Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP96329
DateThu Jan 5 12:33:17 GMT 2012
Unique Job IDe7c9d1a54d564f10

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1fnnB_
Top template information
PDB header:cell cycle
Chain: B: PDB Molecule:cell division control protein 6;
PDBTitle: crystal structure of cdc6p from pyrobaculum aerophilum
Confidence and coverage
Confidence: 99.0% Coverage: 33%
245 residues ( 33% of your sequence) have been modelled with 99.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
426 residues ( 57%) 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  MKILRQLWNQKGLDAAVEDVPEDRYGFGNIAENISRSILTLPLEASNVVGIEGAWGSGKT
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Disorder  ???




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???
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   .........70.........80.........90.........100.........110.........120
Sequence  SLLNLILRNLALKKDAHTHVLHISPWLSGGSPVEALFLPVATVIQQEMEIRYPPKGFKKL
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?
??

??




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   .........130.........140.........150.........160.........170.........180
Sequence  WRKYLLSPEAQKVIEYAQDTSSRVLPLVQYIGQFSSIINWIAGGIKVFSDSRLAVDQKTT
Secondary structure 





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Disorder 





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   .........190.........200.........210.........220.........230.........240
Sequence  TKLRAEIAGQLVSLDLKFIVVMDDLDRLEPSQVAEVFRLVRAVADLPRFTHILCYDRQII
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   .........250.........260.........270.........280.........290.........300
Sequence  THAVEHALNIEDGSRYLQKIIQLSFKLPRPEAFDLRNEFRQRAEALYQQINNQPPDSGMV
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Disorder 




?
?????






































???

?


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   .........310.........320.........330.........340.........350.........360
Sequence  RDLIAVTDTYGAALSTPREIHQAINSLIFLYPGMRDFVYFPDLCLLQLIRVTNPALYDWT
Secondary structure 








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









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











??


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?
?
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   .........430.........440.........450.........460.........470.........480
Sequence  YLNLFEPVSEDFRHIQTTGKRLSSLTHWRYYFAFSSPQNVLPPEFFRQLFEQAGVSEKQQ
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Disorder 





?


??




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??

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   .........490.........500.........510.........520.........530.........540
Sequence  QLSELLLSKINSVGSLSGTWFEHILSRLTPGLIRERNFEECAGLVHFFFDHTDEVSTRFS
Secondary structure 


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?
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   .........550.........560.........570.........580.........590.........600
Sequence  IRNPWFSLREMAINEVVRHLLKHMQDIDETRTITLMEKLIVTGASPFWIADFMRDLIWEH
Secondary structure 







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Disorder  ???
?

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?
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??
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   .........610.........620.........630.........640.........650.........660
Sequence  GLAQNAVPSPSDALFSRDITERLRDRFAERMNQPELQQQLLLRKSLLGYLYAWRDMSSGE
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Disorder  ???????????





















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   .........670.........680.........690.........700.........710.........720
Sequence  TVKQWVREVTTTDEGLVNLLIRLQTSVFSSHRGAYRRIARDQVSPFFDDWPAVEEKLKVM
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   .........730.........740.
Sequence  LSGNELTPEQEALKTALENDD
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 1fnn chain B

3D model

Region: 22 - 343
Aligned: 245
Modelled: 257
Confidence: 99.0%
Identity: 15%
PDB header:cell cycle
Chain: B: PDB Molecule:cell division control protein 6;
PDBTitle: crystal structure of cdc6p from pyrobaculum aerophilum

Phyre2

PDB 1fnn chain A domain 2

3D model

Region: 22 - 343
Aligned: 245
Modelled: 257
Confidence: 99.0%
Identity: 15%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 2fna chain A domain 2

3D model

Region: 15 - 286
Aligned: 213
Modelled: 220
Confidence: 98.9%
Identity: 13%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1w5s chain A domain 2

3D model

Region: 24 - 343
Aligned: 244
Modelled: 249
Confidence: 98.9%
Identity: 16%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1qvr chain B

3D model

Region: 21 - 326
Aligned: 213
Modelled: 218
Confidence: 98.6%
Identity: 16%
PDB header:chaperone
Chain: B: PDB Molecule:clpb protein;
PDBTitle: crystal structure analysis of clpb

Phyre2

PDB 1qvr chain A domain 3

3D model

Region: 21 - 330
Aligned: 217
Modelled: 226
Confidence: 98.6%
Identity: 13%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 2v1u chain A

3D model

Region: 22 - 365
Aligned: 262
Modelled: 279
Confidence: 98.6%
Identity: 13%
PDB header:replication
Chain: A: PDB Molecule:cell division control protein 6 homolog;
PDBTitle: structure of the aeropyrum pernix orc1 protein in complex2 with dna

Phyre2

PDB 2qby chain A

3D model

Region: 5 - 395
Aligned: 304
Modelled: 326
Confidence: 98.6%
Identity: 13%
PDB header:replication/dna
Chain: A: PDB Molecule:cell division control protein 6 homolog 1;
PDBTitle: crystal structure of a heterodimer of cdc6/orc1 initiators2 bound to origin dna (from s. solfataricus)

Phyre2

PDB 3te6 chain A

3D model

Region: 20 - 286
Aligned: 190
Modelled: 200
Confidence: 98.5%
Identity: 16%
PDB header:gene regulation
Chain: A: PDB Molecule:regulatory protein sir3;
PDBTitle: crystal structure of the s. cerevisiae sir3 aaa+ domain

Phyre2

PDB 1r6b chain X domain 3

3D model

Region: 21 - 326
Aligned: 214
Modelled: 232
Confidence: 98.5%
Identity: 13%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 2z4r chain B

3D model

Region: 29 - 343
Aligned: 210
Modelled: 222
Confidence: 98.5%
Identity: 21%
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

Phyre2

PDB 3b9p chain A

3D model

Region: 4 - 368
Aligned: 250
Modelled: 270
Confidence: 98.4%
Identity: 18%
PDB header:hydrolase
Chain: A: PDB Molecule:cg5977-pa, isoform a;
PDBTitle: spastin

Phyre2

PDB 1w5s chain B

3D model

Region: 13 - 333
Aligned: 245
Modelled: 256
Confidence: 98.4%
Identity: 17%
PDB header:replication
Chain: B: PDB Molecule:origin recognition complex subunit 2 orc2;
PDBTitle: structure of the aeropyrum pernix orc2 protein (adp form)

Phyre2

PDB 2ce7 chain A domain 2

3D model

Region: 15 - 343
Aligned: 217
Modelled: 246
Confidence: 98.4%
Identity: 18%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 2fna chain A

3D model

Region: 13 - 286
Aligned: 214
Modelled: 218
Confidence: 98.4%
Identity: 14%
PDB header:atp-binding protein
Chain: A: PDB Molecule:conserved hypothetical protein;
PDBTitle: crystal structure of an archaeal aaa+ atpase (sso1545) from sulfolobus2 solfataricus p2 at 2.00 a resolution

Phyre2

PDB 3pxi chain B

3D model

Region: 21 - 330
Aligned: 208
Modelled: 215
Confidence: 98.3%
Identity: 16%
PDB header:protein binding
Chain: B: PDB Molecule:negative regulator of genetic competence clpc/mecb;
PDBTitle: structure of meca108:clpc

Phyre2

PDB 3pvs chain A

3D model

Region: 22 - 492
Aligned: 305
Modelled: 333
Confidence: 98.3%
Identity: 19%
PDB header:recombination
Chain: A: PDB Molecule:replication-associated recombination protein a;
PDBTitle: structure and biochemical activities of escherichia coli mgsa

Phyre2

PDB 1r6b chain X

3D model

Region: 21 - 328
Aligned: 222
Modelled: 234
Confidence: 98.3%
Identity: 13%
PDB header:hydrolase
Chain: X: PDB Molecule:clpa protein;
PDBTitle: high resolution crystal structure of clpa

Phyre2

PDB 1sxj chain A

3D model

Region: 6 - 362
Aligned: 227
Modelled: 264
Confidence: 98.3%
Identity: 21%
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)

Phyre2

PDB 2ce7 chain B

3D model

Region: 22 - 343
Aligned: 210
Modelled: 239
Confidence: 98.2%
Identity: 18%
PDB header:cell division protein
Chain: B: PDB Molecule:cell division protein ftsh;
PDBTitle: edta treated

Phyre2
1

c1fnnB_
2

d1fnna2
3

d2fnaa2
4

d1w5sa2
5

c1qvrB_
6

d1qvra3
7

c2v1uA_
8

c2qbyA_
9

c3te6A_
10

d1r6bx3
11

c2z4rB_
12

c3b9pA_
13

c1w5sB_
14

d2ce7a2
15

c2fnaA_
16

c3pxiB_
17

c3pvsA_
18

c1r6bX_
19

c1sxjA_
20

c2ce7B_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1fnnB_



99.0 15 PDB header:cell cycle
Chain: B: PDB Molecule:cell division control protein 6;
PDBTitle: crystal structure of cdc6p from pyrobaculum aerophilum
2d1fnna2



99.0 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
3d2fnaa2



98.9 13 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
4d1w5sa2



98.9 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
5c1qvrB_



98.6 16 PDB header:chaperone
Chain: B: PDB Molecule:clpb protein;
PDBTitle: crystal structure analysis of clpb
6d1qvra3



98.6 13 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
7c2v1uA_



98.6 13 PDB header:replication
Chain: A: PDB Molecule:cell division control protein 6 homolog;
PDBTitle: structure of the aeropyrum pernix orc1 protein in complex2 with dna
8c2qbyA_



98.6 13 PDB header:replication/dna
Chain: A: PDB Molecule:cell division control protein 6 homolog 1;
PDBTitle: crystal structure of a heterodimer of cdc6/orc1 initiators2 bound to origin dna (from s. solfataricus)
9c3te6A_



98.5 16 PDB header:gene regulation
Chain: A: PDB Molecule:regulatory protein sir3;
PDBTitle: crystal structure of the s. cerevisiae sir3 aaa+ domain
10d1r6bx3



98.5 13 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
11c2z4rB_



98.5 21 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
12c3b9pA_



98.4 18 PDB header:hydrolase
Chain: A: PDB Molecule:cg5977-pa, isoform a;
PDBTitle: spastin
13c1w5sB_



98.4 17 PDB header:replication
Chain: B: PDB Molecule:origin recognition complex subunit 2 orc2;
PDBTitle: structure of the aeropyrum pernix orc2 protein (adp form)
14d2ce7a2



98.4 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
15c2fnaA_



98.4 14 PDB header:atp-binding protein
Chain: A: PDB Molecule:conserved hypothetical protein;
PDBTitle: crystal structure of an archaeal aaa+ atpase (sso1545) from sulfolobus2 solfataricus p2 at 2.00 a resolution
16c3pxiB_



98.3 16 PDB header:protein binding
Chain: B: PDB Molecule:negative regulator of genetic competence clpc/mecb;
PDBTitle: structure of meca108:clpc
17c3pvsA_



98.3 19 PDB header:recombination
Chain: A: PDB Molecule:replication-associated recombination protein a;
PDBTitle: structure and biochemical activities of escherichia coli mgsa
18c1r6bX_



98.3 13 PDB header:hydrolase
Chain: X: PDB Molecule:clpa protein;
PDBTitle: high resolution crystal structure of clpa
19c1sxjA_



98.3 21 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)
20c2ce7B_



98.2 18 PDB header:cell division protein
Chain: B: PDB Molecule:cell division protein ftsh;
PDBTitle: edta treated
21c3pfiB_



not modelled 98.2 22 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
22c3hu2C_



not modelled 98.1 17 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97 n-d1 r86a mutant in complex with atpgs
23d1ny5a2



not modelled 98.1 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
24d1e32a2



not modelled 98.1 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
25d1l8qa2



not modelled 98.1 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
26c3u5zM_



not modelled 98.1 14 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
27d1jbka_



not modelled 98.1 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
28c1iy2A_



not modelled 98.0 18 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent metalloprotease ftsh;
PDBTitle: crystal structure of the ftsh atpase domain from thermus2 thermophilus
29c3eihB_



not modelled 98.0 19 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
30d1sxje2



not modelled 98.0 12 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
31c1sxjC_



not modelled 97.9 20 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)
32c1iqpF_



not modelled 97.9 22 PDB header:replication
Chain: F: PDB Molecule:rfcs;
PDBTitle: crystal structure of the clamp loader small subunit from2 pyrococcus furiosus
33c2dhrC_



not modelled 97.8 17 PDB header:hydrolase
Chain: C: PDB Molecule:ftsh;
PDBTitle: whole cytosolic region of atp-dependent metalloprotease2 ftsh (g399l)
34c2r65A_



not modelled 97.8 17 PDB header:hydrolase
Chain: A: PDB Molecule:cell division protease ftsh homolog;
PDBTitle: crystal structure of helicobacter pylori atp dependent protease, ftsh2 adp complex
35c1xxhB_



not modelled 97.8 19 PDB header:transferase
Chain: B: PDB Molecule:dna polymerase iii subunit gamma;
PDBTitle: atpgs bound e. coli clamp loader complex
36c1in8A_



not modelled 97.8 21 PDB header:dna binding protein
Chain: A: PDB Molecule:holliday junction dna helicase ruvb;
PDBTitle: thermotoga maritima ruvb t158v
37c2hcbC_



not modelled 97.8 26 PDB header:replication
Chain: C: PDB Molecule:chromosomal replication initiator protein dnaa;
PDBTitle: structure of amppcp-bound dnaa from aquifex aeolicus
38d1sxja2



not modelled 97.8 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
39c2qbyB_



not modelled 97.8 14 PDB header:replication/dna
Chain: B: PDB Molecule:cell division control protein 6 homolog 3;
PDBTitle: crystal structure of a heterodimer of cdc6/orc1 initiators2 bound to origin dna (from s. solfataricus)
40c1s3sA_



not modelled 97.8 19 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
41d1iqpa2



not modelled 97.8 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
42c3d8bB_



not modelled 97.8 19 PDB header:hydrolase
Chain: B: PDB Molecule:fidgetin-like protein 1;
PDBTitle: crystal structure of human fidgetin-like protein 1 in complex with adp
43c2chgB_



not modelled 97.8 16 PDB header:dna-binding protein
Chain: B: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c domains 1 and 2
44c1sxjD_



not modelled 97.8 16 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)
45c3iytG_



not modelled 97.7 18 PDB header:apoptosis
Chain: G: PDB Molecule:apoptotic protease-activating factor 1;
PDBTitle: structure of an apoptosome-procaspase-9 card complex
46d1ixza_



not modelled 97.7 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
47c1nsfA_



not modelled 97.7 22 PDB header:protein transport
Chain: A: PDB Molecule:n-ethylmaleimide sensitive factor;
PDBTitle: d2 hexamerization domain of n-ethylmaleimide sensitive factor (nsf)
48c3h4mC_



not modelled 97.7 15 PDB header:hydrolase
Chain: C: PDB Molecule:proteasome-activating nucleotidase;
PDBTitle: aaa atpase domain of the proteasome- activating nucleotidase
49c1sxjE_



not modelled 97.7 14 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)
50c2p65A_



not modelled 97.6 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein pf08_0063;
PDBTitle: crystal structure of the first nucleotide binding domain of2 chaperone clpb1, putative, (pv089580) from plasmodium vivax
51c2qz4A_



not modelled 97.6 17 PDB header:hydrolase
Chain: A: PDB Molecule:paraplegin;
PDBTitle: human paraplegin, aaa domain in complex with adp
52c1sxjB_



not modelled 97.6 18 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)
53d1ofha_



not modelled 97.5 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
54c2a5yB_



not modelled 97.5 17 PDB header:apoptosis
Chain: B: PDB Molecule:ced-4;
PDBTitle: structure of a ced-4/ced-9 complex
55d1rz3a_



not modelled 97.5 25 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Phosphoribulokinase/pantothenate kinase
56c1xwiA_



not modelled 97.5 18 PDB header:protein transport
Chain: A: PDB Molecule:skd1 protein;
PDBTitle: crystal structure of vps4b
57d1r6bx2



not modelled 97.5 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
58d1qvra2



not modelled 97.5 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
59d1d2na_



not modelled 97.5 26 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
60c2qenA_



not modelled 97.5 21 PDB header:unknown function
Chain: A: PDB Molecule:walker-type atpase;
PDBTitle: the walker-type atpase paby2304 of pyrococcus abyssi
61d1odfa_



not modelled 97.5 13 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Phosphoribulokinase/pantothenate kinase
62d1g41a_



not modelled 97.5 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
63d1sxjb2



not modelled 97.5 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
64c2x8aA_



not modelled 97.4 15 PDB header:nuclear protein
Chain: A: PDB Molecule:nuclear valosin-containing protein-like;
PDBTitle: human nuclear valosin containing protein like (nvl), c-2 terminal aaa-atpase domain
65d1sxjc2



not modelled 97.4 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
66c2qptA_



not modelled 97.4 15 PDB header:endocytosis
Chain: A: PDB Molecule:eh domain-containing protein-2;
PDBTitle: crystal structure of an ehd atpase involved in membrane remodelling
67d1htwa_



not modelled 97.4 25 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:YjeE-like
68c2zamA_



not modelled 97.4 21 PDB header:protein transport
Chain: A: PDB Molecule:vacuolar protein sorting-associating protein 4b;
PDBTitle: crystal structure of mouse skd1/vps4b apo-form
69c3tqcB_



not modelled 97.3 14 PDB header:transferase
Chain: B: PDB Molecule:pantothenate kinase;
PDBTitle: structure of the pantothenate kinase (coaa) from coxiella burnetii
70d1r7ra3



not modelled 97.3 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
71c3c8uA_



not modelled 97.2 18 PDB header:transferase
Chain: A: PDB Molecule:fructokinase;
PDBTitle: crystal structure of putative fructose transport system kinase2 (yp_612366.1) from silicibacter sp. tm1040 at 1.95 a resolution
72d1njfa_



not modelled 97.2 12 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
73c2chvE_



not modelled 97.2 17 PDB header:dna-binding protein
Chain: E: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c adpnp complex
74c1ueiB_



not modelled 97.2 16 PDB header:transferase
Chain: B: PDB Molecule:uridine-cytidine kinase 2;
PDBTitle: crystal structure of human uridine-cytidine kinase 22 complexed with a feedback-inhibitor, utp
75c3nxsA_



not modelled 97.2 21 PDB header:transport protein
Chain: A: PDB Molecule:lao/ao transport system atpase;
PDBTitle: crystal structure of lao/ao transport system from mycobacterium2 smegmatis bound to gdp
76c2c99A_



not modelled 97.1 13 PDB header:transcription regulation
Chain: A: PDB Molecule:psp operon transcriptional activator;
PDBTitle: structural basis of the nucleotide driven conformational2 changes in the aaa domain of transcription activator pspf
77c2gesA_



not modelled 97.1 16 PDB header:transferase
Chain: A: PDB Molecule:pantothenate kinase;
PDBTitle: pantothenate kinase from mycobacterium tuberculosis (mtpank) in2 complex with a coenzyme a derivative, form-i (rt)
78d1cr2a_



not modelled 97.0 10 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
79d1sxjd2



not modelled 97.0 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
80d1sq5a_



not modelled 97.0 11 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Phosphoribulokinase/pantothenate kinase
81c2d3wB_



not modelled 97.0 15 PDB header:biosynthetic protein
Chain: B: PDB Molecule:probable atp-dependent transporter sufc;
PDBTitle: crystal structure of escherichia coli sufc, an atpase2 compenent of the suf iron-sulfur cluster assembly machinery
82c3cf1C_



not modelled 97.0 20 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97/vcp in complex with adp/adp.alfx
83d1in4a2



not modelled 96.9 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
84c2cnwF_



not modelled 96.9 14 PDB header:signal recognition
Chain: F: PDB Molecule:cell division protein ftsy;
PDBTitle: gdpalf4 complex of the srp gtpases ffh and ftsy
85c1z6tC_



not modelled 96.9 19 PDB header:apoptosis
Chain: C: PDB Molecule:apoptotic protease activating factor 1;
PDBTitle: structure of the apoptotic protease-activating factor 12 bound to adp
86c2kjqA_



not modelled 96.9 18 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.
87c3ld9D_



not modelled 96.8 26 PDB header:transferase
Chain: D: PDB Molecule:thymidylate kinase;
PDBTitle: crystal structure of thymidylate kinase from ehrlichia chaffeensis at2 2.15a resolution
88d1vpla_



not modelled 96.8 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
89c3md0A_



not modelled 96.8 23 PDB header:transport protein
Chain: A: PDB Molecule:arginine/ornithine transport system atpase;
PDBTitle: crystal structure of arginine/ornithine transport system2 atpase from mycobacterium tuberculosis bound to gdp (a ras-3 like gtpase superfamily protein)
90d1b0ua_



not modelled 96.8 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
91c3ec2A_



not modelled 96.7 21 PDB header:replication
Chain: A: PDB Molecule:dna replication protein dnac;
PDBTitle: crystal structure of the dnac helicase loader
92c2yl4A_



not modelled 96.7 18 PDB header:membrane protein
Chain: A: PDB Molecule:atp-binding cassette sub-family b member 10,
PDBTitle: structure of the human mitochondrial abc transporter, abcb10
93d1vmaa2



not modelled 96.7 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
94d1ji0a_



not modelled 96.7 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
95d1ak2a1



not modelled 96.7 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
96d1r0wa_



not modelled 96.6 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
97d1uj2a_



not modelled 96.6 31 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Phosphoribulokinase/pantothenate kinase
98c2hydB_



not modelled 96.6 20 PDB header:transport protein
Chain: B: PDB Molecule:abc transporter homolog;
PDBTitle: multidrug abc transporter sav1866
99c2f6rA_



not modelled 96.6 30 PDB header:transferase
Chain: A: PDB Molecule:bifunctional coenzyme a synthase;
PDBTitle: crystal structure of bifunctional coenzyme a synthase (coa synthase):2 (18044849) from mus musculus at 1.70 a resolution
100d2qm8a1



not modelled 96.6 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
101c1jr3E_



not modelled 96.6 17 PDB header:transferase
Chain: E: PDB Molecule:dna polymerase iii, delta' subunit;
PDBTitle: crystal structure of the processivity clamp loader gamma2 complex of e. coli dna polymerase iii
102c3asyB_



not modelled 96.6 42 PDB header:transferase
Chain: B: PDB Molecule:uridine kinase;
PDBTitle: ligand-free structure of uridine kinase from thermus thermophilus hb8
103c1ny5A_



not modelled 96.5 17 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: crystal structure of sigm54 activator (aaa+ atpase) in the inactive2 state
104c2w58B_



not modelled 96.5 18 PDB header:hydrolase
Chain: B: PDB Molecule:primosome component (helicase loader);
PDBTitle: crystal structure of the dnai
105c3g5uB_



not modelled 96.5 18 PDB header:membrane protein
Chain: B: PDB Molecule:multidrug resistance protein 1a;
PDBTitle: structure of p-glycoprotein reveals a molecular basis for2 poly-specific drug binding
106c1yqtA_



not modelled 96.5 13 PDB header:hydrolyase/translation
Chain: A: PDB Molecule:rnase l inhibitor;
PDBTitle: rnase-l inhibitor
107c2pzfB_



not modelled 96.5 18 PDB header:hydrolase
Chain: B: PDB Molecule:cystic fibrosis transmembrane conductance regulator;
PDBTitle: minimal human cftr first nucleotide binding domain as a head-to-tail2 dimer with delta f508
108c3bgwD_



not modelled 96.5 19 PDB header:replication
Chain: D: PDB Molecule:dnab-like replicative helicase;
PDBTitle: the structure of a dnab-like replicative helicase and its interactions2 with primase
109d2qy9a2



not modelled 96.5 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
110d1xp8a1



not modelled 96.4 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
111d2gnoa2



not modelled 96.4 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
112d1l7vc_



not modelled 96.3 12 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
113d1okkd2



not modelled 96.3 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
114c2d2fA_



not modelled 96.3 15 PDB header:protein binding
Chain: A: PDB Molecule:sufc protein;
PDBTitle: crystal structure of atypical cytoplasmic abc-atpase sufc from thermus2 thermophilus hb8
115d2vp4a1



not modelled 96.3 34 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
116c3r8cB_



not modelled 96.3 40 PDB header:transferase
Chain: B: PDB Molecule:cytidylate kinase;
PDBTitle: crystal structure of cytidylate kinase (cmk) from mycobacterium2 abscessus
117c2yvuA_



not modelled 96.3 34 PDB header:transferase
Chain: A: PDB Molecule:probable adenylyl-sulfate kinase;
PDBTitle: crystal structure of ape1195
118c3bk7A_



not modelled 96.2 15 PDB header:hydrolyase/translation
Chain: A: PDB Molecule:abc transporter atp-binding protein;
PDBTitle: structure of the complete abce1/rnaase-l inhibitor protein2 from pyrococcus abysii
119d2p67a1



not modelled 96.2 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
120c2vp4D_



not modelled 96.2 34 PDB header:transferase
Chain: D: PDB Molecule:deoxynucleoside kinase;
PDBTitle: structural studies of nucleoside analog and feedback2 inhibitor binding to drosophila melanogaster3 multisubstrate deoxyribonucleoside kinase

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