Phyre 2 Results for P0A6E6

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Email | l.a.kelley@imperial.ac.uk
Description | P0A6E6
Date | Thu Jan 5 11:02:57 GMT 2012
Unique Job ID | c3b14a7c0fb6a39e

Summary |

Top model
Image coloured by rainbow N → C terminus
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Model (left) based on template c2rq7A_
Top template information
PDB header:hydrolase Chain: A: PDB Molecule:atp synthase epsilon chain; PDBTitle: solution structure of the epsilon subunit chimera combining2 the n-terminal beta-sandwich domain from t. elongatus bp-13 f1 and the c-terminal alpha-helical domain from spinach4 chloroplast f1
Confidence and coverage
Confidence: | 100.0% | Coverage: | 96%
133 residues ( 96% 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 |  | M | A | M | T | Y | H | L | D | V | V | S | A | E | Q | Q | M | F | S | G | L | V | E | K | I | Q | V | T | G | S | E | G | E | L | G | I | Y | P | G | H | A | P | L | L | T | A | I | K | P | G | M | I | R | I | V | K | Q | H | G | H | E
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | E | F | I | Y | L | S | G | G | I | L | E | V | Q | P | G | N | V | T | V | L | A | D | T | A | I | R | G | Q | D | L | D | E | A | R | A | M | E | A | K | R | K | A | E | E | H | I | S | S | S | H | G | D | V | D | Y | A | Q | A | S | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | .
Sequence |  | E | L | A | K | A | I | A | Q | L | R | V | I | E | L | T | K | K | A | M
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

Rank | Aligned region
--- | ---
1 |
| c2rq7A_ |

### PDB 2rq7 chain A

Region: 3 - 136
Aligned: 133
Modelled: 134
Confidence: 100.0%
Identity: 29%
PDB header:hydrolase
Chain: A: PDB Molecule:atp synthase epsilon chain;
PDBTitle: solution structure of the epsilon subunit chimera combining2 the n-terminal beta-sandwich domain from t. elongatus bp-13 f1 and the c-terminal alpha-helical domain from spinach4 chloroplast f1

Phyre2
2 |
| c2e5yA_ |

### PDB 2e5y chain A

Region: 1 - 135
Aligned: 133
Modelled: 135
Confidence: 100.0%
Identity: 39%
PDB header:hydrolase
Chain: A: PDB Molecule:atp synthase epsilon chain;
PDBTitle: epsilon subunit and atp complex of f1f0-atp synthase from2 the thermophilic bacillus ps3

Phyre2
3 |
| c1fs0E_ |

### PDB 1fs0 chain E

Region: 2 - 134
Aligned: 127
Modelled: 133
Confidence: 100.0%
Identity: 99%
PDB header:hydrolase
Chain: E: PDB Molecule:atp synthase epsilon subunit;
PDBTitle: complex of gamma/epsilon atp synthase from e.coli

Phyre2
4 |
| c2qe7H_ |

### PDB 2qe7 chain H

Region: 1 - 135
Aligned: 133
Modelled: 135
Confidence: 100.0%
Identity: 39%
PDB header:hydrolase
Chain: H: PDB Molecule:atp synthase subunit epsilon;
PDBTitle: crystal structure of the f1-atpase from the thermoalkaliphilic2 bacterium bacillus sp. ta2.a1

Phyre2
5 |
| c2hldH_ |

### PDB 2hld chain H

Region: 6 - 129
Aligned: 120
Modelled: 123
Confidence: 99.9%
Identity: 18%
PDB header:hydrolase
Chain: H: PDB Molecule:atp synthase delta chain, mitochondrial;
PDBTitle: crystal structure of yeast mitochondrial f1-atpase

Phyre2
6 |
| d1aqta2 |

### PDB 1aqt chain A domain 2

Region: 4 - 87
Aligned: 84
Modelled: 84
Confidence: 99.9%
Identity: 100%
Fold: Epsilon subunit of F1F0-ATP synthase N-terminal domain
Superfamily: Epsilon subunit of F1F0-ATP synthase N-terminal domain
Family: Epsilon subunit of F1F0-ATP synthase N-terminal domain

Phyre2
7 |
| c1h8eH_ |

### PDB 1h8e chain H

Region: 4 - 90
Aligned: 87
Modelled: 87
Confidence: 99.9%
Identity: 26%
PDB header:hydrolase
Chain: H: PDB Molecule:bovine mitochondrial f1-atpase;
PDBTitle: (adp.alf4)2(adp.so4) bovine f1-atpase2 (all three catalytic sites occupied)

Phyre2
8 |
| c2e5tA_ |

### PDB 2e5t chain A

Region: 90 - 135
Aligned: 46
Modelled: 46
Confidence: 97.9%
Identity: 35%
PDB header:hydrolase
Chain: A: PDB Molecule:atp synthase epsilon chain;
PDBTitle: c-terminal domain of epsilon subunit of f1f0-atp synthase2 from the thermophilic bacillus ps3 in the presence of atp3 condition

Phyre2
9 |
| d1aqta1 |

### PDB 1aqt chain A domain 1

Region: 88 - 137
Aligned: 50
Modelled: 50
Confidence: 97.7%
Identity: 100%
Fold: Long alpha-hairpin
Superfamily: Epsilon subunit of F1F0-ATP synthase C-terminal domain
Family: Epsilon subunit of F1F0-ATP synthase C-terminal domain

Phyre2
10 |
| c3hqxA_ |

### PDB 3hqx chain A

Region: 7 - 76
Aligned: 70
Modelled: 70
Confidence: 67.6%
Identity: 24%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:upf0345 protein aciad0356;
PDBTitle: crystal structure of protein of unknown function (duf1255,pf06865)2 from acinetobacter sp. adp1

Phyre2
11 |
| d1y60a_ |

### PDB 1y60 chain A

Region: 37 - 51
Aligned: 15
Modelled: 15
Confidence: 25.1%
Identity: 33%
Fold: Ribosomal protein S5 domain 2-like
Superfamily: Ribosomal protein S5 domain 2-like
Family: Formaldehyde-activating enzyme, FAE

Phyre2
12 |
| d2jdih1 |

### PDB 2jdi chain H domain 1

Region: 90 - 131
Aligned: 42
Modelled: 42
Confidence: 24.5%
Identity: 17%
Fold: Long alpha-hairpin
Superfamily: Epsilon subunit of F1F0-ATP synthase C-terminal domain
Family: Epsilon subunit of F1F0-ATP synthase C-terminal domain

Phyre2
13 |
| c2qz7B_ |

### PDB 2qz7 chain B

Region: 44 - 69
Aligned: 25
Modelled: 26
Confidence: 14.9%
Identity: 24%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein sco6318;
PDBTitle: the crystal structure of a homologue of telluride resistance protein2 (terd), sco6318 from streptomyces coelicolor a3(2)

Phyre2
14 |
| d2ck3h1 |

### PDB 2ck3 chain H domain 1

Region: 90 - 123
Aligned: 34
Modelled: 34
Confidence: 14.2%
Identity: 18%
Fold: Long alpha-hairpin
Superfamily: Epsilon subunit of F1F0-ATP synthase C-terminal domain
Family: Epsilon subunit of F1F0-ATP synthase C-terminal domain

Phyre2
15 |
| c2qnuB_ |

### PDB 2qnu chain B

Region: 31 - 45
Aligned: 14
Modelled: 15
Confidence: 11.1%
Identity: 21%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein pa0076;
PDBTitle: crystal structure of pa0076 from pseudomonas aeruginosa pao12 at 2.05 a resolution

Phyre2
16 |
| d2jera1 |

### PDB 2jer chain A domain 1

Region: 63 - 106
Aligned: 44
Modelled: 44
Confidence: 10.5%
Identity: 14%
Fold: Pentein, beta/alpha-propeller
Superfamily: Pentein
Family: Porphyromonas-type peptidylarginine deiminase

Phyre2
17 |
| d1vkpa_ |

### PDB 1vkp chain A

Region: 63 - 106
Aligned: 44
Modelled: 43
Confidence: 10.2%
Identity: 11%
Fold: Pentein, beta/alpha-propeller
Superfamily: Pentein
Family: Porphyromonas-type peptidylarginine deiminase

Phyre2
18 |
| c3eo6B_ |

### PDB 3eo6 chain B

Region: 6 - 85
Aligned: 80
Modelled: 80
Confidence: 9.8%
Identity: 9%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:protein of unknown function (duf1255);
PDBTitle: crystal structure of protein of unknown function (duf1255)2 (afe_2634) from acidithiobacillus ferrooxidans ncib8455 at3 0.97 a resolution

Phyre2
19 |
| c2jerG_ |

### PDB 2jer chain G

Region: 63 - 106
Aligned: 44
Modelled: 44
Confidence: 9.6%
Identity: 14%
PDB header:hydrolase
Chain: G: PDB Molecule:agmatine deiminase;
PDBTitle: agmatine deiminase of enterococcus faecalis catalyzing its2 reaction.

Phyre2
20 |
| c2vhgB_ |

### PDB 2vhg chain B

Region: 32 - 48
Aligned: 17
Modelled: 17
Confidence: 8.8%
Identity: 29%
PDB header:dna-binding protein
Chain: B: PDB Molecule:transposase orfa;
PDBTitle: crystal structure of the ishp608 transposase in complex2 with right end 31-mer dna

Phyre2
21 |
22 |
23 |
24 |
25 |
26 |
27 |
28 |
29 |
30 |
31 |
32 |
33 |
34 |
35 |
36 |
37 |
38 |
39 |
40 |
41 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c2rq7A_ |
|  | 100.0 | 29 | PDB header:hydrolase Chain: A: PDB Molecule:atp synthase epsilon chain; PDBTitle: solution structure of the epsilon subunit chimera combining2 the n-terminal beta-sandwich domain from t. elongatus bp-13 f1 and the c-terminal alpha-helical domain from spinach4 chloroplast f1
2 | c2e5yA_ |
|  | 100.0 | 39 | PDB header:hydrolase Chain: A: PDB Molecule:atp synthase epsilon chain; PDBTitle: epsilon subunit and atp complex of f1f0-atp synthase from2 the thermophilic bacillus ps3
3 | c1fs0E_ |
|  | 100.0 | 99 | PDB header:hydrolase Chain: E: PDB Molecule:atp synthase epsilon subunit; PDBTitle: complex of gamma/epsilon atp synthase from e.coli
4 | c2qe7H_ |
|  | 100.0 | 39 | PDB header:hydrolase Chain: H: PDB Molecule:atp synthase subunit epsilon; PDBTitle: crystal structure of the f1-atpase from the thermoalkaliphilic2 bacterium bacillus sp. ta2.a1
5 | c2hldH_ |
|  | 99.9 | 18 | PDB header:hydrolase Chain: H: PDB Molecule:atp synthase delta chain, mitochondrial; PDBTitle: crystal structure of yeast mitochondrial f1-atpase
6 | d1aqta2 |
|  | 99.9 | 100 | Fold:Epsilon subunit of F1F0-ATP synthase N-terminal domain Superfamily:Epsilon subunit of F1F0-ATP synthase N-terminal domain Family:Epsilon subunit of F1F0-ATP synthase N-terminal domain
7 | c1h8eH_ |
|  | 99.9 | 26 | PDB header:hydrolase Chain: H: PDB Molecule:bovine mitochondrial f1-atpase; PDBTitle: (adp.alf4)2(adp.so4) bovine f1-atpase2 (all three catalytic sites occupied)
8 | c2e5tA_ |
|  | 97.9 | 35 | PDB header:hydrolase Chain: A: PDB Molecule:atp synthase epsilon chain; PDBTitle: c-terminal domain of epsilon subunit of f1f0-atp synthase2 from the thermophilic bacillus ps3 in the presence of atp3 condition
9 | d1aqta1 |
|  | 97.7 | 100 | Fold:Long alpha-hairpin Superfamily:Epsilon subunit of F1F0-ATP synthase C-terminal domain Family:Epsilon subunit of F1F0-ATP synthase C-terminal domain
10 | c3hqxA_ |
|  | 67.6 | 24 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0345 protein aciad0356; PDBTitle: crystal structure of protein of unknown function (duf1255,pf06865)2 from acinetobacter sp. adp1
11 | d1y60a_ |
|  | 25.1 | 33 | Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:Formaldehyde-activating enzyme, FAE
12 | d2jdih1 |
|  | 24.5 | 17 | Fold:Long alpha-hairpin Superfamily:Epsilon subunit of F1F0-ATP synthase C-terminal domain Family:Epsilon subunit of F1F0-ATP synthase C-terminal domain
13 | c2qz7B_ |
|  | 14.9 | 24 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein sco6318; PDBTitle: the crystal structure of a homologue of telluride resistance protein2 (terd), sco6318 from streptomyces coelicolor a3(2)
14 | d2ck3h1 |
|  | 14.2 | 18 | Fold:Long alpha-hairpin Superfamily:Epsilon subunit of F1F0-ATP synthase C-terminal domain Family:Epsilon subunit of F1F0-ATP synthase C-terminal domain
15 | c2qnuB_ |
|  | 11.1 | 21 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein pa0076; PDBTitle: crystal structure of pa0076 from pseudomonas aeruginosa pao12 at 2.05 a resolution
16 | d2jera1 |
|  | 10.5 | 14 | Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase
17 | d1vkpa_ |
|  | 10.2 | 11 | Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase
18 | c3eo6B_ |
|  | 9.8 | 9 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein of unknown function (duf1255); PDBTitle: crystal structure of protein of unknown function (duf1255)2 (afe_2634) from acidithiobacillus ferrooxidans ncib8455 at3 0.97 a resolution
19 | c2jerG_ |
|  | 9.6 | 14 | PDB header:hydrolase Chain: G: PDB Molecule:agmatine deiminase; PDBTitle: agmatine deiminase of enterococcus faecalis catalyzing its2 reaction.
20 | c2vhgB_ |
|  | 8.8 | 29 | PDB header:dna-binding protein Chain: B: PDB Molecule:transposase orfa; PDBTitle: crystal structure of the ishp608 transposase in complex2 with right end 31-mer dna
21 | c3frnA_ |
| not modelled | 8.6 | 17 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:flagellar protein flga; PDBTitle: crystal structure of flagellar protein flga from thermotoga maritima2 msb8
22 | d1vqoe1 |
| not modelled | 8.5 | 11 | Fold:Ribosomal protein L6 Superfamily:Ribosomal protein L6 Family:Ribosomal protein L6
23 | c4a8aI_ |
| not modelled | 8.3 | 21 | PDB header:hydrolase/hydrolase Chain: I: PDB Molecule:periplasmic ph-dependent serine endoprotease degq; PDBTitle: asymmetric cryo-em reconstruction of e. coli degq 12-mer in complex2 with lysozyme
24 | c1nh7A_ |
| not modelled | 8.2 | 33 | PDB header:transferase Chain: A: PDB Molecule:atp phosphoribosyltransferase; PDBTitle: atp phosphoribosyltransferase (atp-prtase) from mycobacterium2 tuberculosis
25 | d2f5ga1 |
| not modelled | 8.2 | 29 | Fold:Ferredoxin-like Superfamily:Transposase IS200-like Family:Transposase IS200-like
26 | d1e3ha5 |
| not modelled | 8.1 | 30 | Fold:Ribonuclease PH domain 2-like Superfamily:Ribonuclease PH domain 2-like Family:Ribonuclease PH domain 2-like
27 | c3stjC_ |
| not modelled | 7.8 | 22 | PDB header:hydrolase Chain: C: PDB Molecule:protease degq; PDBTitle: crystal structure of the protease + pdz1 domain of degq from2 escherichia coli
28 | d2oyza1 |
| not modelled | 7.8 | 23 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:VPA0057-like
29 | d2nn6a2 |
| not modelled | 7.6 | 13 | Fold:Ribonuclease PH domain 2-like Superfamily:Ribonuclease PH domain 2-like Family:Ribonuclease PH domain 2-like
30 | d2ewoa1 |
| not modelled | 7.2 | 11 | Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase
31 | c3pm9A_ |
| not modelled | 6.8 | 32 | PDB header:oxidoreductase Chain: A: PDB Molecule:putative oxidoreductase; PDBTitle: crystal structure of a putative dehydrogenase (rpa1076) from2 rhodopseudomonas palustris cga009 at 2.57 a resolution
32 | d2fyxa1 |
| not modelled | 6.5 | 29 | Fold:Ferredoxin-like Superfamily:Transposase IS200-like Family:Transposase IS200-like
33 | c3brcA_ |
| not modelled | 6.5 | 14 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved protein of unknown function; PDBTitle: crystal structure of a conserved protein of unknown function from2 methanobacterium thermoautotrophicum
34 | c2qngA_ |
| not modelled | 6.3 | 20 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein sav2460; PDBTitle: crytal structure of unknown function protein sav2460
35 | d2vjva1 |
| not modelled | 6.2 | 29 | Fold:Ferredoxin-like Superfamily:Transposase IS200-like Family:Transposase IS200-like
36 | d1xkna_ |
| not modelled | 6.2 | 9 | Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase
37 | d1kida_ |
| not modelled | 6.1 | 18 | Fold:The "swivelling" beta/beta/alpha domain Superfamily:GroEL apical domain-like Family:GroEL-like chaperone, apical domain
38 | d2cmua1 |
| not modelled | 5.8 | 9 | Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase
39 | c2d3kA_ |
| not modelled | 5.8 | 31 | PDB header:hydrolase Chain: A: PDB Molecule:peptidyl-trna hydrolase; PDBTitle: structural study on project id ph1539 from pyrococcus2 horikoshii ot3
40 | d1sefa_ |
| not modelled | 5.3 | 10 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:YlbA-like
41 | c1sefA_ |
| not modelled | 5.3 | 10 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved hypothetical protein; PDBTitle: crystal structure of cupin domain protein ef2996 from enterococcus2 faecalis

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