Phyre 2 Results for P64496

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Email | l.a.kelley@imperial.ac.uk
Description | P64496
Date | Thu Jan 5 12:08:55 GMT 2012
Unique Job ID | aea74e534497e394

Summary |

Top model
Image coloured by rainbow N → C terminus
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Model (left) based on template d1neia_
Top template information
Fold:Hypothetical protein YoaG Superfamily:Hypothetical protein YoaG Family:Hypothetical protein YoaG
Confidence and coverage
Confidence: | 100.0% | Coverage: | 100%
60 residues (100% 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 | G | K | A | T | Y | T | V | T | V | T | N | N | S | N | G | V | S | V | D | Y | E | T | E | T | P | M | T | L | L | V | P | E | V | A | A | E | V | I | K | D | L | V | N | T | V | R | S | Y | D | T | E | N | E | H | D | V | C | G | W
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Sequence |
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 |
| d1neia_ |

### PDB 1nei chain A

Region: 1 - 60
Aligned: 60
Modelled: 60
Confidence: 100.0%
Identity: 100%
Fold: Hypothetical protein YoaG
Superfamily: Hypothetical protein YoaG
Family: Hypothetical protein YoaG

Phyre2
2 |
| d1e2wa2 |

### PDB 1e2w chain A domain 2

Region: 3 - 33
Aligned: 30
Modelled: 31
Confidence: 36.2%
Identity: 27%
Fold: Barrel-sandwich hybrid
Superfamily: Rudiment single hybrid motif
Family: Cytochrome f, small domain

Phyre2
3 |
| d1czpa_ |

### PDB 1czp chain A

Region: 4 - 31
Aligned: 28
Modelled: 28
Confidence: 20.8%
Identity: 29%
Fold: beta-Grasp (ubiquitin-like)
Superfamily: 2Fe-2S ferredoxin-like
Family: 2Fe-2S ferredoxin-related

Phyre2
4 |
| d1ci3m2 |

### PDB 1ci3 chain M domain 2

Region: 3 - 33
Aligned: 30
Modelled: 31
Confidence: 16.1%
Identity: 17%
Fold: Barrel-sandwich hybrid
Superfamily: Rudiment single hybrid motif
Family: Cytochrome f, small domain

Phyre2
5 |
| c2ww1B_ |

### PDB 2ww1 chain B

Region: 26 - 47
Aligned: 22
Modelled: 22
Confidence: 15.7%
Identity: 32%
PDB header:hydrolase
Chain: B: PDB Molecule:putative alpha-1,2-mannosidase;
PDBTitle: structure of the family gh92 inverting mannosidase bt39902 from bacteroides thetaiotaomicron vpi-5482 in complex with3 thiomannobioside

Phyre2
6 |
| d1hcza2 |

### PDB 1hcz chain A domain 2

Region: 3 - 33
Aligned: 31
Modelled: 31
Confidence: 12.9%
Identity: 32%
Fold: Barrel-sandwich hybrid
Superfamily: Rudiment single hybrid motif
Family: Cytochrome f, small domain

Phyre2
7 |
| d1pfda_ |

### PDB 1pfd chain A

Region: 4 - 20
Aligned: 17
Modelled: 17
Confidence: 11.3%
Identity: 29%
Fold: beta-Grasp (ubiquitin-like)
Superfamily: 2Fe-2S ferredoxin-like
Family: 2Fe-2S ferredoxin-related

Phyre2
8 |
| d1offa_ |

### PDB 1off chain A

Region: 4 - 20
Aligned: 17
Modelled: 17
Confidence: 11.2%
Identity: 29%
Fold: beta-Grasp (ubiquitin-like)
Superfamily: 2Fe-2S ferredoxin-like
Family: 2Fe-2S ferredoxin-related

Phyre2
9 |
| c1wcuA_ |

### PDB 1wcu chain A

Region: 46 - 57
Aligned: 12
Modelled: 12
Confidence: 10.3%
Identity: 42%
PDB header:carbohydrate binding
Chain: A: PDB Molecule:non-catalytic protein 1;
PDBTitle: cbm29_1, a family 29 carbohydrate binding module from2 piromyces equi

Phyre2
10 |
| d1j8yf1 |

### PDB 1j8y chain F domain 1

Region: 24 - 47
Aligned: 24
Modelled: 24
Confidence: 10.0%
Identity: 21%
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 |
| d1rj9b1 |

### PDB 1rj9 chain B domain 1

Region: 24 - 47
Aligned: 24
Modelled: 24
Confidence: 9.5%
Identity: 38%
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
12 |
| d1gaqb_ |

### PDB 1gaq chain B

Region: 4 - 20
Aligned: 17
Modelled: 17
Confidence: 9.3%
Identity: 29%
Fold: beta-Grasp (ubiquitin-like)
Superfamily: 2Fe-2S ferredoxin-like
Family: 2Fe-2S ferredoxin-related

Phyre2
13 |
| c2wvyA_ |

### PDB 2wvy chain A

Region: 26 - 47
Aligned: 22
Modelled: 22
Confidence: 9.0%
Identity: 36%
PDB header:hydrolase
Chain: A: PDB Molecule:alpha-1,2-mannosidase;
PDBTitle: structure of the family gh92 inverting mannosidase bt21992 from bacteroides thetaiotaomicron vpi-5482

Phyre2
14 |
| d1ls1a1 |

### PDB 1ls1 chain A domain 1

Region: 24 - 47
Aligned: 24
Modelled: 24
Confidence: 8.7%
Identity: 38%
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
15 |
| d1gwma_ |

### PDB 1gwm chain A

Region: 46 - 57
Aligned: 12
Modelled: 12
Confidence: 8.6%
Identity: 17%
Fold: Galactose-binding domain-like
Superfamily: Galactose-binding domain-like
Family: Family 29 carbohydrate binding module, CBM29

Phyre2
16 |
| d1wgwa_ |

### PDB 1wgw chain A

Region: 24 - 47
Aligned: 24
Modelled: 24
Confidence: 8.6%
Identity: 29%
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
17 |
| d4fxca_ |

### PDB 4fxc chain A

Region: 4 - 31
Aligned: 28
Modelled: 28
Confidence: 8.6%
Identity: 29%
Fold: beta-Grasp (ubiquitin-like)
Superfamily: 2Fe-2S ferredoxin-like
Family: 2Fe-2S ferredoxin-related

Phyre2
18 |
| c2wukD_ |

### PDB 2wuk chain D

Region: 47 - 53
Aligned: 7
Modelled: 7
Confidence: 7.2%
Identity: 43%
PDB header:cell cycle
Chain: D: PDB Molecule:septum site-determining protein diviva;
PDBTitle: diviva n-terminal domain, f17a mutant

Phyre2
19 |
| c3ku7B_ |

### PDB 3ku7 chain B

Region: 37 - 49
Aligned: 13
Modelled: 13
Confidence: 7.0%
Identity: 23%
PDB header:cell cycle
Chain: B: PDB Molecule:cell division topological specificity factor;
PDBTitle: crystal structure of helicobacter pylori mine, a cell division2 topological specificity factor

Phyre2
20 |
| c3emiA_ |

### PDB 3emi chain A

Region: 5 - 22
Aligned: 18
Modelled: 18
Confidence: 6.8%
Identity: 44%
PDB header:cell adhesion
Chain: A: PDB Molecule:hia (adhesin);
PDBTitle: crystal structure of hia 307-422 non-adhesive domain

Phyre2
21 |
22 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1neia_ |
|  | 100.0 | 100 | Fold:Hypothetical protein YoaG Superfamily:Hypothetical protein YoaG Family:Hypothetical protein YoaG
2 | d1e2wa2 |
|  | 36.2 | 27 | Fold:Barrel-sandwich hybrid Superfamily:Rudiment single hybrid motif Family:Cytochrome f, small domain
3 | d1czpa_ |
|  | 20.8 | 29 | Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin-related
4 | d1ci3m2 |
|  | 16.1 | 17 | Fold:Barrel-sandwich hybrid Superfamily:Rudiment single hybrid motif Family:Cytochrome f, small domain
5 | c2ww1B_ |
|  | 15.7 | 32 | PDB header:hydrolase Chain: B: PDB Molecule:putative alpha-1,2-mannosidase; PDBTitle: structure of the family gh92 inverting mannosidase bt39902 from bacteroides thetaiotaomicron vpi-5482 in complex with3 thiomannobioside
6 | d1hcza2 |
|  | 12.9 | 32 | Fold:Barrel-sandwich hybrid Superfamily:Rudiment single hybrid motif Family:Cytochrome f, small domain
7 | d1pfda_ |
|  | 11.3 | 29 | Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin-related
8 | d1offa_ |
|  | 11.2 | 29 | Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin-related
9 | c1wcuA_ |
|  | 10.3 | 42 | PDB header:carbohydrate binding Chain: A: PDB Molecule:non-catalytic protein 1; PDBTitle: cbm29_1, a family 29 carbohydrate binding module from2 piromyces equi
10 | d1j8yf1 |
|  | 10.0 | 21 | 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 | d1rj9b1 |
|  | 9.5 | 38 | 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
12 | d1gaqb_ |
|  | 9.3 | 29 | Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin-related
13 | c2wvyA_ |
|  | 9.0 | 36 | PDB header:hydrolase Chain: A: PDB Molecule:alpha-1,2-mannosidase; PDBTitle: structure of the family gh92 inverting mannosidase bt21992 from bacteroides thetaiotaomicron vpi-5482
14 | d1ls1a1 |
|  | 8.7 | 38 | 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
15 | d1gwma_ |
|  | 8.6 | 17 | Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:Family 29 carbohydrate binding module, CBM29
16 | d1wgwa_ |
|  | 8.6 | 29 | 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
17 | d4fxca_ |
|  | 8.6 | 29 | Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin-related
18 | c2wukD_ |
|  | 7.2 | 43 | PDB header:cell cycle Chain: D: PDB Molecule:septum site-determining protein diviva; PDBTitle: diviva n-terminal domain, f17a mutant
19 | c3ku7B_ |
|  | 7.0 | 23 | PDB header:cell cycle Chain: B: PDB Molecule:cell division topological specificity factor; PDBTitle: crystal structure of helicobacter pylori mine, a cell division2 topological specificity factor
20 | c3emiA_ |
|  | 6.8 | 44 | PDB header:cell adhesion Chain: A: PDB Molecule:hia (adhesin); PDBTitle: crystal structure of hia 307-422 non-adhesive domain
21 | d1a70a_ |
| not modelled | 6.0 | 29 | Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin-related
22 | d1qzxa1 |
| not modelled | 6.0 | 13 | 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

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