Phyre 2 Results for P0A8T5

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Email | l.a.kelley@imperial.ac.uk
Description | P0A8T5
Date | Thu Jan 5 11:08:42 GMT 2012
Unique Job ID | 1d7cb140772134f9

Summary |

Top model
Image coloured by rainbow N → C terminus
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Model (left) based on template c2clyA_
Top template information
PDB header:hydrolase Chain: A: PDB Molecule:atp synthase b chain, mitochondrial; PDBTitle: subcomplex of the stator of bovine mitochondrial atp2 synthase
Confidence and coverage
Confidence: | 21.1% | Coverage: | 67%
70 residues ( 67% of your sequence) have been modelled with 21.1% confidence by the single highest scoring template.
You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.
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3D viewing
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Sequence analysis |

Secondary structure and disorder prediction |

|  | 1 | . | . | . | . | . | . | . | . | 10 | . | . | . | . | . | . | . | . | . | 20 | . | . | . | . | . | . | . | . | . | 30 | . | . | . | . | . | . | . | . | . | 40 | . | . | . | . | . | . | . | . | . | 50 | . | . | . | . | . | . | . | . | . | 60
Sequence |  | M | S | A | I | Q | G | I | E | G | V | I | S | Q | L | Q | A | T | A | M | S | A | R | A | Q | E | S | L | P | Q | P | T | I | S | F | A | G | Q | L | H | A | A | L | D | R | I | S | D | T | Q | T | A | A | R | T | Q | A | E | K | F | T
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | .
Sequence |  | L | G | E | P | G | V | A | L | N | D | V | M | T | D | M | Q | K | A | S | V | S | M | Q | M | G | I | Q | V | R | N | K | L | V | A | A | Y | Q | E | V | M | S | M | Q | V
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 |
| c2clyA_ |

### PDB 2cly chain A

Region: 32 - 101
Aligned: 70
Modelled: 70
Confidence: 21.1%
Identity: 17%
PDB header:hydrolase
Chain: A: PDB Molecule:atp synthase b chain, mitochondrial;
PDBTitle: subcomplex of the stator of bovine mitochondrial atp2 synthase

Phyre2
2 |
| d2clya1 |

### PDB 2cly chain A domain 1

Region: 32 - 101
Aligned: 70
Modelled: 70
Confidence: 21.1%
Identity: 17%
Fold: ATP synthase B chain-like
Superfamily: ATP synthase B chain-like
Family: ATP synthase B chain-like

Phyre2
3 |
| d2idob1 |

### PDB 2ido chain B domain 1

Region: 95 - 104
Aligned: 10
Modelled: 10
Confidence: 15.7%
Identity: 40%
Fold: DNA polymerase III theta subunit-like
Superfamily: DNA polymerase III theta subunit-like
Family: DNA polymerase III theta subunit-like

Phyre2
4 |
| d2ia9a1 |

### PDB 2ia9 chain A domain 1

Region: 83 - 100
Aligned: 18
Modelled: 18
Confidence: 13.5%
Identity: 6%
Fold: SpoVG-like
Superfamily: SpoVG-like
Family: SpoVG-like

Phyre2
5 |
| d1se7a_ |

### PDB 1se7 chain A

Region: 95 - 104
Aligned: 10
Modelled: 10
Confidence: 13.3%
Identity: 40%
Fold: DNA polymerase III theta subunit-like
Superfamily: DNA polymerase III theta subunit-like
Family: DNA polymerase III theta subunit-like

Phyre2
6 |
| d2ae9a1 |

### PDB 2ae9 chain A domain 1

Region: 95 - 104
Aligned: 10
Modelled: 10
Confidence: 12.5%
Identity: 40%
Fold: DNA polymerase III theta subunit-like
Superfamily: DNA polymerase III theta subunit-like
Family: DNA polymerase III theta subunit-like

Phyre2
7 |
| c2wssT_ |

### PDB 2wss chain T

Region: 77 - 101
Aligned: 25
Modelled: 25
Confidence: 8.2%
Identity: 20%
PDB header:hydrolase
Chain: T: PDB Molecule:atp synthase subunit b, mitochondrial;
PDBTitle: the structure of the membrane extrinsic region of bovine2 atp synthase

Phyre2
8 |
| c1kmiZ_ |

### PDB 1kmi chain Z

Region: 33 - 67
Aligned: 35
Modelled: 35
Confidence: 6.3%
Identity: 17%
PDB header:signaling protein
Chain: Z: PDB Molecule:chemotaxis protein chez;
PDBTitle: crystal structure of an e.coli chemotaxis protein, chez

Phyre2
9 |
| d6paxa1 |

### PDB 6pax chain A domain 1

Region: 86 - 98
Aligned: 13
Modelled: 13
Confidence: 6.1%
Identity: 15%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: Paired domain

Phyre2
10 |
| d1rj9b1 |

### PDB 1rj9 chain B domain 1

Region: 68 - 92
Aligned: 25
Modelled: 25
Confidence: 5.5%
Identity: 12%
Fold: Four-helical up-and-down bundle
Superfamily: Domain of the SRP/SRP receptor G-proteins
Family: Domain of the SRP/SRP receptor G-proteins

Phyre2
11 |
| d1k78a1 |

### PDB 1k78 chain A domain 1

Region: 86 - 98
Aligned: 13
Modelled: 13
Confidence: 5.4%
Identity: 23%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: Paired domain

Phyre2

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c2clyA_ |
|  | 21.1 | 17 | PDB header:hydrolase Chain: A: PDB Molecule:atp synthase b chain, mitochondrial; PDBTitle: subcomplex of the stator of bovine mitochondrial atp2 synthase
2 | d2clya1 |
|  | 21.1 | 17 | Fold:ATP synthase B chain-like Superfamily:ATP synthase B chain-like Family:ATP synthase B chain-like
3 | d2idob1 |
|  | 15.7 | 40 | Fold:DNA polymerase III theta subunit-like Superfamily:DNA polymerase III theta subunit-like Family:DNA polymerase III theta subunit-like
4 | d2ia9a1 |
|  | 13.5 | 6 | Fold:SpoVG-like Superfamily:SpoVG-like Family:SpoVG-like
5 | d1se7a_ |
|  | 13.3 | 40 | Fold:DNA polymerase III theta subunit-like Superfamily:DNA polymerase III theta subunit-like Family:DNA polymerase III theta subunit-like
6 | d2ae9a1 |
|  | 12.5 | 40 | Fold:DNA polymerase III theta subunit-like Superfamily:DNA polymerase III theta subunit-like Family:DNA polymerase III theta subunit-like
7 | c2wssT_ |
|  | 8.2 | 20 | PDB header:hydrolase Chain: T: PDB Molecule:atp synthase subunit b, mitochondrial; PDBTitle: the structure of the membrane extrinsic region of bovine2 atp synthase
8 | c1kmiZ_ |
|  | 6.3 | 17 | PDB header:signaling protein Chain: Z: PDB Molecule:chemotaxis protein chez; PDBTitle: crystal structure of an e.coli chemotaxis protein, chez
9 | d6paxa1 |
|  | 6.1 | 15 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Paired domain
10 | d1rj9b1 |
|  | 5.5 | 12 | Fold:Four-helical up-and-down bundle Superfamily:Domain of the SRP/SRP receptor G-proteins Family:Domain of the SRP/SRP receptor G-proteins
11 | d1k78a1 |
|  | 5.4 | 23 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Paired domain

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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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