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= 017020
(379 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 151 bits (382), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 112/281 (39%), Positives = 162/281 (57%), Gaps = 16/281 (5%)
Query: 66 AISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQH 124
A+ + +LSDL+ V A + +VFT+TK + +E++ L + ++ALHGD+SQ
Sbjct: 7 AVPAPVRGRLEVLSDLLYV-ASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQG 65
Query: 125 QRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKE 184
+RER + FRQG+ VLVATDVAARGLDIP VDL++HY +P+ E + HRSGRTGRAG+
Sbjct: 66 ERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRG 125
Query: 185 GTAILMFTSSQRRTVRSLERDVGCKFEFVSPPVVEDVLESSAEQVVATLNGVHPESVEFF 244
G +L++ +RR V +LER VG +F+ V+PP E+VLE+ ++A L V + +
Sbjct: 126 GRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLLARLARVPEKDYRLY 185
Query: 245 TPTAQRLIEEKGTDALAAALAQLSGFSRPPSSRSLINHEQGWVT-------LQLTRDSAF 297
A RL E + +AA LA L G + + RSL+ E+GW T L L R A
Sbjct: 186 QDFAGRLFAEGRVEVVAALLALLLGGAP--AERSLLTGEEGWRTYKATGPRLSLPRLVAL 243
Query: 298 SRG-----FMSARSVMGFLSDVYPTAADEIGKIHIIADDRV 333
+G A + GF D+ P A E+ + + RV
Sbjct: 244 LKGQGLEVGKVAEAEGGFYVDLRPEARPEVAGLRLEPARRV 284
>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 = 142 bits (357), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 87/190 (45%), Positives = 123/190 (64%), Gaps = 2/190 (1%)
Query: 66 AISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQH 124
A+ + +LSDL+ V A + +VFT+TK + +E++ L + ++ALHGD+SQ
Sbjct: 10 AVPAPVRGRLEVLSDLLYV-ASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQG 68
Query: 125 QRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKE 184
+RER L FRQG+ VLVATDVAARGLDIP VDL++HY LP+ E + HRSGRTGRAG+
Sbjct: 69 ERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRG 128
Query: 185 GTAILMFTSSQRRTVRSLERDVGCKFEFVSPPVVEDVLESSAEQVVATLNGVHPESVEFF 244
G +L++ +RR V +LER VG +F+ V+PP E+VLE+ ++A L V + +
Sbjct: 129 GRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLLARLARVPEKDYRLY 188
Query: 245 TPTAQRLIEE 254
A RL E
Sbjct: 189 QDFAGRLFAE 198
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 139 bits (350), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 82/199 (41%), Positives = 115/199 (57%), Gaps = 11/199 (5%)
Query: 1 MLAVGFEEDVELILEN--LPPK--RQSMLFSATMPSWVKKLSRKYLDNP--LNIDLVGNQ 54
ML +GFE + I+E +PPK R +M+FSAT P ++ L+R +LD L + VG+
Sbjct: 187 MLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGST 246
Query: 55 DEKLAEGIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVS-LALTSIIA 113
E + + + + + KR+ L DL+ K T+VF +TK+ AD + A
Sbjct: 247 SENITQKV----VWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYA 302
Query: 114 SEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVH 173
++HGD SQ RE L+ FR GK +LVAT VAARGLDI NV +I+++LP+D E +VH
Sbjct: 303 CTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVH 362
Query: 174 RSGRTGRAGKEGTAILMFT 192
R GRTGR G G A F
Sbjct: 363 RIGRTGRVGNLGLATSFFN 381
>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 = 135 bits (339), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 77/225 (34%), Positives = 126/225 (56%), Gaps = 5/225 (2%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAE 60
ML GF+E + + LPP Q +L SAT+P + +++ K++ +P+ I + +DE E
Sbjct: 170 MLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLE 227
Query: 61 GIKLYAISTTATS-KRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALH 118
GIK + ++ K L DL + ++F TKR D ++ + ++H
Sbjct: 228 GIKQFFVAVEREEWKFDTLCDLYDTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMH 286
Query: 119 GDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRT 178
GD+ Q +RE + FR G VL++TDV ARGLD+P V LII+Y+LPN+ E ++HR GR+
Sbjct: 287 GDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRS 346
Query: 179 GRAGKEGTAILMFTSSQRRTVRSLERDVGCKFEFVSPPVVEDVLE 223
GR G++G AI + R +R +E+ + + + V + +LE
Sbjct: 347 GRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLILE 391
>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 = 134 bits (338), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 77/225 (34%), Positives = 126/225 (56%), Gaps = 5/225 (2%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAE 60
ML GF+E + + LPP Q +L SAT+P + +++ K++ +P+ I + +DE E
Sbjct: 192 MLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLE 249
Query: 61 GIKLYAISTTATS-KRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALH 118
GIK + ++ K L DL + ++F TKR D ++ + ++H
Sbjct: 250 GIKQFFVAVEREEWKFDTLCDLYDTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMH 308
Query: 119 GDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRT 178
GD+ Q +RE + FR G VL++TDV ARGLD+P V LII+Y+LPN+ E ++HR GR+
Sbjct: 309 GDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRS 368
Query: 179 GRAGKEGTAILMFTSSQRRTVRSLERDVGCKFEFVSPPVVEDVLE 223
GR G++G AI + R +R +E+ + + + V + +LE
Sbjct: 369 GRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLILE 413
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 134 bits (336), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 74/206 (35%), Positives = 118/206 (57%), Gaps = 5/206 (2%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAE 60
ML GF+E + + LPP Q +L SAT+P V +++ K++ +P+ I + +DE E
Sbjct: 155 MLNKGFKEQIYDVYRYLPPATQVVLISATLPHEVLEMTNKFMTDPIRI--LVKRDELTLE 212
Query: 61 GIKLYAISTTATS-KRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALH 118
GIK + ++ K L DL + ++F TKR D ++ + ++H
Sbjct: 213 GIKQFFVAVEREEWKFDTLCDLYDTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMH 271
Query: 119 GDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRT 178
GD+ Q +RE + FR G VL++TDV ARGLD+P V LII+Y+LPN+ E ++HR GR+
Sbjct: 272 GDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRS 331
Query: 179 GRAGKEGTAILMFTSSQRRTVRSLER 204
GR G++G A+ + R +R +E+
Sbjct: 332 GRYGRKGVAVNFVKNDDIRVLRDIEQ 357
>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 = 134 bits (336), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 74/206 (35%), Positives = 118/206 (57%), Gaps = 5/206 (2%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAE 60
ML GF+E + + LPP Q +L SAT+P + +++ K++ +P+ I + +DE E
Sbjct: 192 MLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLE 249
Query: 61 GIKLYAISTTATS-KRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALH 118
GIK + ++ K L DL + ++F TKR D ++ + ++H
Sbjct: 250 GIKQFFVAVEREEWKFDTLCDLYDTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMH 308
Query: 119 GDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRT 178
GD+ Q +RE + FR G VL++TDV ARGLD+P V LII+Y+LPN+ E ++HR GR+
Sbjct: 309 GDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRS 368
Query: 179 GRAGKEGTAILMFTSSQRRTVRSLER 204
GR G++G AI + R +R +E+
Sbjct: 369 GRYGRKGVAINFVKNDDIRILRDIEQ 394
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 134 bits (336), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 73/206 (35%), Positives = 118/206 (57%), Gaps = 5/206 (2%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAE 60
ML GF+E + + LPP Q +L SAT+P + +++ K++ +P+ I + +DE E
Sbjct: 155 MLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLE 212
Query: 61 GIKLYAISTTATS-KRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALH 118
GIK + ++ K L DL + ++F TKR D ++ + ++H
Sbjct: 213 GIKQFFVAVEREEWKFDTLCDLYDTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMH 271
Query: 119 GDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRT 178
GD+ Q +RE + FR G VL++TDV ARGLD+P V LII+Y+LPN+ E ++HR GR+
Sbjct: 272 GDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRS 331
Query: 179 GRAGKEGTAILMFTSSQRRTVRSLER 204
GR G++G A+ + R +R +E+
Sbjct: 332 GRYGRKGVAVNFVKNDDIRVLRDIEQ 357
>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 = 133 bits (335), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 74/206 (35%), Positives = 118/206 (57%), Gaps = 5/206 (2%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAE 60
ML GF+E + + LPP Q +L SAT+P + +++ K++ +P+ I + +DE E
Sbjct: 191 MLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLE 248
Query: 61 GIKLYAISTTATS-KRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALH 118
GIK + ++ K L DL + ++F TKR D ++ + ++H
Sbjct: 249 GIKQFFVAVEREEWKFDTLCDLYDTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMH 307
Query: 119 GDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRT 178
GD+ Q +RE + FR G VL++TDV ARGLD+P V LII+Y+LPN+ E ++HR GR+
Sbjct: 308 GDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRS 367
Query: 179 GRAGKEGTAILMFTSSQRRTVRSLER 204
GR G++G AI + R +R +E+
Sbjct: 368 GRYGRKGVAINFVKNDDIRILRDIEQ 393
>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 = 131 bits (329), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 74/204 (36%), Positives = 116/204 (56%), Gaps = 9/204 (4%)
Query: 2 LAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEG 61
L GF +DVE IL ++ +LFSAT P + L++KY + I K+
Sbjct: 160 LNXGFIKDVEKILNACNKDKRILLFSATXPREILNLAKKYXGDYSFIK------AKINAN 213
Query: 62 IKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGD 120
I+ + + L L+ K +VF +TKRD E++ L I + A+HGD
Sbjct: 214 IEQSYVEVNENERFEALCRLLK--NKEFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGD 271
Query: 121 ISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGR 180
+SQ QRE+ + F+Q K +L+ATDV +RG+D+ +++ +I+Y LP +PE++ HR GRTGR
Sbjct: 272 LSQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGR 331
Query: 181 AGKEGTAILMFTSSQRRTVRSLER 204
AGK+G AI + + + +R +ER
Sbjct: 332 AGKKGKAISIINRREYKKLRYIER 355
>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 = 127 bits (320), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 75/204 (36%), Positives = 123/204 (60%), Gaps = 11/204 (5%)
Query: 1 MLAVGFEEDVELILEN--LPPKRQSMLFSATMPSWVKKLSRKYLDNPL--NIDLVGNQDE 56
ML +GF ED+ I+ + + P+ Q+++FSAT P +++++ ++L N + I +VG
Sbjct: 215 MLDMGFSEDMRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACS 274
Query: 57 KLAEGIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASE 115
+ + I Y ++ A KR+ L ++++ A G TIVF +TKR AD ++ L+ +
Sbjct: 275 DVKQTI--YEVNKYA--KRSKLIEILSEQADG--TIVFVETKRGADFLASFLSEKEFPTT 328
Query: 116 ALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRS 175
++HGD Q QRE+ L F+ G VL+AT VA+RGLDI N+ +I+Y++P+ + +VHR
Sbjct: 329 SIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRI 388
Query: 176 GRTGRAGKEGTAILMFTSSQRRTV 199
GRTGR G G A F + R +
Sbjct: 389 GRTGRVGNNGRATSFFDPEKDRAI 412
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 114 bits (286), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 69/210 (32%), Positives = 115/210 (54%), Gaps = 9/210 (4%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAE 60
ML+ F+ +E IL LPP QS+LFSAT P VK+ K+L P I+L+ +E +
Sbjct: 175 MLSRDFKTIIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLM---EELTLK 231
Query: 61 GIKLYAISTTATSKRTILSDLITVYAKG--GKTIVFTQTKRDADEVSLALTSI-IASEAL 117
GI Y +R L L T+++K + I+F + + ++ +T + +
Sbjct: 232 GITQYY---AFVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYS 288
Query: 118 HGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGR 177
H + Q +R + + FRQGK LV +D+ RG+DI V+++I+++ P ET++HR GR
Sbjct: 289 HARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGR 348
Query: 178 TGRAGKEGTAILMFTSSQRRTVRSLERDVG 207
+GR G G AI + + R + +E+++G
Sbjct: 349 SGRFGHLGLAINLINWNDRFNLYKIEQELG 378
>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 = 110 bits (276), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 68/184 (36%), Positives = 104/184 (56%), Gaps = 19/184 (10%)
Query: 17 LPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIK-LYAISTTATSKR 75
LP Q +LFSAT V++ ++K + N ++L N E + IK LY K
Sbjct: 174 LPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTN--EVNVDAIKQLYMDCKNEADKF 231
Query: 76 TILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEA-----LHGDISQHQRERTL 130
+L++L V G +I+F TK+ A+ L + SE LHGD+ +R+R +
Sbjct: 232 DVLTELYGVMTIGS-SIIFVATKKTAN----VLYGKLKSEGHEVSILHGDLQTQERDRLI 286
Query: 131 NGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPN------DPETFVHRSGRTGRAGKE 184
+ FR+G+ VL+ T+V ARG+DIP V ++++Y+LP DP T++HR GRTGR G++
Sbjct: 287 DDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRK 346
Query: 185 GTAI 188
G AI
Sbjct: 347 GVAI 350
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 109 bits (273), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 67/184 (36%), Positives = 104/184 (56%), Gaps = 19/184 (10%)
Query: 17 LPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIK-LYAISTTATSKR 75
LP Q +LFSAT V++ ++K + N ++L N E + IK LY K
Sbjct: 174 LPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTN--EVNVDAIKQLYMDCKNEADKF 231
Query: 76 TILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEA-----LHGDISQHQRERTL 130
+L++L + G +I+F TK+ A+ L + SE LHGD+ +R+R +
Sbjct: 232 DVLTELYGLMTIGS-SIIFVATKKTAN----VLYGKLKSEGHEVSILHGDLQTQERDRLI 286
Query: 131 NGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPN------DPETFVHRSGRTGRAGKE 184
+ FR+G+ VL+ T+V ARG+DIP V ++++Y+LP DP T++HR GRTGR G++
Sbjct: 287 DDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRK 346
Query: 185 GTAI 188
G AI
Sbjct: 347 GVAI 350
>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 = 108 bits (270), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 73/216 (33%), Positives = 122/216 (56%), Gaps = 11/216 (5%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAE 60
ML+ GF+E + I LPP Q +L SATMP+ V +++ K++ NP+ I + +DE E
Sbjct: 175 MLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRI--LVKKDELTLE 232
Query: 61 GIKLYAISTTATSKR----TILSDLITVYAKGGKTIVFTQTKRDADEVSLAL-TSIIASE 115
GIK + ++ + T L D I+V + ++F T+R +E++ L
Sbjct: 233 GIKQFYVNVEEEEYKYECLTDLYDSISV----TQAVIFCNTRRKVEELTTKLRNDKFTVS 288
Query: 116 ALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRS 175
A++ D+ Q +R+ + FR G +L++TD+ ARG+D+ V L+I+Y+LP + E ++HR
Sbjct: 289 AIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRI 348
Query: 176 GRTGRAGKEGTAILMFTSSQRRTVRSLERDVGCKFE 211
GR GR G++G AI T+ +R LE+ + E
Sbjct: 349 GRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIE 384
>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 = 108 bits (269), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 60/145 (41%), Positives = 80/145 (55%), Gaps = 1/145 (0%)
Query: 59 AEGIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVS-LALTSIIASEAL 117
+E I + + KR+ L DL+ K T+VF +TK+ AD + A ++
Sbjct: 17 SENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSI 76
Query: 118 HGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGR 177
HGD SQ RE L+ FR GK +LVAT VAARGLDI NV +I+++LP+D E +VHR GR
Sbjct: 77 HGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGR 136
Query: 178 TGRAGKEGTAILMFTSSQRRTVRSL 202
TGR G G A F + L
Sbjct: 137 TGRVGNLGLATSFFNERNINITKDL 161
>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 = 107 bits (267), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 71/205 (34%), Positives = 119/205 (58%), Gaps = 5/205 (2%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAE 60
ML+ GF++ + I + L Q +L SATMPS V ++++K++ +P+ I + ++E E
Sbjct: 169 MLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRI--LVKKEELTLE 226
Query: 61 GIKLYAISTTATS-KRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALH 118
GI+ + I+ K L DL + ++F T+R D ++ + + A+H
Sbjct: 227 GIRQFYINVEREEWKLDTLCDLYETLTIT-QAVIFINTRRKVDWLTEKMHARDFTVSAMH 285
Query: 119 GDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRT 178
GD+ Q +R+ + FR G VL+ TD+ ARG+D+ V L+I+Y+LP + E ++HR GR
Sbjct: 286 GDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRG 345
Query: 179 GRAGKEGTAILMFTSSQRRTVRSLE 203
GR G++G AI M T +RT+R +E
Sbjct: 346 GRFGRKGVAINMVTEEDKRTLRDIE 370
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 107 bits (266), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 71/205 (34%), Positives = 119/205 (58%), Gaps = 5/205 (2%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAE 60
ML+ GF++ + I + L Q +L SATMPS V ++++K++ +P+ I + ++E E
Sbjct: 195 MLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRI--LVKKEELTLE 252
Query: 61 GIKLYAISTTATS-KRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTS-IIASEALH 118
GI+ + I+ K L DL + ++F T+R D ++ + + A+H
Sbjct: 253 GIRQFYINVEREEWKLDTLCDLYETLTIT-QAVIFINTRRKVDWLTEKMHARDFTVSAMH 311
Query: 119 GDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRT 178
GD+ Q +R+ + FR G VL+ TD+ ARG+D+ V L+I+Y+LP + E ++HR GR
Sbjct: 312 GDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRG 371
Query: 179 GRAGKEGTAILMFTSSQRRTVRSLE 203
GR G++G AI M T +RT+R +E
Sbjct: 372 GRFGRKGVAINMVTEEDKRTLRDIE 396
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 106 bits (264), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 66/192 (34%), Positives = 107/192 (55%), Gaps = 19/192 (9%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDL---VGNQDEK 57
M +GF +D+++IL ++ + LFSAT+P ++K+ + ++ N I+ + N + K
Sbjct: 141 MFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKVVKDFITNYEEIEACIGLANVEHK 200
Query: 58 LAEGIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTK-RDADEVSLALTSIIASEA 116
+ SK L + K IVF +T+ R A V L +I
Sbjct: 201 FVH------VKDDWRSKVQALRE-----NKDKGVIVFVRTRNRVAKLVRLFDNAI----E 245
Query: 117 LHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSG 176
L GD+ Q R R ++ FR+G++ +L+ TDVA+RGLDIP V+ +I+++ P D T++HR G
Sbjct: 246 LRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIG 305
Query: 177 RTGRAGKEGTAI 188
RTGR G++G AI
Sbjct: 306 RTGRMGRKGEAI 317
>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 = 103 bits (257), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 52/142 (36%), Positives = 88/142 (61%), Gaps = 2/142 (1%)
Query: 67 ISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQ 125
I +K ++L D++ I+F +TK ++++ L + + +HG + Q
Sbjct: 15 IQVREENKFSLLKDVLMT-ENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQED 73
Query: 126 RERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEG 185
R +N F++G++ LVATDVAARG+DI N+ L+I+Y+LP + E++VHR+GRTGRAG +G
Sbjct: 74 RFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKG 133
Query: 186 TAILMFTSSQRRTVRSLERDVG 207
AI T+ ++R + +E +G
Sbjct: 134 KAISFVTAFEKRFLADIEEYIG 155
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 100 bits (248), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 71/215 (33%), Positives = 117/215 (54%), Gaps = 11/215 (5%)
Query: 2 LAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEG 61
L+ GF+E + I LPP Q +L SAT P+ V +++ K+ NP+ I + +DE EG
Sbjct: 175 LSSGFKEQIYQIFTLLPPTTQVVLLSATXPNDVLEVTTKFXRNPVRI--LVKKDELTLEG 232
Query: 62 IKLYAISTTATSKR----TILSDLITVYAKGGKTIVFTQTKRDADEVSLAL-TSIIASEA 116
IK + ++ + T L D I+V + ++F T+R +E++ L A
Sbjct: 233 IKQFYVNVEEEEYKYECLTDLYDSISV----TQAVIFCNTRRKVEELTTKLRNDKFTVSA 288
Query: 117 LHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSG 176
++ D+ Q +R+ FR G +L++TD+ ARG+D+ V L+I+Y+LP + E ++HR G
Sbjct: 289 IYSDLPQQERDTIXKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIG 348
Query: 177 RTGRAGKEGTAILMFTSSQRRTVRSLERDVGCKFE 211
R GR G++G AI T+ R LE+ + E
Sbjct: 349 RGGRFGRKGVAINFVTNEDVGAXRELEKFYSTQIE 383
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 99.0 bits (245), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 64/180 (35%), Positives = 103/180 (57%), Gaps = 11/180 (6%)
Query: 17 LPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIK-LYAISTTATSKR 75
LP Q +LFSAT V+K + ++ N I L +E EGIK LY + K
Sbjct: 288 LPRNTQIVLFSATFSERVEKYAERFAPNANEIRL--KTEELSVEGIKQLYMDCQSEEHKY 345
Query: 76 TILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEA-LHGDISQHQRERTLNGFR 134
+L +L + G ++I+F + K A+E++ +T+ + A L G++ QR+ ++ FR
Sbjct: 346 NVLVELYGLLTIG-QSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFR 404
Query: 135 QGKFTVLVATDVAARGLDIPNVDLIIHYELP------NDPETFVHRSGRTGRAGKEGTAI 188
G VLV T+V ARG+D+ V+L+++Y++P DP+T++HR GRTGR G+ G +I
Sbjct: 405 VGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSI 464
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 96.3 bits (238), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 52/180 (28%), Positives = 92/180 (51%), Gaps = 1/180 (0%)
Query: 9 DVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAIS 68
DV+ I P ++Q M+FSAT+ ++ + RK++ +P+ I V ++ + G++ Y +
Sbjct: 173 DVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEI-FVDDETKLTLHGLQQYYVK 231
Query: 69 TTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEALHGDISQHQRER 128
K L DL+ V I +R L + + A+H + Q +R
Sbjct: 232 LKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLS 291
Query: 129 TLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 188
F+ + +LVAT++ RG+DI V++ +Y++P D +T++HR R GR G +G AI
Sbjct: 292 RYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAI 351
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 95.9 bits (237), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 52/180 (28%), Positives = 92/180 (51%), Gaps = 1/180 (0%)
Query: 9 DVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAIS 68
DV+ I P ++Q M+FSAT+ ++ + RK++ +P+ I V ++ + G++ Y +
Sbjct: 173 DVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEI-FVDDETKLTLHGLQQYYVK 231
Query: 69 TTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEALHGDISQHQRER 128
K L DL+ V I +R L + + A+H + Q +R
Sbjct: 232 LKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLS 291
Query: 129 TLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 188
F+ + +LVAT++ RG+DI V++ +Y++P D +T++HR R GR G +G AI
Sbjct: 292 RYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAI 351
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 95.9 bits (237), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 52/180 (28%), Positives = 92/180 (51%), Gaps = 1/180 (0%)
Query: 9 DVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAIS 68
DV+ I P ++Q M+FSAT+ ++ + RK++ +P+ I V ++ + G++ Y +
Sbjct: 172 DVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEI-FVDDETKLTLHGLQQYYVK 230
Query: 69 TTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEALHGDISQHQRER 128
K L DL+ V I +R L + + A+H + Q +R
Sbjct: 231 LKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLS 290
Query: 129 TLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 188
F+ + +LVAT++ RG+DI V++ +Y++P D +T++HR R GR G +G AI
Sbjct: 291 RYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAI 350
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 94.7 bits (234), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 53/158 (33%), Positives = 87/158 (55%), Gaps = 30/158 (18%)
Query: 44 NPLNIDLVG-------NQDEKLAEGIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQ 96
N +N+D + N+ +K +LY + T +S +I V K +++ +
Sbjct: 2 NEVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSS-------IIFVATKKTANVLYGK 54
Query: 97 TKRDADEVSLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNV 156
K + EVS+ LHGD+ +R+R ++ FR+G+ VL+ T+V ARG+DIP V
Sbjct: 55 LKSEGHEVSI----------LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTV 104
Query: 157 DLIIHYELPN------DPETFVHRSGRTGRAGKEGTAI 188
++++Y+LP DP T++HR GRTGR G++G AI
Sbjct: 105 SMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAI 142
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 94.0 bits (232), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 65/210 (30%), Positives = 111/210 (52%), Gaps = 16/210 (7%)
Query: 1 MLAVGFEEDVELILENLPPKR-QSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLA 59
M+A +D + ++ + P+ Q +LFSAT V K ++K + +P N+ + ++E L
Sbjct: 196 MIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDP-NVIKLKREEETLD 254
Query: 60 EGIKLYAISTTATSKRTILSDL---ITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEA 116
+ Y + ++ K L +L IT+ + ++F T++ A ++ L+ A
Sbjct: 255 TIKQYYVLCSSRDEKFQALCNLYGAITI----AQAMIFCHTRKTASWLAAELSKEGHQVA 310
Query: 117 L-HGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELP------NDPE 169
L G++ QR + FR+GK VLV T+V ARG+D+ V ++I+++LP D E
Sbjct: 311 LLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNE 370
Query: 170 TFVHRSGRTGRAGKEGTAILMFTSSQRRTV 199
T++HR GRTGR GK G A+ M S +
Sbjct: 371 TYLHRIGRTGRFGKRGLAVNMVDSKHSMNI 400
>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 = 93.6 bits (231), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 65/210 (30%), Positives = 111/210 (52%), Gaps = 16/210 (7%)
Query: 1 MLAVGFEEDVELILENLPPKR-QSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLA 59
M+A +D + ++ + P+ Q +LFSAT V K ++K + +P N+ + ++E L
Sbjct: 180 MIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDP-NVIKLKREEETLD 238
Query: 60 EGIKLYAISTTATSKRTILSDL---ITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEA 116
+ Y + ++ K L +L IT+ + ++F T++ A ++ L+ A
Sbjct: 239 TIKQYYVLCSSRDEKFQALCNLYGAITI----AQAMIFCHTRKTASWLAAELSKEGHQVA 294
Query: 117 L-HGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELP------NDPE 169
L G++ QR + FR+GK VLV T+V ARG+D+ V ++I+++LP D E
Sbjct: 295 LLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNE 354
Query: 170 TFVHRSGRTGRAGKEGTAILMFTSSQRRTV 199
T++HR GRTGR GK G A+ M S +
Sbjct: 355 TYLHRIGRTGRFGKRGLAVNMVDSKHSMNI 384
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 93.6 bits (231), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 65/210 (30%), Positives = 111/210 (52%), Gaps = 16/210 (7%)
Query: 1 MLAVGFEEDVELILENLPPKR-QSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLA 59
M+A +D + ++ + P+ Q +LFSAT V K ++K + +P N+ + ++E L
Sbjct: 217 MIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDP-NVIKLKREEETLD 275
Query: 60 EGIKLYAISTTATSKRTILSDL---ITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEA 116
+ Y + ++ K L +L IT+ + ++F T++ A ++ L+ A
Sbjct: 276 TIKQYYVLCSSRDEKFQALCNLYGAITI----AQAMIFCHTRKTASWLAAELSKEGHQVA 331
Query: 117 L-HGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELP------NDPE 169
L G++ QR + FR+GK VLV T+V ARG+D+ V ++I+++LP D E
Sbjct: 332 LLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNE 391
Query: 170 TFVHRSGRTGRAGKEGTAILMFTSSQRRTV 199
T++HR GRTGR GK G A+ M S +
Sbjct: 392 TYLHRIGRTGRFGKRGLAVNMVDSKHSMNI 421
>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
pdb|3FMP|D Chain D, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 479
Score = 93.6 bits (231), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 65/210 (30%), Positives = 111/210 (52%), Gaps = 16/210 (7%)
Query: 1 MLAVGFEEDVELILENLPPKR-QSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLA 59
M+A +D + ++ + P+ Q +LFSAT V K ++K + +P N+ + ++E L
Sbjct: 247 MIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDP-NVIKLKREEETLD 305
Query: 60 EGIKLYAISTTATSKRTILSDL---ITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEA 116
+ Y + ++ K L +L IT+ + ++F T++ A ++ L+ A
Sbjct: 306 TIKQYYVLCSSRDEKFQALCNLYGAITI----AQAMIFCHTRKTASWLAAELSKEGHQVA 361
Query: 117 L-HGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELP------NDPE 169
L G++ QR + FR+GK VLV T+V ARG+D+ V ++I+++LP D E
Sbjct: 362 LLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNE 421
Query: 170 TFVHRSGRTGRAGKEGTAILMFTSSQRRTV 199
T++HR GRTGR GK G A+ M S +
Sbjct: 422 TYLHRIGRTGRFGKRGLAVNMVDSKHSMNI 451
>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 = 93.2 bits (230), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 53/158 (33%), Positives = 86/158 (54%), Gaps = 30/158 (18%)
Query: 44 NPLNIDLVG-------NQDEKLAEGIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQ 96
N +N+D + N+ +K +LY + T +S +I V K +++ +
Sbjct: 3 NEVNVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSS-------IIFVATKKTANVLYGK 55
Query: 97 TKRDADEVSLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNV 156
K + EVS+ LHGD+ +R+R ++ FR+G+ VL+ T+V ARG+DIP V
Sbjct: 56 LKSEGHEVSI----------LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTV 105
Query: 157 DLIIHYELPN------DPETFVHRSGRTGRAGKEGTAI 188
+++Y+LP DP T++HR GRTGR G++G AI
Sbjct: 106 SXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAI 143
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 92.8 bits (229), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 53/158 (33%), Positives = 86/158 (54%), Gaps = 30/158 (18%)
Query: 44 NPLNIDLVG-------NQDEKLAEGIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQ 96
N +N+D + N+ +K +LY + T +S +I V K +++ +
Sbjct: 4 NEVNVDAIKQLYXDCKNEADKFDVLTELYGLXTIGSS-------IIFVATKKTANVLYGK 56
Query: 97 TKRDADEVSLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNV 156
K + EVS+ LHGD+ +R+R ++ FR+G+ VL+ T+V ARG+DIP V
Sbjct: 57 LKSEGHEVSI----------LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTV 106
Query: 157 DLIIHYELPN------DPETFVHRSGRTGRAGKEGTAI 188
+++Y+LP DP T++HR GRTGR G++G AI
Sbjct: 107 SXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAI 144
>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 = 89.7 bits (221), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 67/227 (29%), Positives = 112/227 (49%), Gaps = 30/227 (13%)
Query: 1 MLAVGFEEDVELILENLPPKR-------QSMLFSATMPSWVKKLSRKYLDNP--LNIDLV 51
+L +GF +D+E I L K +++LFSAT+ V+KL+ ++ L +D V
Sbjct: 238 LLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTV 297
Query: 52 GNQDEKLAEGI-------KLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEV 104
+ + E I + +A S A + + I K I+F T +
Sbjct: 298 DKNEPEAHERIDQSVVISEKFANSIFAAVEH--IKKQIKERDSNYKAIIFAPTVK----F 351
Query: 105 SLALTSIIASE--------ALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNV 156
+ L SI+ +E HG I+Q++R + F++ + +LV TDV ARG+D PNV
Sbjct: 352 TSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNV 411
Query: 157 DLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVRSLE 203
++ +P++ ++HR GRT R+GKEG+++L + VR LE
Sbjct: 412 HEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELE 458
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 89.4 bits (220), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 67/227 (29%), Positives = 112/227 (49%), Gaps = 30/227 (13%)
Query: 1 MLAVGFEEDVELILENLPPKR-------QSMLFSATMPSWVKKLSRKYLDNP--LNIDLV 51
+L +GF +D+E I L K +++LFSAT+ V+KL+ ++ L +D V
Sbjct: 187 LLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTV 246
Query: 52 GNQDEKLAEGI-------KLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEV 104
+ + E I + +A S A + + I K I+F T +
Sbjct: 247 DKNEPEAHERIDQSVVISEKFANSIFAAVEH--IKKQIKERDSNYKAIIFAPTVK----F 300
Query: 105 SLALTSIIASE--------ALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNV 156
+ L SI+ +E HG I+Q++R + F++ + +LV TDV ARG+D PNV
Sbjct: 301 TSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNV 360
Query: 157 DLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVRSLE 203
++ +P++ ++HR GRT R+GKEG+++L + VR LE
Sbjct: 361 HEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELE 407
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 89.0 bits (219), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 67/227 (29%), Positives = 112/227 (49%), Gaps = 30/227 (13%)
Query: 1 MLAVGFEEDVELILENLPPKR-------QSMLFSATMPSWVKKLSRKYLDNP--LNIDLV 51
+L +GF +D+E I L K +++LFSAT+ V+KL+ ++ L +D V
Sbjct: 187 LLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTV 246
Query: 52 GNQDEKLAEGI-------KLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEV 104
+ + E I + +A S A + + I K I+F T +
Sbjct: 247 DKNEPEAHERIDQSVVISEKFANSIFAAVEH--IKKQIKERDSNYKAIIFAPTVK----F 300
Query: 105 SLALTSIIASE--------ALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNV 156
+ L SI+ +E HG I+Q++R + F++ + +LV TDV ARG+D PNV
Sbjct: 301 TSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNV 360
Query: 157 DLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVRSLE 203
++ +P++ ++HR GRT R+GKEG+++L + VR LE
Sbjct: 361 HEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELE 407
>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 = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 41/110 (37%), Positives = 64/110 (58%), Gaps = 1/110 (0%)
Query: 91 TIVFTQTKRDADEV-SLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAAR 149
++F + K D D + L + + A+HG Q +R + + FR+GK VLVATDVA++
Sbjct: 57 VLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASK 116
Query: 150 GLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTV 199
GLD P + +I+Y++P + E +VHR GRTG +G G A + +V
Sbjct: 117 GLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFINKACDESV 166
>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 = 81.6 bits (200), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 47/165 (28%), Positives = 87/165 (52%), Gaps = 5/165 (3%)
Query: 44 NPLNIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADE 103
+P I+L+ +E +G+ Y T K L+ L + + ++I+F + + +
Sbjct: 4 DPYEINLM---EELTLKGVTQYYAYVTERQKVHCLNTLFSR-LQINQSIIFCNSSQRVEL 59
Query: 104 VSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHY 162
++ ++ + + +H + Q R R + FR G LV TD+ RG+DI V+++I++
Sbjct: 60 LAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINF 119
Query: 163 ELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVRSLERDVG 207
+ P ET++HR GR+GR G G AI + T R ++S+E +G
Sbjct: 120 DFPKLAETYLHRIGRSGRFGHLGLAINLITYDDRFNLKSIEEQLG 164
>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 = 81.3 bits (199), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 40/100 (40%), Positives = 65/100 (65%), Gaps = 1/100 (1%)
Query: 90 KTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAA 148
++IVF + + E++ L I + L G++ Q +R + +G+ VLVATDVAA
Sbjct: 32 RSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAA 91
Query: 149 RGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 188
RG+DIP+V + ++++P +T++HR GRT RAG++GTAI
Sbjct: 92 RGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAI 131
>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 = 79.7 bits (195), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 34/87 (39%), Positives = 55/87 (63%)
Query: 117 LHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSG 176
HG I+Q++R + F++ + +LV TDV ARG+D PNV ++ +P++ ++HR G
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 177 RTGRAGKEGTAILMFTSSQRRTVRSLE 203
RT R+GKEG+++L + VR LE
Sbjct: 126 RTARSGKEGSSVLFICKDELPFVRELE 152
>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 = 79.7 bits (195), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 34/87 (39%), Positives = 55/87 (63%)
Query: 117 LHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSG 176
HG I+Q++R + F++ + +LV TDV ARG+D PNV ++ +P++ ++HR G
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 177 RTGRAGKEGTAILMFTSSQRRTVRSLE 203
RT R+GKEG+++L + VR LE
Sbjct: 126 RTARSGKEGSSVLFICKDELPFVRELE 152
>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 = 79.7 bits (195), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 34/87 (39%), Positives = 55/87 (63%)
Query: 117 LHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSG 176
HG I+Q++R + F++ + +LV TDV ARG+D PNV ++ +P++ ++HR G
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 177 RTGRAGKEGTAILMFTSSQRRTVRSLE 203
RT R+GKEG+++L + VR LE
Sbjct: 126 RTARSGKEGSSVLFICKDELPFVRELE 152
>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 = 79.3 bits (194), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 41/110 (37%), Positives = 67/110 (60%), Gaps = 7/110 (6%)
Query: 89 GKTIVFTQTKRDADEVSLALTSIIASEAL-HGDISQHQRERTLNGFRQGKFTVLVATDVA 147
G+ I+F QT+R+A +++ + +L G+++ QR + FR GK VL+ T+V
Sbjct: 35 GQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVC 94
Query: 148 ARGLDIPNVDLIIHYELP------NDPETFVHRSGRTGRAGKEGTAILMF 191
ARG+D+ V ++++++LP D ET++HR GRTGR GK+G A M
Sbjct: 95 ARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMI 144
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 72.4 bits (176), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 49/150 (32%), Positives = 84/150 (56%), Gaps = 9/150 (6%)
Query: 60 EGIKLYAISTTATSKR----TILSDLITVYAKGGKTIVFTQTKRDADEVSLAL-TSIIAS 114
EGIK + ++ + T L D I+V + ++F T+R +E++ L
Sbjct: 2 EGIKQFYVNVEEEEYKYECLTDLYDSISV----TQAVIFCNTRRKVEELTTKLRNDKFTV 57
Query: 115 EALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHR 174
A++ D+ Q +R+ + FR G +L++TD+ ARG+D+ V L+I+Y+LP + E ++HR
Sbjct: 58 SAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHR 117
Query: 175 SGRTGRAGKEGTAILMFTSSQRRTVRSLER 204
GR GR G++G AI T+ +R LE+
Sbjct: 118 IGRGGRFGRKGVAINFVTNEDVGAMRELEK 147
>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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 27/51 (52%), Positives = 42/51 (82%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLV 51
ML++GFEE+VE +L PP RQ++LFSAT+PSW K+L+ +Y+ NP+ I+++
Sbjct: 156 MLSMGFEEEVEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLINVI 206
>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 = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 27/51 (52%), Positives = 42/51 (82%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDLV 51
ML++GFEE+VE +L PP RQ++LFSAT+PSW K+L+ +Y+ NP+ I+++
Sbjct: 156 MLSMGFEEEVEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLINVI 206
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 67.8 bits (164), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 43/151 (28%), Positives = 71/151 (47%), Gaps = 3/151 (1%)
Query: 61 GIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEALHGD 120
G++ Y + K L DL+ V I +R L + + A+H
Sbjct: 5 GLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRG 64
Query: 121 ISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGR 180
+ Q +R F+ + +LVAT++ RG+DI V++ +Y++P D +T++HR R GR
Sbjct: 65 MPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGR 124
Query: 181 AGKEGTAILMFTSSQRRTVRSLERDVGCKFE 211
G +G AI F S + + DV +FE
Sbjct: 125 FGTKGLAI-TFVSDENDA--KILNDVQDRFE 152
>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 = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 37/113 (32%), Positives = 55/113 (48%), Gaps = 9/113 (7%)
Query: 87 KGGKTIVFTQTKRDADEV-------SLALTSIIASEALHGD--ISQHQRERTLNGFRQGK 137
+ K IVFT + A ++ + + + D +SQ +++ L+ F +G+
Sbjct: 360 QNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGE 419
Query: 138 FTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILM 190
F VLVAT V GLD+P VDL++ YE + R GRTGR ILM
Sbjct: 420 FNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGRHMPGRVIILM 472
>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 = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 57/112 (50%), Gaps = 1/112 (0%)
Query: 81 LITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFT 139
LI KG I++ +++D+++V+++L ++ I + A H ++ + + +
Sbjct: 260 LINGRYKGQSGIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQ 319
Query: 140 VLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMF 191
V+VAT G+D P+V +IH+ + E + SGR GR + IL +
Sbjct: 320 VVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILYY 371
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 55/106 (51%), Gaps = 1/106 (0%)
Query: 87 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 145
+G I++ ++ ++ + L S I++ A H + + R F++ ++VAT
Sbjct: 235 RGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATV 294
Query: 146 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMF 191
G++ PNV ++H+++P + E++ +GR GR G A+L +
Sbjct: 295 AFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFY 340
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 54/106 (50%), Gaps = 1/106 (0%)
Query: 87 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 145
+G I++ ++ ++ + L S I++ A H + + R F++ ++VAT
Sbjct: 235 RGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATV 294
Query: 146 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMF 191
G++ PNV ++H+++P + E++ +GR GR G A L +
Sbjct: 295 AFGXGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFY 340
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 51.2 bits (121), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 47/79 (59%), Gaps = 9/79 (11%)
Query: 117 LHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETF----V 172
+HG +SQ +++R + F +G++ +LV+T V G+D+P ++++ +PE F +
Sbjct: 619 MHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMV----IENPERFGLAQL 674
Query: 173 HR-SGRTGRAGKEGTAILM 190
H+ GR GR G+E L+
Sbjct: 675 HQLRGRVGRGGQEAYCFLV 693
>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 = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 36/112 (32%), Positives = 54/112 (48%), Gaps = 21/112 (18%)
Query: 118 HGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLII-----HYELPNDPETFV 172
HG + + + ER +N F +F VLV T + G+DIP + II H+ L +
Sbjct: 845 HGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQ-----L 899
Query: 173 HR-SGRTGRAGKEGTAIL-------MFTSSQRR--TVRSLERDVGCKFEFVS 214
H+ GR GR+ + A L M T +Q+R + SLE D+G F +
Sbjct: 900 HQLRGRVGRSHHQAYAWLLTPHPKAMTTDAQKRLEAIASLE-DLGAGFALAT 950
>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 = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 41/147 (27%), Positives = 71/147 (48%), Gaps = 21/147 (14%)
Query: 72 TSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALT-----SIIASEALH-------- 118
T R + + T + + I+FT+T++ A +S +T + + +A H
Sbjct: 384 TKLRNTIMEQYTRTEESARGIIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSS 443
Query: 119 --GDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSG 176
++Q++++ ++ FR GK +L+AT VA GLDI +++I Y L + V G
Sbjct: 444 EFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARG 503
Query: 177 RTGRAGKEGTAILMFTSS----QRRTV 199
R RA E T +L+ S +R TV
Sbjct: 504 R-ARAD-ESTYVLVAHSGSGVIERETV 528
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/45 (48%), Positives = 31/45 (68%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNP 45
+L +GF + + ++ENLP KRQ++LFSAT VK L+R L NP
Sbjct: 183 ILDMGFADTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNP 227
>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 = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 35/156 (22%), Positives = 72/156 (46%), Gaps = 9/156 (5%)
Query: 47 NIDLVGNQDEKLAEGIKLYA----ISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDAD 102
I + DE+ E ++ + I+ + +K L +++ + K K I+FT+ +
Sbjct: 305 KIVMASGYDERAYEALRAWEEARRIAFNSKNKIRKLREILERHRKD-KIIIFTRH----N 359
Query: 103 EVSLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHY 162
E+ ++ + A+ S+ +RE L GFR G+F +V++ V G+D+P+ ++ +
Sbjct: 360 ELVYRISKVFLIPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIM 419
Query: 163 ELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRT 198
++ R GR R K +++ R T
Sbjct: 420 SGSGSAREYIQRLGRILRPSKGKKEAVLYELISRGT 455
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 33/149 (22%), Positives = 70/149 (46%), Gaps = 9/149 (6%)
Query: 47 NIDLVGNQDEKLAEGIKLYA----ISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDAD 102
I + DE+ E ++ + I+ + +K L +++ + K K I+FT+ +
Sbjct: 70 KIVMASGYDERAYEALRAWEEARRIAFNSKNKIRKLREILERHRKD-KIIIFTRH----N 124
Query: 103 EVSLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHY 162
E+ ++ + A+ S+ +RE L GFR G+F +V++ V G+D+P+ ++ +
Sbjct: 125 ELVYRISKVFLIPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIM 184
Query: 163 ELPNDPETFVHRSGRTGRAGKEGTAILMF 191
++ R GR R K +++
Sbjct: 185 SGSGSAREYIQRLGRILRPSKGKKEAVLY 213
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 32/48 (66%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNI 48
ML+ GF+E + I LPP Q +L SATMP+ V +++ K++ NP+ I
Sbjct: 174 MLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRI 221
>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 = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 32/48 (66%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNI 48
ML+ GF+E + I LPP Q +L SATMP+ V +++ K++ NP+ I
Sbjct: 167 MLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRI 214
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 58/115 (50%), Gaps = 10/115 (8%)
Query: 87 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 145
+ +T+V T TK+ A++++ L I LH +I +R + R GK+ VLV +
Sbjct: 443 RNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGIN 502
Query: 146 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGKEGTA-ILMFTSS 194
+ GLDIP V L+ L D E F+ RS R+ GRA + ++M+ +
Sbjct: 503 LLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAARNANGHVIMYADT 554
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 58/115 (50%), Gaps = 10/115 (8%)
Query: 87 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 145
+ +T+V T TK+ A++++ L I LH +I +R + R GK+ VLV +
Sbjct: 444 RNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGIN 503
Query: 146 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGKEGTA-ILMFTSS 194
+ GLDIP V L+ L D E F+ RS R+ GRA + ++M+ +
Sbjct: 504 LLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAARNANGHVIMYADT 555
>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 = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 58/115 (50%), Gaps = 10/115 (8%)
Query: 87 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 145
+ +T+V T TK+ A++++ L I LH +I +R + R GK+ VLV +
Sbjct: 444 RNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGIN 503
Query: 146 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGKEGTA-ILMFTSS 194
+ GLDIP V L+ L D E F+ RS R+ GRA + ++M+ +
Sbjct: 504 LLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAARNANGHVIMYADT 555
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 40/158 (25%), Positives = 72/158 (45%), Gaps = 34/158 (21%)
Query: 22 QSMLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDL 81
+S +F T+ KK+ +K +NP ++EKL T R + +
Sbjct: 103 ESDIFLXTLFLRNKKILKKLAENP------EYENEKL-------------TKLRNTIXEH 143
Query: 82 ITVYAKGGKTIVFTQTKRDADEVSLALT-----SIIASEALH----------GDISQHQR 126
T + + I+FT+T++ A +S +T + + +A H +Q+++
Sbjct: 144 FTRTEESARGIIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAGHSSEFKPXTQNEQ 203
Query: 127 ERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYEL 164
++ FR GK +L+AT VA GLDI +++I Y L
Sbjct: 204 REVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>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 = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 58/115 (50%), Gaps = 10/115 (8%)
Query: 87 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 145
+ +T+V T TK+ A++++ L I LH +I +R + R GK+ VLV +
Sbjct: 444 RNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGIN 503
Query: 146 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGKEGTA-ILMFTSS 194
+ GLDIP V L+ L D E F+ RS R+ GRA + ++M+ +
Sbjct: 504 LLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAARNANGHVIMYADT 555
>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 = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 57/111 (51%), Gaps = 11/111 (9%)
Query: 87 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 145
+ + +V T TK+ +++++ L I I LH +I +R + R GK+ VLV +
Sbjct: 450 RNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGIN 509
Query: 146 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGK--EGTAIL 189
+ GLDIP V L+ L D E F+ RS R+ GRA + EG I+
Sbjct: 510 LLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAARNAEGRVIM 557
>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 = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 57/111 (51%), Gaps = 11/111 (9%)
Query: 87 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 145
+ + +V T TK+ +++++ L I I LH +I +R + R GK+ VLV +
Sbjct: 444 RNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGIN 503
Query: 146 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGK--EGTAIL 189
+ GLDIP V L+ L D E F+ RS R+ GRA + EG I+
Sbjct: 504 LLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAARNAEGRVIM 551
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 58/115 (50%), Gaps = 10/115 (8%)
Query: 87 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 145
+ +T+V T TK+ A++++ L I LH +I +R + R GK+ VLV +
Sbjct: 469 RNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGIN 528
Query: 146 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGKEGTA-ILMFTSS 194
+ GLDIP V L+ L D E F+ RS R+ GRA + ++M+ +
Sbjct: 529 LLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAARNANGHVIMYADT 580
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 31/47 (65%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLN 47
+L + FE +V+ IL+ +P R++ LFSATM V+KL R L NP+
Sbjct: 198 ILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVK 244
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 35/50 (70%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDL 50
ML +GFE + I++ + P RQ++++SAT P V++L+ +L + ++I++
Sbjct: 202 MLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINI 251
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 35/50 (70%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDL 50
ML +GFE + I++ + P RQ++++SAT P V++L+ +L + ++I++
Sbjct: 188 MLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINI 237
>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 = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 40/167 (23%), Positives = 68/167 (40%), Gaps = 41/167 (24%)
Query: 71 ATSKRTILSDLIT-VYAKGGKTIVFTQTKRDADEVSLALTSIIA----SEAL-------- 117
+TS+R +L+ A+ G +VF T+R A++ ++ L++I A +E L
Sbjct: 224 STSRRVKFEELVEECVAENGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEEN 283
Query: 118 -------------------HGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDL 158
H + QR + FR+G V+VAT A G+++P +
Sbjct: 284 EGEMSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRV 343
Query: 159 IIH-------YELPNDPETFVHRSGRTGRAG--KEGTAILMFTSSQR 196
I+ Y + +GR GR G + G AI++ R
Sbjct: 344 IVRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRDR 390
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 53/104 (50%), Gaps = 9/104 (8%)
Query: 86 AKGGKTIVFTQTKRDADEV-SLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVAT 144
A+G +T+V T R A+E+ S + I + LH ++ +R+ + R G + LV
Sbjct: 438 ARGERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGI 497
Query: 145 DVAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGK 183
++ GLDIP V L+ L D E F+ RS R+ GRA +
Sbjct: 498 NLLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAAR 538
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 53/104 (50%), Gaps = 9/104 (8%)
Query: 86 AKGGKTIVFTQTKRDADEV-SLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVAT 144
A+G +T+V T R A+E+ S + I + LH ++ +R+ + R G + LV
Sbjct: 437 ARGERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGI 496
Query: 145 DVAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGK 183
++ GLDIP V L+ L D E F+ RS R+ GRA +
Sbjct: 497 NLLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAAR 537
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/39 (51%), Positives = 30/39 (76%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSR 39
+L VGFEE+++ I++ LP +RQ+MLFSAT V+ L+R
Sbjct: 213 ILDVGFEEELKQIIKLLPTRRQTMLFSATQTRKVEDLAR 251
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 31/48 (64%), Gaps = 4/48 (8%)
Query: 1 MLAVGFEEDVELILE--NLPP--KRQSMLFSATMPSWVKKLSRKYLDN 44
ML +GFE + I+E N+P RQ+++FSAT P ++KL+ +L N
Sbjct: 186 MLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYN 233
>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 = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 30/46 (65%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPL 46
ML + FE + IL ++ P RQ+++ SAT P V++L+ YL +P+
Sbjct: 179 MLDMEFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPM 224
>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 = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 25/44 (56%)
Query: 2 LAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNP 45
L GF DV+ I P Q ++FSAT+P +K +KY +NP
Sbjct: 163 LDXGFITDVDQIAARXPKDLQXLVFSATIPEKLKPFLKKYXENP 206
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 130 LNGFR-QGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 188
L+ F+ G +L+AT VA G+DI +L+I YE + + GR GRA G+
Sbjct: 452 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GRA--RGSKC 508
Query: 189 LMFTSS 194
+ TS+
Sbjct: 509 FLLTSN 514
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 130 LNGFR-QGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 188
L+ F+ G +L+AT VA G+DI +L+I YE + + GR GRA G+
Sbjct: 453 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GRA--RGSKC 509
Query: 189 LMFTSS 194
+ TS+
Sbjct: 510 FLLTSN 515
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 130 LNGFR-QGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 188
L+ F+ G +L+AT VA G+DI +L+I YE + + GR GRA G+
Sbjct: 444 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GRA--RGSKC 500
Query: 189 LMFTSS 194
+ TS+
Sbjct: 501 FLLTSN 506
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 32/48 (66%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNI 48
ML+ GF++ + I + L Q +L SATMP+ V ++++K++ +P+ I
Sbjct: 185 MLSRGFKDQIYEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRI 232
>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 = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%)
Query: 9 DVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNI 48
DV+ I P ++Q M+FSAT+ ++ + RK++ +P+ I
Sbjct: 179 DVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEI 218
>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 = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 29/49 (59%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNID 49
+L+ F + +E I+ LP RQ +L+SAT P V+K +L+ P I+
Sbjct: 158 LLSQDFVQIMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLEKPYEIN 206
>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 = 35.4 bits (80), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 35/65 (53%), Gaps = 4/65 (6%)
Query: 130 LNGFRQGKFT-VLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 188
L+ F+ K +L+AT VA G+DI +L++ YE + + GR GRA G+
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAA--GSKC 742
Query: 189 LMFTS 193
++ TS
Sbjct: 743 ILVTS 747
>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 = 35.4 bits (80), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 35/65 (53%), Gaps = 4/65 (6%)
Query: 130 LNGFRQGKFT-VLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 188
L+ F+ K +L+AT VA G+DI +L++ YE + + GR GRA G+
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAA--GSKC 742
Query: 189 LMFTS 193
++ TS
Sbjct: 743 ILVTS 747
>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 = 35.4 bits (80), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 35/65 (53%), Gaps = 4/65 (6%)
Query: 130 LNGFRQGKFT-VLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 188
L+ F+ K +L+AT VA G+DI +L++ YE + + GR GRA G+
Sbjct: 445 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAA--GSKC 501
Query: 189 LMFTS 193
++ TS
Sbjct: 502 ILVTS 506
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 35.4 bits (80), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 15/78 (19%)
Query: 118 HGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLII-------------HYEL 164
H +S+ R+ GFRQ K V+VAT A G+++P +II + E+
Sbjct: 319 HAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEI 378
Query: 165 PNDPETFVHRSGRTGRAG 182
P + SGR GR G
Sbjct: 379 P--IMEYKQMSGRAGRPG 394
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 35.0 bits (79), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 33/66 (50%), Gaps = 4/66 (6%)
Query: 130 LNGFR-QGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 188
L FR G +L+AT VA G+DI +L+I YE + + GR GRA +
Sbjct: 444 LEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGR-GRA--RDSKC 500
Query: 189 LMFTSS 194
+ TSS
Sbjct: 501 FLLTSS 506
>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 = 35.0 bits (79), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 29/48 (60%)
Query: 1 MLAVGFEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNI 48
ML+ GF + + I + L Q +L SATMPS V +++ ++ +P+ I
Sbjct: 170 MLSRGFXDQIYDIFQXLNSNTQVVLLSATMPSDVLEVTXXFMRDPIRI 217
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 10/72 (13%)
Query: 133 FRQGKFTVLVATDVAARGLDIPNVDLIIHYELPND--------PETFVHRSGRTGRAGKE 184
F +G VL AT+ A GL++P +I +D P F +GR GR G +
Sbjct: 421 FSKGFIKVLFATETFAMGLNLPTRTVIFSSIRKHDGNGLRELTPGEFTQMAGRAGRRGLD 480
Query: 185 --GTAILMFTSS 194
GT I+M +S
Sbjct: 481 STGTVIVMAYNS 492
>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 = 31.6 bits (70), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 24/45 (53%)
Query: 6 FEEDVELILENLPPKRQSMLFSATMPSWVKKLSRKYLDNPLNIDL 50
F+E + I +LP +Q + SAT P ++ KY+ +P + L
Sbjct: 184 FQEQINWIYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVRL 228
>pdb|3CQF|A Chain A, Crystal Structure Of Anthrolysin O (Alo)
pdb|3CQF|B Chain B, Crystal Structure Of Anthrolysin O (Alo)
Length = 489
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 5/47 (10%)
Query: 17 LPPKRQ---SMLFSATMPSWVKKLSRKYLDNPLNIDL--VGNQDEKL 58
LP + Q SM++S + + ++ KYLDN LNID V N ++K+
Sbjct: 165 LPARMQYTESMVYSKSQIASALNVNAKYLDNSLNIDFNAVANGEKKV 211
>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 = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 37/157 (23%), Positives = 61/157 (38%), Gaps = 44/157 (28%)
Query: 87 KGGKTIVFTQTKRDADEVSLALTSIIAS---------------------------EALHG 119
K ++F +R A+ V+L L+ + S +A+ G
Sbjct: 236 KKKGALIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIRG 295
Query: 120 DISQH-----QRERTL--NGFRQGKFTVLVATDVAARGLDIPNVDLIIH-------YELP 165
++ H + ER L FR+G +VAT + G++ P +II + +
Sbjct: 296 GVAFHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGME 355
Query: 166 NDPETFVHRS-GRTGRAGKE--GTAILMFTSSQRRTV 199
P VH+ GR GR + G I++ TS R V
Sbjct: 356 RIPIIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPREV 392
>pdb|1RLR|A Chain A, Structure Of Ribonucleotide Reductase Protein R1
Length = 761
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 75 RTILSDLITVYAKGGKTIVFTQTKRDADEVS 105
+ +L DL+T Y G KT+ + T+ D D++S
Sbjct: 712 QQLLKDLLTAYKFGVKTLYYQNTRDDIDDLS 742
>pdb|4ALI|A Chain A, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And Triclosan (P1)
pdb|4ALI|B Chain B, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And Triclosan (P1)
pdb|4ALI|C Chain C, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And Triclosan (P1)
pdb|4ALI|D Chain D, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And Triclosan (P1)
pdb|4ALI|E Chain E, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And Triclosan (P1)
pdb|4ALI|F Chain F, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And Triclosan (P1)
pdb|4ALI|G Chain G, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And Triclosan (P1)
pdb|4ALI|H Chain H, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And Triclosan (P1)
pdb|4ALJ|A Chain A, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Chloro-2-Phenoxyphenol
pdb|4ALJ|B Chain B, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Chloro-2-Phenoxyphenol
pdb|4ALJ|C Chain C, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Chloro-2-Phenoxyphenol
pdb|4ALJ|D Chain D, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Chloro-2-Phenoxyphenol
pdb|4ALJ|E Chain E, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Chloro-2-Phenoxyphenol
pdb|4ALJ|F Chain F, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Chloro-2-Phenoxyphenol
pdb|4ALJ|G Chain G, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Chloro-2-Phenoxyphenol
pdb|4ALJ|H Chain H, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Chloro-2-Phenoxyphenol
pdb|4ALK|A Chain A, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Ethyl-2-Phenoxyphenol
pdb|4ALK|B Chain B, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Ethyl-2-Phenoxyphenol
pdb|4ALK|C Chain C, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Ethyl-2-Phenoxyphenol
pdb|4ALK|D Chain D, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Ethyl-2-Phenoxyphenol
pdb|4ALK|E Chain E, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Ethyl-2-Phenoxyphenol
pdb|4ALK|F Chain F, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Ethyl-2-Phenoxyphenol
pdb|4ALK|G Chain G, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Ethyl-2-Phenoxyphenol
pdb|4ALK|H Chain H, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And 5-Ethyl-2-Phenoxyphenol
pdb|4ALM|A Chain A, Crystal Structure Of S. Aureus Fabi (P43212)
pdb|4ALM|B Chain B, Crystal Structure Of S. Aureus Fabi (P43212)
pdb|4ALM|C Chain C, Crystal Structure Of S. Aureus Fabi (P43212)
pdb|4ALM|D Chain D, Crystal Structure Of S. Aureus Fabi (P43212)
pdb|4ALN|A Chain A, Crystal Structure Of S. Aureus Fabi (P32)
pdb|4ALN|B Chain B, Crystal Structure Of S. Aureus Fabi (P32)
pdb|4ALN|C Chain C, Crystal Structure Of S. Aureus Fabi (P32)
pdb|4ALN|D Chain D, Crystal Structure Of S. Aureus Fabi (P32)
pdb|4ALN|E Chain E, Crystal Structure Of S. Aureus Fabi (P32)
pdb|4ALN|F Chain F, Crystal Structure Of S. Aureus Fabi (P32)
pdb|4ALN|G Chain G, Crystal Structure Of S. Aureus Fabi (P32)
pdb|4ALN|H Chain H, Crystal Structure Of S. Aureus Fabi (P32)
pdb|4ALN|I Chain I, Crystal Structure Of S. Aureus Fabi (P32)
pdb|4ALN|J Chain J, Crystal Structure Of S. Aureus Fabi (P32)
pdb|4ALN|K Chain K, Crystal Structure Of S. Aureus Fabi (P32)
pdb|4ALN|L Chain L, Crystal Structure Of S. Aureus Fabi (P32)
Length = 282
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 46/121 (38%), Gaps = 15/121 (12%)
Query: 63 KLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTK-RDADEVSLALTSIIASEALHGDI 121
K Y I A +KR+I + V + G +VFT K R E+ L + EA I
Sbjct: 33 KTYVIMGIA-NKRSIAFGVAKVLDQLGAKLVFTYRKERSRKELEKLLEQLNQPEAHLYQI 91
Query: 122 SQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRA 181
E +NGF Q G D+ N+D + H + E R T R
Sbjct: 92 DVQSDEEVINGFEQ-------------IGKDVGNIDGVYHSIAFANMEDLRGRFSETSRE 138
Query: 182 G 182
G
Sbjct: 139 G 139
>pdb|3GNT|A Chain A, Crystal Structure Of The Staphylococcus Aureus Enoyl-Acyl
Carrier Protein Reductase (Fabi) In Apo Form (Two
Molecules In Au)
pdb|3GNT|B Chain B, Crystal Structure Of The Staphylococcus Aureus Enoyl-Acyl
Carrier Protein Reductase (Fabi) In Apo Form (Two
Molecules In Au)
Length = 256
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 46/121 (38%), Gaps = 15/121 (12%)
Query: 63 KLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTK-RDADEVSLALTSIIASEALHGDI 121
K Y I A +KR+I + V + G +VFT K R E+ L + EA I
Sbjct: 7 KTYVIMGIA-NKRSIAFGVAKVLDQLGAKLVFTYRKERSRKELEKLLEQLNQPEAHLYQI 65
Query: 122 SQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRA 181
E +NGF Q G D+ N+D + H + E R T R
Sbjct: 66 DVQSDEEVINGFEQ-------------IGKDVGNIDGVYHSIAFANMEDLRGRFSETSRE 112
Query: 182 G 182
G
Sbjct: 113 G 113
>pdb|4FS3|A Chain A, Crystal Structure Of Staphylococcus Aureus Enoyl-Acp
Reductase In Complex With Nadp And Afn-1252
Length = 256
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 46/121 (38%), Gaps = 15/121 (12%)
Query: 63 KLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTK-RDADEVSLALTSIIASEALHGDI 121
K Y I A +KR+I + V + G +VFT K R E+ L + EA I
Sbjct: 7 KTYVIMGIA-NKRSIAFGVAKVLDQLGAKLVFTYRKERSRKELEKLLEQLNQPEAHLYQI 65
Query: 122 SQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRA 181
E +NGF Q G D+ N+D + H + E R T R
Sbjct: 66 DVQSDEEVINGFEQ-------------IGKDVGNIDGVYHSIAFANMEDLRGRFSETSRE 112
Query: 182 G 182
G
Sbjct: 113 G 113
>pdb|3F1S|A Chain A, Crystal Structure Of Protein Z Complexed With Protein
Z-Dependent Inhibitor
Length = 385
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 9/23 (39%), Positives = 19/23 (82%)
Query: 252 IEEKGTDALAAALAQLSGFSRPP 274
++E+GT+A+A L++++ +S PP
Sbjct: 331 VDERGTEAVAGILSEITAYSMPP 353
>pdb|3GNS|A Chain A, Crystal Structure Of The Staphylococcus Aureus Enoyl-Acyl
Carrier Protein Reductase (Fabi) In Apo Form (One
Molecule In Au)
pdb|3GR6|A Chain A, Crystal Structure Of The Staphylococcus Aureus Enoyl-Acyl
Carrier Protein Reductase (Fabi) In Complex With Nadp
And Triclosan
pdb|3GR6|D Chain D, Crystal Structure Of The Staphylococcus Aureus Enoyl-Acyl
Carrier Protein Reductase (Fabi) In Complex With Nadp
And Triclosan
pdb|3GR6|G Chain G, Crystal Structure Of The Staphylococcus Aureus Enoyl-Acyl
Carrier Protein Reductase (Fabi) In Complex With Nadp
And Triclosan
pdb|3GR6|J Chain J, Crystal Structure Of The Staphylococcus Aureus Enoyl-Acyl
Carrier Protein Reductase (Fabi) In Complex With Nadp
And Triclosan
Length = 260
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 46/121 (38%), Gaps = 15/121 (12%)
Query: 63 KLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTK-RDADEVSLALTSIIASEALHGDI 121
K Y I A +KR+I + V + G +VFT K R E+ L + EA I
Sbjct: 11 KTYVIMGIA-NKRSIAFGVAKVLDQLGAKLVFTYRKERSRKELEKLLEQLNQPEAHLYQI 69
Query: 122 SQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRA 181
E +NGF Q G D+ N+D + H + E R T R
Sbjct: 70 DVQSDEEVINGFEQ-------------IGKDVGNIDGVYHSIAFANMEDLRGRFSETSRE 116
Query: 182 G 182
G
Sbjct: 117 G 117
>pdb|4ALL|A Chain A, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And Triclosan (P212121)
pdb|4ALL|B Chain B, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And Triclosan (P212121)
pdb|4ALL|C Chain C, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And Triclosan (P212121)
pdb|4ALL|D Chain D, Crystal Structure Of S. Aureus Fabi In Complex With Nadp
And Triclosan (P212121)
Length = 277
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 46/121 (38%), Gaps = 15/121 (12%)
Query: 63 KLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTK-RDADEVSLALTSIIASEALHGDI 121
K Y I A +KR+I + V + G +VFT K R E+ L + EA I
Sbjct: 28 KTYVIMGIA-NKRSIAFGVAKVLDQLGAKLVFTYRKERSRKELEKLLEQLNQPEAHLYQI 86
Query: 122 SQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRA 181
E +NGF Q G D+ N+D + H + E R T R
Sbjct: 87 DVQSDEEVINGFEQ-------------IGKDVGNIDGVYHSIAFANMEDLRGRFSETSRE 133
Query: 182 G 182
G
Sbjct: 134 G 134
>pdb|3H5C|A Chain A, X-Ray Structure Of Protein Z-Protein Z Inhibitor Complex
Length = 423
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 9/23 (39%), Positives = 19/23 (82%)
Query: 252 IEEKGTDALAAALAQLSGFSRPP 274
++E+GT+A+A L++++ +S PP
Sbjct: 369 VDERGTEAVAGILSEITAYSMPP 391
>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
Maritima
Length = 822
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 34/135 (25%), Positives = 53/135 (39%), Gaps = 15/135 (11%)
Query: 69 TTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEALHGDI---SQHQ 125
T I+ ++ Y KG +V T + E S L+S++ + + + H+
Sbjct: 455 TQKEKYEKIVEEIEKRYKKGQPVLVGTTSI----EKSELLSSMLKKKGIPHQVLNAKYHE 510
Query: 126 RERTLNGFRQGKFTVLVATDVAARGLDI---PNVD-----LIIHYELPNDPETFVHRSGR 177
+E + K V +AT++A RG DI P V II E GR
Sbjct: 511 KEAEIVAKAGQKGMVTIATNMAGRGTDIKLGPGVAELGGLCIIGTERHESRRIDNQLRGR 570
Query: 178 TGRAGKEGTAILMFT 192
GR G G +I +
Sbjct: 571 AGRQGDPGESIFFLS 585
>pdb|1NKT|A Chain A, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis Complex With Adpbs
pdb|1NKT|B Chain B, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis Complex With Adpbs
pdb|1NL3|A Chain A, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis In Apo Form
pdb|1NL3|B Chain B, Crystal Structure Of The Seca Protein Translocation Atpase
From Mycobacterium Tuberculosis In Apo Form
Length = 922
Score = 28.5 bits (62), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 42/87 (48%), Gaps = 6/87 (6%)
Query: 77 ILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQ 135
++ D+ YAKG ++ T + ++ +S T I L+ H++E T+
Sbjct: 449 VVDDVAERYAKGQPVLIGTTSVERSEYLSRQFTKRRIPHNVLNA--KYHEQEATIIAVAG 506
Query: 136 GKFTVLVATDVAARGLDI---PNVDLI 159
+ V VAT++A RG DI NVD +
Sbjct: 507 RRGGVTVATNMAGRGTDIVLGGNVDFL 533
>pdb|3DIN|A Chain A, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
pdb|3DIN|B Chain B, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
Length = 871
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 34/135 (25%), Positives = 53/135 (39%), Gaps = 15/135 (11%)
Query: 69 TTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEALHGDI---SQHQ 125
T I+ ++ Y KG +V T + E S L+S++ + + + H+
Sbjct: 455 TQKEKYEKIVEEIEKRYKKGQPVLVGTTSI----EKSELLSSMLKKKGIPHQVLNAKYHE 510
Query: 126 RERTLNGFRQGKFTVLVATDVAARGLDI---PNVD-----LIIHYELPNDPETFVHRSGR 177
+E + K V +AT++A RG DI P V II E GR
Sbjct: 511 KEAEIVAKAGQKGMVTIATNMAGRGTDIKLGPGVAELGGLCIIGTERHESRRIDNQLRGR 570
Query: 178 TGRAGKEGTAILMFT 192
GR G G +I +
Sbjct: 571 AGRQGDPGESIFFLS 585
>pdb|1P6A|A Chain A, Structural Basis For Variation In Asdenovirus Affinity For
The Cellular Receptor Car (S489y Mutant)
Length = 185
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 273 PPSSRSLINHEQGWVTLQLTRDSAFSRGFMSARSVMGFLSDVYPTAADEIGKIHIIADDR 332
PP + SLI +TL LT++ + G +S V G L ++ T +G +H++ D++
Sbjct: 14 PPPNCSLIQELDAKLTLCLTKNGSIVNGIVSLVGVKGNLLNIQSTTT-TVG-VHLVFDEQ 71
>pdb|1KAC|A Chain A, Knob Domain From Adenovirus Serotype 12 In Complex With
Domain 1 Of Its Cellular Receptor Car
pdb|1NOB|A Chain A, Knob Domain From Adenovirus Serotype 12
pdb|1NOB|B Chain B, Knob Domain From Adenovirus Serotype 12
pdb|1NOB|C Chain C, Knob Domain From Adenovirus Serotype 12
pdb|1NOB|D Chain D, Knob Domain From Adenovirus Serotype 12
pdb|1NOB|E Chain E, Knob Domain From Adenovirus Serotype 12
pdb|1NOB|F Chain F, Knob Domain From Adenovirus Serotype 12
Length = 185
Score = 28.1 bits (61), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 273 PPSSRSLINHEQGWVTLQLTRDSAFSRGFMSARSVMGFLSDVYPTAADEIGKIHIIADDR 332
PP + SLI +TL LT++ + G +S V G L ++ T +G +H++ D++
Sbjct: 14 PPPNCSLIQELDAKLTLCLTKNGSIVNGIVSLVGVKGNLLNIQSTTT-TVG-VHLVFDEQ 71
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
0.319 0.134 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,747,488
Number of Sequences: 62578
Number of extensions: 369916
Number of successful extensions: 1045
Number of sequences better than 100.0: 120
Number of HSP's better than 100.0 without gapping: 91
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 899
Number of HSP's gapped (non-prelim): 121
length of query: 379
length of database: 14,973,337
effective HSP length: 100
effective length of query: 279
effective length of database: 8,715,537
effective search space: 2431634823
effective search space used: 2431634823
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)