Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP10408
DateThu Jan 5 11:32:13 GMT 2012
Unique Job ID68505ca07f3c054e

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2ipcB_
Top template information
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
Confidence and coverage
Confidence:100.0% Coverage: 90%
815 residues ( 90% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MLIKLLTKVFGSRNDRTLRRMRKVVNIINAMEPEMEKLSDEELKGKTAEFRARLEKGEVL
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Disorder  ??





















































????
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   .........70.........80.........90.........100.........110.........120
Sequence  ENLIPEAFAVVREASKRVFGMRHFDVQLLGGMVLNERCIAEMRTGEGKTLTATLPAYLNA
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   .........130.........140.........150.........160.........170.........180
Sequence  LTGKGVHVVTVNDYLAQRDAENNRPLFEFLGLTVGINLPGMPAPAKREAYAADITYGTNN
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?
?


















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   .........190.........200.........210.........220.........230.........240
Sequence  EYGFDYLRDNMAFSPEERVQRKLHYALVDEVDSILIDEARTPLIISGPAEDSSEMYKRVN
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??































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   .........250.........260.........270.........280.........290.........300
Sequence  KIIPHLIRQEKEDSETFQGEGHFSVDEKSRQVNLTERGLVLIEELLVKEGIMDEGESLYS
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?
????
??






























?????
?
?


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   .........310.........320.........330.........340.........350.........360
Sequence  PANIMLMHHVTAALRAHALFTRDVDYIVKDGEVIIVDEHTGRTMQGRRWSDGLHQAVEAK
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   .........370.........380.........390.........400.........410.........420
Sequence  EGVQIQNENQTLASITFQNYFRLYEKLAGMTGTADTEAFEFSSIYKLDTVVVPTNRPMIR
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???????

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   .........430.........440.........450.........460.........470.........480
Sequence  KDLPDLVYMTEAEKIQAIIEDIKERTAKGQPVLVGTISIEKSELVSNELTKAGIKHNVLN
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   .........490.........500.........510.........520.........530.........540
Sequence  AKFHANEAAIVAQAGYPAAVTIATNMAGRGTDIVLGGSWQAEVAALENPTAEQIEKIKAD
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?



































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   .........550.........560.........570.........580.........590.........600
Sequence  WQVRHDAVLEAGGLHIIGTERHESRRIDNQLRGRSGRQGDAGSSRFYLSMEDALMRIFAS
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?????















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   .........610.........620.........630.........640.........650.........660
Sequence  DRVSGMMRKLGMKPGEAIEHPWVTKAIANAQRKVESRNFDIRKQLLEYDDVANDQRRAIY
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????

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   .........670.........680.........690.........700.........710.........720
Sequence  SQRNELLDVSDVSETINSIREDVFKATIDAYIPPQSLEEMWDIPGLQERLKNDFDLDLPI
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   .........730.........740.........750.........760.........770.........780
Sequence  AEWLDKEPELHEETLRERILAQSIEVYQRKEEVVGAEMMRHFEKGVMLQTLDSLWKEHLA
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??
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   .........790.........800.........810.........820.........830.........840
Sequence  AMDYLRQGIHLRGYAQKDPKQEYKRESFSMFAAMLESLKYEVISTLSKVQVRMPEEVEEL
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?




























??
?????????
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   .........850.........860.........870.........880.........890.........900
Sequence  EQQRRMEAERLAQMQQLSHQDDDSAAAAALAAQTGERKVGRNDPCPCGSGKKYKQCHGRL
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Disorder  ????
?????

??????????????????????????????











??????
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   .
Sequence  Q
Secondary structure 
SS confidence 
Disorder  ?
Disorder confidence 
 

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 2ipc chain B

3D model

Region: 7 - 832
Aligned: 815
Modelled: 826
Confidence: 100.0%
Identity: 55%
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

Phyre2

PDB 2vda chain A

3D model

Region: 9 - 836
Aligned: 828
Modelled: 828
Confidence: 100.0%
Identity: 100%
PDB header:protein transport
Chain: A: PDB Molecule:translocase subunit seca;
PDBTitle: solution structure of the seca-signal peptide complex

Phyre2

PDB 1nl3 chain B

3D model

Region: 2 - 831
Aligned: 807
Modelled: 830
Confidence: 100.0%
Identity: 51%
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

Phyre2

PDB 3jux chain A

3D model

Region: 12 - 829
Aligned: 762
Modelled: 762
Confidence: 100.0%
Identity: 51%
PDB header:protein transport
Chain: A: PDB Molecule:protein translocase subunit seca;
PDBTitle: structure of the translocation atpase seca from thermotoga2 maritima

Phyre2

PDB 3din chain B

3D model

Region: 9 - 829
Aligned: 765
Modelled: 765
Confidence: 100.0%
Identity: 51%
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

Phyre2

PDB 1tf2 chain A

3D model

Region: 9 - 831
Aligned: 771
Modelled: 787
Confidence: 100.0%
Identity: 55%
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

Phyre2

PDB 3dl8 chain B

3D model

Region: 8 - 829
Aligned: 772
Modelled: 772
Confidence: 100.0%
Identity: 55%
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

Phyre2

PDB 2fsg chain A

3D model

Region: 16 - 834
Aligned: 679
Modelled: 679
Confidence: 100.0%
Identity: 98%
PDB header:protein transport
Chain: A: PDB Molecule:preprotein translocase seca subunit;
PDBTitle: complex seca:atp from escherichia coli

Phyre2

PDB 1nkt chain A domain 3

3D model

Region: 2 - 415
Aligned: 272
Modelled: 272
Confidence: 100.0%
Identity: 62%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Tandem AAA-ATPase domain

Phyre2

PDB 3bxz chain A

3D model

Region: 11 - 594
Aligned: 438
Modelled: 438
Confidence: 100.0%
Identity: 100%
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 1tf5 chain A domain 3

3D model

Region: 9 - 415
Aligned: 267
Modelled: 267
Confidence: 100.0%
Identity: 71%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Tandem AAA-ATPase domain

Phyre2

PDB 1nkt chain A domain 4

3D model

Region: 417 - 619
Aligned: 203
Modelled: 203
Confidence: 100.0%
Identity: 54%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Tandem AAA-ATPase domain

Phyre2

PDB 1tf5 chain A domain 2

3D model

Region: 620 - 831
Aligned: 210
Modelled: 212
Confidence: 100.0%
Identity: 39%
Fold: Helical scaffold and wing domains of SecA
Superfamily: Helical scaffold and wing domains of SecA
Family: Helical scaffold and wing domains of SecA

Phyre2

PDB 1nkt chain A domain 2

3D model

Region: 620 - 831
Aligned: 205
Modelled: 212
Confidence: 100.0%
Identity: 37%
Fold: Helical scaffold and wing domains of SecA
Superfamily: Helical scaffold and wing domains of SecA
Family: Helical scaffold and wing domains of SecA

Phyre2

PDB 1nkt chain A domain 1

3D model

Region: 227 - 368
Aligned: 124
Modelled: 142
Confidence: 100.0%
Identity: 46%
Fold: Pre-protein crosslinking domain of SecA
Superfamily: Pre-protein crosslinking domain of SecA
Family: Pre-protein crosslinking domain of SecA

Phyre2

PDB 1tf5 chain A domain 1

3D model

Region: 229 - 368
Aligned: 122
Modelled: 140
Confidence: 100.0%
Identity: 46%
Fold: Pre-protein crosslinking domain of SecA
Superfamily: Pre-protein crosslinking domain of SecA
Family: Pre-protein crosslinking domain of SecA

Phyre2

PDB 1tf5 chain A domain 4

3D model

Region: 416 - 619
Aligned: 175
Modelled: 175
Confidence: 100.0%
Identity: 60%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Tandem AAA-ATPase domain

Phyre2

PDB 2v1x chain B

3D model

Region: 71 - 592
Aligned: 327
Modelled: 343
Confidence: 99.9%
Identity: 28%
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: 69 - 630
Aligned: 349
Modelled: 375
Confidence: 99.8%
Identity: 18%
PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent dna helicase;
PDBTitle: structure of the recq catalytic core

Phyre2

PDB 1gm5 chain A

3D model

Region: 29 - 593
Aligned: 351
Modelled: 366
Confidence: 99.8%
Identity: 19%
PDB header:helicase
Chain: A: PDB Molecule:recg;
PDBTitle: structure of recg bound to three-way dna junction

Phyre2

PDB 2i9w chain A

3D model

Region: 877 - 899
Aligned: 23
Modelled: 21
Confidence: 99.4%
Identity: 48%
PDB header:metal binding protein
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of a sec-c motif containing protein (psyc_2064) from2 psychrobacter arcticus at 1.75 a resolution

Phyre2

PDB 1tm6 chain A

3D model

Region: 880 - 901
Aligned: 22
Modelled: 22
Confidence: 99.2%
Identity: 100%
Fold: Sec-C motif
Superfamily: Sec-C motif
Family: Sec-C motif

Phyre2

PDB 1tm6 chain A

3D model

Region: 880 - 901
Aligned: 22
Modelled: 22
Confidence: 99.2%
Identity: 100%
PDB header:protein transport
Chain: A: PDB Molecule:preprotein translocase seca subunit;
PDBTitle: nmr structure of the free zinc binding c-terminal domain of2 seca

Phyre2
1

c2ipcB_
2

c2vdaA_
3

c1nl3B_
4

c3juxA_
5

c3dinB_
6

c1tf2A_
7

c3dl8B_
8

c2fsgA_
9

d1nkta3
10

c3bxzA_
11

d1tf5a3
12

d1nkta4
13

d1tf5a2
14

d1nkta2
15

d1nkta1
16

d1tf5a1
17

d1tf5a4
18

c2v1xB_
19

c1oywA_
20

c1gm5A_
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c2i9wA_
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d1tm6a_
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c1tm6A_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2ipcB_



100.0 55 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
2c2vdaA_



100.0 100 PDB header:protein transport
Chain: A: PDB Molecule:translocase subunit seca;
PDBTitle: solution structure of the seca-signal peptide complex
3c1nl3B_



100.0 51 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
4c3juxA_



100.0 51 PDB header:protein transport
Chain: A: PDB Molecule:protein translocase subunit seca;
PDBTitle: structure of the translocation atpase seca from thermotoga2 maritima
5c3dinB_



100.0 51 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
6c1tf2A_



100.0 55 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
7c3dl8B_



100.0 55 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
8c2fsgA_



100.0 98 PDB header:protein transport
Chain: A: PDB Molecule:preprotein translocase seca subunit;
PDBTitle: complex seca:atp from escherichia coli
9d1nkta3



100.0 62 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
10c3bxzA_



100.0 100 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
11d1tf5a3



100.0 71 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
12d1nkta4



100.0 54 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
13d1tf5a2



100.0 39 Fold:Helical scaffold and wing domains of SecA
Superfamily:Helical scaffold and wing domains of SecA
Family:Helical scaffold and wing domains of SecA
14d1nkta2



100.0 37 Fold:Helical scaffold and wing domains of SecA
Superfamily:Helical scaffold and wing domains of SecA
Family:Helical scaffold and wing domains of SecA
15d1nkta1



100.0 46 Fold:Pre-protein crosslinking domain of SecA
Superfamily:Pre-protein crosslinking domain of SecA
Family:Pre-protein crosslinking domain of SecA
16d1tf5a1



100.0 46 Fold:Pre-protein crosslinking domain of SecA
Superfamily:Pre-protein crosslinking domain of SecA
Family:Pre-protein crosslinking domain of SecA
17d1tf5a4



100.0 60 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
18c2v1xB_



99.9 28 PDB header:hydrolase
Chain: B: PDB Molecule:atp-dependent dna helicase q1;
PDBTitle: crystal structure of human recq-like dna helicase
19c1oywA_



99.8 18 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent dna helicase;
PDBTitle: structure of the recq catalytic core
20c1gm5A_



99.8 19 PDB header:helicase
Chain: A: PDB Molecule:recg;
PDBTitle: structure of recg bound to three-way dna junction
21c1c4oA_



not modelled 99.7 18 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
22c1gl9B_



not modelled 99.7 24 PDB header:topoisomerase
Chain: B: PDB Molecule:reverse gyrase;
PDBTitle: archaeoglobus fulgidus reverse gyrase complexed with adpnp
23c2d7dA_



not modelled 99.6 18 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
24c2db3D_



not modelled 99.6 20 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
25c2eyqA_



not modelled 99.6 22 PDB header:hydrolase
Chain: A: PDB Molecule:transcription-repair coupling factor;
PDBTitle: crystal structure of escherichia coli transcription-repair2 coupling factor
26c3oiyB_



not modelled 99.6 16 PDB header:isomerase
Chain: B: PDB Molecule:reverse gyrase helicase domain;
PDBTitle: helicase domain of reverse gyrase from thermotoga maritima
27c1hv8B_



not modelled 99.6 20 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
28c2xgjA_



not modelled 99.5 22 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
29c3i5yA_



not modelled 99.5 22 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
30c3tmiA_



not modelled 99.5 14 PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent rna helicase ddx58;
PDBTitle: structural basis for rna recognition and activation of rig-i
31c1xtkA_



not modelled 99.5 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
32c1wp9D_



not modelled 99.5 19 PDB header:hydrolase
Chain: D: PDB Molecule:atp-dependent rna helicase, putative;
PDBTitle: crystal structure of pyrococcus furiosus hef helicase domain
33c2va8A_



not modelled 99.5 21 PDB header:hydrolase
Chain: A: PDB Molecule:ski2-type helicase;
PDBTitle: dna repair helicase hel308
34c1s2mA_



not modelled 99.4 18 PDB header:rna binding protein
Chain: A: PDB Molecule:putative atp-dependent rna helicase dhh1;
PDBTitle: crystal structure of the dead box protein dhh1p
35c2ocaA_



not modelled 99.4 19 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent dna helicase uvsw;
PDBTitle: the crystal structure of t4 uvsw
36c3rc8A_



not modelled 99.4 21 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
37c2jlrA_



not modelled 99.4 19 PDB header:hydrolase
Chain: A: PDB Molecule:serine protease subunit ns3;
PDBTitle: dengue virus 4 ns3 helicase in complex with amppnp
38c2i9wA_



99.4 48 PDB header:metal binding protein
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of a sec-c motif containing protein (psyc_2064) from2 psychrobacter arcticus at 1.75 a resolution
39c4a4zA_



not modelled 99.4 18 PDB header:hydrolase
Chain: A: PDB Molecule:antiviral helicase ski2;
PDBTitle: crystal structure of the s. cerevisiae dexh helicase ski2 bound to2 amppnp
40c2v6jA_



not modelled 99.4 24 PDB header:hydrolase
Chain: A: PDB Molecule:rna helicase;
PDBTitle: kokobera virus helicase: mutant met47thr
41c3kx2A_



not modelled 99.4 21 PDB header:hydrolase
Chain: A: PDB Molecule:pre-mrna-splicing factor atp-dependent rna
PDBTitle: crystal structure of prp43p in complex with adp
42c3ewsA_



not modelled 99.3 18 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase ddx19b;
PDBTitle: human dead-box rna-helicase ddx19 in complex with adp
43c2hxyC_



not modelled 99.3 14 PDB header:hydrolase
Chain: C: PDB Molecule:probable atp-dependent rna helicase ddx48;
PDBTitle: crystal structure of human apo-eif4aiii
44d1oywa3



not modelled 99.3 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
45c3fhtA_



not modelled 99.3 17 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
46c2z83A_



not modelled 99.3 22 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
47c3l9oA_



not modelled 99.3 20 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase dob1;
PDBTitle: crystal structure of mtr4, a co-factor of the nuclear exosome
48d1t5la2



not modelled 99.3 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
49c2i4iA_



not modelled 99.2 17 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase ddx3x;
PDBTitle: crystal structure of human dead-box rna helicase ddx3x
50c2vsxA_



not modelled 99.2 21 PDB header:translation/hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase eif4a;
PDBTitle: crystal structure of a translation initiation complex
51c3pexA_



not modelled 99.2 18 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase dbp5;
PDBTitle: s. cerevisiae dbp5 l327v bound to gle1 h337r and ip6
52c3tbkA_



not modelled 99.2 14 PDB header:hydrolase
Chain: A: PDB Molecule:rig-i helicase domain;
PDBTitle: mouse rig-i atpase domain
53c2p6uA_



not modelled 99.2 22 PDB header:dna binding protein
Chain: A: PDB Molecule:afuhel308 helicase;
PDBTitle: apo structure of the hel308 superfamily 2 helicase
54c2z0mA_



not modelled 99.2 19 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
55c2vbcA_



not modelled 99.2 21 PDB header:hydrolase
Chain: A: PDB Molecule:dengue 4 ns3 full-length protein;
PDBTitle: crystal structure of the ns3 protease-helicase from dengue2 virus
56d1c4oa2



not modelled 99.2 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
57d1tm6a_



99.2 100 Fold:Sec-C motif
Superfamily:Sec-C motif
Family:Sec-C motif
58c1tm6A_



99.2 100 PDB header:protein transport
Chain: A: PDB Molecule:preprotein translocase seca subunit;
PDBTitle: nmr structure of the free zinc binding c-terminal domain of2 seca
59c1ymfA_



not modelled 99.2 23 PDB header:hydrolase
Chain: A: PDB Molecule:genome polyprotein [contains: flavivirin
PDBTitle: crystal structure of yellow fever virus ns3 helicase2 complexed with adp
60c2zj2A_



not modelled 99.2 20 PDB header:hydrolase
Chain: A: PDB Molecule:putative ski2-type helicase;
PDBTitle: archaeal dna helicase hjm apo state in form 1
61d2j0sa2



not modelled 99.1 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
62d2eyqa5



not modelled 99.1 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
63c1ozbJ_



not modelled 99.1 74 PDB header:protein transport
Chain: J: PDB Molecule:preprotein translocase seca subunit;
PDBTitle: crystal structure of secb complexed with seca c-terminus
64c1ozbI_



not modelled 99.1 74 PDB header:protein transport
Chain: I: PDB Molecule:preprotein translocase seca subunit;
PDBTitle: crystal structure of secb complexed with seca c-terminus
65d1ozbi_



not modelled 99.1 74 Fold:Sec-C motif
Superfamily:Sec-C motif
Family:Sec-C motif
66d1hv8a2



not modelled 99.1 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
67c2hjvB_



not modelled 99.1 20 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
68c2wv9A_



not modelled 99.1 22 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
69c1a1vA_



not modelled 99.1 23 PDB header:hydrolase/dna
Chain: A: PDB Molecule:protein (ns3 protein);
PDBTitle: hepatitis c virus ns3 helicase domain complexed with single2 stranded sdna
70d1gl9b1



not modelled 99.0 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Helicase-like "domain" of reverse gyrase
71c2qeqA_



not modelled 99.0 20 PDB header:hydrolase
Chain: A: PDB Molecule:flavivirin protease ns3 catalytic subunit;
PDBTitle: crystal structure of kunjin virus ns3 helicase
72d1s2ma2



not modelled 99.0 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
73d1gm5a4



not modelled 99.0 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
74c3mwyW_



not modelled 98.9 18 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
75c2kbfA_



not modelled 98.9 17 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase dbp5;
PDBTitle: solution structure of carboxyl-terminal domain of dbp5p
76c1z3iX_



not modelled 98.9 17 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
77c2f55C_



not modelled 98.9 25 PDB header:hydrolase/dna
Chain: C: PDB Molecule:polyprotein;
PDBTitle: two hepatitis c virus ns3 helicase domains complexed with2 the same strand of dna
78d1gkub1



not modelled 98.8 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Helicase-like "domain" of reverse gyrase
79d1t5ia_



not modelled 98.8 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
80d1gm5a3



not modelled 98.8 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
81c3earA_



not modelled 98.8 17 PDB header:hydrolase
Chain: A: PDB Molecule:hera;
PDBTitle: novel dimerization motif in the dead box rna helicase hera: form 1,2 partial dimer
82c2vl7A_



not modelled 98.8 15 PDB header:unknown function
Chain: A: PDB Molecule:xpd;
PDBTitle: structure of s. tokodaii xpd4
83c3dmqA_



not modelled 98.8 18 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
84d2g2ja1



not modelled 98.7 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
85d2bmfa2



not modelled 98.7 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RNA helicase
86d1jr6a_



not modelled 98.7 26 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RNA helicase
87d2eyqa3



not modelled 98.7 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
88c3fe2B_



not modelled 98.7 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
89c2p6nA_



not modelled 98.7 22 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase ddx41;
PDBTitle: human dead-box rna helicase ddx41, helicase domain
90c2w74B_



not modelled 98.6 21 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
91c1z63A_



not modelled 98.6 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
92c3berA_



not modelled 98.6 23 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
93c3crw1_



not modelled 98.6 13 PDB header:hydrolase
Chain: 1: PDB Molecule:xpd/rad3 related dna helicase;
PDBTitle: "xpd_apo"
94c2jgnB_



not modelled 98.5 18 PDB header:hydrolase
Chain: B: PDB Molecule:atp-dependent rna helicase ddx3x;
PDBTitle: ddx3 helicase domain
95d2j0sa1



not modelled 98.5 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
96c3ly5A_



not modelled 98.5 24 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase ddx18;
PDBTitle: ddx18 dead-domain
97c2fwrA_



not modelled 98.5 17 PDB header:dna binding protein
Chain: A: PDB Molecule:dna repair protein rad25;
PDBTitle: structure of archaeoglobus fulgidis xpb
98c3i32A_



not modelled 98.5 19 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
99d1s2ma1



not modelled 98.5 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
100c3dkpA_



not modelled 98.5 19 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
101c2pl3A_



not modelled 98.4 21 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
102d1wp9a2



not modelled 98.4 29 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
103d2p6ra4



not modelled 98.3 25 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
104d1a1va2



not modelled 98.3 29 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RNA helicase
105d1fuka_



not modelled 98.3 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
106d1hv8a1



not modelled 98.3 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
107d1q0ua_



not modelled 98.2 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
108d1veca_



not modelled 98.2 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
109d1wrba1



not modelled 98.2 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
110c2gxqA_



not modelled 98.2 21 PDB header:hydrolase
Chain: A: PDB Molecule:heat resistant rna dependent atpase;
PDBTitle: hera n-terminal domain in complex with amp, crystal form 1
111c3iuyB_



not modelled 98.1 24 PDB header:hydrolase
Chain: B: PDB Molecule:probable atp-dependent rna helicase ddx53;
PDBTitle: crystal structure of ddx53 dead-box domain
112c2oxcA_



not modelled 98.1 15 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
113d1oywa2



not modelled 98.1 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
114c2kbeA_



not modelled 98.0 19 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase dbp5;
PDBTitle: solution structure of amino-terminal domain of dbp5p
115d1qdea_



not modelled 98.0 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
116d8ohma2



not modelled 98.0 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RNA helicase
117d1t6na_



not modelled 98.0 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
118d1wp9a1



not modelled 98.0 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
119d2g9na1



not modelled 97.9 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
120c2fzlA_



not modelled 97.9 15 PDB header:dna binding protein
Chain: A: PDB Molecule:dna repair protein rad25, xpb;
PDBTitle: structure of c-terminal domain of archaeoglobus fulgidus xpb

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