Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP45756
DateThu Jan 5 12:03:32 GMT 2012
Unique Job ID727a7bd9e889729f

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1fnna2
Top template information
Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
Confidence and coverage
Confidence: 99.9% Coverage: 46%
225 residues ( 46% of your sequence) have been modelled with 99.9% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
402 residues ( 82%) 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  MSTRREVILSWLCEKRQTWRLCYLLGEAGSGKTWLAQQLQKDKHRRVITLSLVVSWQGKA
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Disorder  ???
























































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   .........70.........80.........90.........100.........110.........120
Sequence  AWIVTDDNAAEQGCRDSAWTRDEMAGQLLHALHRTDSRCPLIIIENAHLNHRRILDDLQR
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   .........130.........140.........150.........160.........170.........180
Sequence  AISLIPDGQFLLIGRPDRKVERDFKKQGIELVSIGRLTEHELKASILEGQNIDQPDLLLT
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?


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











?
??????????
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   .........250.........260.........270.........280.........290.........300
Sequence  VVMSGTIIALTCGWLLLSSFTATLPVPAWLIPVTPVVKQDMTKDIAHVVMRDSEALSVLY
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Disorder  ??












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






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   .........310.........320.........330.........340.........350.........360
Sequence  GVWGYEVPADSAWCDQAVRAGLACKSGNASLQTLVDQNLPWIASLKVGDKKLPVVVVRVG
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Disorder 



???
???????







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   .........370.........380.........390.........400.........410.........420
Sequence  EASVDVLVGQQTWTLTHKWFESVWTGDYLLLWKMSPEGESTITRDSSEEEILWLETMLNR
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   .........430.........440.........450.........460.........470.........480
Sequence  ALHISTEPSAEWRPLLVEKIKQFQKSHHLKTDGVVGFSTLVHLWQVAGESAYLYRDEANI
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????

?




















??













??????????????
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   .........
Sequence  SPETTVKGK
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 A domain 2

3D model

Region: 5 - 229
Aligned: 225
Modelled: 225
Confidence: 99.9%
Identity: 14%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 3pfi chain B

3D model

Region: 3 - 233
Aligned: 201
Modelled: 203
Confidence: 99.8%
Identity: 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

Phyre2

PDB 1w5s chain A domain 2

3D model

Region: 3 - 228
Aligned: 226
Modelled: 226
Confidence: 99.8%
Identity: 14%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1fnn chain B

3D model

Region: 5 - 229
Aligned: 225
Modelled: 225
Confidence: 99.8%
Identity: 13%
PDB header:cell cycle
Chain: B: PDB Molecule:cell division control protein 6;
PDBTitle: crystal structure of cdc6p from pyrobaculum aerophilum

Phyre2

PDB 1njf chain A

3D model

Region: 3 - 226
Aligned: 218
Modelled: 220
Confidence: 99.7%
Identity: 14%
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: 6 - 229
Aligned: 224
Modelled: 224
Confidence: 99.7%
Identity: 12%
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 2c9o chain C

3D model

Region: 6 - 228
Aligned: 220
Modelled: 223
Confidence: 99.7%
Identity: 15%
PDB header:hydrolase
Chain: C: PDB Molecule:ruvb-like 1;
PDBTitle: 3d structure of the human ruvb-like helicase ruvbl1

Phyre2

PDB 1in8 chain A

3D model

Region: 3 - 234
Aligned: 202
Modelled: 204
Confidence: 99.7%
Identity: 15%
PDB header:dna binding protein
Chain: A: PDB Molecule:holliday junction dna helicase ruvb;
PDBTitle: thermotoga maritima ruvb t158v

Phyre2

PDB 1in4 chain A domain 2

3D model

Region: 3 - 233
Aligned: 201
Modelled: 203
Confidence: 99.7%
Identity: 15%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 3te6 chain A

3D model

Region: 3 - 212
Aligned: 208
Modelled: 210
Confidence: 99.7%
Identity: 14%
PDB header:gene regulation
Chain: A: PDB Molecule:regulatory protein sir3;
PDBTitle: crystal structure of the s. cerevisiae sir3 aaa+ domain

Phyre2

PDB 1sxj chain D domain 2

3D model

Region: 5 - 226
Aligned: 212
Modelled: 222
Confidence: 99.7%
Identity: 15%
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: 8 - 226
Aligned: 187
Modelled: 196
Confidence: 99.7%
Identity: 18%
PDB header:recombination
Chain: A: PDB Molecule:replication-associated recombination protein a;
PDBTitle: structure and biochemical activities of escherichia coli mgsa

Phyre2

PDB 1xxh chain B

3D model

Region: 5 - 212
Aligned: 206
Modelled: 208
Confidence: 99.7%
Identity: 16%
PDB header:transferase
Chain: B: PDB Molecule:dna polymerase iii subunit gamma;
PDBTitle: atpgs bound e. coli clamp loader complex

Phyre2

PDB 1a5t chain A domain 2

3D model

Region: 5 - 201
Aligned: 190
Modelled: 197
Confidence: 99.7%
Identity: 10%
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: 3 - 225
Aligned: 204
Modelled: 208
Confidence: 99.7%
Identity: 12%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1ixs chain B domain 2

3D model

Region: 3 - 233
Aligned: 202
Modelled: 204
Confidence: 99.7%
Identity: 17%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1hqc chain B

3D model

Region: 3 - 230
Aligned: 199
Modelled: 201
Confidence: 99.7%
Identity: 18%
PDB header:hydrolase
Chain: B: PDB Molecule:ruvb;
PDBTitle: structure of ruvb from thermus thermophilus hb8

Phyre2

PDB 2fna chain A domain 2

3D model

Region: 5 - 208
Aligned: 198
Modelled: 200
Confidence: 99.7%
Identity: 15%
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: 5 - 226
Aligned: 200
Modelled: 207
Confidence: 99.7%
Identity: 14%
PDB header:dna-binding protein
Chain: B: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c domains 1 and 2

Phyre2

PDB 2qby chain A

3D model

Region: 3 - 229
Aligned: 227
Modelled: 227
Confidence: 99.7%
Identity: 14%
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 1lbu chain A domain 1

3D model

Region: 395 - 472
Aligned: 78
Modelled: 78
Confidence: 99.6%
Identity: 18%
Fold: PGBD-like
Superfamily: PGBD-like
Family: Peptidoglycan binding domain, PGBD

Phyre2

PDB 1lbu chain A

3D model

Region: 395 - 471
Aligned: 77
Modelled: 77
Confidence: 99.5%
Identity: 18%
PDB header:hydrolase
Chain: A: PDB Molecule:muramoyl-pentapeptide carboxypeptidase;
PDBTitle: hydrolase metallo (zn) dd-peptidase

Phyre2

PDB 3bkh chain A

3D model

Region: 400 - 472
Aligned: 73
Modelled: 73
Confidence: 99.4%
Identity: 22%
PDB header:hydrolase
Chain: A: PDB Molecule:lytic transglycosylase;
PDBTitle: crystal structure of the bacteriophage phikz lytic2 transglycosylase, gp144

Phyre2

PDB 3b79 chain A

3D model

Region: 294 - 391
Aligned: 95
Modelled: 93
Confidence: 97.8%
Identity: 25%
PDB header:nucleotide binding protein
Chain: A: PDB Molecule:toxin secretion atp-binding protein;
PDBTitle: crystal structure of the n-terminal peptidase c39 like2 domain of the toxin secretion atp-binding protein from3 vibrio parahaemolyticus

Phyre2
1

d1fnna2
2

c3pfiB_
3

d1w5sa2
4

c1fnnB_
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d1njfa_
6

c2v1uA_
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c2c9oC_
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c1in8A_
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d1in4a2
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c3te6A_
11

d1sxjd2
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c3pvsA_
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c1xxhB_
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d1a5ta2
15

d1sxjc2
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d1ixsb2
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c1hqcB_
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d2fnaa2
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c2chgB_
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c2qbyA_
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d1lbua1
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c1lbuA_
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c3bkhA_
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c3b79A_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1fnna2



99.9 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
2c3pfiB_



99.8 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
3d1w5sa2



99.8 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
4c1fnnB_



99.8 13 PDB header:cell cycle
Chain: B: PDB Molecule:cell division control protein 6;
PDBTitle: crystal structure of cdc6p from pyrobaculum aerophilum
5d1njfa_



99.7 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
6c2v1uA_



99.7 12 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
7c2c9oC_



99.7 15 PDB header:hydrolase
Chain: C: PDB Molecule:ruvb-like 1;
PDBTitle: 3d structure of the human ruvb-like helicase ruvbl1
8c1in8A_



99.7 15 PDB header:dna binding protein
Chain: A: PDB Molecule:holliday junction dna helicase ruvb;
PDBTitle: thermotoga maritima ruvb t158v
9d1in4a2



99.7 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
10c3te6A_



99.7 14 PDB header:gene regulation
Chain: A: PDB Molecule:regulatory protein sir3;
PDBTitle: crystal structure of the s. cerevisiae sir3 aaa+ domain
11d1sxjd2



99.7 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
12c3pvsA_



99.7 18 PDB header:recombination
Chain: A: PDB Molecule:replication-associated recombination protein a;
PDBTitle: structure and biochemical activities of escherichia coli mgsa
13c1xxhB_



99.7 16 PDB header:transferase
Chain: B: PDB Molecule:dna polymerase iii subunit gamma;
PDBTitle: atpgs bound e. coli clamp loader complex
14d1a5ta2



99.7 10 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
15d1sxjc2



99.7 12 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
16d1ixsb2



99.7 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
17c1hqcB_



99.7 18 PDB header:hydrolase
Chain: B: PDB Molecule:ruvb;
PDBTitle: structure of ruvb from thermus thermophilus hb8
18d2fnaa2



99.7 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
19c2chgB_



99.7 14 PDB header:dna-binding protein
Chain: B: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c domains 1 and 2
20c2qbyA_



99.7 14 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)
21c1sxjC_



not modelled 99.7 12 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)
22c1w5sB_



not modelled 99.7 13 PDB header:replication
Chain: B: PDB Molecule:origin recognition complex subunit 2 orc2;
PDBTitle: structure of the aeropyrum pernix orc2 protein (adp form)
23d1sxjb2



not modelled 99.6 12 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
24c3iytG_



not modelled 99.6 16 PDB header:apoptosis
Chain: G: PDB Molecule:apoptotic protease-activating factor 1;
PDBTitle: structure of an apoptosome-procaspase-9 card complex
25d1iqpa2



not modelled 99.6 12 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
26c1sxjA_



not modelled 99.6 14 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)
27c2z4rB_



not modelled 99.6 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
28d1sxje2



not modelled 99.6 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
29c2qbyB_



not modelled 99.6 11 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)
30c2fnaA_



not modelled 99.6 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
31c2a5yB_



not modelled 99.6 14 PDB header:apoptosis
Chain: B: PDB Molecule:ced-4;
PDBTitle: structure of a ced-4/ced-9 complex
32d1sxja2



not modelled 99.6 13 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
33c1sxjE_



not modelled 99.6 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)
34c1iqpF_



not modelled 99.6 13 PDB header:replication
Chain: F: PDB Molecule:rfcs;
PDBTitle: crystal structure of the clamp loader small subunit from2 pyrococcus furiosus
35c1sxjB_



not modelled 99.6 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)
36c2chvE_



not modelled 99.6 14 PDB header:dna-binding protein
Chain: E: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c adpnp complex
37d1lbua1



99.6 18 Fold:PGBD-like
Superfamily:PGBD-like
Family:Peptidoglycan binding domain, PGBD
38c2qenA_



not modelled 99.6 15 PDB header:unknown function
Chain: A: PDB Molecule:walker-type atpase;
PDBTitle: the walker-type atpase paby2304 of pyrococcus abyssi
39c3u5zM_



not modelled 99.6 11 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
40c3b9pA_



not modelled 99.6 13 PDB header:hydrolase
Chain: A: PDB Molecule:cg5977-pa, isoform a;
PDBTitle: spastin
41c1z6tC_



not modelled 99.5 18 PDB header:apoptosis
Chain: C: PDB Molecule:apoptotic protease activating factor 1;
PDBTitle: structure of the apoptotic protease-activating factor 12 bound to adp
42c2ce7B_



not modelled 99.5 14 PDB header:cell division protein
Chain: B: PDB Molecule:cell division protein ftsh;
PDBTitle: edta treated
43c2dhrC_



not modelled 99.5 15 PDB header:hydrolase
Chain: C: PDB Molecule:ftsh;
PDBTitle: whole cytosolic region of atp-dependent metalloprotease2 ftsh (g399l)
44d2ce7a2



not modelled 99.5 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
45c1jr3E_



not modelled 99.5 9 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
46c3h4mC_



not modelled 99.5 16 PDB header:hydrolase
Chain: C: PDB Molecule:proteasome-activating nucleotidase;
PDBTitle: aaa atpase domain of the proteasome- activating nucleotidase
47c1sxjD_



not modelled 99.5 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)
48d1r6bx2



not modelled 99.5 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
49c1iy2A_



not modelled 99.5 16 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent metalloprotease ftsh;
PDBTitle: crystal structure of the ftsh atpase domain from thermus2 thermophilus
50c3hu2C_



not modelled 99.5 16 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97 n-d1 r86a mutant in complex with atpgs
51c1lbuA_



99.5 18 PDB header:hydrolase
Chain: A: PDB Molecule:muramoyl-pentapeptide carboxypeptidase;
PDBTitle: hydrolase metallo (zn) dd-peptidase
52d1ixza_



not modelled 99.5 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
53c3d8bB_



not modelled 99.5 15 PDB header:hydrolase
Chain: B: PDB Molecule:fidgetin-like protein 1;
PDBTitle: crystal structure of human fidgetin-like protein 1 in complex with adp
54c2x8aA_



not modelled 99.5 14 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
55c3bkhA_



99.4 22 PDB header:hydrolase
Chain: A: PDB Molecule:lytic transglycosylase;
PDBTitle: crystal structure of the bacteriophage phikz lytic2 transglycosylase, gp144
56c1xwiA_



not modelled 99.4 17 PDB header:protein transport
Chain: A: PDB Molecule:skd1 protein;
PDBTitle: crystal structure of vps4b
57c3bosA_



not modelled 99.4 16 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
58c2zamA_



not modelled 99.4 15 PDB header:protein transport
Chain: A: PDB Molecule:vacuolar protein sorting-associating protein 4b;
PDBTitle: crystal structure of mouse skd1/vps4b apo-form
59c1s3sA_



not modelled 99.4 16 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
60c3cf1C_



not modelled 99.4 14 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97/vcp in complex with adp/adp.alfx
61c3eihB_



not modelled 99.4 11 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
62c2r65A_



not modelled 99.4 15 PDB header:hydrolase
Chain: A: PDB Molecule:cell division protease ftsh homolog;
PDBTitle: crystal structure of helicobacter pylori atp dependent protease, ftsh2 adp complex
63c2qz4A_



not modelled 99.3 18 PDB header:hydrolase
Chain: A: PDB Molecule:paraplegin;
PDBTitle: human paraplegin, aaa domain in complex with adp
64d1ny5a2



not modelled 99.3 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
65d1lv7a_



not modelled 99.3 13 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
66d1l8qa2



not modelled 99.3 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
67d1r7ra3



not modelled 99.2 13 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
68d1e32a2



not modelled 99.2 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
69d2gnoa2



not modelled 99.2 13 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
70c2c99A_



not modelled 99.2 15 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
71c1ojlF_



not modelled 99.2 16 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
72d1qvra2



not modelled 99.2 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
73c3hteC_



not modelled 99.2 18 PDB header:motor protein
Chain: C: PDB Molecule:atp-dependent clp protease atp-binding subunit clpx;
PDBTitle: crystal structure of nucleotide-free hexameric clpx
74c1r6bX_



not modelled 99.2 17 PDB header:hydrolase
Chain: X: PDB Molecule:clpa protein;
PDBTitle: high resolution crystal structure of clpa
75d1r6bx3



not modelled 99.1 13 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
76d1d2na_



not modelled 99.1 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
77d1g41a_



not modelled 99.1 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
78d1g8pa_



not modelled 99.1 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
79d1qvra3



not modelled 99.1 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
80c1qvrB_



not modelled 99.1 19 PDB header:chaperone
Chain: B: PDB Molecule:clpb protein;
PDBTitle: crystal structure analysis of clpb
81c1ny5A_



not modelled 99.1 17 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: crystal structure of sigm54 activator (aaa+ atpase) in the inactive2 state
82c3k1jA_



not modelled 99.0 17 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent protease lon;
PDBTitle: crystal structure of lon protease from thermococcus onnurineus na1
83d1um8a_



not modelled 99.0 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
84c1nsfA_



not modelled 99.0 17 PDB header:protein transport
Chain: A: PDB Molecule:n-ethylmaleimide sensitive factor;
PDBTitle: d2 hexamerization domain of n-ethylmaleimide sensitive factor (nsf)
85c3nbxX_



not modelled 99.0 12 PDB header:hydrolase
Chain: X: PDB Molecule:atpase rava;
PDBTitle: crystal structure of e. coli rava (regulatory atpase variant a) in2 complex with adp
86c2hcbC_



not modelled 99.0 15 PDB header:replication
Chain: C: PDB Molecule:chromosomal replication initiator protein dnaa;
PDBTitle: structure of amppcp-bound dnaa from aquifex aeolicus
87d1jbka_



not modelled 98.9 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
88c3pxiB_



not modelled 98.9 15 PDB header:protein binding
Chain: B: PDB Molecule:negative regulator of genetic competence clpc/mecb;
PDBTitle: structure of meca108:clpc
89c3pxgA_



not modelled 98.9 19 PDB header:protein binding
Chain: A: PDB Molecule:negative regulator of genetic competence clpc/mecb;
PDBTitle: structure of meca121 and clpc1-485 complex
90c3dzdA_



not modelled 98.9 15 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: crystal structure of sigma54 activator ntrc4 in the inactive2 state
91d1ofha_



not modelled 98.8 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
92c3b85A_



not modelled 98.8 12 PDB header:hydrolase
Chain: A: PDB Molecule:phosphate starvation-inducible protein;
PDBTitle: crystal structure of predicted phosphate starvation-induced atpase2 phoh2 from corynebacterium glutamicum
93c2r44A_



not modelled 98.8 9 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
94c3e1sA_



not modelled 98.8 17 PDB header:hydrolase
Chain: A: PDB Molecule:exodeoxyribonuclease v, subunit recd;
PDBTitle: structure of an n-terminal truncation of deinococcus radiodurans recd2
95d1w36d1



not modelled 98.8 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
96c2kjqA_



not modelled 98.8 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.
97c1w36G_



not modelled 98.7 16 PDB header:recombination
Chain: G: PDB Molecule:exodeoxyribonuclease v alpha chain;
PDBTitle: recbcd:dna complex
98c2ja1A_



not modelled 98.6 10 PDB header:transferase
Chain: A: PDB Molecule:thymidine kinase;
PDBTitle: thymidine kinase from b. cereus with ttp bound as phosphate2 donor.
99d1ye8a1



not modelled 98.6 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
100c2cnwF_



not modelled 98.6 12 PDB header:signal recognition
Chain: F: PDB Molecule:cell division protein ftsy;
PDBTitle: gdpalf4 complex of the srp gtpases ffh and ftsy
101c2iy3A_



not modelled 98.5 17 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
102c2j7pA_



not modelled 98.5 17 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
103c3dm5A_



not modelled 98.5 15 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.
104d1x6va3



not modelled 98.5 11 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Adenosine-5'phosphosulfate kinase (APS kinase)
105c2wjyA_



not modelled 98.5 17 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
106c2p65A_



not modelled 98.5 14 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
107c3f8tA_



not modelled 98.5 14 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
108d1oz4a3



not modelled 98.5 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
109c2yhsA_



not modelled 98.5 13 PDB header:cell cycle
Chain: A: PDB Molecule:cell division protein ftsy;
PDBTitle: structure of the e. coli srp receptor ftsy
110c2xzlA_



not modelled 98.5 17 PDB header:hydrolase/rna
Chain: A: PDB Molecule:atp-dependent helicase nam7;
PDBTitle: upf1-rna complex
111c2p5tD_



not modelled 98.4 14 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
112c2vliB_



not modelled 98.4 12 PDB header:transferase
Chain: B: PDB Molecule:antibiotic resistance protein;
PDBTitle: structure of deinococcus radiodurans tunicamycin resistance2 protein
113c3dmdA_



not modelled 98.4 14 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
114c2bh7A_



not modelled 98.3 12 PDB header:hydrolase
Chain: A: PDB Molecule:n-acetylmuramoyl-l-alanine amidase;
PDBTitle: crystal structure of a semet derivative of amid at 2.22 angstroms
115c2qy9A_



not modelled 98.3 13 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
116c2j37W_



not modelled 98.3 12 PDB header:ribosome
Chain: W: PDB Molecule:signal recognition particle 54 kda protein
PDBTitle: model of mammalian srp bound to 80s rncs
117c3b9qA_



not modelled 98.3 11 PDB header:protein transport
Chain: A: PDB Molecule:chloroplast srp receptor homolog, alpha subunit
PDBTitle: the crystal structure of cpftsy from arabidopsis thaliana
118c2v3cC_



not modelled 98.3 19 PDB header:signaling protein
Chain: C: PDB Molecule:signal recognition 54 kda protein;
PDBTitle: crystal structure of the srp54-srp19-7s.s srp rna complex2 of m. jannaschii
119d1gvnb_



not modelled 98.3 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Plasmid maintenance system epsilon/zeta, toxin zeta subunit
120c1vmaA_



not modelled 98.2 18 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

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