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= 037446
(1165 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 241 bits (616), Expect = 1e-63, Method: Compositional matrix adjust.
Identities = 154/471 (32%), Positives = 251/471 (53%), Gaps = 23/471 (4%)
Query: 111 RDYQFAITKTALFSNTLVALPTGLGKTLIAAVVI-YNFFRWFPDGKIVFAAPSRPLVMQQ 169
R YQ I +N L+ LPTGLGKTLIA ++ Y ++ GK++ AP++PLV+Q
Sbjct: 11 RIYQEVIYAKCKETNCLIVLPTGLGKTLIAMMIAEYRLTKY--GGKVLMLAPTKPLVLQH 68
Query: 170 IEACHNIVGIPQEWTIDMTGQISPTKRASFWKTKRVFFVTPQVLEKDIQSGTCLMKYLVC 229
E+ + +P E + +TG+ SP +R+ W +V TPQ +E D+ +G ++ +
Sbjct: 69 AESFRRLFNLPPEKIVALTGEKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSL 128
Query: 230 LVIDEAHRATGNYAYCTAIRELMSVPVQLRILALTATPGSKQQTIQHIIDNLYISTLEYR 289
+V DEAHRA GNYAY RE ++ LTA+PGS + I +I+NL I +EYR
Sbjct: 129 IVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEKIMEVINNLGIEHIEYR 188
Query: 290 NESDQDVSSYVHNRKIELIEVEMGQEAVEINNRIWEVIRPYTSRLSAIGLLQNRDYQTLS 349
+E+ DV YV + E + V++ + E+ + E++R L+ GLL++ S
Sbjct: 189 SENSPDVRPYVKGIRFEWVRVDLPEIYKEVRKLLREMLRDALKPLAETGLLES------S 242
Query: 350 PVDLLNSRDKFRQAPPPNLPQIK----FGEVEAYFGALITLYHIRRLLSSHG---IRPAY 402
D + ++ R N K + Y + L+H LL + G +R
Sbjct: 243 SPD-IPKKEVLRAGQIINEEMAKGNHDLRGLLLYHAMALKLHHAIELLETQGLSALRAYI 301
Query: 403 EMLEEKLKQGS--FARFMSKNEDIRKVKLLMQQSISHGAQSPKLSKMLEVLVDHFKTKDP 460
+ L E+ K GS ++ + ++ ++K L+ Q+ G PK+ K+ E++ + + K
Sbjct: 302 KKLYEEAKAGSTKASKEIFSDKRMKKAISLLVQAKEIGLDHPKMDKLKEIIREQLQRK-- 359
Query: 461 KHSRVIIFSNFRGSVRDIMNALATIGDLVKATEFIXXXXXXXXXXXXXXXXXXXLEKFRA 520
++S++I+F+N+R + + I+N L + D +KA F+ L++F
Sbjct: 360 QNSKIIVFTNYRETAKKIVNEL--VKDGIKAKRFVGQASKENDRGLSQREQKLILDEFAR 417
Query: 521 GGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGRKHDGRI 571
G +NV+VATS+GEEGLD+ EVDLV+ ++ S +R IQR GRTGR GR+
Sbjct: 418 GEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGRHMPGRV 468
>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 = 81.6 bits (200), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 121/515 (23%), Positives = 219/515 (42%), Gaps = 88/515 (17%)
Query: 111 RDYQFAITKTALFS-NTLVALPTGLGKTLIAAVVIYNFFRWFPDG---KIVFAAPSRPLV 166
R YQ + + A+ N L+ PTG GKT ++ ++ + F+ P G K+VF A P+
Sbjct: 250 RSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVY 309
Query: 167 MQQIEAC--------HNIVGIPQEWTIDMTGQISPTKRASFWKTKRVFFVTPQVLEKDIQ 218
QQ +++ GI E S + + VTPQ+L +
Sbjct: 310 EQQKNVFKHHFERQGYSVQGISGE-------NFSNVSVEKVIEDSDIIVVTPQILVNSFE 362
Query: 219 SGTCL-MKYLVCLVIDEAHRATGNYAYCTAIRELM----SVPVQL-RILALTATPG---- 268
GT + ++ DE H TGN+ Y + + + QL +IL LTA+ G
Sbjct: 363 DGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNA 422
Query: 269 -SKQQTIQHI---IDNLYISTLEYRNESDQDVSSYVHNRKIELIEVEMGQEAVEINNRIW 324
+ ++TI+HI L I + E+ Q++ +++ +I++ V+ I+N
Sbjct: 423 KNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKR-----RIHNPFA 477
Query: 325 EVIRPYTSRLSAIGLLQNRDYQTLSPVDLL--NSRDKFRQAPPPN----------LPQIK 372
+I S A+ +T++ VD L NS+ F + L Q++
Sbjct: 478 AIISNLMSETEAL-------MRTIAYVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLE 530
Query: 373 FGEVEAYF--GALITLYHIRR----LLSSHGIR--PAYEMLEE-----------KLKQGS 413
E E+ I H+R+ L+ S R A L E +L+Q
Sbjct: 531 DKEEESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHL 590
Query: 414 FARFMSKNEDIRKVKLLMQQSISHGAQSPKLSKMLEVLVDHFKTKDPKHSRVIIFSNFRG 473
A+F K + L+ S ++PKL +++ +L D ++ +P+ +R ++F+ R
Sbjct: 591 TAKFQEKEPE------LIALSKDETNENPKLEELVCILDDAYRY-NPQ-TRTLLFAKTRA 642
Query: 474 SVRDIMNALAT--IGDLVKATEFIXXXXXXXXXXXXXXXXXXXLEKFRAGGYN-VIVATS 530
V + + I + +K + L+ F+ N +++ATS
Sbjct: 643 LVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATS 702
Query: 531 IGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR 565
+ +EG+DI++ +LV+ ++ + + +MIQ GR GR
Sbjct: 703 VADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GR 736
>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 = 80.9 bits (198), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 121/515 (23%), Positives = 218/515 (42%), Gaps = 88/515 (17%)
Query: 111 RDYQFAITKTALFS-NTLVALPTGLGKTLIAAVVIYNFFRWFPDG---KIVFAAPSRPLV 166
R YQ + + A+ N L+ PTG GKT ++ ++ + F+ P G K+VF A P+
Sbjct: 250 RSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVY 309
Query: 167 MQQIEA--------CHNIVGIPQEWTIDMTGQISPTKRASFWKTKRVFFVTPQVLEKDIQ 218
QQ +++ GI E S + + VTPQ+L +
Sbjct: 310 EQQKNVFKHHFERQGYSVQGISGE-------NFSNVSVEKVIEDSDIIVVTPQILVNSFE 362
Query: 219 SGTCL-MKYLVCLVIDEAHRATGNYAYCTAIRELM----SVPVQL-RILALTATPG---- 268
GT + ++ DE H TGN+ Y + + + QL +IL LTA+ G
Sbjct: 363 DGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNA 422
Query: 269 -SKQQTIQHI---IDNLYISTLEYRNESDQDVSSYVHNRKIELIEVEMGQEAVEINNRIW 324
+ ++TI+HI L I + E+ Q++ +++ +I++ V+ I+N
Sbjct: 423 KNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKR-----RIHNPFA 477
Query: 325 EVIRPYTSRLSAIGLLQNRDYQTLSPVDLL--NSRDKFRQAPPPN----------LPQIK 372
+I S A+ +T+ VD L NS+ F + L Q++
Sbjct: 478 AIISNLMSETEAL-------MRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLE 530
Query: 373 FGEVEAYF--GALITLYHIRR----LLSSHGIR--PAYEMLEE-----------KLKQGS 413
E E+ I H+R+ L+ S R A L E +L+Q
Sbjct: 531 DKEEESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHL 590
Query: 414 FARFMSKNEDIRKVKLLMQQSISHGAQSPKLSKMLEVLVDHFKTKDPKHSRVIIFSNFRG 473
A+F K + L+ S ++PKL +++ +L D ++ +P+ +R ++F+ R
Sbjct: 591 TAKFQEKEPE------LIALSKDETNENPKLEELVCILDDAYRY-NPQ-TRTLLFAKTRA 642
Query: 474 SVRDIMNALAT--IGDLVKATEFIXXXXXXXXXXXXXXXXXXXLEKFRAGGYN-VIVATS 530
V + + I + +K + L+ F+ N +++ATS
Sbjct: 643 LVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATS 702
Query: 531 IGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR 565
+ +EG+DI++ +LV+ ++ + + +MIQ GR GR
Sbjct: 703 VADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GR 736
>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 = 79.7 bits (195), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 121/515 (23%), Positives = 218/515 (42%), Gaps = 88/515 (17%)
Query: 111 RDYQFAITKTALFS-NTLVALPTGLGKTLIAAVVIYNFFRWFPDG---KIVFAAPSRPLV 166
R YQ + + A+ N L+ PTG GKT ++ ++ + F+ P G K+VF A P+
Sbjct: 9 RSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVY 68
Query: 167 MQQIEAC--------HNIVGIPQEWTIDMTGQISPTKRASFWKTKRVFFVTPQVLEKDIQ 218
QQ +++ GI E S + + VTPQ+L +
Sbjct: 69 EQQKNVFKHHFERQGYSVQGISGE-------NFSNVSVEKVIEDSDIIVVTPQILVNSFE 121
Query: 219 SGTCL-MKYLVCLVIDEAHRATGNYAYCTAIRELM----SVPVQL-RILALTATPG---- 268
GT + ++ DE H TGN+ Y + + + QL +IL LTA+ G
Sbjct: 122 DGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNA 181
Query: 269 -SKQQTIQHI---IDNLYISTLEYRNESDQDVSSYVHNRKIELIEVEMGQEAVEINNRIW 324
+ ++TI+HI L I + E+ Q++ +++ +I++ V+ I+N
Sbjct: 182 KNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKR-----RIHNPFA 236
Query: 325 EVIRPYTSRLSAIGLLQNRDYQTLSPVDLL--NSRDKFRQAPPPN----------LPQIK 372
+I S A+ +T+ VD L NS+ F + L Q++
Sbjct: 237 AIISNLMSETEAL-------MRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLE 289
Query: 373 FGEVEAYF--GALITLYHIRR----LLSSHGIR--PAYEMLEE-----------KLKQGS 413
E E+ I H+R+ L+ S R A L E +L+Q
Sbjct: 290 DKEEESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHL 349
Query: 414 FARFMSKNEDIRKVKLLMQQSISHGAQSPKLSKMLEVLVDHFKTKDPKHSRVIIFSNFRG 473
A+F K + L+ S ++PKL +++ +L D ++ +P+ +R ++F+ R
Sbjct: 350 TAKFQEKEPE------LIALSKDETNENPKLEELVCILDDAYRY-NPQ-TRTLLFAKTRA 401
Query: 474 SVRDIMNALAT--IGDLVKATEFIXXXXXXXXXXXXXXXXXXXLEKFRAGGYN-VIVATS 530
V + + I + +K + L+ F+ N +++ATS
Sbjct: 402 LVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATS 461
Query: 531 IGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR 565
+ +EG+DI++ +LV+ ++ + + +MIQ GR GR
Sbjct: 462 VADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GR 495
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 67.4 bits (163), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 111/512 (21%), Positives = 219/512 (42%), Gaps = 80/512 (15%)
Query: 111 RDYQFAITKTAL-FSNTLVALPTGLGKTLIAAVVIYNFFRWFPD---GKIVFAAPSRPLV 166
R+YQ + A+ NT++ PTG GKT ++ ++ + + FP GK+VF A P+
Sbjct: 14 RNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVY 73
Query: 167 MQQIEAC--------HNIVGIPQEWTIDMTGQISPTKRASFWKTKRVFFVTPQVLEKDIQ 218
QQ + + GI T + P ++ + + +TPQ+L +++
Sbjct: 74 EQQKSVFSKYFERHGYRVTGIS-----GATAENVPVEQIV--ENNDIIILTPQILVNNLK 126
Query: 219 SGTC-LMKYLVCLVIDEAHRATGNYAYCTAIRELM-------SVPVQLRILALTATPG-- 268
GT + ++ DE H + + Y + + S P+ +++ LTA+ G
Sbjct: 127 KGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLP-QVIGLTASVGVG 185
Query: 269 ---SKQQTIQHI------IDNLYISTLEYRNESDQDVS-------SYVHNR---KIELIE 309
+ + + +I +D I+T+++ E + V V +R K + I
Sbjct: 186 DAKNTDEALDYICKLCASLDASVIATVKHNLEELEQVVYKPQKFFRKVESRISDKFKYII 245
Query: 310 VEMGQEAVEINNRIWEVIRPYTSRLSAIGLLQNRDYQTLSPVDLLNSRDKFRQAPPPNLP 369
++ ++ + RI L + +QNR++ T + + K +
Sbjct: 246 AQLMRDTESLAKRI-------CKDLENLSQIQNREFGTQKYEQWIVTVQK-----ACMVF 293
Query: 370 QIKFGEVEAYFGALITLY--HIRR-----LLSSHG-IRPAYEMLEEKLKQGSFARFMSKN 421
Q+ + E+ + LY H+R+ ++S H ++ A + L++ A F
Sbjct: 294 QMPDKDEESRICKALFLYTSHLRKYNDALIISEHARMKDALDYLKDFFSNVRAAGFDEIE 353
Query: 422 EDIRK---VKLLMQQSISH--GAQSPKLSKMLEVLVDHFKTKDPKHSRVIIFSNFRGSVR 476
+D+ + KL +S+S ++PKL + +L + + +P+ + I+F R V
Sbjct: 354 QDLTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHL-NPE-TITILFVKTRALVD 411
Query: 477 DIMNALATIGDL--VKATEFIXXXXXXXXXXXXXXXXXXXLEKFRAGG-YNVIVATSIGE 533
+ N + L +K L+ F+A G +N+++ATS+ +
Sbjct: 412 ALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVAD 471
Query: 534 EGLDIMEVDLVICFDANVSPLRMIQRMGRTGR 565
EG+DI + +LVI ++ + ++MIQ GR GR
Sbjct: 472 EGIDIAQCNLVILYEYVGNVIKMIQTRGR-GR 502
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 66.6 bits (161), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 114/527 (21%), Positives = 225/527 (42%), Gaps = 81/527 (15%)
Query: 96 AEAAKTWIYPVNVPVRDYQFAITKTAL-FSNTLVALPTGLGKTLIAAVVIYNFFRWFPD- 153
+E + T +Y P R+YQ + A+ NT++ PTG GKT ++ ++ + + FP
Sbjct: 1 SEVSDTNLYSPFKP-RNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQG 59
Query: 154 --GKIVFAAPSRPLVMQQIEAC--------HNIVGIPQEWTIDMTGQISPTKRASFWKTK 203
GK+VF A P+ Q + + GI T + P ++ +
Sbjct: 60 QKGKVVFFANQIPVYEQNKSVFSKYFERHGYRVTGIS-----GATAENVPVEQIV--ENN 112
Query: 204 RVFFVTPQVLEKDIQSGTC-LMKYLVCLVIDEAHRATGNYAYCTAIRELM-------SVP 255
+ +TPQ+L +++ GT + ++ DE H + + Y + + S P
Sbjct: 113 DIIILTPQILVNNLKKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGP 172
Query: 256 VQLRILALTATPG-----SKQQTIQHI------IDNLYISTLEYRNESDQDVS------- 297
+ +++ LTA+ G + + + +I +D I+T+++ E + V
Sbjct: 173 LP-QVIGLTASVGVGDAKTTDEALDYICKLCASLDASVIATVKHNLEELEQVVYKPQKFF 231
Query: 298 SYVHNR---KIELIEVEMGQEAVEINNRIWEVIRPYTSRLSAIGLLQNRDYQTLSPVDLL 354
V +R K + I ++ ++ + RI L + +QNR++ T +
Sbjct: 232 RKVESRISDKFKYIIAQLMRDTESLAKRI-------CKDLENLSQIQNREFGTQKYEQWI 284
Query: 355 NSRDKFRQAPPPNLPQIKFGEVEAYFGALITLY--HIRR-----LLSSHG-IRPAYEMLE 406
+ K + Q+ + E+ + LY H+R+ ++S H ++ A + L+
Sbjct: 285 VTVQK-----ACMVFQMPDKDEESRICKALFLYTSHLRKYNDALIISEHARMKDALDYLK 339
Query: 407 EKLKQGSFARFMSKNEDIRK---VKLLMQQSISH--GAQSPKLSKMLEVLVDHFKTKDPK 461
+ A F +D+ + KL +S+S ++PKL + +L + + +P+
Sbjct: 340 DFFSNVRAAGFDEIEQDLTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHL-NPE 398
Query: 462 HSRVIIFSNFRGSVRDIMNALATIGDL--VKATEFIXXXXXXXXXXXXXXXXXXXLEKFR 519
+ I+F R V + N + L +K L+ F+
Sbjct: 399 -TITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFK 457
Query: 520 AGG-YNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR 565
A G +N+++ATS+ +EG+DI + +LVI ++ + ++MIQ GR GR
Sbjct: 458 ASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GR 503
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 65.5 bits (158), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 110/512 (21%), Positives = 218/512 (42%), Gaps = 80/512 (15%)
Query: 111 RDYQFAITKTAL-FSNTLVALPTGLGKTLIAAVVIYNFFRWFPD---GKIVFAAPSRPLV 166
R+YQ + A+ NT++ PTG GKT ++ ++ + + FP GK+VF A P+
Sbjct: 6 RNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVY 65
Query: 167 MQQIEAC--------HNIVGIPQEWTIDMTGQISPTKRASFWKTKRVFFVTPQVLEKDIQ 218
Q + + GI T + P ++ + + +TPQ+L +++
Sbjct: 66 EQNKSVFSKYFERHGYRVTGIS-----GATAENVPVEQIV--ENNDIIILTPQILVNNLK 118
Query: 219 SGTC-LMKYLVCLVIDEAHRATGNYAYCTAIRELM-------SVPVQLRILALTATPG-- 268
GT + ++ DE H + + Y + + S P+ +++ LTA+ G
Sbjct: 119 KGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLP-QVIGLTASVGVG 177
Query: 269 ---SKQQTIQHI------IDNLYISTLEYRNESDQDVS-------SYVHNR---KIELIE 309
+ + + +I +D I+T+++ E + V V +R K + I
Sbjct: 178 DAKNTDEALDYICKLCASLDASVIATVKHNLEELEQVVYKPQKFFRKVESRISDKFKYII 237
Query: 310 VEMGQEAVEINNRIWEVIRPYTSRLSAIGLLQNRDYQTLSPVDLLNSRDKFRQAPPPNLP 369
++ ++ + RI L + +QNR++ T + + K +
Sbjct: 238 AQLMRDTESLAKRI-------CKDLENLSQIQNREFGTQKYEQWIVTVQK-----ACMVF 285
Query: 370 QIKFGEVEAYFGALITLY--HIRR-----LLSSHG-IRPAYEMLEEKLKQGSFARFMSKN 421
Q+ + E+ + LY H+R+ ++S H ++ A + L++ A F
Sbjct: 286 QMPDKDEESRICKALFLYTSHLRKYNDALIISEHARMKDALDYLKDFFSNVRAAGFDEIE 345
Query: 422 EDIRK---VKLLMQQSISH--GAQSPKLSKMLEVLVDHFKTKDPKHSRVIIFSNFRGSVR 476
+D+ + KL +S+S ++PKL + +L + + +P+ + I+F R V
Sbjct: 346 QDLTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHL-NPE-TITILFVKTRALVD 403
Query: 477 DIMNALATIGDL--VKATEFIXXXXXXXXXXXXXXXXXXXLEKFRAGG-YNVIVATSIGE 533
+ N + L +K L+ F+A G +N+++ATS+ +
Sbjct: 404 ALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVAD 463
Query: 534 EGLDIMEVDLVICFDANVSPLRMIQRMGRTGR 565
EG+DI + +LVI ++ + ++MIQ GR GR
Sbjct: 464 EGIDIAQCNLVILYEYVGNVIKMIQTRGR-GR 494
>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 = 54.3 bits (129), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 36/129 (27%), Positives = 62/129 (48%), Gaps = 9/129 (6%)
Query: 440 QSPKLSKMLEVLVDHFKTKDPKHSRVIIFSNFRGSVRDIMN------ALATIGDLVKATE 493
++ KL+K+ +++ + T+ + +R IIF+ R S + A +G VKA
Sbjct: 379 ENEKLTKLRNTIMEQY-TRTEESARGIIFTKTRQSAYALSQWITENEKFAEVG--VKAHH 435
Query: 494 FIXXXXXXXXXXXXXXXXXXXLEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSP 553
I + KFR G N+++AT++ EEGLDI E ++VI + +
Sbjct: 436 LIGAGHSSEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLVTNE 495
Query: 554 LRMIQRMGR 562
+ M+Q GR
Sbjct: 496 IAMVQARGR 504
Score = 34.3 bits (77), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 47/200 (23%), Positives = 79/200 (39%), Gaps = 38/200 (19%)
Query: 108 VPVRDYQFAITKTAL-FSNTLVALPTGLGKTLIAAVVIYNFF----RWFPDGKIVFAAPS 162
+ +R YQ + + AL N ++ LPTG GKT +A + + + GK++
Sbjct: 6 LQLRPYQMEVAQPALEGKNIIICLPTGCGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNK 65
Query: 163 RPLVMQQIEACHNIVGIPQEW--TIDMTGQISPTKRASF---WKTKRVFFVTPQVLEKDI 217
LV Q ++W I ++G + SF K+ + T Q+LE +
Sbjct: 66 VLLVEQLFRK--EFQPFLKKWYRVIGLSGDTQL--KISFPEVVKSCDIIISTAQILENSL 121
Query: 218 -------QSGTCLMKYLVCLVIDEAHRATGNYAYCTAIRELMS---------------VP 255
+G L + + ++IDE H Y +R + +P
Sbjct: 122 LNLENGEDAGVQLSDFSL-IIIDECHHTNKEAVYNNIMRHYLMQKLKNNRLKKENKPVIP 180
Query: 256 VQLRILALTATPGSKQQTIQ 275
+ +IL LTA+PG T Q
Sbjct: 181 LP-QILGLTASPGVGGATKQ 199
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 38/130 (29%), Positives = 64/130 (49%), Gaps = 9/130 (6%)
Query: 424 IRKVKLLMQQSISHGAQSPKLSKMLEVLVDHFKTKDPKHSRVIIFSNFRGSVRDIMN--- 480
+R K+L + + + ++ KL+K+ + +HF T+ + +R IIF+ R S +
Sbjct: 113 LRNKKILKKLAENPEYENEKLTKLRNTIXEHF-TRTEESARGIIFTKTRQSAYALSQWIT 171
Query: 481 ---ALATIGDLVKATEFIXXXXXXXXXXXXXXXXXXXLEKFRAGGYNVIVATSIGEEGLD 537
A +G VKA I + KFR G N+++AT++ EEGLD
Sbjct: 172 DNKKFAEVG--VKAHHLIGAGHSSEFKPXTQNEQREVISKFRTGKINLLIATTVAEEGLD 229
Query: 538 IMEVDLVICF 547
I E ++VI +
Sbjct: 230 IKECNIVIRY 239
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 49.3 bits (116), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/57 (43%), Positives = 38/57 (66%), Gaps = 2/57 (3%)
Query: 515 LEKFRAGG-YNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGRKHDGR 570
LE FRA G N+++ATS+ +EG+DI E +LVI ++ + ++ IQ GR GR D +
Sbjct: 444 LEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGR-GRARDSK 499
Score = 46.6 bits (109), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 36/147 (24%), Positives = 63/147 (42%), Gaps = 20/147 (13%)
Query: 111 RDYQFAITKTAL-FSNTLVALPTGLGKTLIAAVVIYNFFRWFP---DGKIVFAAPSRPLV 166
R+YQ + A NT++ PTG GKT ++ ++ + + FP GK+VF A P+
Sbjct: 6 RNYQLELALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFANQIPVY 65
Query: 167 MQQIEAC--------HNIVGIPQEWTIDMTGQISPTKRASFWKTKRVFFVTPQVLEKDIQ 218
QQ +NI I + ++ Q + + +TPQ+L ++
Sbjct: 66 EQQATVFSRYFERLGYNIASISGATSDSVSVQ-------HIIEDNDIIILTPQILVNNLN 118
Query: 219 SGTC-LMKYLVCLVIDEAHRATGNYAY 244
+G + + DE H + N+ Y
Sbjct: 119 NGAIPSLSVFTLXIFDECHNTSKNHPY 145
>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 = 46.6 bits (109), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR-KHDGRIPH 573
L F+ G V++ATS+ GLDI + VI +D + R+GRTGR ++GR
Sbjct: 343 LRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATS 402
Query: 574 IFKPE 578
F PE
Sbjct: 403 FFDPE 407
>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 = 2e-04, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 48/94 (51%), Gaps = 8/94 (8%)
Query: 518 FRAGGYNVIVATSIGEEGLDIMEVDLVICFDANV-----SPLRMIQRMGRTGRKHDGRIP 572
R G Y+V+V ++ EGLDI EV LV DA+ S +IQ +GR R +GR+
Sbjct: 497 LRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAEGRVI 556
Query: 573 HIFKPEVQFVELSIEQYVSR---GKKVKDDHAIT 603
+ +E++I + R ++ ++H IT
Sbjct: 557 MYADKITKSMEIAINETKRRREQQERFNEEHGIT 590
>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 = 2e-04, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 48/94 (51%), Gaps = 8/94 (8%)
Query: 518 FRAGGYNVIVATSIGEEGLDIMEVDLVICFDANV-----SPLRMIQRMGRTGRKHDGRIP 572
R G Y+V+V ++ EGLDI EV LV DA+ S +IQ +GR R +GR+
Sbjct: 491 LRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAEGRVI 550
Query: 573 HIFKPEVQFVELSIEQYVSR---GKKVKDDHAIT 603
+ +E++I + R ++ ++H IT
Sbjct: 551 MYADKITKSMEIAINETKRRREQQERFNEEHGIT 584
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 31/51 (60%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR 565
++ FR G Y++++ T + GLDI V+ VI FDA I R+GRTGR
Sbjct: 259 IDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGR 309
>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 = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 30/51 (58%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR 565
L +FR+G ++VAT++ GLDI V VI FD + R+GRTGR
Sbjct: 89 LHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGR 139
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 43.5 bits (101), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 30/51 (58%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR 565
L +FR+G ++VAT++ GLDI V VI FD + R+GRTGR
Sbjct: 319 LHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGR 369
>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 = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 43/79 (54%), Gaps = 3/79 (3%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGRKHD-GR-IP 572
+ +F+ G Y +VAT + G+DI + LVI +D + + R GRTGR + G+ I
Sbjct: 78 MNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAIS 137
Query: 573 HIFKPEVQFVELSIEQYVS 591
+ E +F+ IE+Y+
Sbjct: 138 FVTAFEKRFLA-DIEEYIG 155
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR-KHDGRIPH 573
+++FR+G V+++T + GLD+ +V L+I +D + I R+GR+GR G +
Sbjct: 283 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVN 342
Query: 574 IFKPEVQFVELSIEQYVS 591
K + V IEQY S
Sbjct: 343 FVKNDDIRVLRDIEQYYS 360
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR-KHDGRIPH 573
+++FR+G V+++T + GLD+ +V L+I +D + I R+GR+GR G +
Sbjct: 283 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVN 342
Query: 574 IFKPEVQFVELSIEQYVS 591
K + V IEQY S
Sbjct: 343 FVKNDDIRVLRDIEQYYS 360
>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 = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR-KHDGRIPH 573
+++FR+G V+++T + GLD+ +V L+I +D + I R+GR+GR G +
Sbjct: 320 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAIN 379
Query: 574 IFKPEVQFVELSIEQYVS 591
K + + IEQY S
Sbjct: 380 FVKNDDIRILRDIEQYYS 397
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 47/88 (53%), Gaps = 6/88 (6%)
Query: 518 FRAGGYNVIVATSIGEEGLDIMEVDLVICFDANV-----SPLRMIQRMGRTGRKHDGRIP 572
R G Y+V+V ++ EGLDI EV LV DA+ S +IQ +GR R +G +
Sbjct: 491 LRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVI 550
Query: 573 HIFKPEVQFVELSIEQYVSRGKKVKDDH 600
+ +E++I++ R + +++++
Sbjct: 551 MYADTITKSMEIAIQE-TKRRRAIQEEY 577
>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 = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 47/88 (53%), Gaps = 6/88 (6%)
Query: 518 FRAGGYNVIVATSIGEEGLDIMEVDLVICFDANV-----SPLRMIQRMGRTGRKHDGRIP 572
R G Y+V+V ++ EGLDI EV LV DA+ S +IQ +GR R +G +
Sbjct: 491 LRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVI 550
Query: 573 HIFKPEVQFVELSIEQYVSRGKKVKDDH 600
+ +E++I++ R + +++++
Sbjct: 551 MYADTITKSMEIAIQE-TKRRRAIQEEY 577
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 47/88 (53%), Gaps = 6/88 (6%)
Query: 518 FRAGGYNVIVATSIGEEGLDIMEVDLVICFDANV-----SPLRMIQRMGRTGRKHDGRIP 572
R G Y+V+V ++ EGLDI EV LV DA+ S +IQ +GR R +G +
Sbjct: 490 LRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVI 549
Query: 573 HIFKPEVQFVELSIEQYVSRGKKVKDDH 600
+ +E++I++ R + +++++
Sbjct: 550 MYADTITKSMEIAIQE-TKRRRAIQEEY 576
>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 = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR-KHDGRIPH 573
+++FR+G V+++T + GLD+ +V L+I +D + I R+GR+GR G +
Sbjct: 320 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAIN 379
Query: 574 IFKPEVQFVELSIEQYVS 591
K + + IEQY S
Sbjct: 380 FVKNDDIRILRDIEQYYS 397
>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 = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR-KHDGRIPH 573
+++FR+G V+++T + GLD+ +V L+I +D + I R+GR+GR G +
Sbjct: 319 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAIN 378
Query: 574 IFKPEVQFVELSIEQYVS 591
K + + IEQY S
Sbjct: 379 FVKNDDIRILRDIEQYYS 396
>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 = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 46/88 (52%), Gaps = 6/88 (6%)
Query: 518 FRAGGYNVIVATSIGEEGLDIMEVDLVICFDANV-----SPLRMIQRMGRTGRKHDGRIP 572
R G Y+V+V ++ EGLDI EV LV DA+ S +IQ +GR R +G +
Sbjct: 491 LRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVI 550
Query: 573 HIFKPEVQFVELSIEQYVSRGKKVKDDH 600
+ +E++I Q R + +++++
Sbjct: 551 MYADTITKSMEIAI-QETKRRRAIQEEY 577
>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 = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 43/78 (55%), Gaps = 1/78 (1%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR-KHDGRIPH 573
+++FR+G V+++T + GLD+ +V L+I +D + I R+GR+GR G +
Sbjct: 298 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAIN 357
Query: 574 IFKPEVQFVELSIEQYVS 591
K + + IEQY S
Sbjct: 358 FVKNDDIRILRDIEQYYS 375
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 46/88 (52%), Gaps = 6/88 (6%)
Query: 518 FRAGGYNVIVATSIGEEGLDIMEVDLVICFDANV-----SPLRMIQRMGRTGRKHDGRIP 572
R G Y+V+V ++ EGLDI EV LV DA+ S +IQ +GR R +G +
Sbjct: 516 LRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVI 575
Query: 573 HIFKPEVQFVELSIEQYVSRGKKVKDDH 600
+ +E++I Q R + +++++
Sbjct: 576 MYADTITKSMEIAI-QETKRRRAIQEEY 602
>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 = 41.2 bits (95), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 6/57 (10%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICF------DANVSPLRMIQRMGRTGR 565
+E+FR G V+V T++ G+D+ +V +VI F D N + R+GRTGR
Sbjct: 376 IERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 432
>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 = 40.8 bits (94), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 6/57 (10%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICF------DANVSPLRMIQRMGRTGR 565
+E+FR G V+V T++ G+D+ +V +VI F D N + R+GRTGR
Sbjct: 309 IERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 365
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 40.8 bits (94), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 6/57 (10%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICF------DANVSPLRMIQRMGRTGR 565
+E+FR G V+V T++ G+D+ +V +VI F D N + R+GRTGR
Sbjct: 325 IERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 381
>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 = 40.8 bits (94), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 6/57 (10%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICF------DANVSPLRMIQRMGRTGR 565
+E+FR G V+V T++ G+D+ +V +VI F D N + R+GRTGR
Sbjct: 346 IERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 402
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 40.0 bits (92), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 33/57 (57%), Gaps = 6/57 (10%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANV------SPLRMIQRMGRTGR 565
++ FR G V+V T++ G+D+ +V+LV+ +D + P + R+GRTGR
Sbjct: 400 MDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGR 456
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 39.7 bits (91), Expect = 0.010, Method: Composition-based stats.
Identities = 31/110 (28%), Positives = 47/110 (42%), Gaps = 14/110 (12%)
Query: 458 KDPKHSRVIIFSNFRGSVRDIMNAL--ATIGDLVKATEFIXXXXXXXXXXXXXXXXXXXL 515
K P+ +R I+F R V ++ N L A I + E + +
Sbjct: 26 KQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEA------------I 73
Query: 516 EKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR 565
++ G NV+VAT + G+DI +V V FD S + R+GRT R
Sbjct: 74 KRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTAR 123
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 39.7 bits (91), Expect = 0.010, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 32/56 (57%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGRKHDGR 570
LE FR G + IV++ + +EG+D+ + ++ + + S IQR+GR R G+
Sbjct: 152 LEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSKGK 207
>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 = 39.3 bits (90), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 32/56 (57%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGRKHDGR 570
LE FR G + IV++ + +EG+D+ + ++ + + S IQR+GR R G+
Sbjct: 387 LEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSKGK 442
>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 = 39.3 bits (90), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 42/175 (24%), Positives = 72/175 (41%), Gaps = 14/175 (8%)
Query: 116 AITKTALFSNTLVALPTGLGKTLIAAVVIYNFFRWFPDGKIVFAAPSRPLVMQQIEACHN 175
A+ K N L+A+PT GKTL+A + + GK ++ P R L ++ E+
Sbjct: 33 AVEKVFSGKNLLLAMPTAAGKTLLAEMAMVR--EAIKGGKSLYVVPLRALAGEKYESFKK 90
Query: 176 IVGIPQEWTIDMTGQISPTKRASFWKTKRVFFVTPQVLEKDIQSGTCLMKYLVCLVIDEA 235
I I TG R + T + + I++ +K + CLV+DE
Sbjct: 91 WEKIGLRIGIS-TGDYES--RDEHLGDCDIIVTTSEKADSLIRNRASWIKAVSCLVVDEI 147
Query: 236 H------RATGNYAYCTAIRELMSVPVQLRILALTATPGSKQQTIQHIIDNLYIS 284
H R T +R + LR++ L+AT + + + + + Y+S
Sbjct: 148 HLLDSEKRGATLEILVTKMRRMNKA---LRVIGLSATAPNVTEIAEWLDADYYVS 199
>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 = 38.5 bits (88), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 6/57 (10%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFD------ANVSPLRMIQRMGRTGR 565
++ FR G V++ T++ G+DI V +V+ +D P I R+GRTGR
Sbjct: 286 IDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGR 342
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 38.5 bits (88), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 6/57 (10%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFD------ANVSPLRMIQRMGRTGR 565
++ FR G V++ T++ G+DI V +V+ +D P I R+GRTGR
Sbjct: 286 IDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGR 342
>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 = 38.1 bits (87), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 31/61 (50%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGRKHDGRIPHI 574
+E FR G +V+VAT + +GLD + VI +D + R+GRTG + I
Sbjct: 97 IEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATT 156
Query: 575 F 575
F
Sbjct: 157 F 157
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 38.1 bits (87), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 6/57 (10%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFD------ANVSPLRMIQRMGRTGR 565
++ FR G V++ T++ G+DI V +V+ +D P I R+GRTGR
Sbjct: 78 IDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGR 134
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 37.7 bits (86), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 40/159 (25%), Positives = 68/159 (42%), Gaps = 9/159 (5%)
Query: 127 LVALPTGLGKTL---IAAVVIYNFFRWFPDGK--IVFAAPSRPLVMQQIEACHNIVGI-P 180
L A TG GKTL I AV + R+ P ++ +P+R L MQ ++
Sbjct: 95 LAAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTGVLILSPTRELAMQTFGVLKELMTHHV 154
Query: 181 QEWTIDMTGQISPTKRASFWKTKRVFFVTPQVLEKDIQSGTCLM-KYLVCLVIDEAHRAT 239
+ + M G + + TP L +Q+ M K L CLVIDEA R
Sbjct: 155 HTYGLIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRIL 214
Query: 240 GNYAYCTAIRELMS-VPVQLRILALTATPGSKQQTIQHI 277
+ + +++++ +P + + + +AT K + + I
Sbjct: 215 -DVGFEEELKQIIKLLPTRRQTMLFSATQTRKVEDLARI 252
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 37.4 bits (85), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 30/59 (50%), Gaps = 5/59 (8%)
Query: 518 FRAGGYNVIVATSIGEEGLDIMEVDLVICFDAN-----VSPLRMIQRMGRTGRKHDGRI 571
R G Y+ +V ++ EGLDI EV LV DA+ S +IQ +GR R G +
Sbjct: 485 LRLGHYDCLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNARGEV 543
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 37.4 bits (85), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 30/59 (50%), Gaps = 5/59 (8%)
Query: 518 FRAGGYNVIVATSIGEEGLDIMEVDLVICFDAN-----VSPLRMIQRMGRTGRKHDGRI 571
R G Y+ +V ++ EGLDI EV LV DA+ S +IQ +GR R G +
Sbjct: 486 LRLGHYDCLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNARGEV 544
>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 = 37.0 bits (84), Expect = 0.057, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 6/57 (10%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFD------ANVSPLRMIQRMGRTGR 565
++ FR G V++ T++ G+DI V V+ +D P I R+GRTGR
Sbjct: 79 IDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGR 135
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 37.0 bits (84), Expect = 0.058, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 6/57 (10%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFD------ANVSPLRMIQRMGRTGR 565
++ FR G V++ T++ G+DI V V+ +D P I R+GRTGR
Sbjct: 80 IDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGR 136
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 37.0 bits (84), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR-KHDGRIPH 573
+FR G +V + + G+DI V++VI FD + + R+GR+GR H G +
Sbjct: 301 FHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAIN 360
Query: 574 IFKPEVQFVELSIEQ 588
+ +F IEQ
Sbjct: 361 LINWNDRFNLYKIEQ 375
>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 = 37.0 bits (84), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 6/57 (10%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLR------MIQRMGRTGR 565
+++FR G V++ T++ G+D+ +V +V+ FD V + R+GRTGR
Sbjct: 77 IQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGR 133
>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 = 36.6 bits (83), Expect = 0.076, Method: Composition-based stats.
Identities = 28/98 (28%), Positives = 39/98 (39%), Gaps = 12/98 (12%)
Query: 448 LEVLVDHFKTKDPKHSRVIIFSNFRGSVRDIMNALATIGDLVKATEFIXXXXXXXXXXXX 507
LEVL D P R ++F+ + +I L +G +A
Sbjct: 19 LEVLSDLLYVASP--DRAMVFTRTKAETEEIAQGLLRLGHPAQALH----------GDLS 66
Query: 508 XXXXXXXLEKFRAGGYNVIVATSIGEEGLDIMEVDLVI 545
L FR G V+VAT + GLDI +VDLV+
Sbjct: 67 QGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVV 104
>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 = 36.2 bits (82), Expect = 0.10, Method: Composition-based stats.
Identities = 27/98 (27%), Positives = 39/98 (39%), Gaps = 12/98 (12%)
Query: 448 LEVLVDHFKTKDPKHSRVIIFSNFRGSVRDIMNALATIGDLVKATEFIXXXXXXXXXXXX 507
LEVL D P R ++F+ + +I L +G +A
Sbjct: 16 LEVLSDLLYVASP--DRAMVFTRTKAETEEIAQGLLRLGHPAQALH----------GDMS 63
Query: 508 XXXXXXXLEKFRAGGYNVIVATSIGEEGLDIMEVDLVI 545
+ FR G V+VAT + GLDI +VDLV+
Sbjct: 64 QGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVV 101
>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 = 34.7 bits (78), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 518 FRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR-KHDGRIPHIFK 576
FR G +V T + G+DI V++VI FD + R+GR+GR H G ++
Sbjct: 90 FRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLIT 149
Query: 577 PEVQFVELSIEQ 588
+ +F SIE+
Sbjct: 150 YDDRFNLKSIEE 161
>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 = 34.3 bits (77), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 37/161 (22%), Positives = 69/161 (42%), Gaps = 6/161 (3%)
Query: 125 NTLVALPTGLGKTLIAAVVIYNFFRWFPDGKIVFAAPSRPLVMQQIEACHNIVGIPQEWT 184
N L+++PT GKTLIA + + + GK V+ P + L ++ + + I
Sbjct: 41 NALISIPTASGKTLIAEIAMVHRI-LTQGGKAVYIVPLKALAEEKFQEFQDWEKIGLRVA 99
Query: 185 IDMTGQISPTKRASFWKTKR-VFFVTPQVLEKDIQSGTCLMKYLVCLVIDEAHRATGNYA 243
+ TG W K + T + + ++ G+ +K + LV DE H
Sbjct: 100 M-ATGDYDSKDE---WLGKYDIIIATAEKFDSLLRHGSSWIKDVKILVADEIHLIGSRDR 155
Query: 244 YCTAIRELMSVPVQLRILALTATPGSKQQTIQHIIDNLYIS 284
T L + + +I+ L+AT G+ ++ + + L +S
Sbjct: 156 GATLEVILAHMLGKAQIIGLSATIGNPEELAEWLNAELIVS 196
>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 = 33.9 bits (76), Expect = 0.58, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 27/48 (56%)
Query: 518 FRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR 565
F+ +++AT + G+D+ +++ VI + +P R+GRTGR
Sbjct: 284 FKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGR 331
>pdb|3OYM|A Chain A, Crystal Structure Of The Pfv N224h Mutant Intasome Bound
To Manganese
pdb|3OYM|B Chain B, Crystal Structure Of The Pfv N224h Mutant Intasome Bound
To Manganese
pdb|3OYN|A Chain A, Crystal Structure Of The Pfv N224h Mutant Intasome Bound
To Magnesium And The Insti Mk2048
pdb|3OYN|B Chain B, Crystal Structure Of The Pfv N224h Mutant Intasome Bound
To Magnesium And The Insti Mk2048
pdb|3S3O|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv) N224h
Mutant Intasome In Complex With Magnesium And
Dolutegravir (SGSK1349572)
pdb|3S3O|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv) N224h
Mutant Intasome In Complex With Magnesium And
Dolutegravir (SGSK1349572)
Length = 395
Score = 33.1 bits (74), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 35/137 (25%), Positives = 54/137 (39%), Gaps = 25/137 (18%)
Query: 59 QSTLDKFFGN-LGPKPQGTEEFNEGSSFDESLCHVQIDAEAAKTWIYPVNVPVRDYQFAI 117
Q DKFF + +GP P ++G + V +D TW+YP P +
Sbjct: 122 QKPFDKFFIDYIGPLPP-----SQGYLY----VLVVVDGMTGFTWLYPTKAP----STSA 168
Query: 118 TKTALFSNTLVALPTGLGKTLIAAVVIYNFFRWFPDGKI--VFAAPSRPLVMQQIEACHN 175
T +L T +A+P + AA F W + I F+ P P ++E H+
Sbjct: 169 TVKSLNVLTSIAIPKVIHSDQGAAFTSSTFAEWAKERGIHLEFSTPYHPQSSGKVERKHS 228
Query: 176 ---------IVGIPQEW 183
+VG P +W
Sbjct: 229 DIKRLLTKLLVGRPTKW 245
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 32.3 bits (72), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR--KHDGRIP 572
+++F+ ++V T +G G+D V V+ I R+GRT R K +
Sbjct: 334 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVL 393
Query: 573 HIFKPEVQFV 582
I K E+ FV
Sbjct: 394 FICKDELPFV 403
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 24/34 (70%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFD 548
+++FR+G ++++T + G+D+ +V LVI +D
Sbjct: 73 MKEFRSGSSRILISTDLLARGIDVQQVSLVINYD 106
>pdb|2GJK|A Chain A, Structural And Functional Insights Into The Human Upf1
Helicase Core
pdb|2GK6|A Chain A, Structural And Functional Insights Into The Human Upf1
Helicase Core
pdb|2GK6|B Chain B, Structural And Functional Insights Into The Human Upf1
Helicase Core
pdb|2GK7|A Chain A, Structural And Functional Insights Into The Human Upf1
Helicase Core
Length = 624
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 126 TLVALPTGLGKTLIAAVVIYNFFRWFPDGKIVFAAPSRPLVMQQIEACHN 175
+L+ P G GKT+ +A ++Y+ R +G ++ APS V Q E H
Sbjct: 198 SLIQGPPGTGKTVTSATIVYHLARQ-GNGPVLVCAPSNIAVDQLTEKIHQ 246
>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 = 32.0 bits (71), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 1/64 (1%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRM-GRTGRKHDGRIPH 573
+ F +NV+V T+I E G+DI + +I A+ L + ++ GR GR H
Sbjct: 857 MNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLRGRVGRSHHQAYAW 916
Query: 574 IFKP 577
+ P
Sbjct: 917 LLTP 920
>pdb|2XZO|A Chain A, Upf1 Helicase - Rna Complex
pdb|2XZP|A Chain A, Upf1 Helicase
Length = 623
Score = 32.0 bits (71), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 126 TLVALPTGLGKTLIAAVVIYNFFRWFPDGKIVFAAPSRPLVMQQIEACHN 175
+L+ P G GKT+ +A ++Y+ R +G ++ APS V Q E H
Sbjct: 197 SLIQGPPGTGKTVTSATIVYHLARQ-GNGPVLVCAPSNIAVDQLTEKIHQ 245
>pdb|2WJV|A Chain A, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2
pdb|2WJV|B Chain B, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2
pdb|2WJY|A Chain A, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2 Orthorhombic Form
Length = 800
Score = 32.0 bits (71), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 126 TLVALPTGLGKTLIAAVVIYNFFRWFPDGKIVFAAPSRPLVMQQIEACH 174
+L+ P G GKT+ +A ++Y+ R +G ++ APS V Q E H
Sbjct: 374 SLIQGPPGTGKTVTSATIVYHLARQ-GNGPVLVCAPSNIAVDQLTEKIH 421
>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 = 32.0 bits (71), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 24/34 (70%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFD 548
+++FR+G ++++T + G+D+ +V LVI +D
Sbjct: 303 MKEFRSGSSRILISTDLLARGIDVQQVSLVINYD 336
>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 = 32.0 bits (71), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR--KHDGRIP 572
+++F+ ++V T +G G+D V V+ I R+GRT R K +
Sbjct: 385 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVL 444
Query: 573 HIFKPEVQFV 582
I K E+ FV
Sbjct: 445 FICKDELPFV 454
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 32.0 bits (71), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 22/34 (64%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFD 548
+ +FR+G V++ T + G+D+ +V LVI +D
Sbjct: 323 MREFRSGSSRVLITTDLLARGIDVQQVSLVINYD 356
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR--KHDGRIP 572
+++F+ ++V T +G G+D V V+ I R+GRT R K +
Sbjct: 334 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVL 393
Query: 573 HIFKPEVQFV 582
I K E+ FV
Sbjct: 394 FICKDELPFV 403
>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 = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 22/34 (64%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFD 548
+ +FR+G V++ T + G+D+ +V LVI +D
Sbjct: 297 MREFRSGSSRVLITTDLLARGIDVQQVSLVINYD 330
>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 = 31.6 bits (70), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR--KHDGRIP 572
+++F+ ++V T +G G+D V V+ I R+GRT R K +
Sbjct: 79 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVL 138
Query: 573 HIFKPEVQFV 582
I K E+ FV
Sbjct: 139 FICKDELPFV 148
>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 = 31.6 bits (70), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR--KHDGRIP 572
+++F+ ++V T +G G+D V V+ I R+GRT R K +
Sbjct: 79 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVL 138
Query: 573 HIFKPEVQFV 582
I K E+ FV
Sbjct: 139 FICKDELPFV 148
>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 = 31.6 bits (70), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 2/70 (2%)
Query: 515 LEKFRAGGYNVIVATSIGEEGLDIMEVDLVICFDANVSPLRMIQRMGRTGR--KHDGRIP 572
+++F+ ++V T +G G+D V V+ I R+GRT R K +
Sbjct: 79 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVL 138
Query: 573 HIFKPEVQFV 582
I K E+ FV
Sbjct: 139 FICKDELPFV 148
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 31.6 bits (70), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 33/163 (20%), Positives = 65/163 (39%), Gaps = 28/163 (17%)
Query: 110 VRDYQFAITKTAL-FSNTLVALPTGLGKTLIAAVVIYNFF----RWFPDGKIVFAAPSRP 164
+R YQ + + AL N ++ LPTG GKT +A + + + GK++
Sbjct: 34 LRPYQMEVAQPALEGKNIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVL 93
Query: 165 LVMQQ--------IEACHNIVGIPQEWTIDMTGQISPTKRASFWKTKRVFFVTPQVLEKD 216
LV Q ++ + ++G+ + + ++ K+ + T Q+LE
Sbjct: 94 LVEQLFRKEFQPFLKKWYRVIGLSGDTQLKIS-------FPEVVKSCDIIISTAQILENS 146
Query: 217 I-------QSGTCLMKYLVCLVIDEAHRATGNYAYCTAIRELM 252
+ +G L + + ++IDE H Y +R +
Sbjct: 147 LLNLENGEDAGVQLSDFSL-IIIDECHHTNKEAVYNNIMRHYL 188
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 31.2 bits (69), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 23/33 (69%)
Query: 516 EKFRAGGYNVIVATSIGEEGLDIMEVDLVICFD 548
++FR+G ++++T + G+D+ +V LVI +D
Sbjct: 303 KEFRSGSSRILISTDLLARGIDVQQVSLVINYD 335
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 30.8 bits (68), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 116 AITKTALFSNTLVAL-PTGLGKTLIAAVVIYNFFRWFPDGKIVFAAPSRPLVMQQ 169
A+ K L N L+ PTG GKTLIA + I +F GK ++ P R L ++
Sbjct: 38 AVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLL-KNGGKAIYVTPLRALTNEK 91
>pdb|3OYI|A Chain A, Crystal Structure Of The Pfv S217q Mutant Intasome In
Complex With Manganese
pdb|3OYI|B Chain B, Crystal Structure Of The Pfv S217q Mutant Intasome In
Complex With Manganese
pdb|3OYJ|A Chain A, Crystal Structure Of The Pfv S217q Mutant Intasome In
Complex With Magnesium And The Insti Mk2048
pdb|3OYJ|B Chain B, Crystal Structure Of The Pfv S217q Mutant Intasome In
Complex With Magnesium And The Insti Mk2048
Length = 395
Score = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 34/137 (24%), Positives = 54/137 (39%), Gaps = 25/137 (18%)
Query: 59 QSTLDKFFGN-LGPKPQGTEEFNEGSSFDESLCHVQIDAEAAKTWIYPVNVPVRDYQFAI 117
Q DKFF + +GP P ++G + V +D TW+YP P +
Sbjct: 122 QKPFDKFFIDYIGPLPP-----SQGYLY----VLVVVDGMTGFTWLYPTKAP----STSA 168
Query: 118 TKTALFSNTLVALPTGLGKTLIAAVVIYNFFRWFPDGKI--VFAAPSRPLVMQQIEACHN 175
T +L T +A+P + AA F W + I F+ P P ++E ++
Sbjct: 169 TVKSLNVLTSIAIPKVIHSDQGAAFTSSTFAEWAKERGIHLEFSTPYHPQSQGKVERKNS 228
Query: 176 ---------IVGIPQEW 183
+VG P +W
Sbjct: 229 DIKRLLTKLLVGRPTKW 245
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 30.4 bits (67), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 19/44 (43%)
Query: 125 NTLVALPTGLGKTLIAAVVIYNFFRWFPDGKIVFAAPSRPLVMQ 168
N V PTG GKT+ A I +G+ V+ P L Q
Sbjct: 944 NVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYITPMEALAEQ 987
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 30.4 bits (67), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 19/44 (43%)
Query: 125 NTLVALPTGLGKTLIAAVVIYNFFRWFPDGKIVFAAPSRPLVMQ 168
N V PTG GKT+ A I +G+ V+ P L Q
Sbjct: 944 NVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYITPMEALAEQ 987
>pdb|4BAC|A Chain A, Prototype Foamy Virus Strand Transfer Complexes On Product
Dna
pdb|4BAC|B Chain B, Prototype Foamy Virus Strand Transfer Complexes On Product
Dna
Length = 396
Score = 30.0 bits (66), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 34/137 (24%), Positives = 54/137 (39%), Gaps = 25/137 (18%)
Query: 59 QSTLDKFFGN-LGPKPQGTEEFNEGSSFDESLCHVQIDAEAAKTWIYPVNVPVRDYQFAI 117
Q DKFF + +GP P ++G + V +D TW+YP P +
Sbjct: 123 QKPFDKFFIDYIGPLPP-----SQGYLY----VLVVVDGMTGFTWLYPTKAP----STSA 169
Query: 118 TKTALFSNTLVALPTGLGKTLIAAVVIYNFFRWFPDGKI--VFAAPSRPLVMQQIEACHN 175
T +L T +A+P + AA F W + I F+ P P ++E ++
Sbjct: 170 TVKSLNVLTSIAIPKVIHSDQGAAFTSSTFAEWAKERGIHLEFSTPYHPQSGSKVERKNS 229
Query: 176 ---------IVGIPQEW 183
+VG P +W
Sbjct: 230 DIKRLLTKLLVGRPTKW 246
>pdb|3OYK|A Chain A, Crystal Structure Of The Pfv S217h Mutant Intasome Bound
To Manganese
pdb|3OYK|B Chain B, Crystal Structure Of The Pfv S217h Mutant Intasome Bound
To Manganese
pdb|3OYL|A Chain A, Crystal Structure Of The Pfv S217h Mutant Intasome Bound
To Magnesium And The Insti Mk2048
pdb|3OYL|B Chain B, Crystal Structure Of The Pfv S217h Mutant Intasome Bound
To Magnesium And The Insti Mk2048
pdb|3S3N|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv) S217h
Mutant Intasome In Complex With Magnesium And
Dolutegravir (SGSK1349572)
pdb|3S3N|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv) S217h
Mutant Intasome In Complex With Magnesium And
Dolutegravir (SGSK1349572)
Length = 395
Score = 30.0 bits (66), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 34/137 (24%), Positives = 54/137 (39%), Gaps = 25/137 (18%)
Query: 59 QSTLDKFFGN-LGPKPQGTEEFNEGSSFDESLCHVQIDAEAAKTWIYPVNVPVRDYQFAI 117
Q DKFF + +GP P ++G + V +D TW+YP P +
Sbjct: 122 QKPFDKFFIDYIGPLPP-----SQGYLY----VLVVVDGMTGFTWLYPTKAP----STSA 168
Query: 118 TKTALFSNTLVALPTGLGKTLIAAVVIYNFFRWFPDGKI--VFAAPSRPLVMQQIEACHN 175
T +L T +A+P + AA F W + I F+ P P ++E ++
Sbjct: 169 TVKSLNVLTSIAIPKVIHSDQGAAFTSSTFAEWAKERGIHLEFSTPYHPQSHGKVERKNS 228
Query: 176 ---------IVGIPQEW 183
+VG P +W
Sbjct: 229 DIKRLLTKLLVGRPTKW 245
>pdb|2VK9|A Chain A, Crystal Structure Of The Catalytic Domain Of Alpha-Toxin
From Clostridium Novyi
Length = 551
Score = 30.0 bits (66), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 22/33 (66%), Gaps = 1/33 (3%)
Query: 443 KLSKMLEVLVDHFKTKDPKHSRVIIFSNFRGSV 475
KLSK+ E LVD+++TK P R + NFR S+
Sbjct: 48 KLSKLNE-LVDNYQTKYPSSGRNLALENFRDSL 79
>pdb|3L2Q|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Apo Form
pdb|3L2Q|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Apo Form
pdb|3L2R|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium
pdb|3L2R|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium
pdb|3L2U|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And Gs9137
(Elvitegravir)
pdb|3L2U|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And Gs9137
(Elvitegravir)
pdb|3L2V|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Manganese And Mk0518
(Raltegravir)
pdb|3L2V|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Manganese And Mk0518
(Raltegravir)
pdb|3L2W|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Manganese And Gs9137
(Elvitegravir)
pdb|3L2W|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Manganese And Gs9137
(Elvitegravir)
pdb|3OY9|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Manganese At 2.55 Resolution
pdb|3OY9|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Manganese At 2.55 Resolution
pdb|3OYA|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And Raltegravir At
2.65 Resolution
pdb|3OYA|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And Raltegravir At
2.65 Resolution
pdb|3OS0|A Chain A, Pfv Strand Transfer Complex (Stc) At 2.81 A Resolution
pdb|3OS0|B Chain B, Pfv Strand Transfer Complex (Stc) At 2.81 A Resolution
pdb|3OS1|A Chain A, Pfv Target Capture Complex (Tcc) At 2.97 A Resolution
pdb|3OS1|B Chain B, Pfv Target Capture Complex (Tcc) At 2.97 A Resolution
pdb|3OS2|A Chain A, Pfv Target Capture Complex (Tcc) At 3.32 A Resolution
pdb|3OS2|B Chain B, Pfv Target Capture Complex (Tcc) At 3.32 A Resolution
pdb|3OYB|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And The Insti Mk2048
pdb|3OYB|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And The Insti Mk2048
pdb|3OYC|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And The Insti Pica
pdb|3OYC|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And The Insti Pica
pdb|3OYD|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And The Insti Gs9160
pdb|3OYD|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And The Insti Gs9160
pdb|3OYE|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And The Insti
Compound2
pdb|3OYE|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And The Insti
Compound2
pdb|3OYF|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And The Insti
L-870,810
pdb|3OYF|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And The Insti
L-870,810
pdb|3OYG|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And The Insti
Compound1 (Compoundg)
pdb|3OYG|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And The Insti
Compound1 (Compoundg)
pdb|3OYH|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And The Insti Mk0536
pdb|3OYH|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And The Insti Mk0536
pdb|3S3M|A Chain A, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And Dolutegravir
(SGSK1349572)
pdb|3S3M|B Chain B, Crystal Structure Of The Prototype Foamy Virus (Pfv)
Intasome In Complex With Magnesium And Dolutegravir
(SGSK1349572)
pdb|4E7H|A Chain A, Pfv Intasome Prior To 3'-Processing, Apo Form (Ui-Apo)
pdb|4E7H|B Chain B, Pfv Intasome Prior To 3'-Processing, Apo Form (Ui-Apo)
pdb|4E7I|A Chain A, Pfv Intasome Freeze-Trapped Prior To 3'-Processing,
Mn-Bound Form (Ui- Mn)
pdb|4E7I|B Chain B, Pfv Intasome Freeze-Trapped Prior To 3'-Processing,
Mn-Bound Form (Ui- Mn)
pdb|4E7J|A Chain A, Pfv Integrase Target Capture Complex, Apo Form (Tcc-Apo),
At 3.15 A Resolution
pdb|4E7J|B Chain B, Pfv Integrase Target Capture Complex, Apo Form (Tcc-Apo),
At 3.15 A Resolution
pdb|4E7K|A Chain A, Pfv Integrase Target Capture Complex (Tcc-Mn),
Freeze-Trapped Prior To Strand Transfer, At 3.0 A
Resolution
pdb|4E7K|B Chain B, Pfv Integrase Target Capture Complex (Tcc-Mn),
Freeze-Trapped Prior To Strand Transfer, At 3.0 A
Resolution
pdb|4E7L|A Chain A, Pfv Integrase Strand Transfer Complex (Stc-Mn) Following
Reaction In Crystallo, At 3.0 A Resolution.
pdb|4E7L|B Chain B, Pfv Integrase Strand Transfer Complex (Stc-Mn) Following
Reaction In Crystallo, At 3.0 A Resolution.
pdb|4BDY|A Chain A, Pfv Intasome With Inhibitor Xz-89
pdb|4BDY|B Chain B, Pfv Intasome With Inhibitor Xz-89
pdb|4BDZ|A Chain A, Pfv Intasome With Inhibitor Xz-90
pdb|4BDZ|B Chain B, Pfv Intasome With Inhibitor Xz-90
pdb|4BE0|A Chain A, Pfv Intasome With Inhibitor Xz-115
pdb|4BE0|B Chain B, Pfv Intasome With Inhibitor Xz-115
pdb|4BE1|A Chain A, Pfv Intasome With Inhibitor Xz-116
pdb|4BE1|B Chain B, Pfv Intasome With Inhibitor Xz-116
pdb|4BE2|A Chain A, Pfv Intasome With Inhibitor Xz-259
pdb|4BE2|B Chain B, Pfv Intasome With Inhibitor Xz-259
Length = 395
Score = 30.0 bits (66), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 34/137 (24%), Positives = 54/137 (39%), Gaps = 25/137 (18%)
Query: 59 QSTLDKFFGN-LGPKPQGTEEFNEGSSFDESLCHVQIDAEAAKTWIYPVNVPVRDYQFAI 117
Q DKFF + +GP P ++G + V +D TW+YP P +
Sbjct: 122 QKPFDKFFIDYIGPLPP-----SQGYLY----VLVVVDGMTGFTWLYPTKAP----STSA 168
Query: 118 TKTALFSNTLVALPTGLGKTLIAAVVIYNFFRWFPDGKI--VFAAPSRPLVMQQIEACHN 175
T +L T +A+P + AA F W + I F+ P P ++E ++
Sbjct: 169 TVKSLNVLTSIAIPKVIHSDQGAAFTSSTFAEWAKERGIHLEFSTPYHPQSSGKVERKNS 228
Query: 176 ---------IVGIPQEW 183
+VG P +W
Sbjct: 229 DIKRLLTKLLVGRPTKW 245
>pdb|2X74|A Chain A, Human Foamy Virus Integrase - Catalytic Core.
pdb|2X74|B Chain B, Human Foamy Virus Integrase - Catalytic Core.
pdb|2X74|C Chain C, Human Foamy Virus Integrase - Catalytic Core.
pdb|2X74|D Chain D, Human Foamy Virus Integrase - Catalytic Core.
pdb|2X74|E Chain E, Human Foamy Virus Integrase - Catalytic Core.
pdb|2X74|F Chain F, Human Foamy Virus Integrase - Catalytic Core
Length = 200
Score = 30.0 bits (66), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 34/137 (24%), Positives = 54/137 (39%), Gaps = 25/137 (18%)
Query: 59 QSTLDKFFGN-LGPKPQGTEEFNEGSSFDESLCHVQIDAEAAKTWIYPVNVPVRDYQFAI 117
Q DKFF + +GP P ++G + V +D TW+YP P +
Sbjct: 10 QKPFDKFFXDYIGPLPP-----SQGYLY----VLVVVDGXTGFTWLYPTKAP----STSA 56
Query: 118 TKTALFSNTLVALPTGLGKTLIAAVVIYNFFRWFPDGKI--VFAAPSRPLVMQQIEACHN 175
T +L T +A+P + AA F W + I F+ P P ++E ++
Sbjct: 57 TVKSLNVLTSIAIPRVIHSDQGAAFTSSTFAEWAKERGIHLEFSTPYHPQSGSKVERKNS 116
Query: 176 ---------IVGIPQEW 183
+VG P +W
Sbjct: 117 DXKRLLTKLLVGRPTKW 133
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
0.317 0.132 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 32,666,846
Number of Sequences: 62578
Number of extensions: 1338924
Number of successful extensions: 3123
Number of sequences better than 100.0: 84
Number of HSP's better than 100.0 without gapping: 52
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 3036
Number of HSP's gapped (non-prelim): 98
length of query: 1165
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1056
effective length of database: 8,152,335
effective search space: 8608865760
effective search space used: 8608865760
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (26.6 bits)