Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0A9M0
DateThu Jan 5 11:10:41 GMT 2012
Unique Job ID60f0b08e50dc489a

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3m6aC_
Top template information
PDB header:hydrolase
Chain: C: PDB Molecule:atp-dependent protease la 1;
PDBTitle: crystal structure of bacillus subtilis lon c-terminal domain
Confidence and coverage
Confidence:100.0% Coverage: 63%
494 residues ( 63% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
720 residues ( 92%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

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













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?????
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   .........70.........80.........90.........100.........110.........120
Sequence  DEPGVNDLFTVGTVASILQMLKLPDGTVKVLVEGLQRARISALSDNGEHFSAKAEYLESP
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   .........130.........140.........150.........160.........170.........180
Sequence  TIDEREQEVLVRTAISQFEGYIKLNKKIPPEVLTSLNSIDDPARLADTIAAHMPLKLADK
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??





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   .........190.........200.........210.........220.........230.........240
Sequence  QSVLEMSDVNERLEYLMAMMESEIDLLQVEKRIRNRVKKQMEKSQREYYLNEQMKAIQKE
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   .........250.........260.........270.........280.........290.........300
Sequence  LGEMDDAPDENEALKRKIDAAKMPKEAKEKAEAELQKLKMMSPMSAEATVVRGYIDWMVQ
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   .........310.........320.........330.........340.........350.........360
Sequence  VPWNARSKVKKDLRQAQEILDTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGV
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Disorder  ??
??

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??
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   .........370.........380.........390.........400.........410.........420
Sequence  GKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHRRTYIGSMPGKLIQKMAKVGVKNPLF
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?
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   .........430.........440.........450.........460.........470.........480
Sequence  LLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNSMNIPAP
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   .........490.........500.........510.........520.........530.........540
Sequence  LLDRMEVIRLSGYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIRYYTREAG
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   .........550.........560.........570.........580.........590.........600
Sequence  VRGLEREISKLCRKAVKQLLLDKSLKHIEINGDNLHDYLGVQRFDYGRADNENRVGQVTG
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??

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



??










??




?
?



















???
?????

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   .........670.........680.........690.........700.........710.........720
Sequence  KRDIHVHVPEGATPKDGPSAGIAMCTALVSCLTGNPVRADVAMTGEITLRGQVLPIGGLK
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   .........730.........740.........750.........760.........770.........780
Sequence  EKLLAAHRGGIKTVLIPFENKRDLEEIPDNVIADLDIHPVKRIEEVLTLALQNEPSGMQV
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????

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   ....
Sequence  VTAK
Secondary structure 

SS confidence 



Disorder  ????
Disorder confidence 



 

Confidence Key
High(9)                    Low (0)
?Disordered
Alpha helix
Beta strand

Domain analysis 

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

RankAligned region

PDB 3m6a chain C

3D model

Region: 248 - 771
Aligned: 494
Modelled: 504
Confidence: 100.0%
Identity: 59%
PDB header:hydrolase
Chain: C: PDB Molecule:atp-dependent protease la 1;
PDBTitle: crystal structure of bacillus subtilis lon c-terminal domain

Phyre2

PDB 3k1j chain A

3D model

Region: 300 - 781
Aligned: 459
Modelled: 479
Confidence: 100.0%
Identity: 26%
PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent protease lon;
PDBTitle: crystal structure of lon protease from thermococcus onnurineus na1

Phyre2

PDB 3ljc chain A

3D model

Region: 7 - 245
Aligned: 239
Modelled: 239
Confidence: 100.0%
Identity: 95%
PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent protease la;
PDBTitle: crystal structure of lon n-terminal domain.

Phyre2

PDB 2x36 chain F

3D model

Region: 593 - 771
Aligned: 177
Modelled: 179
Confidence: 100.0%
Identity: 46%
PDB header:hydrolase
Chain: F: PDB Molecule:lon protease homolog, mitochondrial;
PDBTitle: structure of the proteolytic domain of the human2 mitochondrial lon protease

Phyre2

PDB 1rre chain A

3D model

Region: 594 - 775
Aligned: 182
Modelled: 182
Confidence: 100.0%
Identity: 98%
Fold: Ribosomal protein S5 domain 2-like
Superfamily: Ribosomal protein S5 domain 2-like
Family: ATP-dependent protease Lon (La), catalytic domain

Phyre2

PDB 1qvr chain B

3D model

Region: 105 - 571
Aligned: 441
Modelled: 452
Confidence: 100.0%
Identity: 19%
PDB header:chaperone
Chain: B: PDB Molecule:clpb protein;
PDBTitle: crystal structure analysis of clpb

Phyre2

PDB 1xhk chain A

3D model

Region: 592 - 772
Aligned: 176
Modelled: 181
Confidence: 100.0%
Identity: 32%
Fold: Ribosomal protein S5 domain 2-like
Superfamily: Ribosomal protein S5 domain 2-like
Family: ATP-dependent protease Lon (La), catalytic domain

Phyre2

PDB 3m65 chain A

3D model

Region: 10 - 211
Aligned: 200
Modelled: 202
Confidence: 100.0%
Identity: 46%
PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent protease la 1;
PDBTitle: crystal structure of bacillus subtilis lon n-terminal domain

Phyre2

PDB 1z0e chain F

3D model

Region: 590 - 781
Aligned: 185
Modelled: 192
Confidence: 100.0%
Identity: 31%
PDB header:hydrolase
Chain: F: PDB Molecule:putative protease la homolog type;
PDBTitle: crystal structure of a. fulgidus lon proteolytic domain

Phyre2

PDB 1zbo chain A domain 1

3D model

Region: 10 - 201
Aligned: 190
Modelled: 192
Confidence: 100.0%
Identity: 19%
Fold: PUA domain-like
Superfamily: PUA domain-like
Family: LON domain-like

Phyre2

PDB 1r6b chain X

3D model

Region: 222 - 571
Aligned: 339
Modelled: 350
Confidence: 100.0%
Identity: 18%
PDB header:hydrolase
Chain: X: PDB Molecule:clpa protein;
PDBTitle: high resolution crystal structure of clpa

Phyre2

PDB 3pxi chain B

3D model

Region: 105 - 574
Aligned: 391
Modelled: 417
Confidence: 100.0%
Identity: 19%
PDB header:protein binding
Chain: B: PDB Molecule:negative regulator of genetic competence clpc/mecb;
PDBTitle: structure of meca108:clpc

Phyre2

PDB 1r6b chain X domain 3

3D model

Region: 302 - 567
Aligned: 255
Modelled: 266
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 1um8 chain A

3D model

Region: 298 - 581
Aligned: 251
Modelled: 284
Confidence: 100.0%
Identity: 23%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 1ofh chain A

3D model

Region: 314 - 587
Aligned: 260
Modelled: 274
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 1g41 chain A

3D model

Region: 314 - 581
Aligned: 262
Modelled: 268
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 1qvr chain A domain 3

3D model

Region: 301 - 575
Aligned: 254
Modelled: 272
Confidence: 100.0%
Identity: 21%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Extended AAA-ATPase domain

Phyre2

PDB 3cf1 chain C

3D model

Region: 322 - 581
Aligned: 222
Modelled: 247
Confidence: 99.9%
Identity: 22%
PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97/vcp in complex with adp/adp.alfx

Phyre2

PDB 3hte chain C

3D model

Region: 314 - 576
Aligned: 252
Modelled: 261
Confidence: 99.9%
Identity: 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

Phyre2

PDB 2ane chain A domain 1

3D model

Region: 8 - 117
Aligned: 110
Modelled: 110
Confidence: 99.9%
Identity: 100%
Fold: PUA domain-like
Superfamily: PUA domain-like
Family: LON domain-like

Phyre2
1

c3m6aC_
2

c3k1jA_
3

c3ljcA_
4

c2x36F_
5

d1rrea_
6

c1qvrB_
7

d1xhka_
8

c3m65A_
9

c1z0eF_
10

d1zboa1
11

c1r6bX_
12

c3pxiB_
13

d1r6bx3
14

d1um8a_
15

d1ofha_
16

d1g41a_
17

d1qvra3
18

c3cf1C_
19

c3hteC_
20

d2anea1
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3m6aC_



100.0 59 PDB header:hydrolase
Chain: C: PDB Molecule:atp-dependent protease la 1;
PDBTitle: crystal structure of bacillus subtilis lon c-terminal domain
2c3k1jA_



100.0 26 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent protease lon;
PDBTitle: crystal structure of lon protease from thermococcus onnurineus na1
3c3ljcA_



100.0 95 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent protease la;
PDBTitle: crystal structure of lon n-terminal domain.
4c2x36F_



100.0 46 PDB header:hydrolase
Chain: F: PDB Molecule:lon protease homolog, mitochondrial;
PDBTitle: structure of the proteolytic domain of the human2 mitochondrial lon protease
5d1rrea_



100.0 98 Fold:Ribosomal protein S5 domain 2-like
Superfamily:Ribosomal protein S5 domain 2-like
Family:ATP-dependent protease Lon (La), catalytic domain
6c1qvrB_



100.0 19 PDB header:chaperone
Chain: B: PDB Molecule:clpb protein;
PDBTitle: crystal structure analysis of clpb
7d1xhka_



100.0 32 Fold:Ribosomal protein S5 domain 2-like
Superfamily:Ribosomal protein S5 domain 2-like
Family:ATP-dependent protease Lon (La), catalytic domain
8c3m65A_



100.0 46 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent protease la 1;
PDBTitle: crystal structure of bacillus subtilis lon n-terminal domain
9c1z0eF_



100.0 31 PDB header:hydrolase
Chain: F: PDB Molecule:putative protease la homolog type;
PDBTitle: crystal structure of a. fulgidus lon proteolytic domain
10d1zboa1



100.0 19 Fold:PUA domain-like
Superfamily:PUA domain-like
Family:LON domain-like
11c1r6bX_



100.0 18 PDB header:hydrolase
Chain: X: PDB Molecule:clpa protein;
PDBTitle: high resolution crystal structure of clpa
12c3pxiB_



100.0 19 PDB header:protein binding
Chain: B: PDB Molecule:negative regulator of genetic competence clpc/mecb;
PDBTitle: structure of meca108:clpc
13d1r6bx3



100.0 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
14d1um8a_



100.0 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
15d1ofha_



100.0 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
16d1g41a_



100.0 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
17d1qvra3



100.0 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
18c3cf1C_



99.9 22 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97/vcp in complex with adp/adp.alfx
19c3hteC_



99.9 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
20d2anea1



99.9 100 Fold:PUA domain-like
Superfamily:PUA domain-like
Family:LON domain-like
21c3hu2C_



not modelled 99.9 23 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97 n-d1 r86a mutant in complex with atpgs
22c1s3sA_



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
23c3b9pA_



not modelled 99.9 21 PDB header:hydrolase
Chain: A: PDB Molecule:cg5977-pa, isoform a;
PDBTitle: spastin
24c1xwiA_



not modelled 99.9 18 PDB header:protein transport
Chain: A: PDB Molecule:skd1 protein;
PDBTitle: crystal structure of vps4b
25c2zamA_



not modelled 99.9 17 PDB header:protein transport
Chain: A: PDB Molecule:vacuolar protein sorting-associating protein 4b;
PDBTitle: crystal structure of mouse skd1/vps4b apo-form
26c3eihB_



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
27c2dhrC_



not modelled 99.9 21 PDB header:hydrolase
Chain: C: PDB Molecule:ftsh;
PDBTitle: whole cytosolic region of atp-dependent metalloprotease2 ftsh (g399l)
28c3d8bB_



not modelled 99.9 22 PDB header:hydrolase
Chain: B: PDB Molecule:fidgetin-like protein 1;
PDBTitle: crystal structure of human fidgetin-like protein 1 in complex with adp
29c2r65A_



not modelled 99.9 18 PDB header:hydrolase
Chain: A: PDB Molecule:cell division protease ftsh homolog;
PDBTitle: crystal structure of helicobacter pylori atp dependent protease, ftsh2 adp complex
30d2ce7a2



not modelled 99.9 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
31d1e94e_



not modelled 99.9 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
32c3pfiB_



not modelled 99.8 21 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
33c1iy2A_



not modelled 99.8 21 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent metalloprotease ftsh;
PDBTitle: crystal structure of the ftsh atpase domain from thermus2 thermophilus
34c2ce7B_



not modelled 99.8 20 PDB header:cell division protein
Chain: B: PDB Molecule:cell division protein ftsh;
PDBTitle: edta treated
35c2qz4A_



not modelled 99.8 20 PDB header:hydrolase
Chain: A: PDB Molecule:paraplegin;
PDBTitle: human paraplegin, aaa domain in complex with adp
36d1ixza_



not modelled 99.8 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
37c3h4mC_



not modelled 99.8 23 PDB header:hydrolase
Chain: C: PDB Molecule:proteasome-activating nucleotidase;
PDBTitle: aaa atpase domain of the proteasome- activating nucleotidase
38c3pvsA_



not modelled 99.8 16 PDB header:recombination
Chain: A: PDB Molecule:replication-associated recombination protein a;
PDBTitle: structure and biochemical activities of escherichia coli mgsa
39d1qzma_



not modelled 99.8 100 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
40c2x8aA_



not modelled 99.8 20 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
41d1ixsb2



not modelled 99.8 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
42d1r6bx2



not modelled 99.8 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
43c1nsfA_



not modelled 99.8 18 PDB header:protein transport
Chain: A: PDB Molecule:n-ethylmaleimide sensitive factor;
PDBTitle: d2 hexamerization domain of n-ethylmaleimide sensitive factor (nsf)
44c2r44A_



not modelled 99.8 19 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
45c1in8A_



not modelled 99.7 20 PDB header:dna binding protein
Chain: A: PDB Molecule:holliday junction dna helicase ruvb;
PDBTitle: thermotoga maritima ruvb t158v
46c1x37A_



not modelled 99.7 54 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent protease la 1;
PDBTitle: structure of bacillus subtilis lon protease ssd domain
47d1e32a2



not modelled 99.7 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
48c3pxgA_



not modelled 99.7 20 PDB header:protein binding
Chain: A: PDB Molecule:negative regulator of genetic competence clpc/mecb;
PDBTitle: structure of meca121 and clpc1-485 complex
49d1lv7a_



not modelled 99.7 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
50c3nbxX_



not modelled 99.7 17 PDB header:hydrolase
Chain: X: PDB Molecule:atpase rava;
PDBTitle: crystal structure of e. coli rava (regulatory atpase variant a) in2 complex with adp
51d1r7ra3



not modelled 99.7 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
52d1in4a2



not modelled 99.7 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
53d1d2na_



not modelled 99.7 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
54d1ny5a2



not modelled 99.7 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
55d1g8pa_



not modelled 99.7 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
56c1sxjA_



not modelled 99.7 19 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)
57c2c99A_



not modelled 99.7 17 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
58d1sxja2



not modelled 99.7 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
59c3u5zM_



not modelled 99.7 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
60d1w5sa2



not modelled 99.7 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
61d1njfa_



not modelled 99.7 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
62c1sxjE_



not modelled 99.6 17 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)
63c1ojlF_



not modelled 99.6 14 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
64d1sxjb2



not modelled 99.6 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
65c2chgB_



not modelled 99.6 18 PDB header:dna-binding protein
Chain: B: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c domains 1 and 2
66c1xxhB_



not modelled 99.6 23 PDB header:transferase
Chain: B: PDB Molecule:dna polymerase iii subunit gamma;
PDBTitle: atpgs bound e. coli clamp loader complex
67d1iqpa2



not modelled 99.6 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
68d1sxjc2



not modelled 99.6 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
69c2c9oC_



not modelled 99.6 21 PDB header:hydrolase
Chain: C: PDB Molecule:ruvb-like 1;
PDBTitle: 3d structure of the human ruvb-like helicase ruvbl1
70d1jbka_



not modelled 99.6 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
71c1hqcB_



not modelled 99.6 22 PDB header:hydrolase
Chain: B: PDB Molecule:ruvb;
PDBTitle: structure of ruvb from thermus thermophilus hb8
72c2hcbC_



not modelled 99.6 18 PDB header:replication
Chain: C: PDB Molecule:chromosomal replication initiator protein dnaa;
PDBTitle: structure of amppcp-bound dnaa from aquifex aeolicus
73d1qvra2



not modelled 99.6 24 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
74d1l8qa2



not modelled 99.6 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
75d1fnna2



not modelled 99.6 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
76d1sxjd2



not modelled 99.6 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
77c3te6A_



not modelled 99.6 10 PDB header:gene regulation
Chain: A: PDB Molecule:regulatory protein sir3;
PDBTitle: crystal structure of the s. cerevisiae sir3 aaa+ domain
78c1iqpF_



not modelled 99.6 24 PDB header:replication
Chain: F: PDB Molecule:rfcs;
PDBTitle: crystal structure of the clamp loader small subunit from2 pyrococcus furiosus
79c1sxjB_



not modelled 99.6 21 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)
80c2chvE_



not modelled 99.5 21 PDB header:dna-binding protein
Chain: E: PDB Molecule:replication factor c small subunit;
PDBTitle: replication factor c adpnp complex
81d1sxje2



not modelled 99.5 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
82c1ny5A_



not modelled 99.5 22 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: crystal structure of sigm54 activator (aaa+ atpase) in the inactive2 state
83c3f8tA_



not modelled 99.5 15 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
84c1sxjC_



not modelled 99.5 19 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)
85c3dzdA_



not modelled 99.5 20 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: crystal structure of sigma54 activator ntrc4 in the inactive2 state
86c1sxjD_



not modelled 99.5 20 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)
87d1oz4a3



not modelled 99.5 22 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
88c2z4rB_



not modelled 99.5 18 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
89c3bosA_



not modelled 99.4 18 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
90c2p65A_



not modelled 99.4 19 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
91c1jr3E_



not modelled 99.4 20 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
92d1a5ta2



not modelled 99.4 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
93d1gvnb_



not modelled 99.3 11 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Plasmid maintenance system epsilon/zeta, toxin zeta subunit
94c1fnnB_



not modelled 99.3 17 PDB header:cell cycle
Chain: B: PDB Molecule:cell division control protein 6;
PDBTitle: crystal structure of cdc6p from pyrobaculum aerophilum
95c2qbyA_



not modelled 99.2 17 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)
96c3f9vA_



not modelled 99.2 22 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
97c2v1uA_



not modelled 99.2 17 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
98d2gnoa2



not modelled 99.2 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
99c2qbyB_



not modelled 99.2 18 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)
100c2p5tD_



not modelled 99.1 17 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
101c1w5sB_



not modelled 99.1 16 PDB header:replication
Chain: B: PDB Molecule:origin recognition complex subunit 2 orc2;
PDBTitle: structure of the aeropyrum pernix orc2 protein (adp form)
102c2kjqA_



not modelled 99.0 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.
103c3ec2A_



not modelled 98.9 23 PDB header:replication
Chain: A: PDB Molecule:dna replication protein dnac;
PDBTitle: crystal structure of the dnac helicase loader
104d2fnaa2



not modelled 98.8 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
105c2fnaA_



not modelled 98.7 19 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
106c2qgzA_



not modelled 98.6 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
107c2w58B_



not modelled 98.6 25 PDB header:hydrolase
Chain: B: PDB Molecule:primosome component (helicase loader);
PDBTitle: crystal structure of the dnai
108c3co5B_



not modelled 98.3 12 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
109c3qmzA_



not modelled 98.3 19 PDB header:motor protein
Chain: A: PDB Molecule:cytoplasmic dynein heavy chain;
PDBTitle: crystal structure of the cytoplasmic dynein heavy chain motor domain
110d1ye8a1



not modelled 98.2 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
111d1svma_



not modelled 98.2 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
112c2gnoA_



not modelled 98.1 14 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
113d1tuea_



not modelled 98.0 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
114c2gxaA_



not modelled 98.0 15 PDB header:replication/dna
Chain: A: PDB Molecule:replication protein e1;
PDBTitle: crystal structure of papillomavirus e1 hexameric helicase2 with ssdna and mgadp
115c3tlxA_



not modelled 98.0 18 PDB header:transferase
Chain: A: PDB Molecule:adenylate kinase 2;
PDBTitle: crystal structure of pf10_0086, adenylate kinase from plasmodium2 falciparum
116c2og2A_



not modelled 98.0 20 PDB header:protein transport
Chain: A: PDB Molecule:putative signal recognition particle receptor;
PDBTitle: crystal structure of chloroplast ftsy from arabidopsis2 thaliana
117d1x6va3



not modelled 97.9 11 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Adenosine-5'phosphosulfate kinase (APS kinase)
118c3dmdA_



not modelled 97.9 18 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
119d1lw7a2



not modelled 97.9 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
120c3be4A_



not modelled 97.9 30 PDB header:transferase
Chain: A: PDB Molecule:adenylate kinase;
PDBTitle: crystal structure of cryptosporidium parvum adenylate kinase cgd5_3360

Binding site prediction 

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite



Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
 
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
 
© Structural Bioinformatics Group
Imperial College London
Lawrence Kelley, Benjamin Jefferys
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Terms and Conditions
Component software
Template detection: HHpred 1.51
Secondary structure prediction: Psi-pred 2.5
Disorder prediction: Disopred 2.4
Transmembrane prediction: Memsat_SVM
Multi-template modelling and ab initio: Poing 1.0