Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP52612
DateThu Jan 5 12:05:51 GMT 2012
Unique Job ID622ced824eb245de

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2dpyA_
Top template information
PDB header:hydrolase
Chain: A: PDB Molecule:flagellum-specific atp synthase;
PDBTitle: crystal structure of the flagellar type iii atpase flii
Confidence and coverage
Confidence:100.0% Coverage: 92%
422 residues ( 92% 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  MTTRLTRWLTTLDNFEAKMAQLPAVRRYGRLTRATGLVLEATGLQLPLGATCVIERQNGS
Secondary structure 






















SS confidence 



























































Disorder  ???????













?????





























????
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   .........70.........80.........90.........100.........110.........120
Sequence  ETHEVESEVVGFNGQRLFLMPLEEVEGVLPGARVYAKNISAEGLQSGKQLPLGPALLGRV
Secondary structure 





























SS confidence 



























































Disorder  ???





















??






??


?????????
??








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











































SS confidence 



























































Disorder 





???????????







????
?


??
????


















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   .........190.........200.........210.........220.........230.........240
Sequence  FAGSGVGKSVLLGMMARYTRADVIVVGLIGERGREVKDFIENILGAEGRARSVVIAAPAD
Secondary structure 

























SS confidence 



























































Disorder 
??






















































?
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   .........250.........260.........270.........280.........290.........300
Sequence  VSPLLRMQGAAYATRIAEDFRDRGQHVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPS
Secondary structure 

















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Disorder 














































???????????

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



















SS confidence 



























































Disorder 



?







????











??


























??
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   .........370.........380.........390.........400.........410.........420
Sequence  GHYPAIDIEASISRAMTALISEQHYARVRTFKQLLSSFQRNRDLVSVGAYAKGSDPMLDK
Secondary structure 
























SS confidence 



























































Disorder  ?













































????????




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   .........430.........440.........450.......
Sequence  AIALWPQLEGYLQQGIFERADWEASLQGLERIFPTVS
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 2dpy chain A

3D model

Region: 25 - 456
Aligned: 422
Modelled: 432
Confidence: 100.0%
Identity: 95%
PDB header:hydrolase
Chain: A: PDB Molecule:flagellum-specific atp synthase;
PDBTitle: crystal structure of the flagellar type iii atpase flii

Phyre2

PDB 2r9v chain A

3D model

Region: 17 - 455
Aligned: 423
Modelled: 439
Confidence: 100.0%
Identity: 22%
PDB header:hydrolase
Chain: A: PDB Molecule:atp synthase subunit alpha;
PDBTitle: crystal structure of atp synthase subunit alpha (tm1612) from2 thermotoga maritima at 2.10 a resolution

Phyre2

PDB 1fx0 chain B

3D model

Region: 28 - 455
Aligned: 418
Modelled: 428
Confidence: 100.0%
Identity: 28%
PDB header:hydrolase
Chain: B: PDB Molecule:atp synthase beta chain;
PDBTitle: crystal structure of the chloroplast f1-atpase from spinach

Phyre2

PDB 3a5d chain M

3D model

Region: 27 - 456
Aligned: 419
Modelled: 423
Confidence: 100.0%
Identity: 28%
PDB header:hydrolase
Chain: M: PDB Molecule:v-type atp synthase beta chain;
PDBTitle: inter-subunit interaction and quaternary rearrangement2 defined by the central stalk of prokaryotic v1-atpase

Phyre2

PDB 2qe7 chain C

3D model

Region: 27 - 456
Aligned: 413
Modelled: 430
Confidence: 100.0%
Identity: 24%
PDB header:hydrolase
Chain: C: PDB Molecule:atp synthase subunit alpha;
PDBTitle: crystal structure of the f1-atpase from the thermoalkaliphilic2 bacterium bacillus sp. ta2.a1

Phyre2

PDB 2w6j chain D

3D model

Region: 28 - 455
Aligned: 416
Modelled: 428
Confidence: 100.0%
Identity: 25%
PDB header:hydrolase
Chain: D: PDB Molecule:atp synthase subunit beta, mitochondrial;
PDBTitle: low resolution structures of bovine mitochondrial f1-atpase2 during controlled dehydration: hydration state 5.

Phyre2

PDB 2w6f chain A

3D model

Region: 25 - 456
Aligned: 415
Modelled: 432
Confidence: 100.0%
Identity: 23%
PDB header:hydrolase
Chain: A: PDB Molecule:atp synthase subunit alpha heart isoform,
PDBTitle: low resolution structures of bovine mitochondrial f1-atpase2 during controlled dehydration: hydration state 2.

Phyre2

PDB 2jiz chain D

3D model

Region: 28 - 455
Aligned: 416
Modelled: 428
Confidence: 100.0%
Identity: 25%
PDB header:hydrolase
Chain: D: PDB Molecule:atp synthase subunit beta;
PDBTitle: the structure of f1-atpase inhibited by resveratrol.

Phyre2

PDB 1sky chain E

3D model

Region: 29 - 455
Aligned: 417
Modelled: 420
Confidence: 100.0%
Identity: 26%
PDB header:atp synthase
Chain: E: PDB Molecule:f1-atpase;
PDBTitle: crystal structure of the nucleotide free alpha3beta3 sub-complex of2 f1-atpase from the thermophilic bacillus ps3

Phyre2

PDB 3oaa chain C

3D model

Region: 28 - 455
Aligned: 411
Modelled: 421
Confidence: 100.0%
Identity: 22%
PDB header:hydrolase/transport protein
Chain: C: PDB Molecule:atp synthase subunit alpha;
PDBTitle: structure of the e.coli f1-atp synthase inhibited by subunit epsilon

Phyre2

PDB 1w0j chain B

3D model

Region: 25 - 456
Aligned: 407
Modelled: 432
Confidence: 100.0%
Identity: 24%
PDB header:hydrolase
Chain: B: PDB Molecule:atp synthase alpha chain heart isoform,
PDBTitle: beryllium fluoride inhibited bovine f1-atpase

Phyre2

PDB 1kmh chain A

3D model

Region: 28 - 456
Aligned: 412
Modelled: 422
Confidence: 100.0%
Identity: 25%
PDB header:hydrolase
Chain: A: PDB Molecule:atpase alpha subunit;
PDBTitle: crystal structure of spinach chloroplast f1-atpase2 complexed with tentoxin

Phyre2

PDB 3a5d chain B

3D model

Region: 27 - 454
Aligned: 413
Modelled: 428
Confidence: 100.0%
Identity: 28%
PDB header:hydrolase
Chain: B: PDB Molecule:v-type atp synthase alpha chain;
PDBTitle: inter-subunit interaction and quaternary rearrangement2 defined by the central stalk of prokaryotic v1-atpase

Phyre2

PDB 2c61 chain A

3D model

Region: 36 - 456
Aligned: 398
Modelled: 414
Confidence: 100.0%
Identity: 27%
PDB header:hydrolase
Chain: A: PDB Molecule:a-type atp synthase non-catalytic subunit b;
PDBTitle: crystal structure of the non-catalytic b subunit of a-type2 atpase from m. mazei go1

Phyre2

PDB 2obl chain A

3D model

Region: 108 - 453
Aligned: 343
Modelled: 346
Confidence: 100.0%
Identity: 45%
PDB header:hydrolase
Chain: A: PDB Molecule:escn;
PDBTitle: structural and biochemical analysis of a prototypical atpase from the2 type iii secretion system of pathogenic bacteria

Phyre2

PDB 1vdz chain A

3D model

Region: 89 - 454
Aligned: 341
Modelled: 350
Confidence: 100.0%
Identity: 28%
PDB header:hydrolase
Chain: A: PDB Molecule:a-type atpase subunit a;
PDBTitle: crystal structure of a-type atpase catalytic subunit a from2 pyrococcus horikoshii ot3

Phyre2

PDB 2jdi chain A domain 3

3D model

Region: 108 - 380
Aligned: 273
Modelled: 273
Confidence: 100.0%
Identity: 28%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: RecA protein-like (ATPase-domain)

Phyre2

PDB 1sky chain B domain 3

3D model

Region: 109 - 380
Aligned: 272
Modelled: 272
Confidence: 100.0%
Identity: 30%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: RecA protein-like (ATPase-domain)

Phyre2

PDB 1fx0 chain A domain 3

3D model

Region: 109 - 380
Aligned: 272
Modelled: 272
Confidence: 100.0%
Identity: 32%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: RecA protein-like (ATPase-domain)

Phyre2

PDB 2jdi chain D domain 3

3D model

Region: 108 - 375
Aligned: 266
Modelled: 268
Confidence: 100.0%
Identity: 31%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: RecA protein-like (ATPase-domain)

Phyre2
1

c2dpyA_
2

c2r9vA_
3

c1fx0B_
4

c3a5dM_
5

c2qe7C_
6

c2w6jD_
7

c2w6fA_
8

c2jizD_
9

c1skyE_
10

c3oaaC_
11

c1w0jB_
12

c1kmhA_
13

c3a5dB_
14

c2c61A_
15

c2oblA_
16

c1vdzA_
17

d2jdia3
18

d1skyb3
19

d1fx0a3
20

d2jdid3
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2dpyA_



100.0 95 PDB header:hydrolase
Chain: A: PDB Molecule:flagellum-specific atp synthase;
PDBTitle: crystal structure of the flagellar type iii atpase flii
2c2r9vA_



100.0 22 PDB header:hydrolase
Chain: A: PDB Molecule:atp synthase subunit alpha;
PDBTitle: crystal structure of atp synthase subunit alpha (tm1612) from2 thermotoga maritima at 2.10 a resolution
3c1fx0B_



100.0 28 PDB header:hydrolase
Chain: B: PDB Molecule:atp synthase beta chain;
PDBTitle: crystal structure of the chloroplast f1-atpase from spinach
4c3a5dM_



100.0 28 PDB header:hydrolase
Chain: M: PDB Molecule:v-type atp synthase beta chain;
PDBTitle: inter-subunit interaction and quaternary rearrangement2 defined by the central stalk of prokaryotic v1-atpase
5c2qe7C_



100.0 24 PDB header:hydrolase
Chain: C: PDB Molecule:atp synthase subunit alpha;
PDBTitle: crystal structure of the f1-atpase from the thermoalkaliphilic2 bacterium bacillus sp. ta2.a1
6c2w6jD_



100.0 25 PDB header:hydrolase
Chain: D: PDB Molecule:atp synthase subunit beta, mitochondrial;
PDBTitle: low resolution structures of bovine mitochondrial f1-atpase2 during controlled dehydration: hydration state 5.
7c2w6fA_



100.0 23 PDB header:hydrolase
Chain: A: PDB Molecule:atp synthase subunit alpha heart isoform,
PDBTitle: low resolution structures of bovine mitochondrial f1-atpase2 during controlled dehydration: hydration state 2.
8c2jizD_



100.0 25 PDB header:hydrolase
Chain: D: PDB Molecule:atp synthase subunit beta;
PDBTitle: the structure of f1-atpase inhibited by resveratrol.
9c1skyE_



100.0 26 PDB header:atp synthase
Chain: E: PDB Molecule:f1-atpase;
PDBTitle: crystal structure of the nucleotide free alpha3beta3 sub-complex of2 f1-atpase from the thermophilic bacillus ps3
10c3oaaC_



100.0 22 PDB header:hydrolase/transport protein
Chain: C: PDB Molecule:atp synthase subunit alpha;
PDBTitle: structure of the e.coli f1-atp synthase inhibited by subunit epsilon
11c1w0jB_



100.0 24 PDB header:hydrolase
Chain: B: PDB Molecule:atp synthase alpha chain heart isoform,
PDBTitle: beryllium fluoride inhibited bovine f1-atpase
12c1kmhA_



100.0 25 PDB header:hydrolase
Chain: A: PDB Molecule:atpase alpha subunit;
PDBTitle: crystal structure of spinach chloroplast f1-atpase2 complexed with tentoxin
13c3a5dB_



100.0 28 PDB header:hydrolase
Chain: B: PDB Molecule:v-type atp synthase alpha chain;
PDBTitle: inter-subunit interaction and quaternary rearrangement2 defined by the central stalk of prokaryotic v1-atpase
14c2c61A_



100.0 27 PDB header:hydrolase
Chain: A: PDB Molecule:a-type atp synthase non-catalytic subunit b;
PDBTitle: crystal structure of the non-catalytic b subunit of a-type2 atpase from m. mazei go1
15c2oblA_



100.0 45 PDB header:hydrolase
Chain: A: PDB Molecule:escn;
PDBTitle: structural and biochemical analysis of a prototypical atpase from the2 type iii secretion system of pathogenic bacteria
16c1vdzA_



100.0 28 PDB header:hydrolase
Chain: A: PDB Molecule:a-type atpase subunit a;
PDBTitle: crystal structure of a-type atpase catalytic subunit a from2 pyrococcus horikoshii ot3
17d2jdia3



100.0 28 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
18d1skyb3



100.0 30 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
19d1fx0a3



100.0 32 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
20d2jdid3



100.0 31 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
21d1skye3



not modelled 100.0 30 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
22d1fx0b3



not modelled 100.0 33 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
23c3l0oB_



not modelled 100.0 23 PDB header:hydrolase
Chain: B: PDB Molecule:transcription termination factor rho;
PDBTitle: structure of rna-free rho transcription termination factor from2 thermotoga maritima
24c1xpuB_



not modelled 100.0 20 PDB header:transcription/rna
Chain: B: PDB Molecule:rho transcription termination factor;
PDBTitle: structural mechanism of inhibition of the rho transcription2 termination factor by the antibiotic 5a-(3-formylphenylsulfanyl)-3 dihydrobicyclomycin (fpdb)
25d1xpua3



not modelled 100.0 25 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
26d2jdid1



not modelled 99.0 13 Fold:Left-handed superhelix
Superfamily:C-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:C-terminal domain of alpha and beta subunits of F1 ATP synthase
27d1skye1



not modelled 99.0 17 Fold:Left-handed superhelix
Superfamily:C-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:C-terminal domain of alpha and beta subunits of F1 ATP synthase
28d1fx0b1



not modelled 98.9 17 Fold:Left-handed superhelix
Superfamily:C-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:C-terminal domain of alpha and beta subunits of F1 ATP synthase
29c1u9iA_



not modelled 98.6 14 PDB header:circadian clock protein
Chain: A: PDB Molecule:kaic;
PDBTitle: crystal structure of circadian clock protein kaic with phosphorylation2 sites
30d1tf7a2



not modelled 98.3 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
31d1tf7a1



not modelled 98.3 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
32d1fx0a1



not modelled 98.3 13 Fold:Left-handed superhelix
Superfamily:C-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:C-terminal domain of alpha and beta subunits of F1 ATP synthase
33d1skyb2



not modelled 98.3 16 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like
Superfamily:N-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:N-terminal domain of alpha and beta subunits of F1 ATP synthase
34d2jdia2



not modelled 98.3 10 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like
Superfamily:N-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:N-terminal domain of alpha and beta subunits of F1 ATP synthase
35d2jdia1



not modelled 98.2 14 Fold:Left-handed superhelix
Superfamily:C-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:C-terminal domain of alpha and beta subunits of F1 ATP synthase
36d1fx0a2



not modelled 98.2 15 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like
Superfamily:N-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:N-terminal domain of alpha and beta subunits of F1 ATP synthase
37d1skyb1



not modelled 98.1 10 Fold:Left-handed superhelix
Superfamily:C-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:C-terminal domain of alpha and beta subunits of F1 ATP synthase
38d2i1qa2



not modelled 98.1 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
39d1mo6a1



not modelled 97.9 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
40d1xp8a1



not modelled 97.9 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
41c2recB_



not modelled 97.9 18 PDB header:helicase
PDB COMPND:
42c2dr3A_



not modelled 97.9 15 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:upf0273 protein ph0284;
PDBTitle: crystal structure of reca superfamily atpase ph0284 from pyrococcus2 horikoshii ot3
43d2f43a1



not modelled 97.9 14 Fold:Left-handed superhelix
Superfamily:C-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:C-terminal domain of alpha and beta subunits of F1 ATP synthase
44d1n0wa_



not modelled 97.8 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
45d1maba2



not modelled 97.8 11 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like
Superfamily:N-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:N-terminal domain of alpha and beta subunits of F1 ATP synthase
46c3ldaA_



not modelled 97.8 18 PDB header:dna binding protein
Chain: A: PDB Molecule:dna repair protein rad51;
PDBTitle: yeast rad51 h352y filament interface mutant
47c3hr8A_



not modelled 97.8 17 PDB header:recombination
Chain: A: PDB Molecule:protein reca;
PDBTitle: crystal structure of thermotoga maritima reca
48d1v5wa_



not modelled 97.8 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
49c2w0mA_



not modelled 97.8 16 PDB header:unknown function
Chain: A: PDB Molecule:sso2452;
PDBTitle: crystal structure of sso2452 from sulfolobus solfataricus2 p2
50c2zroA_



not modelled 97.8 22 PDB header:hydrolase
Chain: A: PDB Molecule:protein reca;
PDBTitle: msreca adp form iv
51d1ubea1



not modelled 97.7 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
52c2ztsB_



not modelled 97.7 17 PDB header:atp-binding protein
Chain: B: PDB Molecule:putative uncharacterized protein ph0186;
PDBTitle: crystal structure of kaic-like protein ph0186 from2 hyperthermophilic archaea pyrococcus horikoshii ot3
53c2dflA_



not modelled 97.7 17 PDB header:recombination
Chain: A: PDB Molecule:dna repair and recombination protein rada;
PDBTitle: crystal structure of left-handed rada filament
54c1t4gA_



not modelled 97.7 19 PDB header:recombination
Chain: A: PDB Molecule:dna repair and recombination protein rada;
PDBTitle: atpase in complex with amp-pnp
55d1pzna2



not modelled 97.7 20 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
56d1szpa2



not modelled 97.6 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
57c1pznG_



not modelled 97.6 19 PDB header:recombination
Chain: G: PDB Molecule:dna repair and recombination protein rad51;
PDBTitle: rad51 (rada)
58c1xp8A_



not modelled 97.5 16 PDB header:dna binding protein
Chain: A: PDB Molecule:reca protein;
PDBTitle: "deinococcus radiodurans reca in complex with atp-gamma-s"
59c2cvhB_



not modelled 97.5 16 PDB header:dna binding protein
Chain: B: PDB Molecule:dna repair and recombination protein radb;
PDBTitle: crystal structure of the radb recombinase
60c2zjbB_



not modelled 97.5 13 PDB header:recombination
Chain: B: PDB Molecule:meiotic recombination protein dmc1/lim15 homolog;
PDBTitle: crystal structure of the human dmc1-m200v polymorphic2 variant
61c1szpC_



not modelled 97.5 21 PDB header:dna binding protein
Chain: C: PDB Molecule:dna repair protein rad51;
PDBTitle: a crystal structure of the rad51 filament
62d1skye2



not modelled 97.5 15 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like
Superfamily:N-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:N-terminal domain of alpha and beta subunits of F1 ATP synthase
63d1fx0b2



not modelled 97.4 17 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like
Superfamily:N-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:N-terminal domain of alpha and beta subunits of F1 ATP synthase
64d2jdid2



not modelled 97.3 18 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like
Superfamily:N-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:N-terminal domain of alpha and beta subunits of F1 ATP synthase
65d1u94a1



not modelled 97.3 14 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
66d1mabb2



not modelled 97.2 16 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like
Superfamily:N-terminal domain of alpha and beta subunits of F1 ATP synthase
Family:N-terminal domain of alpha and beta subunits of F1 ATP synthase
67c3io5B_



not modelled 97.2 21 PDB header:dna binding protein
Chain: B: PDB Molecule:recombination and repair protein;
PDBTitle: crystal structure of a dimeric form of the uvsx recombinase core2 domain from enterobacteria phage t4
68c3bh0A_



not modelled 97.1 13 PDB header:replication
Chain: A: PDB Molecule:dnab-like replicative helicase;
PDBTitle: atpase domain of g40p
69d1cr2a_



not modelled 96.9 25 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
70c2vyeA_



not modelled 96.9 13 PDB header:hydrolase
Chain: A: PDB Molecule:replicative dna helicase;
PDBTitle: crystal structure of the dnac-ssdna complex
71c3pvsA_



not modelled 96.7 27 PDB header:recombination
Chain: A: PDB Molecule:replication-associated recombination protein a;
PDBTitle: structure and biochemical activities of escherichia coli mgsa
72c2q6tB_



not modelled 96.6 20 PDB header:hydrolase
Chain: B: PDB Molecule:dnab replication fork helicase;
PDBTitle: crystal structure of the thermus aquaticus dnab monomer
73c3bs4A_



not modelled 96.6 8 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein ph0321;
PDBTitle: crystal structure of uncharacterized protein ph0321 from pyrococcus2 horikoshii in complex with an unknown peptide
74c2a5yB_



not modelled 96.0 17 PDB header:apoptosis
Chain: B: PDB Molecule:ced-4;
PDBTitle: structure of a ced-4/ced-9 complex
75c2zamA_



not modelled 96.0 19 PDB header:protein transport
Chain: A: PDB Molecule:vacuolar protein sorting-associating protein 4b;
PDBTitle: crystal structure of mouse skd1/vps4b apo-form
76c2w0sB_



not modelled 95.9 15 PDB header:transferase
Chain: B: PDB Molecule:thymidylate kinase;
PDBTitle: crystal structure of vaccinia virus thymidylate kinase2 bound to brivudin-5'-monophosphate
77c1yqtA_



not modelled 95.9 30 PDB header:hydrolyase/translation
Chain: A: PDB Molecule:rnase l inhibitor;
PDBTitle: rnase-l inhibitor
78c1zu4A_



not modelled 95.9 15 PDB header:protein transport
Chain: A: PDB Molecule:ftsy;
PDBTitle: crystal structure of ftsy from mycoplasma mycoides- space2 group p21212
79c2og2A_



not modelled 95.8 17 PDB header:protein transport
Chain: A: PDB Molecule:putative signal recognition particle receptor;
PDBTitle: crystal structure of chloroplast ftsy from arabidopsis2 thaliana
80c3bgwD_



not modelled 95.7 15 PDB header:replication
Chain: D: PDB Molecule:dnab-like replicative helicase;
PDBTitle: the structure of a dnab-like replicative helicase and its interactions2 with primase
81c3p1jC_



not modelled 95.7 16 PDB header:hydrolase
Chain: C: PDB Molecule:gtpase imap family member 2;
PDBTitle: crystal structure of human gtpase imap family member 2 in the2 nucleotide-free state
82c2j7pA_



not modelled 95.7 13 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
83c3pfiB_



not modelled 95.7 19 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
84d2awna2



not modelled 95.7 33 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
85c3geiB_



not modelled 95.6 26 PDB header:hydrolase
Chain: B: PDB Molecule:trna modification gtpase mnme;
PDBTitle: crystal structure of mnme from chlorobium tepidum in complex2 with gcp
86d2qy9a2



not modelled 95.6 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
87c3cmvG_



not modelled 95.5 15 PDB header:recombination
Chain: G: PDB Molecule:protein reca;
PDBTitle: mechanism of homologous recombination from the reca-2 ssdna/dsdna structures
88c3b9qA_



not modelled 95.5 17 PDB header:protein transport
Chain: A: PDB Molecule:chloroplast srp receptor homolog, alpha subunit
PDBTitle: the crystal structure of cpftsy from arabidopsis thaliana
89c3iytG_



not modelled 95.5 18 PDB header:apoptosis
Chain: G: PDB Molecule:apoptotic protease-activating factor 1;
PDBTitle: structure of an apoptosome-procaspase-9 card complex
90c3d8bB_



not modelled 95.4 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
91c2x8aA_



not modelled 95.4 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
92c3dmdA_



not modelled 95.4 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
93c2vb6A_



not modelled 95.4 19 PDB header:motor protein
Chain: A: PDB Molecule:myosin vi;
PDBTitle: myosin vi (md-insert2-cam, delta insert1) post-rigor state (2 crystal form 2)
94d1l7vc_



not modelled 95.3 29 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
95c2yyzA_



not modelled 95.3 24 PDB header:transport protein
Chain: A: PDB Molecule:sugar abc transporter, atp-binding protein;
PDBTitle: crystal structure of sugar abc transporter, atp-binding protein
96c3u5zM_



not modelled 95.3 15 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
97d1qvra2



not modelled 95.3 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Extended AAA-ATPase domain
98c3p1jB_



not modelled 95.3 14 PDB header:hydrolase
Chain: B: PDB Molecule:gtpase imap family member 2;
PDBTitle: crystal structure of human gtpase imap family member 2 in the2 nucleotide-free state
99c1xwiA_



not modelled 95.3 21 PDB header:protein transport
Chain: A: PDB Molecule:skd1 protein;
PDBTitle: crystal structure of vps4b
100c1z6tC_



not modelled 95.3 16 PDB header:apoptosis
Chain: C: PDB Molecule:apoptotic protease activating factor 1;
PDBTitle: structure of the apoptotic protease-activating factor 12 bound to adp
101d1ye8a1



not modelled 95.3 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
102c1z47B_



not modelled 95.2 30 PDB header:ligand binding protein
Chain: B: PDB Molecule:putative abc-transporter atp-binding protein;
PDBTitle: structure of the atpase subunit cysa of the putative2 sulfate atp-binding cassette (abc) transporter from3 alicyclobacillus acidocaldarius
103c2pjzA_



not modelled 95.2 22 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein st1066;
PDBTitle: the crystal structure of putative cobalt transport atp-2 binding protein (cbio-2), st1066
104c3bosA_



not modelled 95.2 8 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
105c2d62A_



not modelled 95.2 21 PDB header:sugar binding protein
Chain: A: PDB Molecule:multiple sugar-binding transport atp-binding
PDBTitle: crystal structure of multiple sugar binding transport atp-2 binding protein
106c1oxtB_



not modelled 95.2 24 PDB header:transport protein
Chain: B: PDB Molecule:abc transporter, atp binding protein;
PDBTitle: crystal structure of glcv, the abc-atpase of the glucose abc2 transporter from sulfolobus solfataricus
107d1okkd2



not modelled 95.2 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
108d1tmka_



not modelled 95.2 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
109d1vmaa2



not modelled 95.1 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nitrogenase iron protein-like
110c2ce7B_



not modelled 95.1 14 PDB header:cell division protein
Chain: B: PDB Molecule:cell division protein ftsh;
PDBTitle: edta treated
111d1zp6a1



not modelled 95.1 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Atu3015-like
112d2ak3a1



not modelled 95.1 15 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
113c2v1uA_



not modelled 95.1 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
114c2ihyB_



not modelled 95.1 29 PDB header:hydrolase
Chain: B: PDB Molecule:abc transporter, atp-binding protein;
PDBTitle: structure of the staphylococcus aureus putative atpase subunit of an2 atp-binding cassette (abc) transporter
115d1jj7a_



not modelled 95.0 21 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
116c2iw3B_



not modelled 95.0 30 PDB header:translation
Chain: B: PDB Molecule:elongation factor 3a;
PDBTitle: elongation factor 3 in complex with adp
117c3b9pA_



not modelled 95.0 19 PDB header:hydrolase
Chain: A: PDB Molecule:cg5977-pa, isoform a;
PDBTitle: spastin
118d2pmka1



not modelled 95.0 30 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
119d1nlfa_



not modelled 95.0 16 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RecA protein-like (ATPase-domain)
120c2j41A_



not modelled 95.0 21 PDB header:transferase
Chain: A: PDB Molecule:guanylate kinase;
PDBTitle: crystal structure of staphylococcus aureus guanylate2 monophosphate 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