Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP36645
DateThu Jan 5 11:53:22 GMT 2012
Unique Job ID09982e091c869587

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1p9ra_
Top template information
Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
Confidence and coverage
Confidence:100.0% Coverage: 80%
371 residues ( 80% 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.
423 residues ( 92%) 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  MNIPQLTALCLRYHGVLLDASEEVVHVAVVDAPSHELLDALHFATTKRIEITCWTRQQME
Secondary structure 

















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Disorder  ?????






















































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   .........70.........80.........90.........100.........110.........120
Sequence  GHASRTQQTLPVAVQEKHQPKAELLTRTLQSALEQRASDIHIEPADNAYRIRLRIDGVLH
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Disorder 




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









































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   .........130.........140.........150.........160.........170.........180
Sequence  PLPDVSPDAGVALTARLKVLGNLDIAEHRLPQDGQFTVELAGNAVSFRIATLPCRGGEKV
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Disorder 






















?



































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   .........190.........200.........210.........220.........230.........240
Sequence  VLRLLQQVGQALDVNTLGMQPLQLADFAHALQQPQGLVLVTGPTGSGKTVTLYSALQKLN
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Disorder 





?
?????














































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






























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   .........310.........320.........330.........340.........350.........360
Sequence  IAIKAAQTGHLVLSTLHTNSTCETLVRLQQMGVARWMLSSALTLVIAQRLVRKLCPHCRR
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?

























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   .........370.........380.........390.........400.........410.........420
Sequence  QQGEPIHIPDNVWPSPLPHWQAPGCVHCYHGFYGRTALFEVLPITPVIRQLISANTDVES
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Disorder 

????



??

?









???


























?



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   .........430.........440.........450.........460.
Sequence  LETHARQAGMRTLFENGCLAVEQGLTTFEELIRVLGMPHGE
Secondary structure 















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Disorder 



































?????
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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 1p9r chain A

3D model

Region: 76 - 454
Aligned: 371
Modelled: 376
Confidence: 100.0%
Identity: 43%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: RecA protein-like (ATPase-domain)

Phyre2

PDB 2gsz chain E

3D model

Region: 85 - 459
Aligned: 324
Modelled: 338
Confidence: 100.0%
Identity: 34%
PDB header:protein transport
Chain: E: PDB Molecule:twitching motility protein pilt;
PDBTitle: structure of a. aeolicus pilt with 6 monomers per2 asymmetric unit

Phyre2

PDB 3jvv chain A

3D model

Region: 85 - 459
Aligned: 315
Modelled: 332
Confidence: 100.0%
Identity: 35%
PDB header:atp binding protein
Chain: A: PDB Molecule:twitching mobility protein;
PDBTitle: crystal structure of p. aeruginosa pilt with bound amp-pcp

Phyre2

PDB 2oaq chain 1

3D model

Region: 13 - 455
Aligned: 413
Modelled: 420
Confidence: 100.0%
Identity: 20%
PDB header:hydrolase
Chain: 1: PDB Molecule:type ii secretion system protein;
PDBTitle: crystal structure of the archaeal secretion atpase gspe in complex2 with phosphate

Phyre2

PDB 2eyu chain A

3D model

Region: 192 - 459
Aligned: 227
Modelled: 231
Confidence: 100.0%
Identity: 37%
PDB header:protein transport
Chain: A: PDB Molecule:twitching motility protein pilt;
PDBTitle: the crystal structure of the c-terminal domain of aquifex2 aeolicus pilt

Phyre2

PDB 1g6o chain A

3D model

Region: 80 - 331
Aligned: 244
Modelled: 251
Confidence: 100.0%
Identity: 22%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: RecA protein-like (ATPase-domain)

Phyre2

PDB 2gza chain B

3D model

Region: 85 - 331
Aligned: 236
Modelled: 246
Confidence: 100.0%
Identity: 20%
PDB header:hydrolase
Chain: B: PDB Molecule:type iv secretion system protein virb11;
PDBTitle: crystal structure of the virb11 atpase from the brucella suis type iv2 secretion system in complex with sulphate

Phyre2

PDB 2ja1 chain A

3D model

Region: 210 - 389
Aligned: 165
Modelled: 167
Confidence: 99.8%
Identity: 18%
PDB header:transferase
Chain: A: PDB Molecule:thymidine kinase;
PDBTitle: thymidine kinase from b. cereus with ttp bound as phosphate2 donor.

Phyre2

PDB 1xx6 chain B

3D model

Region: 213 - 389
Aligned: 148
Modelled: 147
Confidence: 99.8%
Identity: 22%
PDB header:transferase
Chain: B: PDB Molecule:thymidine kinase;
PDBTitle: x-ray structure of clostridium acetobutylicum thymidine kinase with2 adp. northeast structural genomics target car26.

Phyre2

PDB 2qq0 chain B

3D model

Region: 214 - 388
Aligned: 155
Modelled: 162
Confidence: 99.5%
Identity: 18%
PDB header:transferase
Chain: B: PDB Molecule:thymidine kinase;
PDBTitle: thymidine kinase from thermotoga maritima in complex with2 thymidine + appnhp

Phyre2

PDB 2d28 chain C domain 1

3D model

Region: 2 - 68
Aligned: 65
Modelled: 67
Confidence: 98.7%
Identity: 14%
Fold: Alpha-lytic protease prodomain-like
Superfamily: EspE N-terminal domain-like
Family: GSPII protein E N-terminal domain-like

Phyre2

PDB 1nij chain A domain 1

3D model

Region: 217 - 290
Aligned: 74
Modelled: 74
Confidence: 98.2%
Identity: 27%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Nitrogenase iron protein-like

Phyre2

PDB 1ye8 chain A domain 1

3D model

Region: 218 - 331
Aligned: 114
Modelled: 114
Confidence: 98.0%
Identity: 17%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: RecA protein-like (ATPase-domain)

Phyre2

PDB 2j7p chain A

3D model

Region: 213 - 331
Aligned: 119
Modelled: 119
Confidence: 97.9%
Identity: 20%
PDB header:signal recognition
Chain: A: PDB Molecule:signal recognition particle protein;
PDBTitle: gmppnp-stabilized ng domain complex of the srp gtpases ffh2 and ftsy

Phyre2

PDB 3b9p chain A

3D model

Region: 187 - 321
Aligned: 125
Modelled: 135
Confidence: 97.9%
Identity: 19%
PDB header:hydrolase
Chain: A: PDB Molecule:cg5977-pa, isoform a;
PDBTitle: spastin

Phyre2

PDB 1zu4 chain A

3D model

Region: 201 - 291
Aligned: 91
Modelled: 91
Confidence: 97.9%
Identity: 12%
PDB header:protein transport
Chain: A: PDB Molecule:ftsy;
PDBTitle: crystal structure of ftsy from mycoplasma mycoides- space2 group p21212

Phyre2

PDB 2r65 chain A

3D model

Region: 185 - 293
Aligned: 99
Modelled: 99
Confidence: 97.8%
Identity: 16%
PDB header:hydrolase
Chain: A: PDB Molecule:cell division protease ftsh homolog;
PDBTitle: crystal structure of helicobacter pylori atp dependent protease, ftsh2 adp complex

Phyre2

PDB 1cr2 chain A

3D model

Region: 213 - 322
Aligned: 110
Modelled: 110
Confidence: 97.8%
Identity: 17%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: RecA protein-like (ATPase-domain)

Phyre2

PDB 2f1r chain A

3D model

Region: 217 - 290
Aligned: 74
Modelled: 74
Confidence: 97.8%
Identity: 16%
PDB header:biosynthetic protein
Chain: A: PDB Molecule:molybdopterin-guanine dinucleotide biosynthesis
PDBTitle: crystal structure of molybdopterin-guanine biosynthesis2 protein b (mobb)

Phyre2

PDB 1xjc chain A

3D model

Region: 217 - 290
Aligned: 73
Modelled: 74
Confidence: 97.8%
Identity: 18%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Nitrogenase iron protein-like

Phyre2
1

d1p9ra_
2

c2gszE_
3

c3jvvA_
4

c2oaq1_
5

c2eyuA_
6

d1g6oa_
7

c2gzaB_
8

c2ja1A_
9

c1xx6B_
10

c2qq0B_
11

d2d28c1
12

d1nija1
13

d1ye8a1
14

c2j7pA_
15

c3b9pA_
16

c1zu4A_
17

c2r65A_
18

d1cr2a_
19

c2f1rA_
20

d1xjca_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1p9ra_



100.0 43 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
2c2gszE_



100.0 34 PDB header:protein transport
Chain: E: PDB Molecule:twitching motility protein pilt;
PDBTitle: structure of a. aeolicus pilt with 6 monomers per2 asymmetric unit
3c3jvvA_



100.0 35 PDB header:atp binding protein
Chain: A: PDB Molecule:twitching mobility protein;
PDBTitle: crystal structure of p. aeruginosa pilt with bound amp-pcp
4c2oaq1_



100.0 20 PDB header:hydrolase
Chain: 1: PDB Molecule:type ii secretion system protein;
PDBTitle: crystal structure of the archaeal secretion atpase gspe in complex2 with phosphate
5c2eyuA_



100.0 37 PDB header:protein transport
Chain: A: PDB Molecule:twitching motility protein pilt;
PDBTitle: the crystal structure of the c-terminal domain of aquifex2 aeolicus pilt
6d1g6oa_



100.0 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
7c2gzaB_



100.0 20 PDB header:hydrolase
Chain: B: PDB Molecule:type iv secretion system protein virb11;
PDBTitle: crystal structure of the virb11 atpase from the brucella suis type iv2 secretion system in complex with sulphate
8c2ja1A_



99.8 18 PDB header:transferase
Chain: A: PDB Molecule:thymidine kinase;
PDBTitle: thymidine kinase from b. cereus with ttp bound as phosphate2 donor.
9c1xx6B_



99.8 22 PDB header:transferase
Chain: B: PDB Molecule:thymidine kinase;
PDBTitle: x-ray structure of clostridium acetobutylicum thymidine kinase with2 adp. northeast structural genomics target car26.
10c2qq0B_



99.5 18 PDB header:transferase
Chain: B: PDB Molecule:thymidine kinase;
PDBTitle: thymidine kinase from thermotoga maritima in complex with2 thymidine + appnhp
11d2d28c1



98.7 14 Fold:Alpha-lytic protease prodomain-like
Superfamily:EspE N-terminal domain-like
Family:GSPII protein E N-terminal domain-like
12d1nija1



98.2 27 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
13d1ye8a1



98.0 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
14c2j7pA_



97.9 20 PDB header:signal recognition
Chain: A: PDB Molecule:signal recognition particle protein;
PDBTitle: gmppnp-stabilized ng domain complex of the srp gtpases ffh2 and ftsy
15c3b9pA_



97.9 19 PDB header:hydrolase
Chain: A: PDB Molecule:cg5977-pa, isoform a;
PDBTitle: spastin
16c1zu4A_



97.9 12 PDB header:protein transport
Chain: A: PDB Molecule:ftsy;
PDBTitle: crystal structure of ftsy from mycoplasma mycoides- space2 group p21212
17c2r65A_



97.8 16 PDB header:hydrolase
Chain: A: PDB Molecule:cell division protease ftsh homolog;
PDBTitle: crystal structure of helicobacter pylori atp dependent protease, ftsh2 adp complex
18d1cr2a_



97.8 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
19c2f1rA_



97.8 16 PDB header:biosynthetic protein
Chain: A: PDB Molecule:molybdopterin-guanine dinucleotide biosynthesis
PDBTitle: crystal structure of molybdopterin-guanine biosynthesis2 protein b (mobb)
20d1xjca_



97.8 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
21d2ce7a2



not modelled 97.8 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
22c3b9qA_



not modelled 97.7 17 PDB header:protein transport
Chain: A: PDB Molecule:chloroplast srp receptor homolog, alpha subunit
PDBTitle: the crystal structure of cpftsy from arabidopsis thaliana
23c2qy9A_



not modelled 97.7 15 PDB header:protein transport
Chain: A: PDB Molecule:cell division protein ftsy;
PDBTitle: structure of the ng+1 construct of the e. coli srp receptor2 ftsy
24c3dmdA_



not modelled 97.7 16 PDB header:transport protein
Chain: A: PDB Molecule:signal recognition particle receptor;
PDBTitle: structures and conformations in solution of the signal recognition2 particle receptor from the archaeon pyrococcus furiosus
25c2og2A_



not modelled 97.7 16 PDB header:protein transport
Chain: A: PDB Molecule:putative signal recognition particle receptor;
PDBTitle: crystal structure of chloroplast ftsy from arabidopsis2 thaliana
26c1in8A_



not modelled 97.6 22 PDB header:dna binding protein
Chain: A: PDB Molecule:holliday junction dna helicase ruvb;
PDBTitle: thermotoga maritima ruvb t158v
27c2qz4A_



not modelled 97.6 12 PDB header:hydrolase
Chain: A: PDB Molecule:paraplegin;
PDBTitle: human paraplegin, aaa domain in complex with adp
28c1xwiA_



not modelled 97.6 21 PDB header:protein transport
Chain: A: PDB Molecule:skd1 protein;
PDBTitle: crystal structure of vps4b
29d1sxje2



not modelled 97.6 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
30d1sxjc2



not modelled 97.6 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
31d1iqpa2



not modelled 97.5 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
32d1sxjb2



not modelled 97.5 12 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
33c3eihB_



not modelled 97.5 18 PDB header:protein transport
Chain: B: PDB Molecule:vacuolar protein sorting-associated protein 4;
PDBTitle: crystal structure of s.cerevisiae vps4 in the presence of atpgammas
34d1njfa_



not modelled 97.5 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
35d1ixza_



not modelled 97.5 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
36c3a4mB_



not modelled 97.5 14 PDB header:transferase
Chain: B: PDB Molecule:l-seryl-trna(sec) kinase;
PDBTitle: crystal structure of archaeal o-phosphoseryl-trna(sec)2 kinase
37d2awna2



not modelled 97.5 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
38d1xbta1



not modelled 97.5 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Type II thymidine kinase
39d1sxja2



not modelled 97.5 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
40d1in4a2



not modelled 97.4 25 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
41d1ixsb2



not modelled 97.4 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
42c2chgB_



not modelled 97.4 17 PDB header:dna-binding protein
Chain: B: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c domains 1 and 2
43c2zamA_



not modelled 97.4 22 PDB header:protein transport
Chain: A: PDB Molecule:vacuolar protein sorting-associating protein 4b;
PDBTitle: crystal structure of mouse skd1/vps4b apo-form
44c1sxjC_



not modelled 97.4 16 PDB header:replication
Chain: C: PDB Molecule:activator 1 40 kda subunit;
PDBTitle: crystal structure of the eukaryotic clamp loader2 (replication factor c, rfc) bound to the dna sliding clamp3 (proliferating cell nuclear antigen, pcna)
45c3hu2C_



not modelled 97.4 20 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97 n-d1 r86a mutant in complex with atpgs
46c1sxjB_



not modelled 97.4 11 PDB header:replication
Chain: B: PDB Molecule:activator 1 37 kda subunit;
PDBTitle: crystal structure of the eukaryotic clamp loader2 (replication factor c, rfc) bound to the dna sliding clamp3 (proliferating cell nuclear antigen, pcna)
47c3b85A_



not modelled 97.4 20 PDB header:hydrolase
Chain: A: PDB Molecule:phosphate starvation-inducible protein;
PDBTitle: crystal structure of predicted phosphate starvation-induced atpase2 phoh2 from corynebacterium glutamicum
48c3d8bB_



not modelled 97.4 22 PDB header:hydrolase
Chain: B: PDB Molecule:fidgetin-like protein 1;
PDBTitle: crystal structure of human fidgetin-like protein 1 in complex with adp
49c1nijA_



not modelled 97.4 28 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein yjia;
PDBTitle: yjia protein
50d1lv7a_



not modelled 97.4 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
51c3bosA_



not modelled 97.4 13 PDB header:hydrolase regulator,dna binding protein
Chain: A: PDB Molecule:putative dna replication factor;
PDBTitle: crystal structure of a putative dna replication regulator hda2 (sama_1916) from shewanella amazonensis sb2b at 1.75 a resolution
52d1d2na_



not modelled 97.4 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
53c1iqpF_



not modelled 97.4 17 PDB header:replication
Chain: F: PDB Molecule:rfcs;
PDBTitle: crystal structure of the clamp loader small subunit from2 pyrococcus furiosus
54c2cnwF_



not modelled 97.4 24 PDB header:signal recognition
Chain: F: PDB Molecule:cell division protein ftsy;
PDBTitle: gdpalf4 complex of the srp gtpases ffh and ftsy
55c2wjyA_



not modelled 97.3 31 PDB header:hydrolase
Chain: A: PDB Molecule:regulator of nonsense transcripts 1;
PDBTitle: crystal structure of the complex between human nonsense2 mediated decay factors upf1 and upf2 orthorhombic form
56d2qy9a2



not modelled 97.3 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
57c3e1sA_



not modelled 97.3 16 PDB header:hydrolase
Chain: A: PDB Molecule:exodeoxyribonuclease v, subunit recd;
PDBTitle: structure of an n-terminal truncation of deinococcus radiodurans recd2
58d1okkd2



not modelled 97.3 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
59d2qm8a1



not modelled 97.3 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
60d1sxjd2



not modelled 97.3 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
61c3u5zM_



not modelled 97.3 16 PDB header:dna binding protein/dna
Chain: M: PDB Molecule:dna polymerase accessory protein 44;
PDBTitle: structure of t4 bacteriophage clamp loader bound to the t4 clamp,2 primer-template dna, and atp analog
62d1qzxa3



not modelled 97.3 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
63c1sxjA_



not modelled 97.3 17 PDB header:replication
Chain: A: PDB Molecule:activator 1 95 kda subunit;
PDBTitle: crystal structure of the eukaryotic clamp loader2 (replication factor c, rfc) bound to the dna sliding clamp3 (proliferating cell nuclear antigen, pcna)
64c3cf1C_



not modelled 97.3 19 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97/vcp in complex with adp/adp.alfx
65c3pfiB_



not modelled 97.2 17 PDB header:hydrolase
Chain: B: PDB Molecule:holliday junction atp-dependent dna helicase ruvb;
PDBTitle: 2.7 angstrom resolution crystal structure of a probable holliday2 junction dna helicase (ruvb) from campylobacter jejuni subsp. jejuni3 nctc 11168 in complex with adenosine-5'-diphosphate
66d1uaaa1



not modelled 97.2 30 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
67d1yrba1



not modelled 97.2 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
68d1ls1a2



not modelled 97.2 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
69d1v43a3



not modelled 97.2 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
70c3h4mC_



not modelled 97.2 20 PDB header:hydrolase
Chain: C: PDB Molecule:proteasome-activating nucleotidase;
PDBTitle: aaa atpase domain of the proteasome- activating nucleotidase
71c1w36G_



not modelled 97.2 26 PDB header:recombination
Chain: G: PDB Molecule:exodeoxyribonuclease v alpha chain;
PDBTitle: recbcd:dna complex
72c1vciA_



not modelled 97.2 22 PDB header:transport protein
Chain: A: PDB Molecule:sugar-binding transport atp-binding protein;
PDBTitle: crystal structure of the atp-binding cassette of multisugar2 transporter from pyrococcus horikoshii ot3 complexed with3 atp
73d1vmaa2



not modelled 97.2 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
74c1pjrA_



not modelled 97.2 25 PDB header:helicase
Chain: A: PDB Molecule:pcra;
PDBTitle: structure of dna helicase
75c2chvE_



not modelled 97.2 18 PDB header:dna-binding protein
Chain: E: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c adpnp complex
76c1iy2A_



not modelled 97.2 13 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent metalloprotease ftsh;
PDBTitle: crystal structure of the ftsh atpase domain from thermus2 thermophilus
77d1qvra2



not modelled 97.1 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
78c2dhrC_



not modelled 97.1 18 PDB header:hydrolase
Chain: C: PDB Molecule:ftsh;
PDBTitle: whole cytosolic region of atp-dependent metalloprotease2 ftsh (g399l)
79d1np6a_



not modelled 97.1 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
80c3lfuA_



not modelled 97.1 31 PDB header:hydrolase
Chain: A: PDB Molecule:dna helicase ii;
PDBTitle: crystal structure of e. coli uvrd
81d1pjra1



not modelled 97.1 26 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
82c1s3sA_



not modelled 97.1 17 PDB header:protein binding
Chain: A: PDB Molecule:transitional endoplasmic reticulum atpase (ter
PDBTitle: crystal structure of aaa atpase p97/vcp nd1 in complex with2 p47 c
83d1e32a2



not modelled 97.1 30 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
84c2b8tA_



not modelled 97.1 24 PDB header:transferase
Chain: A: PDB Molecule:thymidine kinase;
PDBTitle: crystal structure of thymidine kinase from u.urealyticum in2 complex with thymidine
85d1r6bx2



not modelled 97.1 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
86c1sxjE_



not modelled 97.1 19 PDB header:replication
Chain: E: PDB Molecule:activator 1 40 kda subunit;
PDBTitle: crystal structure of the eukaryotic clamp loader2 (replication factor c, rfc) bound to the dna sliding clamp3 (proliferating cell nuclear antigen, pcna)
87d1vpla_



not modelled 97.1 26 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
88c2yhsA_



not modelled 97.1 19 PDB header:cell cycle
Chain: A: PDB Molecule:cell division protein ftsy;
PDBTitle: structure of the e. coli srp receptor ftsy
89c2xzlA_



not modelled 97.1 41 PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent helicase nam7;
PDBTitle: upf1-rna complex
90c2p5tD_



not modelled 97.0 15 PDB header:transcription regulator
Chain: D: PDB Molecule:pezt;
PDBTitle: molecular and structural characterization of the pezat chromosomal2 toxin-antitoxin system of the human pathogen streptococcus pneumoniae
91c1vmaA_



not modelled 97.0 19 PDB header:protein transport
Chain: A: PDB Molecule:cell division protein ftsy;
PDBTitle: crystal structure of cell division protein ftsy (tm0570) from2 thermotoga maritima at 1.60 a resolution
92c3tr0A_



not modelled 97.0 17 PDB header:transferase
Chain: A: PDB Molecule:guanylate kinase;
PDBTitle: structure of guanylate kinase (gmk) from coxiella burnetii
93c1u9iA_



not modelled 97.0 15 PDB header:circadian clock protein
Chain: A: PDB Molecule:kaic;
PDBTitle: crystal structure of circadian clock protein kaic with phosphorylation2 sites
94d1l8qa2



not modelled 97.0 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
95c2pjzA_



not modelled 97.0 21 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein st1066;
PDBTitle: the crystal structure of putative cobalt transport atp-2 binding protein (cbio-2), st1066
96c2ce7B_



not modelled 97.0 18 PDB header:cell division protein
Chain: B: PDB Molecule:cell division protein ftsh;
PDBTitle: edta treated
97d1xx6a1



not modelled 97.0 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Type II thymidine kinase
98d1fnna2



not modelled 97.0 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
99d2i3ba1



not modelled 97.0 31 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
100c3pvsA_



not modelled 97.0 17 PDB header:recombination
Chain: A: PDB Molecule:replication-associated recombination protein a;
PDBTitle: structure and biochemical activities of escherichia coli mgsa
101c2is6B_



not modelled 97.0 32 PDB header:hydrolase/dna
Chain: B: PDB Molecule:dna helicase ii;
PDBTitle: crystal structure of uvrd-dna-adpmgf3 ternary complex
102c3hteC_



not modelled 97.0 22 PDB header:motor protein
Chain: C: PDB Molecule:atp-dependent clp protease atp-binding subunit clpx;
PDBTitle: crystal structure of nucleotide-free hexameric clpx
103c1sxjD_



not modelled 97.0 22 PDB header:replication
Chain: D: PDB Molecule:activator 1 41 kda subunit;
PDBTitle: crystal structure of the eukaryotic clamp loader2 (replication factor c, rfc) bound to the dna sliding clamp3 (proliferating cell nuclear antigen, pcna)
104c2hcbC_



not modelled 97.0 18 PDB header:replication
Chain: C: PDB Molecule:chromosomal replication initiator protein dnaa;
PDBTitle: structure of amppcp-bound dnaa from aquifex aeolicus
105c1z47B_



not modelled 97.0 20 PDB header:ligand binding protein
Chain: B: PDB Molecule:putative abc-transporter atp-binding protein;
PDBTitle: structure of the atpase subunit cysa of the putative2 sulfate atp-binding cassette (abc) transporter from3 alicyclobacillus acidocaldarius
106c2kjqA_



not modelled 97.0 12 PDB header:replication
Chain: A: PDB Molecule:dnaa-related protein;
PDBTitle: solution structure of protein nmb1076 from neisseria meningitidis.2 northeast structural genomics consortium target mr101b.
107c3fhtA_



not modelled 97.0 20 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
108c2pjrF_



not modelled 97.0 25 PDB header:hydrolase/dna
Chain: F: PDB Molecule:protein (helicase pcra);
PDBTitle: helicase product complex
109c1uaaB_



not modelled 97.0 30 PDB header:hydrolase/dna
Chain: B: PDB Molecule:protein (atp-dependent dna helicase rep.);
PDBTitle: e. coli rep helicase/dna complex
110d1a5ta2



not modelled 96.9 12 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
111d2p67a1



not modelled 96.9 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
112d1r7ra3



not modelled 96.9 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
113c2z4rB_



not modelled 96.9 14 PDB header:dna binding protein
Chain: B: PDB Molecule:chromosomal replication initiator protein dnaa;
PDBTitle: crystal structure of domain iii from the thermotoga2 maritima replication initiation protein dnaa
114c1hqcB_



not modelled 96.9 20 PDB header:hydrolase
Chain: B: PDB Molecule:ruvb;
PDBTitle: structure of ruvb from thermus thermophilus hb8
115c3dm5A_



not modelled 96.9 27 PDB header:rna binding protein, transport protein
Chain: A: PDB Molecule:signal recognition 54 kda protein;
PDBTitle: structures of srp54 and srp19, the two proteins assembling2 the ribonucleic core of the signal recognition particle3 from the archaeon pyrococcus furiosus.
116c3pxiB_



not modelled 96.9 19 PDB header:protein binding
Chain: B: PDB Molecule:negative regulator of genetic competence clpc/mecb;
PDBTitle: structure of meca108:clpc
117c2j37W_



not modelled 96.9 22 PDB header:ribosome
Chain: W: PDB Molecule:signal recognition particle 54 kda protein
PDBTitle: model of mammalian srp bound to 80s rncs
118c2iy3A_



not modelled 96.9 24 PDB header:rna-binding
Chain: A: PDB Molecule:signal recognition particle protein ffh;
PDBTitle: structure of the e. coli signal recognition particle2 bound to a translating ribosome
119c3cmvG_



not modelled 96.9 21 PDB header:recombination
Chain: G: PDB Molecule:protein reca;
PDBTitle: mechanism of homologous recombination from the reca-2 ssdna/dsdna structures
120c2va8A_



not modelled 96.9 22 PDB header:hydrolase
Chain: A: PDB Molecule:ski2-type helicase;
PDBTitle: dna repair helicase hel308

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
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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