Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP30015
DateWed Jan 25 15:20:48 GMT 2012
Unique Job IDbe13e6f9a5261a33

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2xgjA_
Top template information
PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent rna helicase dob1;
PDBTitle: structure of mtr4, a dexh helicase involved in nuclear rna2 processing and surveillance
Confidence and coverage
Confidence:100.0% Coverage: 27%
408 residues ( 27% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
495 residues ( 32%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MADNPDPSSLLPDVFSPATRDWFLRAFKQPTAVQPQTWHVAARSEHALVIAPTGSGKTLA
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   .........70.........80.........90.........100.........110.........120
Sequence  AFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLKGIADERRRRG
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?
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   .........130.........140.........150.........160.........170.........180
Sequence  ETEVNLRVGIRTGDTPAQERSKLTRNPPDILITTPESLYLMLTSRARETLRGVETVIIDE
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   .........190.........200.........210.........220.........230.........240
Sequence  VHAVAGSKRGAHLALSLERLDALLHTSAQRIGLSATVRSASDVAAFLGGDRPVTVVNPPA
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   .........250.........260.........270.........280.........290.........300
Sequence  MRHPQIRIVVPVANMDDVSSVASGTGEDSHAGREGSIWPYIETGILDEVLRHRSTIVFTN
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   .........310.........320.........330.........340.........350.........360
Sequence  SRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVS
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   .........370.........380.........390.........400.........410.........420
Sequence  KEQRAITEQALKSGELRCVVATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAGHQV
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???
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   .........430.........440.........450.........460.........470.........480
Sequence  GGVSKGLFFPRTRRDLVDSAVIVECMFAGRLENLTPPHNPLDVLAQQTVAAAAMDALQVD
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   .........490.........500.........510.........520.........530.........540
Sequence  EWYSRVRRAAPWKDLPRRVFDATLDMLSGRYPSGDFSAFRPKLVWNRETGILTARPGAQL
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   .........550.........560.........570.........580.........590.........600
Sequence  LAVTSGGTIPDRGMYSVLLPEGEEKAGSRRVGELDEEMVYESRVNDIITLGATSWRIQQI
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   .........610.........620.........630.........640.........650.........660
Sequence  TRDQVIVTPAPGRSARLPFWRGEGNGRPAELGEMIGDFLHLLADGAFFSGTIPPWLAEEN
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   .........670.........680.........690.........700.........710.........720
Sequence  TIANIQGLIEEQRNATGIVPGSRHLVLERCRDEIGDWRIILHSPYGRRVHEPWAVAIAGR
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   .........730.........740.........750.........760.........770.........780
Sequence  IHALWGADASVVASDDGIVARIPDTDGKLPDAAIFLFEPEKLLQIVREAVGSSALFAARF
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   .........790.........800.........810.........820.........830.........840
Sequence  RECAARALLMPGRTPGHRTPLWQQRLRASQLLEIAQGYPDFPVILETLRECLQDVYDLPA
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   .........850.........860.........870.........880.........890.........900
Sequence  LERLMRRLNGGEIQISDVTTTTPSPFATSLLFGYVAEFMYQSDAPLAERRASVLSLDSEL
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   .........910.........920.........930.........940.........950.........960
Sequence  LRNLLGQVDPGELLDPQVIRQVEEELQRLAPGRRAKGEEGLFDLLRELGPMTVEDLAQRH
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   .........970.........980.........990.........1000.........1010.........1020
Sequence  TGSSEEVASYLENLLAVKRIFPAMISGQERLACMDDAARLRDALGVRLPESLPEIYLHRV
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   .........1030.........1040.........1050.........1060.........1070.........1080
Sequence  SYPLRDLFLRYLRAHALVTAEQLAHEFSLGIAIVEEQLQQLREQGLVMNLQQDIWVSDEV
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   .........1090.........1100.........1110.........1120.........1130.........1140
Sequence  FRRLRLRSLQAAREATRPVAATTYARLLLERQGVLPATDGSPALFASTSPGVYEGVDGVM
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   .........1150.........1160.........1170.........1180.........1190.........1200
Sequence  RVIEQLAGVGLPASLWESQILPARVRDYSSEMLDELLATGAVIWSGQKKLGEDDGLVALH
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   .........1210.........1220.........1230.........1240.........1250.........1260
Sequence  LQEYAAESFTPAEADQANRSALQQAIVAVLADGGAWFAQQISQRIRDKIGESVDLSALQE
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?????
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   .........1270.........1280.........1290.........1300.........1310.........1320
Sequence  ALWALVWQGVITSDIWAPLRALTRSSSNARTSTRRSHRARRGRPVYAQPVSPRVSYNTPN
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??????????????????????????????????????
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   .........1330.........1340.........1350.........1360.........1370.........1380
Sequence  LAGRWSLLQVEPLNDTERMLALAENMLDRYGIISRQAVIAENIPGGFPSMQTLCRSMEDS
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   .........1390.........1400.........1410.........1420.........1430.........1440
Sequence  GRIMRGRFVEGLGGAQFAERLTIDRLRDLATQATQTRHYTPVALSANDPANVWGNLLPWP
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   .........1450.........1460.........1470.........1480.........1490.........1500
Sequence  AHPATLVPTRRAGALVVVSGGKLLLYLAQGGKKMLVWQEKEELLAPEVFHALTTALRREP
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   .........1510.........1520.........1530........
Sequence  RLRFTLTEVNDLPVRQTPMFTLLREAGFSSSPQGLDWG
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?????????
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Confidence Key
High(9)                    Low (0)
?Disordered
Alpha helix
Beta strand

Domain analysis 

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

RankAligned region

PDB 2xgj chain A

3D model

Region: 29 - 484
Aligned: 408
Modelled: 423
Confidence: 100.0%
Identity: 23%
PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent rna helicase dob1;
PDBTitle: structure of mtr4, a dexh helicase involved in nuclear rna2 processing and surveillance

Phyre2

PDB 3l9o chain A

3D model

Region: 3 - 484
Aligned: 428
Modelled: 453
Confidence: 100.0%
Identity: 22%
PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase dob1;
PDBTitle: crystal structure of mtr4, a co-factor of the nuclear exosome

Phyre2

PDB 2va8 chain A

3D model

Region: 12 - 507
Aligned: 448
Modelled: 480
Confidence: 100.0%
Identity: 20%
PDB header:hydrolase
Chain: A: PDB Molecule:ski2-type helicase;
PDBTitle: dna repair helicase hel308

Phyre2

PDB 4a4z chain A

3D model

Region: 29 - 484
Aligned: 408
Modelled: 427
Confidence: 100.0%
Identity: 23%
PDB header:hydrolase
Chain: A: PDB Molecule:antiviral helicase ski2;
PDBTitle: crystal structure of the s. cerevisiae dexh helicase ski2 bound to2 amppnp

Phyre2

PDB 2zj2 chain A

3D model

Region: 12 - 502
Aligned: 437
Modelled: 465
Confidence: 100.0%
Identity: 22%
PDB header:hydrolase
Chain: A: PDB Molecule:putative ski2-type helicase;
PDBTitle: archaeal dna helicase hjm apo state in form 1

Phyre2

PDB 2p6u chain A

3D model

Region: 17 - 521
Aligned: 452
Modelled: 475
Confidence: 100.0%
Identity: 21%
PDB header:dna binding protein
Chain: A: PDB Molecule:afuhel308 helicase;
PDBTitle: apo structure of the hel308 superfamily 2 helicase

Phyre2

PDB 2v1x chain B

3D model

Region: 15 - 434
Aligned: 334
Modelled: 335
Confidence: 100.0%
Identity: 21%
PDB header:hydrolase
Chain: B: PDB Molecule:atp-dependent dna helicase q1;
PDBTitle: crystal structure of human recq-like dna helicase

Phyre2

PDB 1oyw chain A

3D model

Region: 15 - 519
Aligned: 413
Modelled: 417
Confidence: 100.0%
Identity: 21%
PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent dna helicase;
PDBTitle: structure of the recq catalytic core

Phyre2

PDB 1gl9 chain B

3D model

Region: 7 - 468
Aligned: 364
Modelled: 376
Confidence: 100.0%
Identity: 21%
PDB header:topoisomerase
Chain: B: PDB Molecule:reverse gyrase;
PDBTitle: archaeoglobus fulgidus reverse gyrase complexed with adpnp

Phyre2

PDB 1gm5 chain A

3D model

Region: 16 - 435
Aligned: 318
Modelled: 337
Confidence: 100.0%
Identity: 20%
PDB header:helicase
Chain: A: PDB Molecule:recg;
PDBTitle: structure of recg bound to three-way dna junction

Phyre2

PDB 2eyq chain A

3D model

Region: 16 - 440
Aligned: 329
Modelled: 350
Confidence: 100.0%
Identity: 22%
PDB header:hydrolase
Chain: A: PDB Molecule:transcription-repair coupling factor;
PDBTitle: crystal structure of escherichia coli transcription-repair2 coupling factor

Phyre2

PDB 2db3 chain D

3D model

Region: 2 - 452
Aligned: 376
Modelled: 397
Confidence: 100.0%
Identity: 22%
PDB header:hydrolase/rna
Chain: D: PDB Molecule:atp-dependent rna helicase vasa;
PDBTitle: structural basis for rna unwinding by the dead-box protein2 drosophila vasa

Phyre2

PDB 3i5y chain A

3D model

Region: 2 - 490
Aligned: 431
Modelled: 441
Confidence: 100.0%
Identity: 16%
PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent rna helicase mss116;
PDBTitle: structure of mss116p bound to ssrna containing a single 5-bru and amp-2 pnp

Phyre2

PDB 3tmi chain A

3D model

Region: 29 - 448
Aligned: 377
Modelled: 379
Confidence: 100.0%
Identity: 20%
PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent rna helicase ddx58;
PDBTitle: structural basis for rna recognition and activation of rig-i

Phyre2

PDB 3rc8 chain A

3D model

Region: 21 - 517
Aligned: 374
Modelled: 395
Confidence: 100.0%
Identity: 16%
PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent rna helicase supv3l1, mitochondrial;
PDBTitle: human mitochondrial helicase suv3 in complex with short rna fragment

Phyre2

PDB 3ews chain A

3D model

Region: 17 - 462
Aligned: 359
Modelled: 380
Confidence: 100.0%
Identity: 18%
PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase ddx19b;
PDBTitle: human dead-box rna-helicase ddx19 in complex with adp

Phyre2

PDB 3bxz chain A

3D model

Region: 8 - 436
Aligned: 344
Modelled: 351
Confidence: 100.0%
Identity: 21%
PDB header:transport protein
Chain: A: PDB Molecule:preprotein translocase subunit seca;
PDBTitle: crystal structure of the isolated dead motor domains from2 escherichia coli seca

Phyre2

PDB 1hv8 chain B

3D model

Region: 15 - 455
Aligned: 351
Modelled: 372
Confidence: 100.0%
Identity: 21%
PDB header:rna binding protein
Chain: B: PDB Molecule:putative atp-dependent rna helicase mj0669;
PDBTitle: crystal structure of a dead box protein from the2 hyperthermophile methanococcus jannaschii

Phyre2

PDB 1s2m chain A

3D model

Region: 12 - 434
Aligned: 341
Modelled: 369
Confidence: 100.0%
Identity: 23%
PDB header:rna binding protein
Chain: A: PDB Molecule:putative atp-dependent rna helicase dhh1;
PDBTitle: crystal structure of the dead box protein dhh1p

Phyre2

PDB 1xtk chain A

3D model

Region: 15 - 452
Aligned: 360
Modelled: 386
Confidence: 100.0%
Identity: 19%
PDB header:gene regulation
Chain: A: PDB Molecule:probable atp-dependent rna helicase p47;
PDBTitle: structure of decd to dead mutation of human uap56

Phyre2
1

c2xgjA_
2

c3l9oA_
3

c2va8A_
4

c4a4zA_
5

c2zj2A_
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c2p6uA_
7

c2v1xB_
8

c1oywA_
9

c1gl9B_
10

c1gm5A_
11

c2eyqA_
12

c2db3D_
13

c3i5yA_
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c3tmiA_
15

c3rc8A_
16

c3ewsA_
17

c3bxzA_
18

c1hv8B_
19

c1s2mA_
20

c1xtkA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2xgjA_



100.0 23 PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent rna helicase dob1;
PDBTitle: structure of mtr4, a dexh helicase involved in nuclear rna2 processing and surveillance
2c3l9oA_



100.0 22 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase dob1;
PDBTitle: crystal structure of mtr4, a co-factor of the nuclear exosome
3c2va8A_



100.0 20 PDB header:hydrolase
Chain: A: PDB Molecule:ski2-type helicase;
PDBTitle: dna repair helicase hel308
4c4a4zA_



100.0 23 PDB header:hydrolase
Chain: A: PDB Molecule:antiviral helicase ski2;
PDBTitle: crystal structure of the s. cerevisiae dexh helicase ski2 bound to2 amppnp
5c2zj2A_



100.0 22 PDB header:hydrolase
Chain: A: PDB Molecule:putative ski2-type helicase;
PDBTitle: archaeal dna helicase hjm apo state in form 1
6c2p6uA_



100.0 21 PDB header:dna binding protein
Chain: A: PDB Molecule:afuhel308 helicase;
PDBTitle: apo structure of the hel308 superfamily 2 helicase
7c2v1xB_



100.0 21 PDB header:hydrolase
Chain: B: PDB Molecule:atp-dependent dna helicase q1;
PDBTitle: crystal structure of human recq-like dna helicase
8c1oywA_



100.0 21 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent dna helicase;
PDBTitle: structure of the recq catalytic core
9c1gl9B_



100.0 21 PDB header:topoisomerase
Chain: B: PDB Molecule:reverse gyrase;
PDBTitle: archaeoglobus fulgidus reverse gyrase complexed with adpnp
10c1gm5A_



100.0 20 PDB header:helicase
Chain: A: PDB Molecule:recg;
PDBTitle: structure of recg bound to three-way dna junction
11c2eyqA_



100.0 22 PDB header:hydrolase
Chain: A: PDB Molecule:transcription-repair coupling factor;
PDBTitle: crystal structure of escherichia coli transcription-repair2 coupling factor
12c2db3D_



100.0 22 PDB header:hydrolase/rna
Chain: D: PDB Molecule:atp-dependent rna helicase vasa;
PDBTitle: structural basis for rna unwinding by the dead-box protein2 drosophila vasa
13c3i5yA_



100.0 16 PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent rna helicase mss116;
PDBTitle: structure of mss116p bound to ssrna containing a single 5-bru and amp-2 pnp
14c3tmiA_



100.0 20 PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent rna helicase ddx58;
PDBTitle: structural basis for rna recognition and activation of rig-i
15c3rc8A_



100.0 16 PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent rna helicase supv3l1, mitochondrial;
PDBTitle: human mitochondrial helicase suv3 in complex with short rna fragment
16c3ewsA_



100.0 18 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase ddx19b;
PDBTitle: human dead-box rna-helicase ddx19 in complex with adp
17c3bxzA_



100.0 21 PDB header:transport protein
Chain: A: PDB Molecule:preprotein translocase subunit seca;
PDBTitle: crystal structure of the isolated dead motor domains from2 escherichia coli seca
18c1hv8B_



100.0 21 PDB header:rna binding protein
Chain: B: PDB Molecule:putative atp-dependent rna helicase mj0669;
PDBTitle: crystal structure of a dead box protein from the2 hyperthermophile methanococcus jannaschii
19c1s2mA_



100.0 23 PDB header:rna binding protein
Chain: A: PDB Molecule:putative atp-dependent rna helicase dhh1;
PDBTitle: crystal structure of the dead box protein dhh1p
20c1xtkA_



100.0 19 PDB header:gene regulation
Chain: A: PDB Molecule:probable atp-dependent rna helicase p47;
PDBTitle: structure of decd to dead mutation of human uap56
21c3fhtA_



not modelled 100.0 18 PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent rna helicase ddx19b;
PDBTitle: crystal structure of human dbp5 in complex with amppnp and rna
22c3kx2A_



not modelled 100.0 18 PDB header:hydrolase
Chain: A: PDB Molecule:pre-mrna-splicing factor atp-dependent rna
PDBTitle: crystal structure of prp43p in complex with adp
23c2i4iA_



not modelled 100.0 22 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase ddx3x;
PDBTitle: crystal structure of human dead-box rna helicase ddx3x
24c2jlrA_



not modelled 100.0 19 PDB header:hydrolase
Chain: A: PDB Molecule:serine protease subunit ns3;
PDBTitle: dengue virus 4 ns3 helicase in complex with amppnp
25c3pexA_



not modelled 100.0 19 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase dbp5;
PDBTitle: s. cerevisiae dbp5 l327v bound to gle1 h337r and ip6
26c2ocaA_



not modelled 100.0 16 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent dna helicase uvsw;
PDBTitle: the crystal structure of t4 uvsw
27c2z0mA_



not modelled 100.0 24 PDB header:rna binding protein
Chain: A: PDB Molecule:337aa long hypothetical atp-dependent rna
PDBTitle: crystal structure of hypothetical atp-dependent rna2 helicase from sulfolobus tokodaii
28c2hxyC_



not modelled 100.0 19 PDB header:hydrolase
Chain: C: PDB Molecule:probable atp-dependent rna helicase ddx48;
PDBTitle: crystal structure of human apo-eif4aiii
29c2v6jA_



not modelled 100.0 19 PDB header:hydrolase
Chain: A: PDB Molecule:rna helicase;
PDBTitle: kokobera virus helicase: mutant met47thr
30c3oiyB_



not modelled 100.0 18 PDB header:isomerase
Chain: B: PDB Molecule:reverse gyrase helicase domain;
PDBTitle: helicase domain of reverse gyrase from thermotoga maritima
31c2vsxA_



not modelled 100.0 22 PDB header:translation/hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase eif4a;
PDBTitle: crystal structure of a translation initiation complex
32c1wp9D_



not modelled 100.0 27 PDB header:hydrolase
Chain: D: PDB Molecule:atp-dependent rna helicase, putative;
PDBTitle: crystal structure of pyrococcus furiosus hef helicase domain
33c2z83A_



not modelled 100.0 19 PDB header:viral protein
Chain: A: PDB Molecule:helicase/nucleoside triphosphatase;
PDBTitle: crystal structure of catalytic domain of japanese2 encephalitis virus ns3 helicase/nucleoside triphosphatase3 at a resolution 1.8
34c2fsgA_



not modelled 100.0 20 PDB header:protein transport
Chain: A: PDB Molecule:preprotein translocase seca subunit;
PDBTitle: complex seca:atp from escherichia coli
35c2wv9A_



not modelled 100.0 19 PDB header:hydrolase
Chain: A: PDB Molecule:flavivirin protease ns2b regulatory subunit, flavivirin
PDBTitle: crystal structure of the ns3 protease-helicase from murray2 valley encephalitis virus
36c1c4oA_



not modelled 100.0 20 PDB header:replication
Chain: A: PDB Molecule:dna nucleotide excision repair enzyme uvrb;
PDBTitle: crystal structure of the dna nucleotide excision repair enzyme uvrb2 from thermus thermophilus
37c2vbcA_



not modelled 100.0 18 PDB header:hydrolase
Chain: A: PDB Molecule:dengue 4 ns3 full-length protein;
PDBTitle: crystal structure of the ns3 protease-helicase from dengue2 virus
38c1ymfA_



not modelled 100.0 16 PDB header:hydrolase
Chain: A: PDB Molecule:genome polyprotein [contains: flavivirin
PDBTitle: crystal structure of yellow fever virus ns3 helicase2 complexed with adp
39c1a1vA_



not modelled 100.0 20 PDB header:hydrolase/dna
Chain: A: PDB Molecule:protein (ns3 protein);
PDBTitle: hepatitis c virus ns3 helicase domain complexed with single2 stranded sdna
40c3tbkA_



not modelled 100.0 16 PDB header:hydrolase
Chain: A: PDB Molecule:rig-i helicase domain;
PDBTitle: mouse rig-i atpase domain
41c2qeqA_



not modelled 100.0 15 PDB header:hydrolase
Chain: A: PDB Molecule:flavivirin protease ns3 catalytic subunit;
PDBTitle: crystal structure of kunjin virus ns3 helicase
42c2fwrA_



not modelled 100.0 21 PDB header:dna binding protein
Chain: A: PDB Molecule:dna repair protein rad25;
PDBTitle: structure of archaeoglobus fulgidis xpb
43c1tf2A_



not modelled 100.0 19 PDB header:protein transport
Chain: A: PDB Molecule:preprotein translocase seca subunit;
PDBTitle: crystal structure of seca:adp in an open conformation from2 bacillus subtilis
44c3dl8B_



not modelled 100.0 21 PDB header:protein transport
Chain: B: PDB Molecule:protein translocase subunit seca;
PDBTitle: structure of the complex of aquifex aeolicus secyeg and2 bacillus subtilis seca
45d2bmfa2



not modelled 100.0 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RNA helicase
46c2d7dA_



not modelled 100.0 23 PDB header:hydrolase/dna
Chain: A: PDB Molecule:uvrabc system protein b;
PDBTitle: structural insights into the cryptic dna dependent atp-ase2 activity of uvrb
47c3fe2B_



not modelled 100.0 22 PDB header:hydrolase
Chain: B: PDB Molecule:probable atp-dependent rna helicase ddx5;
PDBTitle: human dead-box rna helicase ddx5 (p68), conserved domain i in complex2 with adp
48c2f55C_



not modelled 100.0 19 PDB header:hydrolase/dna
Chain: C: PDB Molecule:polyprotein;
PDBTitle: two hepatitis c virus ns3 helicase domains complexed with2 the same strand of dna
49c3dkpA_



not modelled 100.0 28 PDB header:hydrolase
Chain: A: PDB Molecule:probable atp-dependent rna helicase ddx52;
PDBTitle: human dead-box rna-helicase ddx52, conserved domain i in complex with2 adp
50c3ly5A_



not modelled 100.0 22 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase ddx18;
PDBTitle: ddx18 dead-domain
51c3h1tA_



not modelled 100.0 20 PDB header:hydrolase
Chain: A: PDB Molecule:type i site-specific restriction-modification
PDBTitle: the fragment structure of a putative hsdr subunit of a type2 i restriction enzyme from vibrio vulnificus yj016
52c2pl3A_



not modelled 100.0 25 PDB header:hydrolase
Chain: A: PDB Molecule:probable atp-dependent rna helicase ddx10;
PDBTitle: human dead-box rna helicase ddx10, dead domain in complex with adp
53c3berA_



not modelled 100.0 19 PDB header:hydrolase
Chain: A: PDB Molecule:probable atp-dependent rna helicase ddx47;
PDBTitle: human dead-box rna-helicase ddx47, conserved domain i in complex with2 amp
54d1q0ua_



not modelled 100.0 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
55c3crw1_



not modelled 100.0 19 PDB header:hydrolase
Chain: 1: PDB Molecule:xpd/rad3 related dna helicase;
PDBTitle: "xpd_apo"
56c2w74B_



not modelled 100.0 15 PDB header:hydrolase
Chain: B: PDB Molecule:type i restriction enzyme ecor124ii r protein;
PDBTitle: mutant (k220r) of the hsdr subunit of the ecor124i2 restriction enzyme in complex with atp
57d1wrba1



not modelled 100.0 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
58d2j0sa1



not modelled 100.0 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
59c3mwyW_



not modelled 100.0 17 PDB header:hydrolase
Chain: W: PDB Molecule:chromo domain-containing protein 1;
PDBTitle: crystal structure of the chromodomain-atpase portion of the yeast chd12 chromatin remodeler
60c1z3iX_



not modelled 100.0 16 PDB header:recombination/dna binding
Chain: X: PDB Molecule:similar to rad54-like;
PDBTitle: structure of the swi2/snf2 chromatin remodeling domain of eukaryotic2 rad54
61d1s2ma1



not modelled 100.0 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
62c2gxqA_



not modelled 100.0 22 PDB header:hydrolase
Chain: A: PDB Molecule:heat resistant rna dependent atpase;
PDBTitle: hera n-terminal domain in complex with amp, crystal form 1
63d2p6ra3



not modelled 100.0 25 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
64c3iuyB_



not modelled 100.0 22 PDB header:hydrolase
Chain: B: PDB Molecule:probable atp-dependent rna helicase ddx53;
PDBTitle: crystal structure of ddx53 dead-box domain
65c3dmqA_



not modelled 100.0 17 PDB header:hydrolase
Chain: A: PDB Molecule:rna polymerase-associated protein rapa;
PDBTitle: crystal structure of rapa, a swi2/snf2 protein that2 recycles rna polymerase during transcription
66d1hv8a1



not modelled 100.0 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
67d1qdea_



not modelled 100.0 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
68c1cu1B_



not modelled 100.0 22 PDB header:hydrolase
Chain: B: PDB Molecule:protein (protease/helicase ns3);
PDBTitle: crystal structure of an enzyme complex from hepatitis c2 virus
69c3fmoB_



not modelled 100.0 16 PDB header:oncoprotein/hydrolase
Chain: B: PDB Molecule:atp-dependent rna helicase ddx19b;
PDBTitle: crystal structure of the nucleoporin nup214 in complex with the dead-2 box helicase ddx19
70c2kbeA_



not modelled 100.0 18 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase dbp5;
PDBTitle: solution structure of amino-terminal domain of dbp5p
71d1veca_



not modelled 100.0 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
72c2oxcA_



not modelled 100.0 19 PDB header:hydrolase
Chain: A: PDB Molecule:probable atp-dependent rna helicase ddx20;
PDBTitle: human dead-box rna helicase ddx20, dead domain in complex2 with adp
73d1gkub1



not modelled 100.0 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Helicase-like "domain" of reverse gyrase
74c3fhcB_



not modelled 100.0 16 PDB header:transport protein/hydrolase
Chain: B: PDB Molecule:atp-dependent rna helicase ddx19b;
PDBTitle: crystal structure of human dbp5 in complex with nup214
75d1t6na_



not modelled 100.0 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
76d1oywa2



not modelled 100.0 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
77d1gl9b1



not modelled 99.9 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Helicase-like "domain" of reverse gyrase
78c3fmpD_



not modelled 99.9 14 PDB header:oncoprotein/hydrolase
Chain: D: PDB Molecule:atp-dependent rna helicase ddx19b;
PDBTitle: crystal structure of the nucleoporin nup214 in complex with the dead-2 box helicase ddx19
79c3llmB_



not modelled 99.9 20 PDB header:hydrolase
Chain: B: PDB Molecule:atp-dependent rna helicase a;
PDBTitle: crystal structure analysis of a rna helicase
80c2w00B_



not modelled 99.9 15 PDB header:hydrolase
Chain: B: PDB Molecule:hsdr;
PDBTitle: crystal structure of the hsdr subunit of the ecor124i2 restriction enzyme in complex with atp
81c1z63A_



not modelled 99.9 17 PDB header:hydrolase/dna complex
Chain: A: PDB Molecule:helicase of the snf2/rad54 hamily;
PDBTitle: sulfolobus solfataricus swi2/snf2 atpase core in complex2 with dsdna
82d2eyqa3



not modelled 99.9 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
83c3i32A_



not modelled 99.9 27 PDB header:rna binding protein,hydrolase
Chain: A: PDB Molecule:heat resistant rna dependent atpase;
PDBTitle: dimeric structure of a hera helicase fragment including the c-terminal2 reca domain, the dimerization domain, and the rna binding domain
84d2g9na1



not modelled 99.9 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
85d1wp9a1



not modelled 99.9 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
86c3b6eA_



not modelled 99.9 23 PDB header:hydrolase
Chain: A: PDB Molecule:interferon-induced helicase c domain-containing protein 1;
PDBTitle: crystal structure of human dech-box rna helicase mda5 (melanoma2 differentiation-associated protein 5), dech-domain
87c2vl7A_



not modelled 99.9 19 PDB header:unknown function
Chain: A: PDB Molecule:xpd;
PDBTitle: structure of s. tokodaii xpd4
88d2p6ra4



not modelled 99.9 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
89d1oywa3



not modelled 99.9 31 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
90d1gm5a3



not modelled 99.9 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
91d1t5la2



not modelled 99.9 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
92c1nl3B_



not modelled 99.9 20 PDB header:protein transport
Chain: B: PDB Molecule:preprotein translocase seca 1 subunit;
PDBTitle: crystal structure of the seca protein translocation atpase2 from mycobacterium tuberculosis in apo form
93d2j0sa2



not modelled 99.9 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
94c3juxA_



not modelled 99.9 21 PDB header:protein transport
Chain: A: PDB Molecule:protein translocase subunit seca;
PDBTitle: structure of the translocation atpase seca from thermotoga2 maritima
95d2eyqa5



not modelled 99.9 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
96d1rifa_



not modelled 99.9 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:DNA helicase UvsW
97c2vdaA_



not modelled 99.9 24 PDB header:protein transport
Chain: A: PDB Molecule:translocase subunit seca;
PDBTitle: solution structure of the seca-signal peptide complex
98c2ipcB_



not modelled 99.8 25 PDB header:transport protein
Chain: B: PDB Molecule:preprotein translocase seca subunit;
PDBTitle: crystal structure of the translocation atpase seca from thermus2 thermophilus reveals a parallel, head-to-head dimer
99d1c4oa2



not modelled 99.8 28 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
100c3earA_



not modelled 99.8 22 PDB header:hydrolase
Chain: A: PDB Molecule:hera;
PDBTitle: novel dimerization motif in the dead box rna helicase hera: form 1,2 partial dimer
101d1s2ma2



not modelled 99.8 27 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
102c3dinB_



not modelled 99.8 21 PDB header:membrane protein, protein transport
Chain: B: PDB Molecule:protein translocase subunit seca;
PDBTitle: crystal structure of the protein-translocation complex formed by the2 secy channel and the seca atpase
103c2p6nA_



not modelled 99.8 19 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase ddx41;
PDBTitle: human dead-box rna helicase ddx41, helicase domain
104d1hv8a2



not modelled 99.8 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
105c2vsfA_



not modelled 99.8 21 PDB header:hydrolase
Chain: A: PDB Molecule:dna repair helicase rad3 related protein;
PDBTitle: structure of xpd from thermoplasma acidophilum
106d1wp9a2



not modelled 99.8 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
107c2hjvB_



not modelled 99.8 25 PDB header:hydrolase
Chain: B: PDB Molecule:atp-dependent rna helicase dbpa;
PDBTitle: structure of the second domain (residues 207-368) of the2 bacillus subtilis yxin protein
108d2g2ja1



not modelled 99.8 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
109d2fwra2



not modelled 99.8 26 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
110d1tf5a3



not modelled 99.8 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
111d1t5ia_



not modelled 99.8 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
112d1nkta3



not modelled 99.8 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
113d1tf5a4



not modelled 99.8 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
114d1fuka_



not modelled 99.8 28 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
115d1a1va2



not modelled 99.8 26 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RNA helicase
116d2fz4a1



not modelled 99.8 28 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
117d1gm5a4



not modelled 99.8 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
118c2jgnB_



not modelled 99.8 24 PDB header:hydrolase
Chain: B: PDB Molecule:atp-dependent rna helicase ddx3x;
PDBTitle: ddx3 helicase domain
119d1nkta4



not modelled 99.8 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
120d1yksa1



not modelled 99.7 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RNA helicase

Binding site prediction 

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite



Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
 
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
 
© Structural Bioinformatics Group
Imperial College London
Lawrence Kelley, Benjamin Jefferys
Disclaimer
Terms and Conditions
Component software
Template detection: HHpred 1.51
Secondary structure prediction: Psi-pred 2.5
Disorder prediction: Disopred 2.4
Transmembrane prediction: Memsat_SVM
Multi-template modelling and ab initio: Poing 1.0