Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0A812
DateThu Jan 5 11:06:35 GMT 2012
Unique Job ID823ff2590f2179c6

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1hqcB_
Top template information
PDB header:hydrolase
Chain: B: PDB Molecule:ruvb;
PDBTitle: structure of ruvb from thermus thermophilus hb8
Confidence and coverage
Confidence:100.0% Coverage: 93%
311 residues ( 93% 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  MIEADRLISAGTTLPEDVADRAIRPKLLEEYVGQPQVRSQMEIFIKAAKLRGDALDHLLI
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Disorder  ???????????????
























?




???????






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













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   .........130.........140.........150.........160.........170.........180
Sequence  VVEEVLYPAMEDYQLDIMIGEGPAARSIKIDLPPFTLIGATTRAGSLTSPLRDRFGIVQR
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?



































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

































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
















??
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   .........310.........320.........330......
Sequence  LEPYLIQQGFLQRTPRGRMATTRAWNHFGITPPEMP
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 1hqc chain B

3D model

Region: 23 - 333
Aligned: 311
Modelled: 311
Confidence: 100.0%
Identity: 56%
PDB header:hydrolase
Chain: B: PDB Molecule:ruvb;
PDBTitle: structure of ruvb from thermus thermophilus hb8

Phyre2

PDB 1in8 chain A

3D model

Region: 23 - 333
Aligned: 296
Modelled: 296
Confidence: 100.0%
Identity: 54%
PDB header:dna binding protein
Chain: A: PDB Molecule:holliday junction dna helicase ruvb;
PDBTitle: thermotoga maritima ruvb t158v

Phyre2

PDB 3pfi chain B

3D model

Region: 26 - 328
Aligned: 283
Modelled: 284
Confidence: 100.0%
Identity: 51%
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

Phyre2

PDB 1ixs chain B domain 2

3D model

Region: 22 - 258
Aligned: 237
Modelled: 237
Confidence: 100.0%
Identity: 57%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 3pvs chain A

3D model

Region: 18 - 334
Aligned: 268
Modelled: 291
Confidence: 100.0%
Identity: 25%
PDB header:recombination
Chain: A: PDB Molecule:replication-associated recombination protein a;
PDBTitle: structure and biochemical activities of escherichia coli mgsa

Phyre2

PDB 1in4 chain A domain 2

3D model

Region: 23 - 258
Aligned: 221
Modelled: 221
Confidence: 100.0%
Identity: 55%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1sxj chain A

3D model

Region: 22 - 232
Aligned: 210
Modelled: 211
Confidence: 100.0%
Identity: 16%
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 1sxj chain A domain 2

3D model

Region: 21 - 253
Aligned: 227
Modelled: 233
Confidence: 100.0%
Identity: 15%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1njf chain A

3D model

Region: 21 - 253
Aligned: 225
Modelled: 229
Confidence: 100.0%
Identity: 17%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1xxh chain B

3D model

Region: 19 - 252
Aligned: 206
Modelled: 216
Confidence: 100.0%
Identity: 26%
PDB header:transferase
Chain: B: PDB Molecule:dna polymerase iii subunit gamma;
PDBTitle: atpgs bound e. coli clamp loader complex

Phyre2

PDB 1sxj chain B domain 2

3D model

Region: 21 - 253
Aligned: 204
Modelled: 215
Confidence: 100.0%
Identity: 24%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 2chg chain B

3D model

Region: 21 - 253
Aligned: 204
Modelled: 215
Confidence: 100.0%
Identity: 23%
PDB header:dna-binding protein
Chain: B: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c domains 1 and 2

Phyre2

PDB 1sxj chain D domain 2

3D model

Region: 22 - 252
Aligned: 225
Modelled: 231
Confidence: 100.0%
Identity: 16%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1sxj chain C domain 2

3D model

Region: 22 - 252
Aligned: 220
Modelled: 231
Confidence: 100.0%
Identity: 18%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1iqp chain A domain 2

3D model

Region: 22 - 250
Aligned: 213
Modelled: 229
Confidence: 100.0%
Identity: 20%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1sxj chain C

3D model

Region: 22 - 325
Aligned: 270
Modelled: 276
Confidence: 100.0%
Identity: 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)

Phyre2

PDB 2ce7 chain B

3D model

Region: 23 - 271
Aligned: 236
Modelled: 237
Confidence: 100.0%
Identity: 21%
PDB header:cell division protein
Chain: B: PDB Molecule:cell division protein ftsh;
PDBTitle: edta treated

Phyre2

PDB 1sxj chain E domain 2

3D model

Region: 21 - 232
Aligned: 202
Modelled: 212
Confidence: 100.0%
Identity: 15%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 2dhr chain C

3D model

Region: 24 - 254
Aligned: 228
Modelled: 231
Confidence: 99.9%
Identity: 22%
PDB header:hydrolase
Chain: C: PDB Molecule:ftsh;
PDBTitle: whole cytosolic region of atp-dependent metalloprotease2 ftsh (g399l)

Phyre2

PDB 3b9p chain A

3D model

Region: 22 - 252
Aligned: 218
Modelled: 218
Confidence: 99.9%
Identity: 20%
PDB header:hydrolase
Chain: A: PDB Molecule:cg5977-pa, isoform a;
PDBTitle: spastin

Phyre2
1

c1hqcB_
2

c1in8A_
3

c3pfiB_
4

d1ixsb2
5

c3pvsA_
6

d1in4a2
7

c1sxjA_
8

d1sxja2
9

d1njfa_
10

c1xxhB_
11

d1sxjb2
12

c2chgB_
13

d1sxjd2
14

d1sxjc2
15

d1iqpa2
16

c1sxjC_
17

c2ce7B_
18

d1sxje2
19

c2dhrC_
20

c3b9pA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1hqcB_



100.0 56 PDB header:hydrolase
Chain: B: PDB Molecule:ruvb;
PDBTitle: structure of ruvb from thermus thermophilus hb8
2c1in8A_



100.0 54 PDB header:dna binding protein
Chain: A: PDB Molecule:holliday junction dna helicase ruvb;
PDBTitle: thermotoga maritima ruvb t158v
3c3pfiB_



100.0 51 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
4d1ixsb2



100.0 57 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
5c3pvsA_



100.0 25 PDB header:recombination
Chain: A: PDB Molecule:replication-associated recombination protein a;
PDBTitle: structure and biochemical activities of escherichia coli mgsa
6d1in4a2



100.0 55 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
7c1sxjA_



100.0 16 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)
8d1sxja2



100.0 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
9d1njfa_



100.0 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
10c1xxhB_



100.0 26 PDB header:transferase
Chain: B: PDB Molecule:dna polymerase iii subunit gamma;
PDBTitle: atpgs bound e. coli clamp loader complex
11d1sxjb2



100.0 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
12c2chgB_



100.0 23 PDB header:dna-binding protein
Chain: B: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c domains 1 and 2
13d1sxjd2



100.0 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
14d1sxjc2



100.0 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
15d1iqpa2



100.0 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
16c1sxjC_



100.0 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)
17c2ce7B_



100.0 21 PDB header:cell division protein
Chain: B: PDB Molecule:cell division protein ftsh;
PDBTitle: edta treated
18d1sxje2



100.0 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
19c2dhrC_



99.9 22 PDB header:hydrolase
Chain: C: PDB Molecule:ftsh;
PDBTitle: whole cytosolic region of atp-dependent metalloprotease2 ftsh (g399l)
20c3b9pA_



99.9 20 PDB header:hydrolase
Chain: A: PDB Molecule:cg5977-pa, isoform a;
PDBTitle: spastin
21c1iqpF_



not modelled 99.9 24 PDB header:replication
Chain: F: PDB Molecule:rfcs;
PDBTitle: crystal structure of the clamp loader small subunit from2 pyrococcus furiosus
22c1sxjB_



not modelled 99.9 20 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)
23c3h4mC_



not modelled 99.9 20 PDB header:hydrolase
Chain: C: PDB Molecule:proteasome-activating nucleotidase;
PDBTitle: aaa atpase domain of the proteasome- activating nucleotidase
24c1sxjE_



not modelled 99.9 18 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)
25c1xwiA_



not modelled 99.9 20 PDB header:protein transport
Chain: A: PDB Molecule:skd1 protein;
PDBTitle: crystal structure of vps4b
26d2ce7a2



not modelled 99.9 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
27c2c9oC_



not modelled 99.9 17 PDB header:hydrolase
Chain: C: PDB Molecule:ruvb-like 1;
PDBTitle: 3d structure of the human ruvb-like helicase ruvbl1
28c3u5zM_



not modelled 99.9 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
29c2chvE_



not modelled 99.9 21 PDB header:dna-binding protein
Chain: E: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c adpnp complex
30c3d8bB_



not modelled 99.9 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
31c3bosA_



not modelled 99.9 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
32c3cf1C_



not modelled 99.9 17 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97/vcp in complex with adp/adp.alfx
33c2zamA_



not modelled 99.9 19 PDB header:protein transport
Chain: A: PDB Molecule:vacuolar protein sorting-associating protein 4b;
PDBTitle: crystal structure of mouse skd1/vps4b apo-form
34c2r65A_



not modelled 99.9 19 PDB header:hydrolase
Chain: A: PDB Molecule:cell division protease ftsh homolog;
PDBTitle: crystal structure of helicobacter pylori atp dependent protease, ftsh2 adp complex
35c3eihB_



not modelled 99.9 17 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
36d1ixza_



not modelled 99.9 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
37d1lv7a_



not modelled 99.9 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
38c1sxjD_



not modelled 99.9 14 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)
39c1iy2A_



not modelled 99.9 22 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent metalloprotease ftsh;
PDBTitle: crystal structure of the ftsh atpase domain from thermus2 thermophilus
40c3hu2C_



not modelled 99.9 22 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97 n-d1 r86a mutant in complex with atpgs
41c2qz4A_



not modelled 99.9 16 PDB header:hydrolase
Chain: A: PDB Molecule:paraplegin;
PDBTitle: human paraplegin, aaa domain in complex with adp
42c1s3sA_



not modelled 99.9 22 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
43d1w5sa2



not modelled 99.9 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
44d1r6bx2



not modelled 99.9 11 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
45d1ofha_



not modelled 99.9 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
46d1e32a2



not modelled 99.9 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
47c2z4rB_



not modelled 99.9 19 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
48c1qvrB_



not modelled 99.9 19 PDB header:chaperone
Chain: B: PDB Molecule:clpb protein;
PDBTitle: crystal structure analysis of clpb
49d1g41a_



not modelled 99.9 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
50d1r6bx3



not modelled 99.9 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
51d1fnna2



not modelled 99.9 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
52d1l8qa2



not modelled 99.9 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
53d1g8pa_



not modelled 99.9 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
54d1um8a_



not modelled 99.8 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
55d1qvra3



not modelled 99.8 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
56d1r7ra3



not modelled 99.8 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
57c3pxiB_



not modelled 99.8 20 PDB header:protein binding
Chain: B: PDB Molecule:negative regulator of genetic competence clpc/mecb;
PDBTitle: structure of meca108:clpc
58c3hteC_



not modelled 99.8 20 PDB header:motor protein
Chain: C: PDB Molecule:atp-dependent clp protease atp-binding subunit clpx;
PDBTitle: crystal structure of nucleotide-free hexameric clpx
59c3k1jA_



not modelled 99.8 26 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent protease lon;
PDBTitle: crystal structure of lon protease from thermococcus onnurineus na1
60c1r6bX_



not modelled 99.8 22 PDB header:hydrolase
Chain: X: PDB Molecule:clpa protein;
PDBTitle: high resolution crystal structure of clpa
61c2x8aA_



not modelled 99.8 21 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
62d1a5ta2



not modelled 99.8 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
63c2r44A_



not modelled 99.8 21 PDB header:hydrolase
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of a putative atpase (chu_0153) from cytophaga2 hutchinsonii atcc 33406 at 2.00 a resolution
64d1qvra2



not modelled 99.8 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
65c3te6A_



not modelled 99.8 11 PDB header:gene regulation
Chain: A: PDB Molecule:regulatory protein sir3;
PDBTitle: crystal structure of the s. cerevisiae sir3 aaa+ domain
66d1ny5a2



not modelled 99.8 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
67d1oz4a3



not modelled 99.8 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
68c2qbyA_



not modelled 99.8 15 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)
69c1fnnB_



not modelled 99.8 21 PDB header:cell cycle
Chain: B: PDB Molecule:cell division control protein 6;
PDBTitle: crystal structure of cdc6p from pyrobaculum aerophilum
70c2hcbC_



not modelled 99.8 19 PDB header:replication
Chain: C: PDB Molecule:chromosomal replication initiator protein dnaa;
PDBTitle: structure of amppcp-bound dnaa from aquifex aeolicus
71c3nbxX_



not modelled 99.8 16 PDB header:hydrolase
Chain: X: PDB Molecule:atpase rava;
PDBTitle: crystal structure of e. coli rava (regulatory atpase variant a) in2 complex with adp
72c2v1uA_



not modelled 99.7 19 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
73c1ojlF_



not modelled 99.7 15 PDB header:response regulator
Chain: F: PDB Molecule:transcriptional regulatory protein zrar;
PDBTitle: crystal structure of a sigma54-activator suggests the2 mechanism for the conformational switch necessary for3 sigma54 binding
74c2c99A_



not modelled 99.7 16 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
75c1w5sB_



not modelled 99.7 16 PDB header:replication
Chain: B: PDB Molecule:origin recognition complex subunit 2 orc2;
PDBTitle: structure of the aeropyrum pernix orc2 protein (adp form)
76c3f8tA_



not modelled 99.7 16 PDB header:hydrolase
Chain: A: PDB Molecule:predicted atpase involved in replication control,
PDBTitle: crystal structure analysis of a full-length mcm homolog2 from methanopyrus kandleri
77d1jbka_



not modelled 99.7 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
78c1jr3E_



not modelled 99.7 18 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
79d1in4a1



not modelled 99.7 52 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Helicase DNA-binding domain
80c1nsfA_



not modelled 99.7 16 PDB header:protein transport
Chain: A: PDB Molecule:n-ethylmaleimide sensitive factor;
PDBTitle: d2 hexamerization domain of n-ethylmaleimide sensitive factor (nsf)
81c2p65A_



not modelled 99.7 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
82c2qbyB_



not modelled 99.7 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)
83d1d2na_



not modelled 99.7 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
84d1ixsb1



not modelled 99.6 53 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Helicase DNA-binding domain
85c1ny5A_



not modelled 99.6 18 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: crystal structure of sigm54 activator (aaa+ atpase) in the inactive2 state
86c3pxgA_



not modelled 99.6 21 PDB header:protein binding
Chain: A: PDB Molecule:negative regulator of genetic competence clpc/mecb;
PDBTitle: structure of meca121 and clpc1-485 complex
87c3dzdA_



not modelled 99.6 16 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: crystal structure of sigma54 activator ntrc4 in the inactive2 state
88c2qenA_



not modelled 99.6 12 PDB header:unknown function
Chain: A: PDB Molecule:walker-type atpase;
PDBTitle: the walker-type atpase paby2304 of pyrococcus abyssi
89c3m6aC_



not modelled 99.6 23 PDB header:hydrolase
Chain: C: PDB Molecule:atp-dependent protease la 1;
PDBTitle: crystal structure of bacillus subtilis lon c-terminal domain
90d1ixrc1



not modelled 99.5 53 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Helicase DNA-binding domain
91d1e94e_



not modelled 99.5 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
92c1z6tC_



not modelled 99.5 15 PDB header:apoptosis
Chain: C: PDB Molecule:apoptotic protease activating factor 1;
PDBTitle: structure of the apoptotic protease-activating factor 12 bound to adp
93c3f9vA_



not modelled 99.4 17 PDB header:hydrolase
Chain: A: PDB Molecule:minichromosome maintenance protein mcm;
PDBTitle: crystal structure of a near full-length archaeal mcm: functional2 insights for an aaa+ hexameric helicase
94d2fnaa2



not modelled 99.4 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
95d2gnoa2



not modelled 99.4 9 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
96c2fnaA_



not modelled 99.3 16 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
97c2p5tD_



not modelled 99.3 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
98d1gvnb_



not modelled 99.3 13 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Plasmid maintenance system epsilon/zeta, toxin zeta subunit
99c3iytG_



not modelled 99.3 15 PDB header:apoptosis
Chain: G: PDB Molecule:apoptotic protease-activating factor 1;
PDBTitle: structure of an apoptosome-procaspase-9 card complex
100c3ec2A_



not modelled 99.3 21 PDB header:replication
Chain: A: PDB Molecule:dna replication protein dnac;
PDBTitle: crystal structure of the dnac helicase loader
101c2a5yB_



not modelled 99.2 12 PDB header:apoptosis
Chain: B: PDB Molecule:ced-4;
PDBTitle: structure of a ced-4/ced-9 complex
102c2kjqA_



not modelled 99.1 14 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.
103d1svma_



not modelled 99.1 11 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
104c2w58B_



not modelled 98.9 13 PDB header:hydrolase
Chain: B: PDB Molecule:primosome component (helicase loader);
PDBTitle: crystal structure of the dnai
105c2qgzA_



not modelled 98.9 21 PDB header:hydrolase
Chain: A: PDB Molecule:putative primosome component;
PDBTitle: crystal structure of a putative primosome component from2 streptococcus pyogenes serotype m3. northeast structural3 genomics target dr58
106c3qmzA_



not modelled 98.8 15 PDB header:motor protein
Chain: A: PDB Molecule:cytoplasmic dynein heavy chain;
PDBTitle: crystal structure of the cytoplasmic dynein heavy chain motor domain
107c3co5B_



not modelled 98.6 16 PDB header:transcription regulator
Chain: B: PDB Molecule:putative two-component system transcriptional response
PDBTitle: crystal structure of sigma-54 interaction domain of putative2 transcriptional response regulator from neisseria gonorrhoeae
108c3tlxA_



not modelled 98.6 12 PDB header:transferase
Chain: A: PDB Molecule:adenylate kinase 2;
PDBTitle: crystal structure of pf10_0086, adenylate kinase from plasmodium2 falciparum
109d1ye8a1



not modelled 98.5 29 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
110c3be4A_



not modelled 98.5 26 PDB header:transferase
Chain: A: PDB Molecule:adenylate kinase;
PDBTitle: crystal structure of cryptosporidium parvum adenylate kinase cgd5_3360
111d2iyva1



not modelled 98.5 33 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Shikimate kinase (AroK)
112d1kaga_



not modelled 98.4 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Shikimate kinase (AroK)
113c3trfB_



not modelled 98.4 23 PDB header:transferase
Chain: B: PDB Molecule:shikimate kinase;
PDBTitle: structure of a shikimate kinase (arok) from coxiella burnetii
114d2i3ba1



not modelled 98.4 42 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
115c2gnoA_



not modelled 98.4 11 PDB header:replication
Chain: A: PDB Molecule:dna polymerase iii, gamma subunit-related protein;
PDBTitle: crystal structure of a dna polymerase iii, gamma subunit-related2 protein (tm0771) from thermotoga maritima msb8 at 2.00 a resolution
116c1zuiA_



not modelled 98.4 27 PDB header:transferase
Chain: A: PDB Molecule:shikimate kinase;
PDBTitle: structural basis for shikimate-binding specificity of helicobacter2 pylori shikimate kinase
117d1lw7a2



not modelled 98.3 25 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
118d1rkba_



not modelled 98.3 39 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
119c2gxaA_



not modelled 98.3 14 PDB header:replication/dna
Chain: A: PDB Molecule:replication protein e1;
PDBTitle: crystal structure of papillomavirus e1 hexameric helicase2 with ssdna and mgadp
120d1x6va3



not modelled 98.3 11 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Adenosine-5'phosphosulfate kinase (APS 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