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= 007492
(601 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 236 bits (602), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 106/210 (50%), Positives = 156/210 (74%), Gaps = 1/210 (0%)
Query: 391 LPQGTVRKHLKGYEEVIIPPTPTAQMKPGEKLIEIKELDEFAQAAFHGYKSLNRIQSRIF 450
LP G+ R+ KGYEEV +P E+L+ +++L ++AQA F G+K+LNRIQS+++
Sbjct: 29 LPDGSFRRQRKGYEEVHVPALKPKPFGSEEQLLPVEKLPKYAQAGFEGFKTLNRIQSKLY 88
Query: 451 QTVYYTNENILVCAPTGAGKTNIAMISILHEIGQHFR-DGYLHKDEFKIVYVAPMKALAA 509
+ T+EN+L+CAPTGAGKTN+A++ +L EIG+H DG ++ D+FKI+Y+APM++L
Sbjct: 89 RAALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQ 148
Query: 510 EVTRTFSSRLSPLNMIVRELTGDMQLSRNELEETQMIVTTPEKWDVITRKSSDMSLSMLV 569
E+ +F RL+ + V ELTGD QL + E+ TQ+IV TPEKWD+ITRK + + + LV
Sbjct: 149 EMVGSFGKRLATYGITVAELTGDHQLCKEEISATQIIVCTPEKWDIITRKGGERTYTQLV 208
Query: 570 KLLIIDEVHLLNDDRGPVIEALVARTLRQV 599
+L+I+DE+HLL+DDRGPV+EALVAR +R +
Sbjct: 209 RLIILDEIHLLHDDRGPVLEALVARAIRNI 238
Score = 103 bits (256), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 61/189 (32%), Positives = 101/189 (53%), Gaps = 15/189 (7%)
Query: 409 PPTPTAQMKPGEKLIEIKELDEFAQAAFH--GYKSLNRIQSRIFQTVYYTNENILVCAPT 466
PPT ++P + + L A + + + N IQ+++F TVY +++N+ V APT
Sbjct: 896 PPTELLDLQP----LPVSALRNSAFESLYQDKFPFFNPIQTQVFNTVYNSDDNVFVGAPT 951
Query: 467 GAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALAAEVTRTFSSRLSP-LNMI 525
G+GKT A +IL + L E + VY+ PM+ALA +V + + LN
Sbjct: 952 GSGKTICAEFAILRML--------LQSSEGRCVYITPMEALAEQVYMDWYEKFQDRLNKK 1003
Query: 526 VRELTGDMQLSRNELEETQMIVTTPEKWDVITRKSSDMSLSMLVKLLIIDEVHLLNDDRG 585
V LTG+ L + +I++TPEKWD+++R+ + L ++DEVHL+ + G
Sbjct: 1004 VVLLTGETSTDLKLLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLIGGENG 1063
Query: 586 PVIEALVAR 594
PV+E + +R
Sbjct: 1064 PVLEVICSR 1072
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 236 bits (602), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 106/210 (50%), Positives = 156/210 (74%), Gaps = 1/210 (0%)
Query: 391 LPQGTVRKHLKGYEEVIIPPTPTAQMKPGEKLIEIKELDEFAQAAFHGYKSLNRIQSRIF 450
LP G+ R+ KGYEEV +P E+L+ +++L ++AQA F G+K+LNRIQS+++
Sbjct: 29 LPDGSFRRQRKGYEEVHVPALKPKPFGSEEQLLPVEKLPKYAQAGFEGFKTLNRIQSKLY 88
Query: 451 QTVYYTNENILVCAPTGAGKTNIAMISILHEIGQHFR-DGYLHKDEFKIVYVAPMKALAA 509
+ T+EN+L+CAPTGAGKTN+A++ +L EIG+H DG ++ D+FKI+Y+APM++L
Sbjct: 89 RAALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQ 148
Query: 510 EVTRTFSSRLSPLNMIVRELTGDMQLSRNELEETQMIVTTPEKWDVITRKSSDMSLSMLV 569
E+ +F RL+ + V ELTGD QL + E+ TQ+IV TPEKWD+ITRK + + + LV
Sbjct: 149 EMVGSFGKRLATYGITVAELTGDHQLCKEEISATQIIVCTPEKWDIITRKGGERTYTQLV 208
Query: 570 KLLIIDEVHLLNDDRGPVIEALVARTLRQV 599
+L+I+DE+HLL+DDRGPV+EALVAR +R +
Sbjct: 209 RLIILDEIHLLHDDRGPVLEALVARAIRNI 238
Score = 103 bits (256), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 61/189 (32%), Positives = 101/189 (53%), Gaps = 15/189 (7%)
Query: 409 PPTPTAQMKPGEKLIEIKELDEFAQAAFH--GYKSLNRIQSRIFQTVYYTNENILVCAPT 466
PPT ++P + + L A + + + N IQ+++F TVY +++N+ V APT
Sbjct: 896 PPTELLDLQP----LPVSALRNSAFESLYQDKFPFFNPIQTQVFNTVYNSDDNVFVGAPT 951
Query: 467 GAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALAAEVTRTFSSRLSP-LNMI 525
G+GKT A +IL + L E + VY+ PM+ALA +V + + LN
Sbjct: 952 GSGKTICAEFAILRML--------LQSSEGRCVYITPMEALAEQVYMDWYEKFQDRLNKK 1003
Query: 526 VRELTGDMQLSRNELEETQMIVTTPEKWDVITRKSSDMSLSMLVKLLIIDEVHLLNDDRG 585
V LTG+ L + +I++TPEKWD+++R+ + L ++DEVHL+ + G
Sbjct: 1004 VVLLTGETSTDLKLLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLIGGENG 1063
Query: 586 PVIEALVAR 594
PV+E + +R
Sbjct: 1064 PVLEVICSR 1072
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 69.3 bits (168), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 51/162 (31%), Positives = 79/162 (48%), Gaps = 13/162 (8%)
Query: 438 GYKSLNRIQSRIFQTVYYTNENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFK 497
G K LN Q+ + +L+ +PTG+GKT IA + I+ +L K+ K
Sbjct: 27 GIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGII---------SFLLKNGGK 77
Query: 498 IVYVAPMKALAAEVTRTFSSRLSPLNMIVRELTGDMQLSRNELEETQMIVTTPEKWDVIT 557
+YV P++AL E TF + V +GD L+ +I+TT EK D +
Sbjct: 78 AIYVTPLRALTNEKYLTFKD-WELIGFKVAMTSGDYDTDDAWLKNYDIIITTYEKLDSLW 136
Query: 558 RKSSDMSLSMLVKLLIIDEVHLLND-DRGPVIEALVARTLRQ 598
R + V ++DE+H LND +RGPV+E++ R R+
Sbjct: 137 RHRPEWLNE--VNYFVLDELHYLNDPERGPVVESVTIRAKRR 176
>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 = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 52/161 (32%), Positives = 79/161 (49%), Gaps = 13/161 (8%)
Query: 437 HGYKSLNRIQSRIFQTVYYTNENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEF 496
G +S Q+ ++ +N L+ PT +GKT IA I+++H I G
Sbjct: 19 RGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQ--GG------- 69
Query: 497 KIVYVAPMKALAAEVTRTFSSRLSPLNMIVRELTGDMQLSRNELEETQMIVTTPEKWDVI 556
K VY+ P+KALA E + F + + V TGD L + +I+ T EK+D +
Sbjct: 70 KAVYIVPLKALAEEKFQEFQD-WEKIGLRVAMATGDYDSKDEWLGKYDIIIATAEKFDSL 128
Query: 557 TRKSSDMSLSMLVKLLIIDEVHLLND-DRGPVIEALVARTL 596
R S S VK+L+ DE+HL+ DRG +E ++A L
Sbjct: 129 LRHGS--SWIKDVKILVADEIHLIGSRDRGATLEVILAHML 167
>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 = 66.2 bits (160), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 46/144 (31%), Positives = 77/144 (53%), Gaps = 14/144 (9%)
Query: 455 YTNENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALAAEVTRT 514
++ +N+L+ PT AGKT +A ++++ E + G K +YV P++ALA E +
Sbjct: 38 FSGKNLLLAMPTAAGKTLLAEMAMVRE---AIKGG-------KSLYVVPLRALAGEKYES 87
Query: 515 FSSRLSPLNMIVRELTGDMQLSRNELEETQMIVTTPEKWDVITRKSSDMSLSMLVKLLII 574
F + + + + TGD + L + +IVTT EK D + R + S V L++
Sbjct: 88 FK-KWEKIGLRIGISTGDYESRDEHLGDCDIIVTTSEKADSLIRNRA--SWIKAVSCLVV 144
Query: 575 DEVHLLNDD-RGPVIEALVARTLR 597
DE+HLL+ + RG +E LV + R
Sbjct: 145 DEIHLLDSEKRGATLEILVTKMRR 168
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 52.4 bits (124), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 41/145 (28%), Positives = 74/145 (51%), Gaps = 21/145 (14%)
Query: 451 QTVYYTNE--NILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALA 508
+ VY+ + ++ V A T AGKT +A +I H++ K +Y +P+KAL+
Sbjct: 46 EAVYHLEQGDSVFVAAHTSAGKTVVAEYAI----------AMAHRNMTKTIYTSPIKALS 95
Query: 509 AEVTRTFSSRLSPLNMIVRELTGDMQLSRNELEETQMIVTTPEKWDVITRKSSDMSLSML 568
+ R F +N+ + +TGD+Q++ + ++ T E + + +D+
Sbjct: 96 NQKFRDFKETFDDVNIGL--ITGDVQIN----PDANCLIMTTEILRSMLYRGADLIRD-- 147
Query: 569 VKLLIIDEVHLLND-DRGPVIEALV 592
V+ +I DEVH +ND DRG V E ++
Sbjct: 148 VEFVIFDEVHYVNDQDRGVVWEEVI 172
>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 = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 39/149 (26%), Positives = 73/149 (48%), Gaps = 15/149 (10%)
Query: 458 ENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALAAEVTRTFSS 517
+N L+CAPTG+GKT ++++ H HF++ + + K+V++A + + F
Sbjct: 264 KNALICAPTGSGKTFVSILICEH----HFQNMPAGR-KAKVVFLATKVPVYEQQKNVFKH 318
Query: 518 RLSPLNMIVRELTGD--MQLSRNE-LEETQMIVTTPEKWDVITRKSSDMSLSML--VKLL 572
V+ ++G+ +S + +E++ +IV TP+ ++ D +L+ L L+
Sbjct: 319 HFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQ---ILVNSFEDGTLTSLSIFTLM 375
Query: 573 IIDEVHLLNDDRGPVIEALVARTLRQVYN 601
I DE H N L+ R L Q +N
Sbjct: 376 IFDECH--NTTGNHPYNVLMTRYLEQKFN 402
>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 = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 39/149 (26%), Positives = 73/149 (48%), Gaps = 15/149 (10%)
Query: 458 ENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALAAEVTRTFSS 517
+N L+CAPTG+GKT ++++ H HF++ + + K+V++A + + F
Sbjct: 264 KNALICAPTGSGKTFVSILICEH----HFQNMPAGR-KAKVVFLATKVPVYEQQKNVFKH 318
Query: 518 RLSPLNMIVRELTGD--MQLSRNE-LEETQMIVTTPEKWDVITRKSSDMSLSML--VKLL 572
V+ ++G+ +S + +E++ +IV TP+ ++ D +L+ L L+
Sbjct: 319 HFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQ---ILVNSFEDGTLTSLSIFTLM 375
Query: 573 IIDEVHLLNDDRGPVIEALVARTLRQVYN 601
I DE H N L+ R L Q +N
Sbjct: 376 IFDECH--NTTGNHPYNVLMTRYLEQKFN 402
>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 = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 39/149 (26%), Positives = 73/149 (48%), Gaps = 15/149 (10%)
Query: 458 ENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALAAEVTRTFSS 517
+N L+CAPTG+GKT ++++ H HF++ + + K+V++A + + F
Sbjct: 23 KNALICAPTGSGKTFVSILICEH----HFQNMPAGR-KAKVVFLATKVPVYEQQKNVFKH 77
Query: 518 RLSPLNMIVRELTGD--MQLSRNE-LEETQMIVTTPEKWDVITRKSSDMSLSML--VKLL 572
V+ ++G+ +S + +E++ +IV TP+ ++ D +L+ L L+
Sbjct: 78 HFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQ---ILVNSFEDGTLTSLSIFTLM 134
Query: 573 IIDEVHLLNDDRGPVIEALVARTLRQVYN 601
I DE H N L+ R L Q +N
Sbjct: 135 IFDECH--NTTGNHPYNVLMTRYLEQKFN 161
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 37/136 (27%), Positives = 68/136 (50%), Gaps = 21/136 (15%)
Query: 458 ENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALAAEVTRTFSS 517
E++LV A T AGKT +A +I + K++ +++Y +P+KAL+ + R +
Sbjct: 102 ESVLVSAHTSAGKTVVAEYAIAQSL----------KNKQRVIYTSPIKALSNQKYRELLA 151
Query: 518 RLSPLNMIVRELTGDMQLSRNELEETQMIVTTPEKWDVITRKSSDMSLSMLVKLLIIDEV 577
+ + +TGD+ ++ + +++TT ++ R S M V +I DEV
Sbjct: 152 EFGDVGL----MTGDITINPD---AGCLVMTTEILRSMLYRGSEVMR---EVAWVIFDEV 201
Query: 578 HLLND-DRGPVIEALV 592
H + D +RG V E +
Sbjct: 202 HYMRDKERGVVWEETI 217
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 37/136 (27%), Positives = 68/136 (50%), Gaps = 21/136 (15%)
Query: 458 ENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALAAEVTRTFSS 517
E++LV A T AGKT +A +I + K++ +++Y +P+KAL+ + R +
Sbjct: 200 ESVLVSAHTSAGKTVVAEYAIAQSL----------KNKQRVIYTSPIKALSNQKYRELLA 249
Query: 518 RLSPLNMIVRELTGDMQLSRNELEETQMIVTTPEKWDVITRKSSDMSLSMLVKLLIIDEV 577
+ + +TGD+ ++ + +++TT ++ R S M V +I DEV
Sbjct: 250 EFGDVGL----MTGDITINPD---AGCLVMTTEILRSMLYRGSEVMR---EVAWVIFDEV 299
Query: 578 HLLND-DRGPVIEALV 592
H + D +RG V E +
Sbjct: 300 HYMRDKERGVVWEETI 315
>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 = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 66/143 (46%), Gaps = 24/143 (16%)
Query: 445 IQSRIFQTVYYTN---ENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYV 501
IQ RI+Q V Y N L+ PTG GKT IAM+ I ++ L K K++ +
Sbjct: 8 IQPRIYQEVIYAKCKETNCLIVLPTGLGKTLIAMM-----IAEY----RLTKYGGKVLML 58
Query: 502 APMKALAAEVTRTFSS--RLSPLNMIVRELTGDM--QLSRNELEETQMIVTTPEKW--DV 555
AP K L + +F L P ++ LTG+ + ++IV TP+ D+
Sbjct: 59 APTKPLVLQHAESFRRLFNLPPEKIVA--LTGEKSPEERSKAWARAKVIVATPQTIENDL 116
Query: 556 ITRKSSDMSLSMLVKLLIIDEVH 578
+ + S +S L++ DE H
Sbjct: 117 LAGRISLEDVS----LIVFDEAH 135
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/124 (25%), Positives = 57/124 (45%), Gaps = 9/124 (7%)
Query: 458 ENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALAAEVTRTFSS 517
+N ++CAPTG GKT ++++ I +H + + K+V+ A + + FS
Sbjct: 20 KNTIICAPTGCGKTFVSLL-----ICEHHLKKFPCGQKGKVVFFANQIPVYEQQATVFSR 74
Query: 518 RLSPLNMIVRELTG---DMQLSRNELEETQMIVTTPEKWDVITRKSSDMSLSMLVKLLII 574
L + ++G D ++ +E+ +I+ TP+ + SLS+ L I
Sbjct: 75 YFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIPSLSVFT-LXIF 133
Query: 575 DEVH 578
DE H
Sbjct: 134 DECH 137
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 31/124 (25%), Positives = 56/124 (45%), Gaps = 9/124 (7%)
Query: 458 ENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALAAEVTRTFSS 517
+N ++CAPTG GKT ++++ I +H + + K+V+ A + + FS
Sbjct: 28 KNTIICAPTGCGKTFVSLL-----ICEHHLKKFPQGQKGKVVFFANQIPVYEQQKSVFSK 82
Query: 518 RLSPLNMIVRELTGDMQLS---RNELEETQMIVTTPEKWDVITRKSSDMSLSMLVKLLII 574
V ++G + +E +I+ TP+ +K + SLS+ L+I
Sbjct: 83 YFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFT-LMIF 141
Query: 575 DEVH 578
DE H
Sbjct: 142 DECH 145
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 31/124 (25%), Positives = 56/124 (45%), Gaps = 9/124 (7%)
Query: 458 ENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALAAEVTRTFSS 517
+N ++CAPTG GKT ++++ I +H + + K+V+ A + + FS
Sbjct: 20 KNTIICAPTGCGKTFVSLL-----ICEHHLKKFPQGQKGKVVFFANQIPVYEQNKSVFSK 74
Query: 518 RLSPLNMIVRELTGDMQLS---RNELEETQMIVTTPEKWDVITRKSSDMSLSMLVKLLII 574
V ++G + +E +I+ TP+ +K + SLS+ L+I
Sbjct: 75 YFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFT-LMIF 133
Query: 575 DEVH 578
DE H
Sbjct: 134 DECH 137
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 31/124 (25%), Positives = 56/124 (45%), Gaps = 9/124 (7%)
Query: 458 ENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALAAEVTRTFSS 517
+N ++CAPTG GKT ++++ I +H + + K+V+ A + + FS
Sbjct: 29 KNTIICAPTGCGKTFVSLL-----ICEHHLKKFPQGQKGKVVFFANQIPVYEQNKSVFSK 83
Query: 518 RLSPLNMIVRELTGDMQLS---RNELEETQMIVTTPEKWDVITRKSSDMSLSMLVKLLII 574
V ++G + +E +I+ TP+ +K + SLS+ L+I
Sbjct: 84 YFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFT-LMIF 142
Query: 575 DEVH 578
DE H
Sbjct: 143 DECH 146
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 37.0 bits (84), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 70/151 (46%), Gaps = 13/151 (8%)
Query: 438 GYKSLNRIQSRIFQTVYYTNENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFK 497
G++ IQ + + + E +L APTG+GKT I IL ++ Q G F+
Sbjct: 48 GFQMPTPIQMQAIPVMLHGRE-LLASAPTGSGKTLAFSIPILMQLKQPANKG------FR 100
Query: 498 IVYVAPMKALAAEVTRTFSSRLSP-----LNMIVRELTGDMQLSRNELEETQMIVTTPEK 552
+ ++P + LA+++ R ++S ++MI + + ++ ++VTTP +
Sbjct: 101 ALIISPTRELASQIHREL-IKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNR 159
Query: 553 WDVITRKSSDMSLSMLVKLLIIDEVHLLNDD 583
+ ++ V+ L++DE L +D
Sbjct: 160 LIYLLKQDPPGIDLASVEWLVVDESDKLFED 190
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 35.4 bits (80), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 38/146 (26%), Positives = 67/146 (45%), Gaps = 20/146 (13%)
Query: 438 GYKSLNRIQSRIFQTVYYTNENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFK 497
G+K+ +QS+ + +N++V A TG+GKT I IL E+G K
Sbjct: 13 GFKNFTEVQSKTI-PLMLQGKNVVVRAKTGSGKTAAYAIPIL-ELG------------MK 58
Query: 498 IVYVAPMKALAAEVTRTFSSRLSPLNMIVRELTGDM--QLSRNELEETQMIVTTPEK-WD 554
+ V P + L +V ++ V E+ G M + N + ++V TP + D
Sbjct: 59 SLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNADIVVATPGRLLD 118
Query: 555 VITRKSSDMSLSMLVKLLIIDEVHLL 580
+ ++ D+S +++IIDE L+
Sbjct: 119 LWSKGVIDLS---SFEIVIIDEADLM 141
>pdb|1WRB|A Chain A, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
pdb|1WRB|B Chain B, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
Length = 253
Score = 35.0 bits (79), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 35/130 (26%), Positives = 62/130 (47%), Gaps = 17/130 (13%)
Query: 457 NENILVCAPTGAGKTNIAMISIL-HEIGQHFRDGYLHKDEF-KIVYVAPMKALAAEV--- 511
+ +I+ CA TG+GKT +I I+ H + Q K + K + +AP + LA ++
Sbjct: 60 HRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSE 119
Query: 512 TRTFSSRLSPLNMIVRELTGDMQLSRNELEETQM----IVTTPEKW-DVITRKSSDMSLS 566
++ FS +PL V D + +++ E QM +V TP + D I + +
Sbjct: 120 SQKFSLN-TPLRSCVVYGGAD---THSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFC 175
Query: 567 MLVKLLIIDE 576
K +++DE
Sbjct: 176 ---KYIVLDE 182
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 63/139 (45%), Gaps = 18/139 (12%)
Query: 459 NILVCAPTGAGKTNIAMISILHEI-----GQHFR----DG-YLHKDEFKIVYV-APMKAL 507
+++ CA TG+GKT ++ IL +I G+ R +G Y + ++ I V AP + L
Sbjct: 54 DLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTREL 113
Query: 508 AAEV---TRTFSSRLSPLNMIVRELTGDMQLSRNELEETQMIVTTPEKW-DVITRKSSDM 563
A ++ R FS R +V Q R+ ++V TP + D++ R +
Sbjct: 114 AVQIYEEARKFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGL 173
Query: 564 SLSMLVKLLIIDEVHLLND 582
K L++DE + D
Sbjct: 174 D---FCKYLVLDEADRMLD 189
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 33.1 bits (74), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 32/146 (21%), Positives = 67/146 (45%), Gaps = 18/146 (12%)
Query: 437 HGYKSLNRIQSRIFQTVYYTNENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEF 496
+G++ + IQ R +++ A +G GKT ISIL ++ F+ E
Sbjct: 48 YGFEKPSAIQQRAIIPCI-KGYDVIAQAQSGTGKTATFAISILQQLEIEFK-------ET 99
Query: 497 KIVYVAPMKALAAEVTRTFSSRLSPLNMIVRELTGDMQLSRNELEETQ-----MIVTTPE 551
+ + +AP + LA ++ + + + G + RNE+++ Q ++V TP
Sbjct: 100 QALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNV-RNEMQKLQAEAPHIVVGTPG 158
Query: 552 K-WDVITRKSSDMSLSMLVKLLIIDE 576
+ +D++ R+ +K+ ++DE
Sbjct: 159 RVFDMLNRRYLS---PKWIKMFVLDE 181
>pdb|2O5H|A Chain A, Uncharacterized Protein Conserved In Bacteria, Cog3792
From Neisseria Meningitidis
pdb|2O5H|B Chain B, Uncharacterized Protein Conserved In Bacteria, Cog3792
From Neisseria Meningitidis
Length = 136
Score = 33.1 bits (74), Expect = 0.42, Method: Composition-based stats.
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 9/85 (10%)
Query: 480 HEIGQHFRDGYLHKDEFKIVYVAPMKALAAEV---TRTFSSRLSPLNMIVREL--TGDMQ 534
H++ + ++D EF I Y P+ L + + + F + ++ +EL G ++
Sbjct: 10 HDVHKRYQDRLEEDVEFTINYELPLSCLWSTIKDFSSDFEEKTEAFFILFKELLRRGHLK 69
Query: 535 LSRNELEETQMIVTTPEKWDVITRK 559
L R + Q+I TPE+W+ I R+
Sbjct: 70 LQR----DGQIIGHTPEEWEQIFRE 90
>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 = 32.7 bits (73), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 42/125 (33%), Positives = 55/125 (44%), Gaps = 24/125 (19%)
Query: 461 LVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYV-APMKALAAEVTRTFSSRL 519
LVC G GKT +AM R +L D K V V P LA + F R
Sbjct: 628 LVCGDVGFGKTEVAM-----------RAAFLAVDNHKQVAVLVPTTLLAQQHYDNFRDRF 676
Query: 520 SPLNMIVR-ELTGDMQLSRNELEETQMIVTTPE-KWDVI--TRK--SSDMSLSMLVKLLI 573
+ N VR E+ R+ E+TQ++ E K D++ T K SD+ L LLI
Sbjct: 677 A--NWPVRIEMISRF---RSAKEQTQILAEVAEGKIDILIGTHKLLQSDVKFKDL-GLLI 730
Query: 574 IDEVH 578
+DE H
Sbjct: 731 VDEEH 735
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 32.7 bits (73), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 47/193 (24%), Positives = 70/193 (36%), Gaps = 62/193 (32%)
Query: 410 PTPTAQMKPGEKLIEIKELDEFAQAAFHGYKSLNRIQSRIFQTVYYTNENILVCAPTGAG 469
P P Q++P + E AQ A G +NI++C PTG+G
Sbjct: 28 PEPELQLRPYQM--------EVAQPALEG-------------------KNIIICLPTGSG 60
Query: 470 KTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALAAE--VTRTFSSRLSPLNMIVR 527
KT +A+ I + D E V V K L E + F L ++
Sbjct: 61 KTRVAVY-----IAKDHLDKKKKASEPGKVIVLVNKVLLVEQLFRKEFQPFLKKWYRVIG 115
Query: 528 ELTGDMQLSRNELEETQMIVTTPE---KWDVITRKSSDMSLSML--------------VK 570
L+GD TQ+ ++ PE D+I + + S+L
Sbjct: 116 -LSGD----------TQLKISFPEVVKSCDIIISTAQILENSLLNLENGEDAGVQLSDFS 164
Query: 571 LLIIDEVHLLNDD 583
L+IIDE H N +
Sbjct: 165 LIIIDECHHTNKE 177
>pdb|1W7E|A Chain A, Nmr Ensemble Of Fasciclin-Like Protein From Rhodobacter
Sphaeroides
pdb|1W7D|A Chain A, Nmr Structure Of Fasciclin-Like Protein From Rhodobacter
Sphaeroides
Length = 137
Score = 32.0 bits (71), Expect = 1.0, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 6/73 (8%)
Query: 354 ENDVSSTSFSSLIEASERKNPLDGLIGSGQGSM------AVTALPQGTVRKHLKGYEEVI 407
E + SF++L+ A+E +D L G G ++ A ALP+GTV LK +
Sbjct: 7 ETATGAGSFTTLLTAAEAAGLVDTLKGDGPFTVFAPTDAAFAALPEGTVEDLLKPENKEK 66
Query: 408 IPPTPTAQMKPGE 420
+ T + PGE
Sbjct: 67 LTEILTYHVVPGE 79
>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 = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 38/145 (26%), Positives = 57/145 (39%), Gaps = 35/145 (24%)
Query: 458 ENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFKIVYVAPMKALAAE--VTRTF 515
+NI++C PTG GKT +A+ I + D E V V K L E + F
Sbjct: 23 KNIIICLPTGCGKTRVAVY-----IAKDHLDKKKKASEPGKVIVLVNKVLLVEQLFRKEF 77
Query: 516 SSRLSPLNMIVRELTGDMQLSRNELEETQMIVTTPE---KWDVITRKSSDMSLSML---- 568
L ++ L+GD TQ+ ++ PE D+I + + S+L
Sbjct: 78 QPFLKKWYRVIG-LSGD----------TQLKISFPEVVKSCDIIISTAQILENSLLNLEN 126
Query: 569 ----------VKLLIIDEVHLLNDD 583
L+IIDE H N +
Sbjct: 127 GEDAGVQLSDFSLIIIDECHHTNKE 151
>pdb|3SLS|A Chain A, Crystal Structure Of Human Mek-1 Kinase In Complex With
Ucb1353770 And Amppnp
pdb|3SLS|B Chain B, Crystal Structure Of Human Mek-1 Kinase In Complex With
Ucb1353770 And Amppnp
Length = 304
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 26/44 (59%), Gaps = 5/44 (11%)
Query: 348 GTEYAAENDVSSTSFSSLIEASERKNPLDGLIGSGQGSMAVTAL 391
GT Y+ ++D+ S S L+E + + P IGSG GSMA+ L
Sbjct: 196 GTHYSVQSDIWSMGLS-LVEMAVGRYP----IGSGSGSMAIFEL 234
>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 = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 40/74 (54%), Gaps = 3/74 (4%)
Query: 438 GYKSLNRIQSRIFQTVYYTNENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFK 497
GYK IQ + V + +++ CA TG+GKT ++ IL ++ + + L + +
Sbjct: 75 GYKIPTPIQ-KCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQ-- 131
Query: 498 IVYVAPMKALAAEV 511
+V V+P + LA ++
Sbjct: 132 VVIVSPTRELAIQI 145
>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 = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 31/142 (21%), Positives = 61/142 (42%), Gaps = 14/142 (9%)
Query: 438 GYKSLNRIQSRIFQTVYYTNENILVCAPTGAGKTNIAMISILHEIGQHFRDGYLHKDEFK 497
G++ IQ ++ NI+ A TG+GKT I ++ + ++ + +
Sbjct: 25 GFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIELVNEN--------NGIE 76
Query: 498 IVYVAPMKALAAEVTRTFSSRLSPLNMIVRELTGDMQL--SRNELEETQMIVTTPEK-WD 554
+ + P + LA +V S N+ + ++ G + L+ ++V TP + D
Sbjct: 77 AIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALKNANIVVGTPGRILD 136
Query: 555 VITRKSSDMSLSMLVKLLIIDE 576
I R + ++ VK I+DE
Sbjct: 137 HINRGTLNLK---NVKYFILDE 155
>pdb|2KR7|A Chain A, Solution Structure Of Helicobacter Pylori Slyd
Length = 151
Score = 28.9 bits (63), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 31/57 (54%), Gaps = 3/57 (5%)
Query: 354 ENDVSSTSFSSLIEASERKNPLDGLIGSGQGSMAVTALPQGTVRKHLKGYEEVIIPP 410
E +V S +++++ K PL+ +IG+ Q + L + ++ + +EEV+I P
Sbjct: 16 EYEVREQGSSIVLDSNISKEPLEFIIGTNQ---IIAGLEKAVLKAQIGEWEEVVIAP 69
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
0.315 0.131 0.365
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,393,285
Number of Sequences: 62578
Number of extensions: 657415
Number of successful extensions: 1709
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 1669
Number of HSP's gapped (non-prelim): 44
length of query: 601
length of database: 14,973,337
effective HSP length: 104
effective length of query: 497
effective length of database: 8,465,225
effective search space: 4207216825
effective search space used: 4207216825
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: 54 (25.4 bits)