 (18%)
Query: 17 FMSFDATGFPPELLREVHNAGFSSPTPIQAQSWPIAL-QSRDIVAIAKTGSGKTLGYLLP 75
+M + P ++ + G P Q ++ L + ++ + TGSGKTL +
Sbjct: 7 WMPIEDLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEM- 65
Query: 76 GFIHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLK 135
G I +N G + ++P R L + + + F I
Sbjct: 66 GIISF-LLKN----GGKAIYVTPLRALTNE---KYLTFKDWELIGFKVAMTSGDY----- 112
Query: 136 DID----RGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKE 191
D D + DI++ T +L+ + R LN+V+Y VLDE + D P + +
Sbjct: 113 DTDDAWLKNYDIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDPERGPVVESVT-- 170
Query: 192 VPARRQTLMYTATWPREVRKIAADLLVNPVQVN---IGNVDELAANKAITQHIEVLAPMD 248
+ A+R+ L+ + ++IA L PV N + ++ + + + V+ +
Sbjct: 171 IRAKRRNLLALSATISNYKQIAKWLGAEPVATNWRPVPLIEGVIYPERKKKEYNVIFKDN 230
Query: 249 KHRRLE-------QILRSQEPGSKIIVFCSTKKMCDQLARNLTRQF-------------- 287
+++ L S +++VF +++KM + A +
Sbjct: 231 TTKKVHGDDAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKIANYMNFVSLDENALSEIL 290
Query: 288 -----------------------GAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDVAAR 324
G A H S++ RD + FR + V+VAT A
Sbjct: 291 KQLDDIEEGGSDEKELLKSLISKGVAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAA 350
Query: 325 GLDIKDIRVVVN--YDFPTGVEDYVHRI 350
G+++ V++ Y F + Y I
Sbjct: 351 GVNLPARTVIIGDIYRFNKKIAGYYDEI 378
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 32/112 (28%), Positives = 53/112 (47%), Gaps = 17/112 (15%)
Query: 249 KHRRLEQILRSQ---EPGSKIIVFCSTKKMCDQLAR----NLTRQFGAAAIHGDKSQSER 301
K R L +L+ + +P +K I+F T+ + D L + N F I + ++ R
Sbjct: 372 KLRDLYLVLQEEYHLKPETKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNR 431
Query: 302 ---------DYVLNQFRA-GRSPVLVATDVAARGLDIKDIRVVVNYDFPTGV 343
VL FRA G + +L+AT VA G+DI + +V+ Y++ V
Sbjct: 432 ATGXTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNV 483
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 37.0 bits (84), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 1/79 (1%)
Query: 261 EPGSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHGDKSQSERDYVLNQFRAGRSPVLVAT 319
E + +V TKKM + L L A +H + ER ++ R G+ VLV
Sbjct: 468 ERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGI 527
Query: 320 DVAARGLDIKDIRVVVNYD 338
++ GLDI ++ +V D
Sbjct: 528 NLLREGLDIPEVSLVAILD 546
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 36.6 bits (83), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 1/79 (1%)
Query: 261 EPGSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHGDKSQSERDYVLNQFRAGRSPVLVAT 319
E + +V TKKM + L L A +H + ER ++ R G+ VLV
Sbjct: 442 ERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGI 501
Query: 320 DVAARGLDIKDIRVVVNYD 338
++ GLDI ++ +V D
Sbjct: 502 NLLREGLDIPEVSLVAILD 520
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 36.6 bits (83), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 1/79 (1%)
Query: 261 EPGSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHGDKSQSERDYVLNQFRAGRSPVLVAT 319
E + +V TKKM + L L A +H + ER ++ R G+ VLV
Sbjct: 443 ERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGI 502
Query: 320 DVAARGLDIKDIRVVVNYD 338
++ GLDI ++ +V D
Sbjct: 503 NLLREGLDIPEVSLVAILD 521
>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 = 36.6 bits (83), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 1/79 (1%)
Query: 261 EPGSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHGDKSQSERDYVLNQFRAGRSPVLVAT 319
E + +V TKKM + L L A +H + ER ++ R G+ VLV
Sbjct: 443 ERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGI 502
Query: 320 DVAARGLDIKDIRVVVNYD 338
++ GLDI ++ +V D
Sbjct: 503 NLLREGLDIPEVSLVAILD 521
>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 = 36.6 bits (83), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 1/79 (1%)
Query: 261 EPGSKIIVFCSTKKMCDQLARNLTRQ-FGAAAIHGDKSQSERDYVLNQFRAGRSPVLVAT 319
E + +V TKKM + L L A +H + ER ++ R G+ VLV
Sbjct: 443 ERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGI 502
Query: 320 DVAARGLDIKDIRVVVNYD 338
++ GLDI ++ +V D
Sbjct: 503 NLLREGLDIPEVSLVAILD 521
>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 = 36.2 bits (82), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 39/80 (48%), Gaps = 3/80 (3%)
Query: 261 EPGSKIIVFCSTKKMCDQLARNLTRQFGAAA--IHGDKSQSERDYVLNQFRAGRSPVLVA 318
E +++V TKKM + L L ++ G +H + ER ++ R G+ VLV
Sbjct: 449 ERNERVLVTTLTKKMSEDLTDYL-KEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVG 507
Query: 319 TDVAARGLDIKDIRVVVNYD 338
++ GLDI ++ +V D
Sbjct: 508 INLLREGLDIPEVSLVAILD 527
>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 = 36.2 bits (82), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 39/80 (48%), Gaps = 3/80 (3%)
Query: 261 EPGSKIIVFCSTKKMCDQLARNLTRQFGAAA--IHGDKSQSERDYVLNQFRAGRSPVLVA 318
E +++V TKKM + L L ++ G +H + ER ++ R G+ VLV
Sbjct: 443 ERNERVLVTTLTKKMSEDLTDYL-KEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVG 501
Query: 319 TDVAARGLDIKDIRVVVNYD 338
++ GLDI ++ +V D
Sbjct: 502 INLLREGLDIPEVSLVAILD 521
>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 = 35.8 bits (81), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 71/307 (23%), Positives = 116/307 (37%), Gaps = 37/307 (12%)
Query: 42 TPIQAQSWPIALQ------SRDIVAIAKTGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLV 95
TP QAQ+ L + D + G GKT + F+ + + V V
Sbjct: 605 TPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQ-------VAV 657
Query: 96 LSPTRELATQIQDEAV-KFGK-SSRISCTCLYGGAPKGPQ-LKDIDRG-VDIVVATPGRL 151
L PT LA Q D +F RI + A + Q L ++ G +DI++ T L
Sbjct: 658 LVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGTHKLL 717
Query: 152 NDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQTLMYTATWPREVRK 211
++ + + L L++DE R F + ++ +K + A L TAT
Sbjct: 718 QSDVKFKDLGL-----LIVDEEHR-----FGVRHKERIKAMRANVDILTLTATPIPRTLN 767
Query: 212 IAADLLVNPVQVNIGNVDELAANKAITQHIEVLAPMDKHRRLEQILRSQEPGSKIIVFCS 271
+A + + + LA + ++ D E ILR G ++ +
Sbjct: 768 MAMSGMRDLSIIATPPARRLAVKTFVREY-------DSMVVREAILREILRGGQVYYLYN 820
Query: 272 TKKMCDQLARNLTRQFGAAAI---HGDKSQSERDYVLNQFRAGRSPVLVATDVAARGLDI 328
+ + A L A I HG + E + V+N F R VLV T + G+DI
Sbjct: 821 DVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDI 880
Query: 329 KDIRVVV 335
++
Sbjct: 881 PTANTII 887
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 32.0 bits (71), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 304 VLNQFRA-GRSPVLVATDVAARGLDIKDIRVVVNYDFPTGV 343
+L+ F+A G +L+AT VA G+DI +V+ Y++ V
Sbjct: 452 ILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNV 492
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 34/129 (26%), Positives = 58/129 (44%), Gaps = 15/129 (11%)
Query: 52 ALQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVLSPTRELATQI----Q 107
A++ ++ + A TG GKT LL HLK+ + G V A QI Q
Sbjct: 25 AMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQK-GKVVF-------FANQIPVYEQ 76
Query: 108 DEAV--KFGKSSRISCTCLYGGAPKGPQLKDIDRGVDIVVATPGRLNDILEMRRI-SLNQ 164
+++V K+ + T + G + ++ I DI++ TP L + L+ I SL+
Sbjct: 77 NKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSI 136
Query: 165 VSYLVLDEA 173
+ ++ DE
Sbjct: 137 FTLMIFDEC 145
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 32.0 bits (71), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 304 VLNQFRA-GRSPVLVATDVAARGLDIKDIRVVVNYDFPTGV 343
+L+ F+A G +L+AT VA G+DI +V+ Y++ V
Sbjct: 451 ILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNV 491
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 34/129 (26%), Positives = 57/129 (44%), Gaps = 15/129 (11%)
Query: 52 ALQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVLSPTRELATQI----Q 107
A++ ++ + A TG GKT LL HLK+ + G V A QI Q
Sbjct: 24 AMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQK-GKVVF-------FANQIPVYEQ 75
Query: 108 DEAV--KFGKSSRISCTCLYGGAPKGPQLKDIDRGVDIVVATPGRLNDILEMRRI-SLNQ 164
++V K+ + T + G + ++ I DI++ TP L + L+ I SL+
Sbjct: 76 QKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSI 135
Query: 165 VSYLVLDEA 173
+ ++ DE
Sbjct: 136 FTLMIFDEC 144
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 32.0 bits (71), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 304 VLNQFRA-GRSPVLVATDVAARGLDIKDIRVVVNYDFPTGV 343
+L+ F+A G +L+AT VA G+DI +V+ Y++ V
Sbjct: 443 ILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNV 483
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 31/125 (24%), Positives = 57/125 (45%), Gaps = 7/125 (5%)
Query: 52 ALQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAV 111
A++ ++ + A TG GKT LL HLK+ + G V ++ Q+++V
Sbjct: 16 AMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQK-GKVVFF---ANQIPVYEQNKSV 71
Query: 112 --KFGKSSRISCTCLYGGAPKGPQLKDIDRGVDIVVATPGRLNDILEMRRI-SLNQVSYL 168
K+ + T + G + ++ I DI++ TP L + L+ I SL+ + +
Sbjct: 72 FSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLM 131
Query: 169 VLDEA 173
+ DE
Sbjct: 132 IFDEC 136
>pdb|2ZJO|A Chain A, Crystal Structure Of Hepatitis C Virus Ns3 Helicase With A
Novel Inhibitor
Length = 482
Score = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 6/64 (9%)
Query: 263 GSKIIVFCSTKKMCDQLARNLTRQFGAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDVA 322
G + ++FC +KK CD+LA L+ A IH D ++ A + V+VATD
Sbjct: 206 GGRHLIFCHSKKKCDELAAKLS----ALGIHAVAYYRGLD--VSVIPASGNVVVVATDAL 259
Query: 323 ARGL 326
G
Sbjct: 260 MTGF 263
>pdb|3VSC|A Chain A, Crystal Structure Of The K127a Mutant Of O-Phosphoserine
Sulfhydrylase Complexed With External Schiff Base Of
Pyridoxal 5'-Phosphate With O- Phospho-L-Serine
pdb|3VSC|B Chain B, Crystal Structure Of The K127a Mutant Of O-Phosphoserine
Sulfhydrylase Complexed With External Schiff Base Of
Pyridoxal 5'-Phosphate With O- Phospho-L-Serine
pdb|3VSD|A Chain A, Crystal Structure Of The K127a Mutant Of O-Phosphoserine
Sulfhydrylase Complexed With External Schiff Base Of
Pyridoxal 5'-Phosphate With O- Acetyl-L-Serine
pdb|3VSD|B Chain B, Crystal Structure Of The K127a Mutant Of O-Phosphoserine
Sulfhydrylase Complexed With External Schiff Base Of
Pyridoxal 5'-Phosphate With O- Acetyl-L-Serine
Length = 389
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/120 (19%), Positives = 48/120 (40%), Gaps = 13/120 (10%)
Query: 76 GFIHLKRCRNDPRL-----GPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPK 130
GF+H+ + ND G + +R ++ A G S +S Y
Sbjct: 218 GFVHVNQFYNDANFEAHMRGTAREIFVQSRRGGLALRGVAGSLGTSGHMSAAAFY----- 272
Query: 131 GPQLKDIDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVK 190
L+ +D + V+ P + + I +RR+ + +LD + + ++ E + +V+
Sbjct: 273 ---LQSVDPSIRAVLVQPAQGDSIPGIRRVETGMLWINMLDISYTLAEVTLEEAMEAVVE 329
>pdb|1WKV|A Chain A, Crystal Structure Of O-Phosphoserine Sulfhydrylase
pdb|1WKV|B Chain B, Crystal Structure Of O-Phosphoserine Sulfhydrylase
pdb|3VSA|A Chain A, Crystal Structure Of O-Phosphoserine Sulfhydrylase Without
Acetate
pdb|3VSA|B Chain B, Crystal Structure Of O-Phosphoserine Sulfhydrylase Without
Acetate
Length = 389
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 23/120 (19%), Positives = 48/120 (40%), Gaps = 13/120 (10%)
Query: 76 GFIHLKRCRNDPRL-----GPTVLVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPK 130
GF+H+ + ND G + +R ++ A G S +S Y
Sbjct: 218 GFVHVNQFYNDANFEAHMRGTAREIFVQSRRGGLALRGVAGSLGTSGHMSAAAFY----- 272
Query: 131 GPQLKDIDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVK 190
L+ +D + V+ P + + I +RR+ + +LD + + ++ E + +V+
Sbjct: 273 ---LQSVDPSIRAVLVQPAQGDSIPGIRRVETGMLWINMLDISYTLAEVTLEEAMEAVVE 329
>pdb|3P4Y|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
- P2 Form
Length = 415
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 53 LQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVK 112
+Q + +A TG GKT ++ ++ + + PTV ++ T E ++ DE VK
Sbjct: 35 VQGKSFTMVAPTGVGKTTFGMMTALWLARKGKKSALVFPTVTLVKQTLERLQKLADEKVK 94
Query: 113 -FG 114
FG
Sbjct: 95 IFG 97
>pdb|3P4X|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
pdb|3P4X|B Chain B, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
Length = 413
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 53 LQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVK 112
+Q + +A TG GKT ++ ++ + + PTV ++ T E ++ DE VK
Sbjct: 33 VQGKSFTMVAPTGVGKTTFGMMTALWLARKGKKSALVFPTVTLVKQTLERLQKLADEKVK 92
Query: 113 -FG 114
FG
Sbjct: 93 IFG 95
>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 = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 304 VLNQFRAGR-SPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVH 348
VL+ F+ + + +L+AT VA G+DI +VV Y++ V +
Sbjct: 685 VLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQ 730
>pdb|3OIY|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
pdb|3OIY|B Chain B, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
Length = 414
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 53 LQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVK 112
+Q + +A TG GKT ++ ++ + + PTV ++ T E ++ DE VK
Sbjct: 34 VQGKSFTMVAPTGVGKTTFGMMTALWLARKGKKSALVFPTVTLVKQTLERLQKLADEKVK 93
Query: 113 -FG 114
FG
Sbjct: 94 IFG 96
>pdb|4DDT|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 2
pdb|4DDU|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 1
pdb|4DDV|A Chain A, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDV|B Chain B, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDW|A Chain A, Thermotoga Maritima Reverse Gyrase, C-centered
Orthorhombic Form
pdb|4DDX|A Chain A, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
pdb|4DDX|B Chain B, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
Length = 1104
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 53 LQSRDIVAIAKTGSGKTLGYLLPGFIHLKRCRNDPRLGPTVLVLSPTRELATQIQDEAVK 112
+Q + +A TG GKT ++ ++ + + PTV ++ T E ++ DE VK
Sbjct: 91 VQGKSFTMVAPTGVGKTTFGMMTALWLARKGKKSALVFPTVTLVKQTLERLQKLADEKVK 150
Query: 113 -FG 114
FG
Sbjct: 151 IFG 153
>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 = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 304 VLNQFRAGR-SPVLVATDVAARGLDIKDIRVVVNYDFPTGV 343
VL+ F+ + + +L+AT VA G+DI +VV Y++ V
Sbjct: 685 VLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNV 725
>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 = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 304 VLNQFRAGR-SPVLVATDVAARGLDIKDIRVVVNYDFPTGVEDYVH 348
VL+ F+ + + +L+AT VA G+DI +VV Y++ V +
Sbjct: 444 VLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQ 489
>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 = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 263 GSKIIVFCSTKKMCDQLARNLT 284
G + ++FC +KK CD+LA LT
Sbjct: 172 GGRHLIFCHSKKKCDELAAKLT 193
>pdb|4A9A|A Chain A, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain
pdb|4A9A|B Chain B, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain
Length = 376
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 6/54 (11%)
Query: 270 CSTKKMCDQLARNLTRQFGAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDVAA 323
CS K C+Q+ ++L F A ++G + + YV G S +L DV
Sbjct: 325 CSVKDFCNQIHKSLVDDFRNALVYGSSVKHQPQYV------GLSHILEDEDVVT 372
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 29.6 bits (65), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 49/228 (21%), Positives = 94/228 (41%), Gaps = 34/228 (14%)
Query: 142 DIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPARRQTLMY 201
DI++AT + + +L + V LV DE + + I+ + + Q +
Sbjct: 116 DIIIATAEKFDSLLRHGSSWIKDVKILVADEIHLIGSRDRGATLEVILAHMLGKAQIIGL 175
Query: 202 TATW--PREVRK-IAADLLVN---PVQV------------NIGNVDELAANK-----AIT 238
+AT P E+ + + A+L+V+ PV++ G++D ++ + AI
Sbjct: 176 SATIGNPEELAEWLNAELIVSDWRPVKLRRGVFYQGFVTWEDGSIDRFSSWEELVYDAIR 235
Query: 239 QHIEVLAPMDKHRRLEQILRSQEPGSKIIV----FCSTKKMCDQLARNLTRQFGAAAI-- 292
+ L ++ R+ E++ K ++ + ++ D L N T + A AI
Sbjct: 236 KKKGALIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIRG 295
Query: 293 -----HGDKSQSERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVV 335
H + ER V FR G +VAT + G++ RV++
Sbjct: 296 GVAFHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVII 343
>pdb|1JJ7|A Chain A, Crystal Structure Of The C-Terminal Atpase Domain Of Human
Tap1
Length = 260
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 48/111 (43%), Gaps = 15/111 (13%)
Query: 94 LVLSPTRELATQIQDEAVKFGKSSRISCTCLYGGAPKGPQLKDIDRGVDIVVATPGRLND 153
L PT E +I AVK G S IS G P+G + + G + G
Sbjct: 115 LTQKPTME---EITAAAVKSGAHSFIS------GLPQGYDTEVDEAGSQL----SGGQRQ 161
Query: 154 ILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKIVKEVPAR--RQTLMYT 202
+ + R + + L+LD+A LD + Q+ +++ E P R R L+ T
Sbjct: 162 AVALARALIRKPCVLILDDATSALDANSQLQVEQLLYESPERYSRSVLLIT 212
>pdb|2HYD|A Chain A, Multidrug Abc Transporter Sav1866
pdb|2HYD|B Chain B, Multidrug Abc Transporter Sav1866
pdb|2ONJ|A Chain A, Structure Of The Multidrug Abc Transporter Sav1866 From S.
Aureus In Complex With Amp-Pnp
pdb|2ONJ|B Chain B, Structure Of The Multidrug Abc Transporter Sav1866 From S.
Aureus In Complex With Amp-Pnp
pdb|4A82|A Chain A, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|B Chain B, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|C Chain C, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966.
pdb|4A82|D Chain D, Fitted Model Of Staphylococcus Aureus Sav1866 Model Abc
Transporter In The Human Cystic Fibrosis Transmembrane
Conductance Regulator Volume Map Emd-1966
Length = 578
Score = 29.3 bits (64), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 129 PKGPQLKDIDRGVDIVVATPGRLNDILEMRRISLNQVSYLVLDEADRMLDMGFEPQIRKI 188
P+G + +RGV + RL+ + RI LN L+LDEA LD+ E I++
Sbjct: 464 PQGYDTEVGERGVKLSGGQKQRLS----IARIFLNNPPILILDEATSALDLESESIIQEA 519
Query: 189 VKEVPARRQTLM 200
+ + R TL+
Sbjct: 520 LDVLSKDRTTLI 531
>pdb|8OHM|A Chain A, Crystal Structure Of Rna Helicase From Genotype 1b
Hepatitis C Virus: Mechanism Of Unwinding Duplex Rna
Length = 435
Score = 29.3 bits (64), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 263 GSKIIVFCSTKKMCDQLARNLT 284
G + ++FC +KK CD+LA L+
Sbjct: 172 GGRHLIFCHSKKKCDELAAKLS 193
>pdb|4B75|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B75|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
Length = 666
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 263 GSKIIVFCSTKKMCDQLARNLT 284
G + ++FC +KK CD+LA L+
Sbjct: 396 GGRHLIFCHSKKKCDELAAKLS 417
>pdb|4A92|A Chain A, Full-Length Hcv Ns3-4a Protease-Helicase In Complex With A
Macrocyclic Protease Inhibitor.
pdb|4A92|B Chain B, Full-Length Hcv Ns3-4a Protease-Helicase In Complex With A
Macrocyclic Protease Inhibitor
Length = 666
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 263 GSKIIVFCSTKKMCDQLARNLT 284
G + ++FC +KK CD+LA L+
Sbjct: 396 GGRHLIFCHSKKKCDELAAKLS 417
>pdb|4B6E|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B6E|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B6F|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B6F|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
Length = 683
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 263 GSKIIVFCSTKKMCDQLARNLT 284
G + ++FC +KK CD+LA L+
Sbjct: 396 GGRHLIFCHSKKKCDELAAKLS 417
>pdb|3O8B|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8B|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8C|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8C|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8D|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8D|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8R|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8R|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|4B71|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B71|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B73|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B73|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B74|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B74|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B76|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B76|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
Length = 666
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 263 GSKIIVFCSTKKMCDQLARNLT 284
G + ++FC +KK CD+LA L+
Sbjct: 396 GGRHLIFCHSKKKCDELAAKLS 417
>pdb|1A1V|A Chain A, Hepatitis C Virus Ns3 Helicase Domain Complexed With
Single Stranded Sdna
Length = 476
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 263 GSKIIVFCSTKKMCDQLARNL 283
G + ++FC +KK CD+LA L
Sbjct: 196 GGRHLIFCHSKKKCDELAAKL 216
>pdb|1CU1|A Chain A, Crystal Structure Of An Enzyme Complex From Hepatitis C
Virus
pdb|1CU1|B Chain B, Crystal Structure Of An Enzyme Complex From Hepatitis C
Virus
Length = 645
Score = 28.9 bits (63), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 263 GSKIIVFCSTKKMCDQLARNLT 284
G + ++FC +KK CD+LA L+
Sbjct: 375 GGRHLIFCHSKKKCDELAAKLS 396
>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 = 28.9 bits (63), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 263 GSKIIVFCSTKKMCDQLARNLT 284
G + ++FC +KK CD+LA L+
Sbjct: 173 GGRHLIFCHSKKKCDELAAKLS 194
>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 = 28.9 bits (63), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 263 GSKIIVFCSTKKMCDQLARNLT 284
G + ++FC +KK CD+LA L+
Sbjct: 173 GGRHLIFCHSKKKCDELAAKLS 194
>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 = 28.5 bits (62), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 25/48 (52%)
Query: 288 GAAAIHGDKSQSERDYVLNQFRAGRSPVLVATDVAARGLDIKDIRVVV 335
GAA H +R V + FR G V+VAT A G+++ RV+V
Sbjct: 298 GAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIV 345
>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 = 28.5 bits (62), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 263 GSKIIVFCSTKKMCDQLARNL 283
G + ++FC +KK CD+LA L
Sbjct: 182 GGRHLIFCHSKKKCDELAAKL 202
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.138 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,904,973
Number of Sequences: 62578
Number of extensions: 528327
Number of successful extensions: 1388
Number of sequences better than 100.0: 123
Number of HSP's better than 100.0 without gapping: 104
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 1137
Number of HSP's gapped (non-prelim): 134
length of query: 547
length of database: 14,973,337
effective HSP length: 104
effective length of query: 443
effective length of database: 8,465,225
effective search space: 3750094675
effective search space used: 3750094675
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)