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= 012133
(470 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 = 155 bits (391), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 114/289 (39%), Positives = 168/289 (58%), Gaps = 17/289 (5%)
Query: 43 AISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQH 101
A+ + +LSDL+ V A + +VFT+TK + +E++ L + ++ALHGD+SQ
Sbjct: 7 AVPAPVRGRLEVLSDLLYV-ASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQG 65
Query: 102 QRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKE 161
+RER + FRQG+ VLVATDVAARGLDIP VDL++HY +P+ E + HRSGRTGRAG+
Sbjct: 66 ERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRG 125
Query: 162 GTAILMFTSSQRRTVRSLERDVGCKFEFVSPPVVEDVLESSAEQVVATLNGVHPESVEFF 221
G +L++ +RR V +LER VG +F+ V+PP E+VLE+ ++A L V + +
Sbjct: 126 GRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLLARLARVPEKDYRLY 185
Query: 222 TPTAQRLIEEKGTDALAAALAQLSGFSRPPSSRSLINHEQGWVT-------LQLTRDSAF 274
A RL E + +AA LA L G + + RSL+ E+GW T L L R A
Sbjct: 186 QDFAGRLFAEGRVEVVAALLALLLGGAP--AERSLLTGEEGWRTYKATGPRLSLPRLVAL 243
Query: 275 SRG-----FMSARSVMGFLSDVYPTAADEIGKIHIIADDRVQGAVFDLP 318
+G A + GF D+ P A E+ + + RV+G + ++P
Sbjct: 244 LKGQGLEVGKVAEAEGGFYVDLRPEARPEVAGLRLEPARRVEG-LLEIP 291
>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 (358), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 87/190 (45%), Positives = 123/190 (64%), Gaps = 2/190 (1%)
Query: 43 AISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQH 101
A+ + +LSDL+ V A + +VFT+TK + +E++ L + ++ALHGD+SQ
Sbjct: 10 AVPAPVRGRLEVLSDLLYV-ASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQG 68
Query: 102 QRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKE 161
+RER L FRQG+ VLVATDVAARGLDIP VDL++HY LP+ E + HRSGRTGRAG+
Sbjct: 69 ERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRG 128
Query: 162 GTAILMFTSSQRRTVRSLERDVGCKFEFVSPPVVEDVLESSAEQVVATLNGVHPESVEFF 221
G +L++ +RR V +LER VG +F+ V+PP E+VLE+ ++A L V + +
Sbjct: 129 GRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLLARLARVPEKDYRLY 188
Query: 222 TPTAQRLIEE 231
A RL E
Sbjct: 189 QDFAGRLFAE 198
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 124 bits (311), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 71/172 (41%), Positives = 99/172 (57%), Gaps = 7/172 (4%)
Query: 1 MLFSATMPSWVKKLSRKYLDNP--LNIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDL 58
M+FSAT P ++ L+R +LD L + VG+ E + + + + + KR+ L DL
Sbjct: 214 MMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKV----VWVEESDKRSFLLDL 269
Query: 59 ITVYAKGGKTIVFTQTKRDADEVS-LALTSIIASEALHGDISQHQRERTLNGFRQGKFTV 117
+ K T+VF +TK+ AD + A ++HGD SQ RE L+ FR GK +
Sbjct: 270 LNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPI 329
Query: 118 LVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFT 169
LVAT VAARGLDI NV +I+++LP+D E +VHR GRTGR G G A F
Sbjct: 330 LVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFN 381
>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 = 120 bits (302), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 66/182 (36%), Positives = 105/182 (57%), Gaps = 9/182 (4%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDLIT 60
+LFSAT P + L++KY + I K+ I+ + + L L+
Sbjct: 182 LLFSATXPREILNLAKKYXGDYSFIK------AKINANIEQSYVEVNENERFEALCRLLK 235
Query: 61 VYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLV 119
K +VF +TKRD E++ L I + A+HGD+SQ QRE+ + F+Q K +L+
Sbjct: 236 --NKEFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILI 293
Query: 120 ATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVRSL 179
ATDV +RG+D+ +++ +I+Y LP +PE++ HR GRTGRAGK+G AI + + + +R +
Sbjct: 294 ATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKLRYI 353
Query: 180 ER 181
ER
Sbjct: 354 ER 355
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 119 bits (297), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 68/202 (33%), Positives = 114/202 (56%), Gaps = 5/202 (2%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATS-KRTILSDLI 59
+L SAT+P + +++ K++ +P+ I + +DE EGIK + ++ K L DL
Sbjct: 193 VLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY 250
Query: 60 TVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVL 118
+ ++F TKR D ++ + ++HGD+ Q +RE + FR G VL
Sbjct: 251 DTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 309
Query: 119 VATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVRS 178
++TDV ARGLD+P V LII+Y+LPN+ E ++HR GR+GR G++G AI + R +R
Sbjct: 310 ISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRD 369
Query: 179 LERDVGCKFEFVSPPVVEDVLE 200
+E+ + + + V + +LE
Sbjct: 370 IEQYYSTQIDEMPMNVADLILE 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 = 119 bits (297), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 68/202 (33%), Positives = 114/202 (56%), Gaps = 5/202 (2%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATS-KRTILSDLI 59
+L SAT+P + +++ K++ +P+ I + +DE EGIK + ++ K L DL
Sbjct: 215 VLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY 272
Query: 60 TVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVL 118
+ ++F TKR D ++ + ++HGD+ Q +RE + FR G VL
Sbjct: 273 DTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 331
Query: 119 VATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVRS 178
++TDV ARGLD+P V LII+Y+LPN+ E ++HR GR+GR G++G AI + R +R
Sbjct: 332 ISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRD 391
Query: 179 LERDVGCKFEFVSPPVVEDVLE 200
+E+ + + + V + +LE
Sbjct: 392 IEQYYSTQIDEMPMNVADLILE 413
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 117 bits (294), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 65/183 (35%), Positives = 106/183 (57%), Gaps = 5/183 (2%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATS-KRTILSDLI 59
+L SAT+P V +++ K++ +P+ I + +DE EGIK + ++ K L DL
Sbjct: 178 VLISATLPHEVLEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY 235
Query: 60 TVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVL 118
+ ++F TKR D ++ + ++HGD+ Q +RE + FR G VL
Sbjct: 236 DTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 294
Query: 119 VATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVRS 178
++TDV ARGLD+P V LII+Y+LPN+ E ++HR GR+GR G++G A+ + R +R
Sbjct: 295 ISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRD 354
Query: 179 LER 181
+E+
Sbjct: 355 IEQ 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 = 117 bits (294), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 65/183 (35%), Positives = 106/183 (57%), Gaps = 5/183 (2%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATS-KRTILSDLI 59
+L SAT+P + +++ K++ +P+ I + +DE EGIK + ++ K L DL
Sbjct: 215 VLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY 272
Query: 60 TVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVL 118
+ ++F TKR D ++ + ++HGD+ Q +RE + FR G VL
Sbjct: 273 DTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 331
Query: 119 VATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVRS 178
++TDV ARGLD+P V LII+Y+LPN+ E ++HR GR+GR G++G AI + R +R
Sbjct: 332 ISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRD 391
Query: 179 LER 181
+E+
Sbjct: 392 IEQ 394
>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 = 117 bits (294), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 65/183 (35%), Positives = 106/183 (57%), Gaps = 5/183 (2%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATS-KRTILSDLI 59
+L SAT+P + +++ K++ +P+ I + +DE EGIK + ++ K L DL
Sbjct: 214 VLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY 271
Query: 60 TVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVL 118
+ ++F TKR D ++ + ++HGD+ Q +RE + FR G VL
Sbjct: 272 DTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 330
Query: 119 VATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVRS 178
++TDV ARGLD+P V LII+Y+LPN+ E ++HR GR+GR G++G AI + R +R
Sbjct: 331 ISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRD 390
Query: 179 LER 181
+E+
Sbjct: 391 IEQ 393
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 117 bits (293), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 64/183 (34%), Positives = 106/183 (57%), Gaps = 5/183 (2%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATS-KRTILSDLI 59
+L SAT+P + +++ K++ +P+ I + +DE EGIK + ++ K L DL
Sbjct: 178 VLISATLPHEILEMTNKFMTDPIRI--LVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY 235
Query: 60 TVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVL 118
+ ++F TKR D ++ + ++HGD+ Q +RE + FR G VL
Sbjct: 236 DTLTIT-QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVL 294
Query: 119 VATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVRS 178
++TDV ARGLD+P V LII+Y+LPN+ E ++HR GR+GR G++G A+ + R +R
Sbjct: 295 ISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRD 354
Query: 179 LER 181
+E+
Sbjct: 355 IEQ 357
>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 = 112 bits (280), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 66/179 (36%), Positives = 107/179 (59%), Gaps = 9/179 (5%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPL--NIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDL 58
++FSAT P +++++ ++L N + I +VG + + I Y ++ A KR+ L ++
Sbjct: 240 LMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTI--YEVNKYA--KRSKLIEI 295
Query: 59 ITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTV 117
++ A G TIVF +TKR AD ++ L+ + ++HGD Q QRE+ L F+ G V
Sbjct: 296 LSEQADG--TIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKV 353
Query: 118 LVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTV 176
L+AT VA+RGLDI N+ +I+Y++P+ + +VHR GRTGR G G A F + R +
Sbjct: 354 LIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAI 412
>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 = 107 bits (268), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 59/135 (43%), Positives = 78/135 (57%), Gaps = 1/135 (0%)
Query: 36 AEGIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVS-LALTSIIASEAL 94
+E I + + KR+ L DL+ K T+VF +TK+ AD + A ++
Sbjct: 17 SENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSI 76
Query: 95 HGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGR 154
HGD SQ RE L+ FR GK +LVAT VAARGLDI NV +I+++LP+D E +VHR GR
Sbjct: 77 HGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGR 136
Query: 155 TGRAGKEGTAILMFT 169
TGR G G A F
Sbjct: 137 TGRVGNLGLATSFFN 151
>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 = 107 bits (266), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 65/177 (36%), Positives = 101/177 (57%), Gaps = 19/177 (10%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIK-LYAISTTATSKRTILSDLI 59
+LFSAT V++ ++K + N ++L N E + IK LY K +L++L
Sbjct: 181 VLFSATFADAVRQYAKKIVPNANTLELQTN--EVNVDAIKQLYMDCKNEADKFDVLTELY 238
Query: 60 TVYAKGGKTIVFTQTKRDADEVSLALTSIIASEA-----LHGDISQHQRERTLNGFRQGK 114
V G +I+F TK+ A+ L + SE LHGD+ +R+R ++ FR+G+
Sbjct: 239 GVMTIGS-SIIFVATKKTAN----VLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGR 293
Query: 115 FTVLVATDVAARGLDIPNVDLIIHYELPN------DPETFVHRSGRTGRAGKEGTAI 165
VL+ T+V ARG+DIP V ++++Y+LP DP T++HR GRTGR G++G AI
Sbjct: 294 SKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAI 350
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 105 bits (263), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 64/177 (36%), Positives = 101/177 (57%), Gaps = 19/177 (10%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIK-LYAISTTATSKRTILSDLI 59
+LFSAT V++ ++K + N ++L N E + IK LY K +L++L
Sbjct: 181 VLFSATFADAVRQYAKKIVPNANTLELQTN--EVNVDAIKQLYMDCKNEADKFDVLTELY 238
Query: 60 TVYAKGGKTIVFTQTKRDADEVSLALTSIIASEA-----LHGDISQHQRERTLNGFRQGK 114
+ G +I+F TK+ A+ L + SE LHGD+ +R+R ++ FR+G+
Sbjct: 239 GLMTIGS-SIIFVATKKTAN----VLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGR 293
Query: 115 FTVLVATDVAARGLDIPNVDLIIHYELPN------DPETFVHRSGRTGRAGKEGTAI 165
VL+ T+V ARG+DIP V ++++Y+LP DP T++HR GRTGR G++G AI
Sbjct: 294 SKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAI 350
>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 = 2e-22, Method: Compositional matrix adjust.
Identities = 52/143 (36%), Positives = 88/143 (61%), Gaps = 2/143 (1%)
Query: 43 AISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQH 101
I +K ++L D++ I+F +TK ++++ L + + +HG + Q
Sbjct: 14 VIQVREENKFSLLKDVLMT-ENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQE 72
Query: 102 QRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKE 161
R +N F++G++ LVATDVAARG+DI N+ L+I+Y+LP + E++VHR+GRTGRAG +
Sbjct: 73 DRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNK 132
Query: 162 GTAILMFTSSQRRTVRSLERDVG 184
G AI T+ ++R + +E +G
Sbjct: 133 GKAISFVTAFEKRFLADIEEYIG 155
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 97.4 bits (241), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 58/187 (31%), Positives = 101/187 (54%), Gaps = 9/187 (4%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDLIT 60
+LFSAT P VK+ K+L P I+L+ +E +GI Y +R L L T
Sbjct: 198 LLFSATFPLTVKEFMVKHLHKPYEINLM---EELTLKGITQYY---AFVEERQKLHCLNT 251
Query: 61 VYAKG--GKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTV 117
+++K + I+F + + ++ +T + + H + Q +R + + FRQGK
Sbjct: 252 LFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRT 311
Query: 118 LVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVR 177
LV +D+ RG+DI V+++I+++ P ET++HR GR+GR G G AI + + R +
Sbjct: 312 LVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLY 371
Query: 178 SLERDVG 184
+E+++G
Sbjct: 372 KIEQELG 378
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 64/182 (35%), Positives = 107/182 (58%), Gaps = 5/182 (2%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATS-KRTILSDLI 59
+L SATMPS V ++++K++ +P+ I + ++E EGI+ + I+ K L DL
Sbjct: 218 VLLSATMPSDVLEVTKKFMRDPIRI--LVKKEELTLEGIRQFYINVEREEWKLDTLCDLY 275
Query: 60 TVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVL 118
+ ++F T+R D ++ + + A+HGD+ Q +R+ + FR G VL
Sbjct: 276 ETLTIT-QAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVL 334
Query: 119 VATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVRS 178
+ TD+ ARG+D+ V L+I+Y+LP + E ++HR GR GR G++G AI M T +RT+R
Sbjct: 335 ITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRD 394
Query: 179 LE 180
+E
Sbjct: 395 IE 396
>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 = 96.7 bits (239), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 64/182 (35%), Positives = 107/182 (58%), Gaps = 5/182 (2%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATS-KRTILSDLI 59
+L SATMPS V ++++K++ +P+ I + ++E EGI+ + I+ K L DL
Sbjct: 192 VLLSATMPSDVLEVTKKFMRDPIRI--LVKKEELTLEGIRQFYINVEREEWKLDTLCDLY 249
Query: 60 TVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVL 118
+ ++F T+R D ++ + + A+HGD+ Q +R+ + FR G VL
Sbjct: 250 ETLTIT-QAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVL 308
Query: 119 VATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVRS 178
+ TD+ ARG+D+ V L+I+Y+LP + E ++HR GR GR G++G AI M T +RT+R
Sbjct: 309 ITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRD 368
Query: 179 LE 180
+E
Sbjct: 369 IE 370
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 95.9 bits (237), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 61/173 (35%), Positives = 100/173 (57%), Gaps = 11/173 (6%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIK-LYAISTTATSKRTILSDLI 59
+LFSAT V+K + ++ N I L +E EGIK LY + K +L +L
Sbjct: 295 VLFSATFSERVEKYAERFAPNANEIRL--KTEELSVEGIKQLYMDCQSEEHKYNVLVELY 352
Query: 60 TVYAKGGKTIVFTQTKRDADEVSLALTSIIASEA-LHGDISQHQRERTLNGFRQGKFTVL 118
+ G ++I+F + K A+E++ +T+ + A L G++ QR+ ++ FR G VL
Sbjct: 353 GLLTIG-QSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVL 411
Query: 119 VATDVAARGLDIPNVDLIIHYELP------NDPETFVHRSGRTGRAGKEGTAI 165
V T+V ARG+D+ V+L+++Y++P DP+T++HR GRTGR G+ G +I
Sbjct: 412 VTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSI 464
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 95.1 bits (235), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 53/158 (33%), Positives = 87/158 (55%), Gaps = 30/158 (18%)
Query: 21 NPLNIDLVG-------NQDEKLAEGIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQ 73
N +N+D + N+ +K +LY + T +S +I V K +++ +
Sbjct: 2 NEVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSS-------IIFVATKKTANVLYGK 54
Query: 74 TKRDADEVSLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNV 133
K + EVS+ LHGD+ +R+R ++ FR+G+ VL+ T+V ARG+DIP V
Sbjct: 55 LKSEGHEVSI----------LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTV 104
Query: 134 DLIIHYELPN------DPETFVHRSGRTGRAGKEGTAI 165
++++Y+LP DP T++HR GRTGR G++G AI
Sbjct: 105 SMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAI 142
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 60/168 (35%), Positives = 93/168 (55%), Gaps = 19/168 (11%)
Query: 2 LFSATMPSWVKKLSRKYLDNPLNIDL---VGNQDEKLAEGIKLYAISTTATSKRTILSDL 58
LFSAT+P ++K+ + ++ N I+ + N + K + SK L +
Sbjct: 165 LFSATIPEEIRKVVKDFITNYEEIEACIGLANVEHKFVH------VKDDWRSKVQALRE- 217
Query: 59 ITVYAKGGKTIVFTQTK-RDADEVSLALTSIIASEALHGDISQHQRERTLNGFRQGKFTV 117
K IVF +T+ R A V L +I L GD+ Q R R ++ FR+G++ +
Sbjct: 218 ----NKDKGVIVFVRTRNRVAKLVRLFDNAI----ELRGDLPQSVRNRNIDAFREGEYDM 269
Query: 118 LVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 165
L+ TDVA+RGLDIP V+ +I+++ P D T++HR GRTGR G++G AI
Sbjct: 270 LITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAI 317
>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 = 94.0 bits (232), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 53/158 (33%), Positives = 86/158 (54%), Gaps = 30/158 (18%)
Query: 21 NPLNIDLVG-------NQDEKLAEGIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQ 73
N +N+D + N+ +K +LY + T +S +I V K +++ +
Sbjct: 3 NEVNVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSS-------IIFVATKKTANVLYGK 55
Query: 74 TKRDADEVSLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNV 133
K + EVS+ LHGD+ +R+R ++ FR+G+ VL+ T+V ARG+DIP V
Sbjct: 56 LKSEGHEVSI----------LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTV 105
Query: 134 DLIIHYELPN------DPETFVHRSGRTGRAGKEGTAI 165
+++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 = 93.2 bits (230), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 53/158 (33%), Positives = 86/158 (54%), Gaps = 30/158 (18%)
Query: 21 NPLNIDLVG-------NQDEKLAEGIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQ 73
N +N+D + N+ +K +LY + T +S +I V K +++ +
Sbjct: 4 NEVNVDAIKQLYXDCKNEADKFDVLTELYGLXTIGSS-------IIFVATKKTANVLYGK 56
Query: 74 TKRDADEVSLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNV 133
K + EVS+ LHGD+ +R+R ++ FR+G+ VL+ T+V ARG+DIP V
Sbjct: 57 LKSEGHEVSI----------LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTV 106
Query: 134 DLIIHYELPN------DPETFVHRSGRTGRAGKEGTAI 165
+++Y+LP DP T++HR GRTGR G++G AI
Sbjct: 107 SXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAI 144
>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 = 91.3 bits (225), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 63/193 (32%), Positives = 109/193 (56%), Gaps = 11/193 (5%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATSKR----TILS 56
+L SATMP+ V +++ K++ NP+ I + +DE EGIK + ++ + T L
Sbjct: 198 VLLSATMPNDVLEVTTKFMRNPVRI--LVKKDELTLEGIKQFYVNVEEEEYKYECLTDLY 255
Query: 57 DLITVYAKGGKTIVFTQTKRDADEVSLAL-TSIIASEALHGDISQHQRERTLNGFRQGKF 115
D I+V + ++F T+R +E++ L A++ D+ Q +R+ + FR G
Sbjct: 256 DSISV----TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSS 311
Query: 116 TVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRT 175
+L++TD+ ARG+D+ V L+I+Y+LP + E ++HR GR GR G++G AI T+
Sbjct: 312 RILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGA 371
Query: 176 VRSLERDVGCKFE 188
+R LE+ + E
Sbjct: 372 MRELEKFYSTQIE 384
>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 = 90.1 bits (222), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 60/186 (32%), Positives = 99/186 (53%), Gaps = 15/186 (8%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDL-- 58
+LFSAT V K ++K + +P N+ + ++E L + Y + ++ K L +L
Sbjct: 204 LLFSATFEDSVWKFAQKVVPDP-NVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYG 262
Query: 59 -ITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEAL-HGDISQHQRERTLNGFRQGKFT 116
IT+ + ++F T++ A ++ L+ AL G++ QR + FR+GK
Sbjct: 263 AITI----AQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEK 318
Query: 117 VLVATDVAARGLDIPNVDLIIHYELPNDP------ETFVHRSGRTGRAGKEGTAILMFTS 170
VLV T+V ARG+D+ V ++I+++LP D ET++HR GRTGR GK G A+ M S
Sbjct: 319 VLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDS 378
Query: 171 SQRRTV 176
+
Sbjct: 379 KHSMNI 384
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 90.1 bits (222), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 60/186 (32%), Positives = 99/186 (53%), Gaps = 15/186 (8%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDL-- 58
+LFSAT V K ++K + +P N+ + ++E L + Y + ++ K L +L
Sbjct: 220 LLFSATFEDSVWKFAQKVVPDP-NVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYG 278
Query: 59 -ITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEAL-HGDISQHQRERTLNGFRQGKFT 116
IT+ + ++F T++ A ++ L+ AL G++ QR + FR+GK
Sbjct: 279 AITI----AQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEK 334
Query: 117 VLVATDVAARGLDIPNVDLIIHYELPNDP------ETFVHRSGRTGRAGKEGTAILMFTS 170
VLV T+V ARG+D+ V ++I+++LP D ET++HR GRTGR GK G A+ M S
Sbjct: 335 VLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDS 394
Query: 171 SQRRTV 176
+
Sbjct: 395 KHSMNI 400
>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
pdb|3FMP|D Chain D, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 479
Score = 90.1 bits (222), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 60/186 (32%), Positives = 99/186 (53%), Gaps = 15/186 (8%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDL-- 58
+LFSAT V K ++K + +P N+ + ++E L + Y + ++ K L +L
Sbjct: 271 LLFSATFEDSVWKFAQKVVPDP-NVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYG 329
Query: 59 -ITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEAL-HGDISQHQRERTLNGFRQGKFT 116
IT+ + ++F T++ A ++ L+ AL G++ QR + FR+GK
Sbjct: 330 AITI----AQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEK 385
Query: 117 VLVATDVAARGLDIPNVDLIIHYELPNDP------ETFVHRSGRTGRAGKEGTAILMFTS 170
VLV T+V ARG+D+ V ++I+++LP D ET++HR GRTGR GK G A+ M S
Sbjct: 386 VLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDS 445
Query: 171 SQRRTV 176
+
Sbjct: 446 KHSMNI 451
>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 = 90.1 bits (222), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 60/186 (32%), Positives = 99/186 (53%), Gaps = 15/186 (8%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDL-- 58
+LFSAT V K ++K + +P N+ + ++E L + Y + ++ K L +L
Sbjct: 241 LLFSATFEDSVWKFAQKVVPDP-NVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYG 299
Query: 59 -ITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEAL-HGDISQHQRERTLNGFRQGKFT 116
IT+ + ++F T++ A ++ L+ AL G++ QR + FR+GK
Sbjct: 300 AITI----AQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEK 355
Query: 117 VLVATDVAARGLDIPNVDLIIHYELPNDP------ETFVHRSGRTGRAGKEGTAILMFTS 170
VLV T+V ARG+D+ V ++I+++LP D ET++HR GRTGR GK G A+ M S
Sbjct: 356 VLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDS 415
Query: 171 SQRRTV 176
+
Sbjct: 416 KHSMNI 421
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 88.6 bits (218), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 47/165 (28%), Positives = 84/165 (50%), Gaps = 1/165 (0%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDLIT 60
M+FSAT+ ++ + RK++ +P+ I V ++ + G++ Y + K L DL+
Sbjct: 188 MMFSATLSKEIRPVCRKFMQDPMEI-FVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLD 246
Query: 61 VYAKGGKTIVFTQTKRDADEVSLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVA 120
V I +R L + + A+H + Q +R F+ + +LVA
Sbjct: 247 VLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVA 306
Query: 121 TDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 165
T++ RG+DI V++ +Y++P D +T++HR R GR G +G AI
Sbjct: 307 TNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAI 351
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 88.6 bits (218), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 47/165 (28%), Positives = 84/165 (50%), Gaps = 1/165 (0%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDLIT 60
M+FSAT+ ++ + RK++ +P+ I V ++ + G++ Y + K L DL+
Sbjct: 188 MMFSATLSKEIRPVCRKFMQDPMEI-FVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLD 246
Query: 61 VYAKGGKTIVFTQTKRDADEVSLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVA 120
V I +R L + + A+H + Q +R F+ + +LVA
Sbjct: 247 VLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVA 306
Query: 121 TDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 165
T++ RG+DI V++ +Y++P D +T++HR R GR G +G AI
Sbjct: 307 TNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAI 351
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 88.2 bits (217), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 47/165 (28%), Positives = 84/165 (50%), Gaps = 1/165 (0%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDLIT 60
M+FSAT+ ++ + RK++ +P+ I V ++ + G++ Y + K L DL+
Sbjct: 187 MMFSATLSKEIRPVCRKFMQDPMEI-FVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLD 245
Query: 61 VYAKGGKTIVFTQTKRDADEVSLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVA 120
V I +R L + + A+H + Q +R F+ + +LVA
Sbjct: 246 VLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVA 305
Query: 121 TDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 165
T++ RG+DI V++ +Y++P D +T++HR R GR G +G AI
Sbjct: 306 TNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAI 350
>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain
pdb|2P6N|B Chain B, Human Dead-box Rna Helicase Ddx41, Helicase Domain
Length = 191
Score = 86.7 bits (213), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 40/98 (40%), Positives = 61/98 (62%), Gaps = 1/98 (1%)
Query: 68 TIVFTQTKRDADEV-SLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAAR 126
++F + K D D + L + + A+HG Q +R + + FR+GK VLVATDVA++
Sbjct: 57 VLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASK 116
Query: 127 GLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTA 164
GLD P + +I+Y++P + E +VHR GRTG +G G A
Sbjct: 117 GLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIA 154
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 85.5 bits (210), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 62/193 (32%), Positives = 105/193 (54%), Gaps = 11/193 (5%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATSKR----TILS 56
+L SAT P+ V +++ K+ NP+ I + +DE EGIK + ++ + T L
Sbjct: 197 VLLSATXPNDVLEVTTKFXRNPVRI--LVKKDELTLEGIKQFYVNVEEEEYKYECLTDLY 254
Query: 57 DLITVYAKGGKTIVFTQTKRDADEVSLAL-TSIIASEALHGDISQHQRERTLNGFRQGKF 115
D I+V + ++F T+R +E++ L A++ D+ Q +R+ FR G
Sbjct: 255 DSISV----TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSS 310
Query: 116 TVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRT 175
+L++TD+ ARG+D+ V L+I+Y+LP + E ++HR GR GR G++G AI T+
Sbjct: 311 RILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGA 370
Query: 176 VRSLERDVGCKFE 188
R LE+ + E
Sbjct: 371 XRELEKFYSTQIE 383
>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 = 82.8 bits (203), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 47/165 (28%), Positives = 87/165 (52%), Gaps = 5/165 (3%)
Query: 21 NPLNIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADE 80
+P I+L+ +E +G+ Y T K L+ L + + ++I+F + + +
Sbjct: 4 DPYEINLM---EELTLKGVTQYYAYVTERQKVHCLNTLFSR-LQINQSIIFCNSSQRVEL 59
Query: 81 VSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHY 139
++ ++ + + +H + Q R R + FR G LV TD+ RG+DI V+++I++
Sbjct: 60 LAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINF 119
Query: 140 ELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRTVRSLERDVG 184
+ P ET++HR GR+GR G G AI + T R ++S+E +G
Sbjct: 120 DFPKLAETYLHRIGRSGRFGHLGLAINLITYDDRFNLKSIEEQLG 164
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 82.4 bits (202), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 59/197 (29%), Positives = 98/197 (49%), Gaps = 23/197 (11%)
Query: 1 MLFSATMPSWVKKLSRKYLDNP--LNIDLVGNQDEKLAEGI-------KLYAISTTATSK 51
+LFSAT+ V+KL+ ++ L +D V + + E I + +A S A +
Sbjct: 217 LLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVE 276
Query: 52 RTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSIIASE--------ALHGDISQHQR 103
+ I K I+F T + + L SI+ +E HG I+Q++R
Sbjct: 277 H--IKKQIKERDSNYKAIIFAPTVK----FTSFLCSILKNEFKKDLPILEFHGKITQNKR 330
Query: 104 ERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGT 163
+ F++ + +LV TDV ARG+D PNV ++ +P++ ++HR GRT R+GKEG+
Sbjct: 331 TSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGS 390
Query: 164 AILMFTSSQRRTVRSLE 180
++L + VR LE
Sbjct: 391 SVLFICKDELPFVRELE 407
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 82.4 bits (202), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 56/195 (28%), Positives = 95/195 (48%), Gaps = 19/195 (9%)
Query: 1 MLFSATMPSWVKKLSRKYLDNP--LNIDLVGNQDEKLAEGIKLYAISTTATSKRTI---- 54
+LFSAT+ V+KL+ ++ L +D V + + E I + + +
Sbjct: 217 LLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVE 276
Query: 55 -LSDLITVYAKGGKTIVFTQTKRDADEVSLALTSIIASE--------ALHGDISQHQRER 105
+ I K I+F T + + L SI+ +E HG I+Q++R
Sbjct: 277 HIKKQIKERDSNYKAIIFAPTVK----FTSFLCSILKNEFKKDLPILEFHGKITQNKRTS 332
Query: 106 TLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 165
+ F++ + +LV TDV ARG+D PNV ++ +P++ ++HR GRT R+GKEG+++
Sbjct: 333 LVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSV 392
Query: 166 LMFTSSQRRTVRSLE 180
L + VR LE
Sbjct: 393 LFICKDELPFVRELE 407
>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 = 82.4 bits (202), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 59/197 (29%), Positives = 98/197 (49%), Gaps = 23/197 (11%)
Query: 1 MLFSATMPSWVKKLSRKYLDNP--LNIDLVGNQDEKLAEGI-------KLYAISTTATSK 51
+LFSAT+ V+KL+ ++ L +D V + + E I + +A S A +
Sbjct: 268 LLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVE 327
Query: 52 RTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSIIASE--------ALHGDISQHQR 103
+ I K I+F T + + L SI+ +E HG I+Q++R
Sbjct: 328 H--IKKQIKERDSNYKAIIFAPTVK----FTSFLCSILKNEFKKDLPILEFHGKITQNKR 381
Query: 104 ERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGT 163
+ F++ + +LV TDV ARG+D PNV ++ +P++ ++HR GRT R+GKEG+
Sbjct: 382 TSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGS 441
Query: 164 AILMFTSSQRRTVRSLE 180
++L + VR LE
Sbjct: 442 SVLFICKDELPFVRELE 458
>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 = 1e-15, Method: Compositional matrix adjust.
Identities = 40/100 (40%), Positives = 65/100 (65%), Gaps = 1/100 (1%)
Query: 67 KTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAA 125
++IVF + + E++ L I + L G++ Q +R + +G+ VLVATDVAA
Sbjct: 32 RSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAA 91
Query: 126 RGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 165
RG+DIP+V + ++++P +T++HR GRT RAG++GTAI
Sbjct: 92 RGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAI 131
>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 = 79.7 bits (195), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 41/110 (37%), Positives = 67/110 (60%), Gaps = 7/110 (6%)
Query: 66 GKTIVFTQTKRDADEVSLALTSIIASEAL-HGDISQHQRERTLNGFRQGKFTVLVATDVA 124
G+ I+F QT+R+A +++ + +L G+++ QR + FR GK VL+ T+V
Sbjct: 35 GQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVC 94
Query: 125 ARGLDIPNVDLIIHYELPN------DPETFVHRSGRTGRAGKEGTAILMF 168
ARG+D+ V ++++++LP D ET++HR GRTGR GK+G A M
Sbjct: 95 ARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMI 144
>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 = 79.3 bits (194), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 34/87 (39%), Positives = 55/87 (63%)
Query: 94 LHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSG 153
HG I+Q++R + F++ + +LV TDV ARG+D PNV ++ +P++ ++HR G
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 154 RTGRAGKEGTAILMFTSSQRRTVRSLE 180
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 = 79.3 bits (194), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 34/87 (39%), Positives = 55/87 (63%)
Query: 94 LHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSG 153
HG I+Q++R + F++ + +LV TDV ARG+D PNV ++ +P++ ++HR G
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 154 RTGRAGKEGTAILMFTSSQRRTVRSLE 180
RT R+GKEG+++L + VR LE
Sbjct: 126 RTARSGKEGSSVLFICKDELPFVRELE 152
>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 = 79.3 bits (194), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 34/87 (39%), Positives = 55/87 (63%)
Query: 94 LHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSG 153
HG I+Q++R + F++ + +LV TDV ARG+D PNV ++ +P++ ++HR G
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 154 RTGRAGKEGTAILMFTSSQRRTVRSLE 180
RT R+GKEG+++L + VR LE
Sbjct: 126 RTARSGKEGSSVLFICKDELPFVRELE 152
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 72.0 bits (175), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 50/157 (31%), Positives = 86/157 (54%), Gaps = 9/157 (5%)
Query: 37 EGIKLYAISTTATSKR----TILSDLITVYAKGGKTIVFTQTKRDADEVSLAL-TSIIAS 91
EGIK + ++ + T L D I+V + ++F T+R +E++ L
Sbjct: 2 EGIKQFYVNVEEEEYKYECLTDLYDSISV----TQAVIFCNTRRKVEELTTKLRNDKFTV 57
Query: 92 EALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHR 151
A++ D+ Q +R+ + FR G +L++TD+ ARG+D+ V L+I+Y+LP + E ++HR
Sbjct: 58 SAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHR 117
Query: 152 SGRTGRAGKEGTAILMFTSSQRRTVRSLERDVGCKFE 188
GR GR G++G AI T+ +R LE+ + E
Sbjct: 118 IGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIE 154
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 68.2 bits (165), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 37/128 (28%), Positives = 62/128 (48%)
Query: 38 GIKLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSIIASEALHGD 97
G++ Y + K L DL+ V I +R L + + A+H
Sbjct: 5 GLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRG 64
Query: 98 ISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGR 157
+ Q +R F+ + +LVAT++ RG+DI V++ +Y++P D +T++HR R GR
Sbjct: 65 MPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGR 124
Query: 158 AGKEGTAI 165
G +G AI
Sbjct: 125 FGTKGLAI 132
>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 = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 38/113 (33%), Positives = 55/113 (48%), Gaps = 9/113 (7%)
Query: 64 KGGKTIVFTQTKRDADEVSLALTS-------IIASEALHGD--ISQHQRERTLNGFRQGK 114
+ K IVFT + A ++ L + + D +SQ +++ L+ F +G+
Sbjct: 360 QNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGE 419
Query: 115 FTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILM 167
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: 58 LITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFT 116
LI KG I++ +++D+++V+++L ++ I + A H ++ + + +
Sbjct: 260 LINGRYKGQSGIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQ 319
Query: 117 VLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMF 168
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: 64 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 122
+G I++ ++ ++ + L S I++ A H + + R F++ ++VAT
Sbjct: 235 RGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATV 294
Query: 123 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMF 168
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 = 7e-08, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 54/106 (50%), Gaps = 1/106 (0%)
Query: 64 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 122
+G I++ ++ ++ + L S I++ A H + + R F++ ++VAT
Sbjct: 235 RGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATV 294
Query: 123 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAILMF 168
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 = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 47/79 (59%), Gaps = 9/79 (11%)
Query: 94 LHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETF----V 149
+HG +SQ +++R + F +G++ +LV+T V G+D+P ++++ +PE F +
Sbjct: 619 MHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMV----IENPERFGLAQL 674
Query: 150 HR-SGRTGRAGKEGTAILM 167
H+ GR GR G+E L+
Sbjct: 675 HQLRGRVGRGGQEAYCFLV 693
>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 = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 41/147 (27%), Positives = 71/147 (48%), Gaps = 21/147 (14%)
Query: 49 TSKRTILSDLITVYAKGGKTIVFTQTKRDADEVSLALT-----SIIASEALH-------- 95
T R + + T + + I+FT+T++ A +S +T + + +A H
Sbjct: 384 TKLRNTIMEQYTRTEESARGIIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSS 443
Query: 96 --GDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSG 153
++Q++++ ++ FR GK +L+AT VA GLDI +++I Y L + V G
Sbjct: 444 EFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARG 503
Query: 154 RTGRAGKEGTAILMFTSS----QRRTV 176
R RA E T +L+ S +R TV
Sbjct: 504 R-ARAD-ESTYVLVAHSGSGVIERETV 528
>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 = 49.3 bits (116), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 36/112 (32%), Positives = 54/112 (48%), Gaps = 21/112 (18%)
Query: 95 HGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLII-----HYELPNDPETFV 149
HG + + + ER +N F +F VLV T + G+DIP + II H+ L +
Sbjct: 845 HGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQ-----L 899
Query: 150 HR-SGRTGRAGKEGTAIL-------MFTSSQRR--TVRSLERDVGCKFEFVS 191
H+ GR GR+ + A L M T +Q+R + SLE D+G F +
Sbjct: 900 HQLRGRVGRSHHQAYAWLLTPHPKAMTTDAQKRLEAIASLE-DLGAGFALAT 950
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 35/156 (22%), Positives = 72/156 (46%), Gaps = 9/156 (5%)
Query: 24 NIDLVGNQDEKLAEGIKLYA----ISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDAD 79
I + DE+ E ++ + I+ + +K L +++ + K K I+FT+ +
Sbjct: 305 KIVMASGYDERAYEALRAWEEARRIAFNSKNKIRKLREILERHRKD-KIIIFTRH----N 359
Query: 80 EVSLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHY 139
E+ ++ + A+ S+ +RE L GFR G+F +V++ V G+D+P+ ++ +
Sbjct: 360 ELVYRISKVFLIPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIM 419
Query: 140 ELPNDPETFVHRSGRTGRAGKEGTAILMFTSSQRRT 175
++ 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 = 2e-05, Method: Compositional matrix adjust.
Identities = 33/141 (23%), Positives = 67/141 (47%), Gaps = 9/141 (6%)
Query: 24 NIDLVGNQDEKLAEGIKLYA----ISTTATSKRTILSDLITVYAKGGKTIVFTQTKRDAD 79
I + DE+ E ++ + I+ + +K L +++ + K K I+FT+ +
Sbjct: 70 KIVMASGYDERAYEALRAWEEARRIAFNSKNKIRKLREILERHRKD-KIIIFTRH----N 124
Query: 80 EVSLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHY 139
E+ ++ + A+ S+ +RE L GFR G+F +V++ V G+D+P+ ++ +
Sbjct: 125 ELVYRISKVFLIPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIM 184
Query: 140 ELPNDPETFVHRSGRTGRAGK 160
++ R GR R K
Sbjct: 185 SGSGSAREYIQRLGRILRPSK 205
>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 = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 57/111 (51%), Gaps = 11/111 (9%)
Query: 64 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 122
+ + +V T TK+ +++++ L I I LH +I +R + R GK+ VLV +
Sbjct: 450 RNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGIN 509
Query: 123 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGK--EGTAIL 166
+ 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 = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 57/111 (51%), Gaps = 11/111 (9%)
Query: 64 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 122
+ + +V T TK+ +++++ L I I LH +I +R + R GK+ VLV +
Sbjct: 444 RNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGIN 503
Query: 123 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGK--EGTAIL 166
+ GLDIP V L+ L D E F+ RS R+ GRA + EG I+
Sbjct: 504 LLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAARNAEGRVIM 551
>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 = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 58/115 (50%), Gaps = 10/115 (8%)
Query: 64 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 122
+ +T+V T TK+ A++++ L I LH +I +R + R GK+ VLV +
Sbjct: 444 RNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGIN 503
Query: 123 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGKEGTA-ILMFTSS 171
+ GLDIP V L+ L D E F+ RS R+ GRA + ++M+ +
Sbjct: 504 LLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAARNANGHVIMYADT 555
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 58/115 (50%), Gaps = 10/115 (8%)
Query: 64 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 122
+ +T+V T TK+ A++++ L I LH +I +R + R GK+ VLV +
Sbjct: 443 RNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGIN 502
Query: 123 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGKEGTA-ILMFTSS 171
+ 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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 58/115 (50%), Gaps = 10/115 (8%)
Query: 64 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 122
+ +T+V T TK+ A++++ L I LH +I +R + R GK+ VLV +
Sbjct: 444 RNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGIN 503
Query: 123 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGKEGTA-ILMFTSS 171
+ GLDIP V L+ L D E F+ RS R+ GRA + ++M+ +
Sbjct: 504 LLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAARNANGHVIMYADT 555
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 58/115 (50%), Gaps = 10/115 (8%)
Query: 64 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 122
+ +T+V T TK+ A++++ L I LH +I +R + R GK+ VLV +
Sbjct: 444 RNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGIN 503
Query: 123 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGKEGTA-ILMFTSS 171
+ GLDIP V L+ L D E F+ RS R+ GRA + ++M+ +
Sbjct: 504 LLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAARNANGHVIMYADT 555
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 58/115 (50%), Gaps = 10/115 (8%)
Query: 64 KGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQGKFTVLVATD 122
+ +T+V T TK+ A++++ L I LH +I +R + R GK+ VLV +
Sbjct: 469 RNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGIN 528
Query: 123 VAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGKEGTA-ILMFTSS 171
+ GLDIP V L+ L D E F+ RS R+ GRA + ++M+ +
Sbjct: 529 LLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAARNANGHVIMYADT 580
>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 = 2e-04, Method: Compositional matrix adjust.
Identities = 39/155 (25%), Positives = 70/155 (45%), Gaps = 34/155 (21%)
Query: 2 LFSATMPSWVKKLSRKYLDNPLNIDLVGNQDEKLAEGIKLYAISTTATSKRTILSDLITV 61
+F T+ KK+ +K +NP ++EKL T R + + T
Sbjct: 106 IFLXTLFLRNKKILKKLAENP------EYENEKL-------------TKLRNTIXEHFTR 146
Query: 62 YAKGGKTIVFTQTKRDADEVSLALT-----SIIASEALH----------GDISQHQRERT 106
+ + I+FT+T++ A +S +T + + +A H +Q+++
Sbjct: 147 TEESARGIIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAGHSSEFKPXTQNEQREV 206
Query: 107 LNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYEL 141
++ FR GK +L+AT VA GLDI +++I Y L
Sbjct: 207 ISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGL 241
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 53/104 (50%), Gaps = 9/104 (8%)
Query: 63 AKGGKTIVFTQTKRDADEV-SLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVAT 121
A+G +T+V T R A+E+ S + I + LH ++ +R+ + R G + LV
Sbjct: 437 ARGERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGI 496
Query: 122 DVAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGK 160
++ GLDIP V L+ L D E F+ RS R+ GRA +
Sbjct: 497 NLLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAAR 537
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 53/104 (50%), Gaps = 9/104 (8%)
Query: 63 AKGGKTIVFTQTKRDADEV-SLALTSIIASEALHGDISQHQRERTLNGFRQGKFTVLVAT 121
A+G +T+V T R A+E+ S + I + LH ++ +R+ + R G + LV
Sbjct: 438 ARGERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGI 497
Query: 122 DVAARGLDIPNVDLIIHYELPNDPETFVHRSGRT-----GRAGK 160
++ GLDIP V L+ L D E F+ RS R+ GRA +
Sbjct: 498 NLLREGLDIPEVSLVAI--LDADKEGFL-RSERSLIQTIGRAAR 538
>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 = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 24/28 (85%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLV 28
+LFSAT+PSW K+L+ +Y+ NP+ I+++
Sbjct: 179 LLFSATLPSWAKRLAERYMKNPVLINVI 206
>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 = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 24/28 (85%)
Query: 1 MLFSATMPSWVKKLSRKYLDNPLNIDLV 28
+LFSAT+PSW K+L+ +Y+ NP+ I+++
Sbjct: 179 LLFSATLPSWAKRLAERYMKNPVLINVI 206
>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 = 6e-04, Method: Compositional matrix adjust.
Identities = 40/167 (23%), Positives = 68/167 (40%), Gaps = 41/167 (24%)
Query: 48 ATSKRTILSDLIT-VYAKGGKTIVFTQTKRDADEVSLALTSIIA----SEAL-------- 94
+TS+R +L+ A+ G +VF T+R A++ ++ L++I A +E L
Sbjct: 224 STSRRVKFEELVEECVAENGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEEN 283
Query: 95 -------------------HGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDL 135
H + QR + FR+G V+VAT A G+++P +
Sbjct: 284 EGEMSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRV 343
Query: 136 IIH-------YELPNDPETFVHRSGRTGRAG--KEGTAILMFTSSQR 173
I+ Y + +GR GR G + G AI++ R
Sbjct: 344 IVRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRDR 390
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
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: 107 LNGFR-QGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 165
L+ F+ G +L+AT VA G+DI +L+I YE + + GR GRA G+
Sbjct: 452 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GRA--RGSKC 508
Query: 166 LMFTSS 171
+ 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 = 0.013, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 107 LNGFR-QGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 165
L+ F+ G +L+AT VA G+DI +L+I YE + + GR GRA G+
Sbjct: 453 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GRA--RGSKC 509
Query: 166 LMFTSS 171
+ 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 = 0.013, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 107 LNGFR-QGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 165
L+ F+ G +L+AT VA G+DI +L+I YE + + GR GRA G+
Sbjct: 444 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GRA--RGSKC 500
Query: 166 LMFTSS 171
+ TS+
Sbjct: 501 FLLTSN 506
>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 = 36.2 bits (82), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 35/65 (53%), Gaps = 4/65 (6%)
Query: 107 LNGFRQGKFT-VLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 165
L+ F+ K +L+AT VA G+DI +L++ YE + + GR GRA G+
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAA--GSKC 742
Query: 166 LMFTS 170
++ 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 = 35.8 bits (81), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 35/65 (53%), Gaps = 4/65 (6%)
Query: 107 LNGFRQGKFT-VLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 165
L+ F+ K +L+AT VA G+DI +L++ YE + + GR GRA G+
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAA--GSKC 742
Query: 166 LMFTS 170
++ 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 = 35.8 bits (81), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 35/65 (53%), Gaps = 4/65 (6%)
Query: 107 LNGFRQGKFT-VLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTAI 165
L+ F+ K +L+AT VA G+DI +L++ YE + + GR GRA G+
Sbjct: 445 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAA--GSKC 501
Query: 166 LMFTS 170
++ 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 = 0.061, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 37/78 (47%), Gaps = 15/78 (19%)
Query: 95 HGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLII------------HY-EL 141
H +S+ R+ GFRQ K V+VAT A G+++P +II +Y E+
Sbjct: 319 HAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEI 378
Query: 142 PNDPETFVHRSGRTGRAG 159
P + SGR GR G
Sbjct: 379 P--IMEYKQMSGRAGRPG 394
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 35.4 bits (80), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 106 TLNGFR-QGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKEGTA 164
L FR G +L+AT VA G+DI +L+I YE + + GR GRA +
Sbjct: 443 VLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGR-GRA--RDSK 499
Query: 165 ILMFTSS 171
+ TSS
Sbjct: 500 CFLLTSS 506
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 10/72 (13%)
Query: 110 FRQGKFTVLVATDVAARGLDIPNVDLIIHYELPND--------PETFVHRSGRTGRAGKE 161
F +G VL AT+ A GL++P +I +D P F +GR GR G +
Sbjct: 421 FSKGFIKVLFATETFAMGLNLPTRTVIFSSIRKHDGNGLRELTPGEFTQMAGRAGRRGLD 480
Query: 162 --GTAILMFTSS 171
GT I+M +S
Sbjct: 481 STGTVIVMAYNS 492
>pdb|1NCP|N Chain N, Structural Characterization Of A 39 Residue Synthetic
Peptide Containing The Two Zinc Binding Domains From The
Hiv-1 P7 Nucleocapsid Protein By Cd And Nmr Spectroscopy
Length = 17
Score = 30.8 bits (68), Expect = 1.7, Method: Composition-based stats.
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 455 CFNCGKSGHRASEC 468
CFNCGK GH A C
Sbjct: 3 CFNCGKEGHTARNC 16
>pdb|2L4L|A Chain A, Structural Insights Into The Ctar Dna Recognition By The
Hiv-1 Nucleocapsid Protein: Role Of Sugar Deoxyriboses
In The Binding Polarity Of Nc
Length = 45
Score = 30.8 bits (68), Expect = 1.7, Method: Composition-based stats.
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 455 CFNCGKSGHRASEC 468
CFNCGK GH A C
Sbjct: 5 CFNCGKEGHTARNC 18
>pdb|1BJ6|A Chain A, 1h Nmr Of (12-53) Ncp7D(ACGCC) COMPLEX, 10 STRUCTURES
pdb|1ESK|A Chain A, Solution Structure Of Ncp7 From Hiv-1
Length = 42
Score = 30.8 bits (68), Expect = 1.7, Method: Composition-based stats.
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 455 CFNCGKSGHRASEC 468
CFNCGK GH A C
Sbjct: 4 CFNCGKEGHTARNC 17
>pdb|2EXF|A Chain A, Solution Structure Of The Hiv-1 Nucleocapsid (Ncp7(12-55))
Complexed With The Dna (-) Primer Binding Site
pdb|2JZW|A Chain A, How The Hiv-1 Nucleocapsid Protein Binds And Destabilises
The (-)primer Binding Site During Reverse Transcription
Length = 44
Score = 30.8 bits (68), Expect = 1.7, Method: Composition-based stats.
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 455 CFNCGKSGHRASEC 468
CFNCGK GH A C
Sbjct: 4 CFNCGKEGHTARNC 17
>pdb|2BL6|A Chain A, Solution Structure Of The Zn Complex Of Eiav Ncp11(22-58)
Peptide, Including Two Cchc Zn-Binding Motifs
Length = 37
Score = 30.4 bits (67), Expect = 2.2, Method: Composition-based stats.
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 455 CFNCGKSGHRASEC 468
C+NCGK GH +S+C
Sbjct: 3 CYNCGKPGHLSSQC 16
>pdb|2M3Z|A Chain A, Nmr Solution Structure Of Hiv-1 Nucleocapsid Protein In
Complex With An Inhibitor Displaying A 2 Inhibitors:1 Nc
Stoichiometry
Length = 55
Score = 30.0 bits (66), Expect = 2.5, Method: Composition-based stats.
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 455 CFNCGKSGHRASEC 468
CFNCGK GH A C
Sbjct: 15 CFNCGKEGHIAKNC 28
>pdb|1AAF|A Chain A, Nucleocapsid Zinc Fingers Detected In Retroviruses: Exafs
Studies On Intact Viruses And The Solution-State
Structure Of The Nucleocapsid Protein From Hiv-1
Length = 55
Score = 30.0 bits (66), Expect = 2.5, Method: Composition-based stats.
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 455 CFNCGKSGHRASEC 468
CFNCGK GH A C
Sbjct: 15 CFNCGKEGHIAKNC 28
>pdb|1A1T|A Chain A, Structure Of The Hiv-1 Nucleocapsid Protein Bound To The
Sl3 Psi-Rna Recognition Element, Nmr, 25 Structures
pdb|1MFS|A Chain A, Dynamical Behavior Of The Hiv-1 Nucleocapsid Protein; Nmr,
30 Structures
Length = 55
Score = 30.0 bits (66), Expect = 2.5, Method: Composition-based stats.
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 455 CFNCGKSGHRASEC 468
CFNCGK GH A C
Sbjct: 15 CFNCGKEGHIAKNC 28
>pdb|1F6U|A Chain A, Nmr Structure Of The Hiv-1 Nucleocapsid Protein Bound To
Stem-Loop Sl2 Of The Psi-Rna Packaging Signal.
Implications For Genome Recognition
Length = 56
Score = 30.0 bits (66), Expect = 2.5, Method: Composition-based stats.
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 455 CFNCGKSGHRASEC 468
CFNCGK GH A C
Sbjct: 15 CFNCGKEGHIAKNC 28
>pdb|1HVN|E Chain E, Zinc-And Sequence-Dependent Binding To Nucleic Acids By
The N-Terminal Zinc Finger Domain Of The Hiv-1
Nucleocapsid Protein: Nmr Structure Of The Complex With
The Psi-Site Analog, DACGCC
pdb|1HVO|E Chain E, Zinc-And Sequence-Dependent Binding To Nucleic Acids By
The N-Terminal Zinc Finger Domain Of The Hiv-1
Nucleocapsid Protein: Nmr Structure Of The Complex With
The Psi-Site Analog, DACGCC
pdb|2ZNF|A Chain A, High-Resolution Structure Of An Hiv Zinc Fingerlike Domain
Via A New Nmr-Based Distance Geometry Approach
Length = 18
Score = 30.0 bits (66), Expect = 3.0, Method: Composition-based stats.
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 455 CFNCGKSGHRASEC 468
CFNCGK GH A C
Sbjct: 3 CFNCGKEGHIARNC 16
>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 = 3.5, Method: Compositional matrix adjust.
Identities = 36/152 (23%), Positives = 60/152 (39%), Gaps = 44/152 (28%)
Query: 69 IVFTQTKRDADEVSLALTSIIAS---------------------------EALHGDISQH 101
++F +R A+ V+L L+ + S +A+ G ++ H
Sbjct: 241 LIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIRGGVAFH 300
Query: 102 -----QRERTL--NGFRQGKFTVLVATDVAARGLDIPNVDLIIH-------YELPNDPET 147
+ ER L FR+G +VAT + G++ P +II + + P
Sbjct: 301 HAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIPII 360
Query: 148 FVHRS-GRTGRAGKE--GTAILMFTSSQRRTV 176
VH+ GR GR + G I++ TS R V
Sbjct: 361 EVHQMLGRAGRPKYDEVGEGIIVSTSDDPREV 392
>pdb|2A51|A Chain A, Structure Of The (13-51) Domain Of The Nucleocapsid
Protein Ncp8 From Sivlhoest
Length = 39
Score = 29.6 bits (65), Expect = 3.5, Method: Composition-based stats.
Identities = 10/14 (71%), Positives = 10/14 (71%)
Query: 455 CFNCGKSGHRASEC 468
CFNCGK GH A C
Sbjct: 3 CFNCGKPGHTARMC 16
>pdb|1NC8|A Chain A, High-Resolution Solution Nmr Structure Of The Minimal
Active Domain Of The Human Immunodeficiency Virus Type-2
Nucleocapsid Protein, 15 Structures
Length = 29
Score = 29.6 bits (65), Expect = 3.8, Method: Composition-based stats.
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 455 CFNCGKSGHRASEC 468
C+NCGK GH A +C
Sbjct: 9 CWNCGKEGHSARQC 22
>pdb|2EC7|A Chain A, Solution Structure Of Human Immunodificiency Virus Type-2
Nucleocapsid Protein
Length = 49
Score = 29.6 bits (65), Expect = 3.8, Method: Composition-based stats.
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 455 CFNCGKSGHRASEC 468
C+NCGK GH A +C
Sbjct: 9 CWNCGKEGHSARQC 22
>pdb|1RLR|A Chain A, Structure Of Ribonucleotide Reductase Protein R1
Length = 761
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 52 RTILSDLITVYAKGGKTIVFTQTKRDADEVS 82
+ +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 = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 46/121 (38%), Gaps = 15/121 (12%)
Query: 40 KLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTK-RDADEVSLALTSIIASEALHGDI 98
K Y I A +KR+I + V + G +VFT K R E+ L + EA I
Sbjct: 33 KTYVIMGIA-NKRSIAFGVAKVLDQLGAKLVFTYRKERSRKELEKLLEQLNQPEAHLYQI 91
Query: 99 SQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRA 158
E +NGF Q G D+ N+D + H + E R T R
Sbjct: 92 DVQSDEEVINGFEQ-------------IGKDVGNIDGVYHSIAFANMEDLRGRFSETSRE 138
Query: 159 G 159
G
Sbjct: 139 G 139
>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 = 29.3 bits (64), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 46/121 (38%), Gaps = 15/121 (12%)
Query: 40 KLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTK-RDADEVSLALTSIIASEALHGDI 98
K Y I A +KR+I + V + G +VFT K R E+ L + EA I
Sbjct: 11 KTYVIMGIA-NKRSIAFGVAKVLDQLGAKLVFTYRKERSRKELEKLLEQLNQPEAHLYQI 69
Query: 99 SQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRA 158
E +NGF Q G D+ N+D + H + E R T R
Sbjct: 70 DVQSDEEVINGFEQ-------------IGKDVGNIDGVYHSIAFANMEDLRGRFSETSRE 116
Query: 159 G 159
G
Sbjct: 117 G 117
>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 = 5.4, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 46/121 (38%), Gaps = 15/121 (12%)
Query: 40 KLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTK-RDADEVSLALTSIIASEALHGDI 98
K Y I A +KR+I + V + G +VFT K R E+ L + EA I
Sbjct: 7 KTYVIMGIA-NKRSIAFGVAKVLDQLGAKLVFTYRKERSRKELEKLLEQLNQPEAHLYQI 65
Query: 99 SQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRA 158
E +NGF Q G D+ N+D + H + E R T R
Sbjct: 66 DVQSDEEVINGFEQ-------------IGKDVGNIDGVYHSIAFANMEDLRGRFSETSRE 112
Query: 159 G 159
G
Sbjct: 113 G 113
>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 = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 46/121 (38%), Gaps = 15/121 (12%)
Query: 40 KLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTK-RDADEVSLALTSIIASEALHGDI 98
K Y I A +KR+I + V + G +VFT K R E+ L + EA I
Sbjct: 28 KTYVIMGIA-NKRSIAFGVAKVLDQLGAKLVFTYRKERSRKELEKLLEQLNQPEAHLYQI 86
Query: 99 SQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRA 158
E +NGF Q G D+ N+D + H + E R T R
Sbjct: 87 DVQSDEEVINGFEQ-------------IGKDVGNIDGVYHSIAFANMEDLRGRFSETSRE 133
Query: 159 G 159
G
Sbjct: 134 G 134
>pdb|4FS3|A Chain A, Crystal Structure Of Staphylococcus Aureus Enoyl-Acp
Reductase In Complex With Nadp And Afn-1252
Length = 256
Score = 29.3 bits (64), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 46/121 (38%), Gaps = 15/121 (12%)
Query: 40 KLYAISTTATSKRTILSDLITVYAKGGKTIVFTQTK-RDADEVSLALTSIIASEALHGDI 98
K Y I A +KR+I + V + G +VFT K R E+ L + EA I
Sbjct: 7 KTYVIMGIA-NKRSIAFGVAKVLDQLGAKLVFTYRKERSRKELEKLLEQLNQPEAHLYQI 65
Query: 99 SQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRA 158
E +NGF Q G D+ N+D + H + E R T R
Sbjct: 66 DVQSDEEVINGFEQ-------------IGKDVGNIDGVYHSIAFANMEDLRGRFSETSRE 112
Query: 159 G 159
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 = 6.0, Method: Compositional matrix adjust.
Identities = 9/23 (39%), Positives = 19/23 (82%)
Query: 229 IEEKGTDALAAALAQLSGFSRPP 251
++E+GT+A+A L++++ +S PP
Sbjct: 331 VDERGTEAVAGILSEITAYSMPP 353
>pdb|3H5C|A Chain A, X-Ray Structure Of Protein Z-Protein Z Inhibitor Complex
Length = 423
Score = 28.9 bits (63), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 9/23 (39%), Positives = 19/23 (82%)
Query: 229 IEEKGTDALAAALAQLSGFSRPP 251
++E+GT+A+A L++++ +S PP
Sbjct: 369 VDERGTEAVAGILSEITAYSMPP 391
>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 = 9.0, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 42/87 (48%), Gaps = 6/87 (6%)
Query: 54 ILSDLITVYAKGGKTIVFTQTKRDADEVSLALTSI-IASEALHGDISQHQRERTLNGFRQ 112
++ D+ YAKG ++ T + ++ +S T I L+ H++E T+
Sbjct: 449 VVDDVAERYAKGQPVLIGTTSVERSEYLSRQFTKRRIPHNVLNA--KYHEQEATIIAVAG 506
Query: 113 GKFTVLVATDVAARGLDI---PNVDLI 136
+ V VAT++A RG DI NVD +
Sbjct: 507 RRGGVTVATNMAGRGTDIVLGGNVDFL 533
>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 = 28.5 bits (62), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 250 PPSSRSLINHEQGWVTLQLTRDSAFSRGFMSARSVMGFLSDVYPTAADEIGKIHIIADDR 309
PP + SLI +TL LT++ + G +S V G L ++ T +G +H++ D++
Sbjct: 14 PPPNCSLIQELDAKLTLCLTKNGSIVNGIVSLVGVKGNLLNIQSTTT-TVG-VHLVFDEQ 71
>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 = 9.4, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 250 PPSSRSLINHEQGWVTLQLTRDSAFSRGFMSARSVMGFLSDVYPTAADEIGKIHIIADDR 309
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
0.316 0.133 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,641,568
Number of Sequences: 62578
Number of extensions: 388064
Number of successful extensions: 1235
Number of sequences better than 100.0: 117
Number of HSP's better than 100.0 without gapping: 90
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 1088
Number of HSP's gapped (non-prelim): 128
length of query: 470
length of database: 14,973,337
effective HSP length: 102
effective length of query: 368
effective length of database: 8,590,381
effective search space: 3161260208
effective search space used: 3161260208
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)