Phyre 2 Results for Q46800

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Email | l.a.kelley@imperial.ac.uk
Description | Q46800
Date | Thu Jan 5 12:34:23 GMT 2012
Unique Job ID | a339770d4e879676

Summary |

Top model
Image coloured by rainbow N → C terminus
| Close Jmol

Model (left) based on template c1n62C_
Top template information
PDB header:oxidoreductase Chain: C: PDB Molecule:carbon monoxide dehydrogenase medium chain; PDBTitle: crystal structure of the mo,cu-co dehydrogenase (codh), n-2 butylisocyanide-bound state
Confidence and coverage
Confidence: | 100.0% | Coverage: | 97%
284 residues ( 97% 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 | F | D | F | A | S | Y | H | R | A | A | T | L | A | D | A | I | N | L | L | A | D | N | P | Q | A | K | L | L | A | G | G | T | D | V | L | I | Q | L | H | H | H | N | D | R | Y | R | H | I | V | D | I | H | N | L | A | E | L | R | G
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | I | T | L | A | E | D | G | S | L | R | I | G | S | A | T | T | F | T | Q | L | I | E | D | P | I | T | Q | R | H | L | P | A | L | C | A | A | A | T | S | I | A | G | P | Q | I | R | N | V | A | T | Y | G | G | N | I | C | N | G | A | T
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | S | A | D | S | A | T | P | T | L | I | Y | D | A | K | L | E | I | H | S | P | R | G | V | R | F | V | P | I | N | G | F | H | T | G | P | G | K | V | S | L | E | H | D | E | I | L | V | A | F | H | F | P | P | Q | P | K | E | H | A | G
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | S | A | H | F | K | Y | A | M | R | D | A | M | D | I | S | T | I | G | C | A | A | H | C | R | L | D | N | G | N | F | S | E | L | R | L | A | F | G | V | A | A | P | T | P | I | R | C | Q | H | A | E | Q | T | A | Q | N | A | P | L | N
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | . | . | . | . | . | . | . | . | 290 | . | .
Sequence |  | L | Q | T | L | E | A | I | S | E | S | V | L | Q | D | V | A | P | R | S | S | W | R | A | S | K | E | F | R | L | H | L | I | Q | T | M | T | K | K | V | I | S | E | A | V | A | A | A | G | G | K | L | Q
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 |
| c1n62C_ |

### PDB 1n62 chain C

Region: 1 - 287
Aligned: 284
Modelled: 286
Confidence: 100.0%
Identity: 28%
PDB header:oxidoreductase
Chain: C: PDB Molecule:carbon monoxide dehydrogenase medium chain;
PDBTitle: crystal structure of the mo,cu-co dehydrogenase (codh), n-2 butylisocyanide-bound state

Phyre2
2 |
| c3hrdC_ |

### PDB 3hrd chain C

Region: 1 - 288
Aligned: 285
Modelled: 288
Confidence: 100.0%
Identity: 30%
PDB header:oxidoreductase
Chain: C: PDB Molecule:nicotinate dehydrogenase fad-subunit;
PDBTitle: crystal structure of nicotinate dehydrogenase

Phyre2
3 |
| c1t3qF_ |

### PDB 1t3q chain F

Region: 1 - 287
Aligned: 282
Modelled: 284
Confidence: 100.0%
Identity: 28%
PDB header:oxidoreductase
Chain: F: PDB Molecule:quinoline 2-oxidoreductase medium subunit;
PDBTitle: crystal structure of quinoline 2-oxidoreductase from pseudomonas2 putida 86

Phyre2
4 |
| c1ffuF_ |

### PDB 1ffu chain F

Region: 1 - 288
Aligned: 285
Modelled: 288
Confidence: 100.0%
Identity: 31%
PDB header:hydrolase
Chain: F: PDB Molecule:cutm, flavoprotein of carbon monoxide
PDBTitle: carbon monoxide dehydrogenase from hydrogenophaga2 pseudoflava which lacks the mo-pyranopterin moiety of the3 molybdenum cofactor

Phyre2
5 |
| c1rm6E_ |

### PDB 1rm6 chain E

Region: 1 - 285
Aligned: 279
Modelled: 283
Confidence: 100.0%
Identity: 32%
PDB header:oxidoreductase
Chain: E: PDB Molecule:4-hydroxybenzoyl-coa reductase beta subunit;
PDBTitle: structure of 4-hydroxybenzoyl-coa reductase from thauera2 aromatica

Phyre2
6 |
| c1wygA_ |

### PDB 1wyg chain A

Region: 6 - 288
Aligned: 281
Modelled: 283
Confidence: 100.0%
Identity: 24%
PDB header:oxidoreductase
Chain: A: PDB Molecule:xanthine dehydrogenase/oxidase;
PDBTitle: crystal structure of a rat xanthine dehydrogenase triple mutant2 (c535a, c992r and c1324s)

Phyre2
7 |
| c2w3rG_ |

### PDB 2w3r chain G

Region: 5 - 292
Aligned: 282
Modelled: 284
Confidence: 100.0%
Identity: 26%
PDB header:oxidoreductase
Chain: G: PDB Molecule:xanthine dehydrogenase;
PDBTitle: crystal structure of xanthine dehydrogenase (desulfo form)2 from rhodobacter capsulatus in complex with hypoxanthine

Phyre2
8 |
| c3b9jJ_ |

### PDB 3b9j chain J

Region: 5 - 288
Aligned: 282
Modelled: 284
Confidence: 100.0%
Identity: 24%
PDB header:oxidoreductase
Chain: J: PDB Molecule:xanthine oxidase;
PDBTitle: structure of xanthine oxidase with 2-hydroxy-6-methylpurine

Phyre2
9 |
| c3etrM_ |

### PDB 3etr chain M

Region: 5 - 288
Aligned: 282
Modelled: 284
Confidence: 100.0%
Identity: 24%
PDB header:oxidoreductase
Chain: M: PDB Molecule:xanthine dehydrogenase/oxidase;
PDBTitle: crystal structure of xanthine oxidase in complex with2 lumazine

Phyre2
10 |
| d1ffvc2 |

### PDB 1ffv chain C domain 2

Region: 1 - 176
Aligned: 175
Modelled: 176
Confidence: 100.0%
Identity: 35%
Fold: FAD-binding/transporter-associated domain-like
Superfamily: FAD-binding/transporter-associated domain-like
Family: CO dehydrogenase flavoprotein N-terminal domain-like

Phyre2
11 |
| d1n62c2 |

### PDB 1n62 chain C domain 2

Region: 1 - 176
Aligned: 175
Modelled: 176
Confidence: 100.0%
Identity: 31%
Fold: FAD-binding/transporter-associated domain-like
Superfamily: FAD-binding/transporter-associated domain-like
Family: CO dehydrogenase flavoprotein N-terminal domain-like

Phyre2
12 |
| d1t3qc2 |

### PDB 1t3q chain C domain 2

Region: 1 - 175
Aligned: 173
Modelled: 175
Confidence: 100.0%
Identity: 30%
Fold: FAD-binding/transporter-associated domain-like
Superfamily: FAD-binding/transporter-associated domain-like
Family: CO dehydrogenase flavoprotein N-terminal domain-like

Phyre2
13 |
| d1rm6b2 |

### PDB 1rm6 chain B domain 2

Region: 1 - 173
Aligned: 171
Modelled: 173
Confidence: 100.0%
Identity: 40%
Fold: FAD-binding/transporter-associated domain-like
Superfamily: FAD-binding/transporter-associated domain-like
Family: CO dehydrogenase flavoprotein N-terminal domain-like

Phyre2
14 |
| d1v97a6 |

### PDB 1v97 chain A domain 6

Region: 6 - 176
Aligned: 170
Modelled: 171
Confidence: 100.0%
Identity: 25%
Fold: FAD-binding/transporter-associated domain-like
Superfamily: FAD-binding/transporter-associated domain-like
Family: CO dehydrogenase flavoprotein N-terminal domain-like

Phyre2
15 |
| d3b9jb2 |

### PDB 3b9j chain B domain 2

Region: 3 - 176
Aligned: 173
Modelled: 174
Confidence: 100.0%
Identity: 24%
Fold: FAD-binding/transporter-associated domain-like
Superfamily: FAD-binding/transporter-associated domain-like
Family: CO dehydrogenase flavoprotein N-terminal domain-like

Phyre2
16 |
| d1jroa4 |

### PDB 1jro chain A domain 4

Region: 7 - 175
Aligned: 166
Modelled: 169
Confidence: 100.0%
Identity: 25%
Fold: FAD-binding/transporter-associated domain-like
Superfamily: FAD-binding/transporter-associated domain-like
Family: CO dehydrogenase flavoprotein N-terminal domain-like

Phyre2
17 |
| d1v97a4 |

### PDB 1v97 chain A domain 4

Region: 178 - 288
Aligned: 111
Modelled: 111
Confidence: 99.9%
Identity: 20%
Fold: CO dehydrogenase flavoprotein C-domain-like
Superfamily: CO dehydrogenase flavoprotein C-terminal domain-like
Family: CO dehydrogenase flavoprotein C-terminal domain-like

Phyre2
18 |
| d1jroa3 |

### PDB 1jro chain A domain 3

Region: 180 - 289
Aligned: 110
Modelled: 110
Confidence: 99.9%
Identity: 26%
Fold: CO dehydrogenase flavoprotein C-domain-like
Superfamily: CO dehydrogenase flavoprotein C-terminal domain-like
Family: CO dehydrogenase flavoprotein C-terminal domain-like

Phyre2
19 |
| d1n62c1 |

### PDB 1n62 chain C domain 1

Region: 178 - 287
Aligned: 109
Modelled: 110
Confidence: 99.9%
Identity: 22%
Fold: CO dehydrogenase flavoprotein C-domain-like
Superfamily: CO dehydrogenase flavoprotein C-terminal domain-like
Family: CO dehydrogenase flavoprotein C-terminal domain-like

Phyre2
20 |
| d1t3qc1 |

### PDB 1t3q chain C domain 1

Region: 180 - 287
Aligned: 107
Modelled: 108
Confidence: 99.9%
Identity: 23%
Fold: CO dehydrogenase flavoprotein C-domain-like
Superfamily: CO dehydrogenase flavoprotein C-terminal domain-like
Family: CO dehydrogenase flavoprotein C-terminal domain-like

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c1n62C_ |
|  | 100.0 | 28 | PDB header:oxidoreductase Chain: C: PDB Molecule:carbon monoxide dehydrogenase medium chain; PDBTitle: crystal structure of the mo,cu-co dehydrogenase (codh), n-2 butylisocyanide-bound state
2 | c3hrdC_ |
|  | 100.0 | 30 | PDB header:oxidoreductase Chain: C: PDB Molecule:nicotinate dehydrogenase fad-subunit; PDBTitle: crystal structure of nicotinate dehydrogenase
3 | c1t3qF_ |
|  | 100.0 | 28 | PDB header:oxidoreductase Chain: F: PDB Molecule:quinoline 2-oxidoreductase medium subunit; PDBTitle: crystal structure of quinoline 2-oxidoreductase from pseudomonas2 putida 86
4 | c1ffuF_ |
|  | 100.0 | 31 | PDB header:hydrolase Chain: F: PDB Molecule:cutm, flavoprotein of carbon monoxide PDBTitle: carbon monoxide dehydrogenase from hydrogenophaga2 pseudoflava which lacks the mo-pyranopterin moiety of the3 molybdenum cofactor
5 | c1rm6E_ |
|  | 100.0 | 32 | PDB header:oxidoreductase Chain: E: PDB Molecule:4-hydroxybenzoyl-coa reductase beta subunit; PDBTitle: structure of 4-hydroxybenzoyl-coa reductase from thauera2 aromatica
6 | c1wygA_ |
|  | 100.0 | 24 | PDB header:oxidoreductase Chain: A: PDB Molecule:xanthine dehydrogenase/oxidase; PDBTitle: crystal structure of a rat xanthine dehydrogenase triple mutant2 (c535a, c992r and c1324s)
7 | c2w3rG_ |
|  | 100.0 | 26 | PDB header:oxidoreductase Chain: G: PDB Molecule:xanthine dehydrogenase; PDBTitle: crystal structure of xanthine dehydrogenase (desulfo form)2 from rhodobacter capsulatus in complex with hypoxanthine
8 | c3b9jJ_ |
|  | 100.0 | 24 | PDB header:oxidoreductase Chain: J: PDB Molecule:xanthine oxidase; PDBTitle: structure of xanthine oxidase with 2-hydroxy-6-methylpurine
9 | c3etrM_ |
|  | 100.0 | 24 | PDB header:oxidoreductase Chain: M: PDB Molecule:xanthine dehydrogenase/oxidase; PDBTitle: crystal structure of xanthine oxidase in complex with2 lumazine
10 | d1ffvc2 |
|  | 100.0 | 35 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:CO dehydrogenase flavoprotein N-terminal domain-like
11 | d1n62c2 |
|  | 100.0 | 31 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:CO dehydrogenase flavoprotein N-terminal domain-like
12 | d1t3qc2 |
|  | 100.0 | 30 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:CO dehydrogenase flavoprotein N-terminal domain-like
13 | d1rm6b2 |
|  | 100.0 | 40 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:CO dehydrogenase flavoprotein N-terminal domain-like
14 | d1v97a6 |
|  | 100.0 | 25 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:CO dehydrogenase flavoprotein N-terminal domain-like
15 | d3b9jb2 |
|  | 100.0 | 24 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:CO dehydrogenase flavoprotein N-terminal domain-like
16 | d1jroa4 |
|  | 100.0 | 25 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:CO dehydrogenase flavoprotein N-terminal domain-like
17 | d1v97a4 |
|  | 99.9 | 20 | Fold:CO dehydrogenase flavoprotein C-domain-like Superfamily:CO dehydrogenase flavoprotein C-terminal domain-like Family:CO dehydrogenase flavoprotein C-terminal domain-like
18 | d1jroa3 |
|  | 99.9 | 26 | Fold:CO dehydrogenase flavoprotein C-domain-like Superfamily:CO dehydrogenase flavoprotein C-terminal domain-like Family:CO dehydrogenase flavoprotein C-terminal domain-like
19 | d1n62c1 |
|  | 99.9 | 22 | Fold:CO dehydrogenase flavoprotein C-domain-like Superfamily:CO dehydrogenase flavoprotein C-terminal domain-like Family:CO dehydrogenase flavoprotein C-terminal domain-like
20 | d1t3qc1 |
|  | 99.9 | 23 | Fold:CO dehydrogenase flavoprotein C-domain-like Superfamily:CO dehydrogenase flavoprotein C-terminal domain-like Family:CO dehydrogenase flavoprotein C-terminal domain-like
21 | d1ffvc1 |
| not modelled | 99.9 | 24 | Fold:CO dehydrogenase flavoprotein C-domain-like Superfamily:CO dehydrogenase flavoprotein C-terminal domain-like Family:CO dehydrogenase flavoprotein C-terminal domain-like
22 | d1rm6b1 |
| not modelled | 99.9 | 18 | Fold:CO dehydrogenase flavoprotein C-domain-like Superfamily:CO dehydrogenase flavoprotein C-terminal domain-like Family:CO dehydrogenase flavoprotein C-terminal domain-like
23 | c1hskA_ |
| not modelled | 97.9 | 15 | PDB header:oxidoreductase Chain: A: PDB Molecule:udp-n-acetylenolpyruvoylglucosamine reductase; PDBTitle: crystal structure of s. aureus murb
24 | c1mbbA_ |
| not modelled | 97.9 | 18 | PDB header:oxidoreductase Chain: A: PDB Molecule:uridine diphospho-n-acetylenolpyruvylglucosamine PDBTitle: oxidoreductase
25 | c3i99A_ |
| not modelled | 97.8 | 15 | PDB header:oxidoreductase Chain: A: PDB Molecule:udp-n-acetylenolpyruvoylglucosamine reductase; PDBTitle: the crystal structure of the udp-n-acetylenolpyruvoylglucosamine2 reductase from the vibrio cholerae o1 biovar tor
26 | c1zr6A_ |
| not modelled | 97.8 | 11 | PDB header:oxidoreductase Chain: A: PDB Molecule:glucooligosaccharide oxidase; PDBTitle: the crystal structure of an acremonium strictum glucooligosaccharide2 oxidase reveals a novel flavinylation
27 | c2wdwB_ |
| not modelled | 97.7 | 14 | PDB header:oxidoreductase Chain: B: PDB Molecule:putative hexose oxidase; PDBTitle: the native crystal structure of the primary hexose oxidase (2 dbv29) in antibiotic a40926 biosynthesis
28 | c2ipiD_ |
| not modelled | 97.5 | 12 | PDB header:oxidoreductase Chain: D: PDB Molecule:aclacinomycin oxidoreductase (aknox); PDBTitle: crystal structure of aclacinomycin oxidoreductase
29 | c3fwaA_ |
| not modelled | 97.5 | 15 | PDB header:flavoprotein Chain: A: PDB Molecule:reticuline oxidase; PDBTitle: structure of berberine bridge enzyme, c166a variant in complex with2 (s)-reticuline
30 | d1uxya1 |
| not modelled | 97.5 | 15 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:Uridine diphospho-N-Acetylenolpyruvylglucosamine reductase (MurB), N-terminal domain
31 | c2vfvA_ |
| not modelled | 97.4 | 15 | PDB header:oxidoreductase Chain: A: PDB Molecule:xylitol oxidase; PDBTitle: alditol oxidase from streptomyces coelicolor a3(2): complex2 with sulphite
32 | c2y3rC_ |
| not modelled | 97.3 | 14 | PDB header:oxidoreductase Chain: C: PDB Molecule:taml; PDBTitle: structure of the tirandamycin-bound fad-dependent2 tirandamycin oxidase taml in p21 space group
33 | d1hska1 |
| not modelled | 97.3 | 16 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:Uridine diphospho-N-Acetylenolpyruvylglucosamine reductase (MurB), N-terminal domain
34 | c3d2hA_ |
| not modelled | 97.3 | 15 | PDB header:oxidoreductase Chain: A: PDB Molecule:berberine bridge-forming enzyme; PDBTitle: structure of berberine bridge enzyme from eschscholzia californica,2 monoclinic crystal form
35 | c2gquA_ |
| not modelled | 97.1 | 16 | PDB header:oxidoreductase Chain: A: PDB Molecule:udp-n-acetylenolpyruvylglucosamine reductase; PDBTitle: crystal structure of udp-n-acetylenolpyruvylglucosamine2 reductase (murb) from thermus caldophilus
36 | c3bw7A_ |
| not modelled | 96.9 | 15 | PDB header:oxidoreductase Chain: A: PDB Molecule:cytokinin dehydrogenase 1; PDBTitle: maize cytokinin oxidase/dehydrogenase complexed with the allenic2 cytokinin analog ha-1
37 | c3pm9A_ |
| not modelled | 96.9 | 15 | 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
38 | c1f0xA_ |
| not modelled | 96.8 | 20 | PDB header:oxidoreductase Chain: A: PDB Molecule:d-lactate dehydrogenase; PDBTitle: crystal structure of d-lactate dehydrogenase, a peripheral2 membrane respiratory enzyme.
39 | c2uuvC_ |
| not modelled | 96.8 | 14 | PDB header:transferase Chain: C: PDB Molecule:alkyldihydroxyacetonephosphate synthase; PDBTitle: alkyldihydroxyacetonephosphate synthase in p1
40 | d1f0xa2 |
| not modelled | 96.7 | 19 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:FAD-linked oxidases, N-terminal domain
41 | c3popD_ |
| not modelled | 96.5 | 23 | PDB header:oxidoreductase Chain: D: PDB Molecule:gilr oxidase; PDBTitle: the crystal structure of gilr, an oxidoreductase that catalyzes the2 terminal step of gilvocarcin biosynthesis
42 | d2i0ka2 |
| not modelled | 96.4 | 15 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:FAD-linked oxidases, N-terminal domain
43 | c2bvfA_ |
| not modelled | 96.2 | 16 | PDB header:oxidase Chain: A: PDB Molecule:6-hydroxy-d-nicotine oxidase; PDBTitle: crystal structure of 6-hydoxy-d-nicotine oxidase from2 arthrobacter nicotinovorans. crystal form 3 (p1)
44 | c2exrA_ |
| not modelled | 96.2 | 14 | PDB header:oxidoreductase Chain: A: PDB Molecule:cytokinin dehydrogenase 7; PDBTitle: x-ray structure of cytokinin oxidase/dehydrogenase (ckx)2 from arabidopsis thaliana at5g21482
45 | c1wveB_ |
| not modelled | 96.0 | 15 | PDB header:oxidoreductase Chain: B: PDB Molecule:4-cresol dehydrogenase [hydroxylating] PDBTitle: p-cresol methylhydroxylase: alteration of the structure of2 the flavoprotein subunit upon its binding to the3 cytochrome subunit
46 | c1i19B_ |
| not modelled | 95.8 | 16 | PDB header:oxidoreductase Chain: B: PDB Molecule:cholesterol oxidase; PDBTitle: crystal structure of cholesterol oxidase from b.sterolicum
47 | c3js8A_ |
| not modelled | 95.7 | 10 | PDB header:oxidoreductase Chain: A: PDB Molecule:cholesterol oxidase; PDBTitle: solvent-stable cholesterol oxidase
48 | d1wvfa2 |
| not modelled | 95.5 | 15 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:FAD-linked oxidases, N-terminal domain
49 | c1ahuB_ |
| not modelled | 94.5 | 12 | PDB header:flavoenzyme Chain: B: PDB Molecule:vanillyl-alcohol oxidase; PDBTitle: structure of the octameric flavoenzyme vanillyl-alcohol2 oxidase in complex with p-cresol
50 | d1w1oa2 |
| not modelled | 93.9 | 13 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:FAD-linked oxidases, N-terminal domain
51 | d1e8ga2 |
| not modelled | 92.8 | 10 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:FAD-linked oxidases, N-terminal domain
52 | d1x2ga1 |
| not modelled | 89.9 | 16 | Fold:SufE/NifU Superfamily:SufE/NifU Family:SP1160 C-terminal domain-like
53 | d1vqza1 |
| not modelled | 89.6 | 2 | Fold:SufE/NifU Superfamily:SufE/NifU Family:SP1160 C-terminal domain-like
54 | c2e5aA_ |
| not modelled | 75.4 | 9 | PDB header:ligase Chain: A: PDB Molecule:lipoyltransferase 1; PDBTitle: crystal structure of bovine lipoyltransferase in complex2 with lipoyl-amp
55 | c1x2gB_ |
| not modelled | 75.0 | 18 | PDB header:ligase Chain: B: PDB Molecule:lipoate-protein ligase a; PDBTitle: crystal structure of lipate-protein ligase a from2 escherichia coli
56 | d1su0b_ |
| not modelled | 69.2 | 14 | Fold:SufE/NifU Superfamily:SufE/NifU Family:NifU/IscU domain
57 | d1li4a2 |
| not modelled | 67.0 | 13 | Fold:Flavodoxin-like Superfamily:Formate/glycerate dehydrogenase catalytic domain-like Family:S-adenosylhomocystein hydrolase
58 | d1xjsa_ |
| not modelled | 65.7 | 13 | Fold:SufE/NifU Superfamily:SufE/NifU Family:NifU/IscU domain
59 | c1vqzA_ |
| not modelled | 63.1 | 2 | PDB header:ligase Chain: A: PDB Molecule:lipoate-protein ligase, putative; PDBTitle: crystal structure of a putative lipoate-protein ligase a (sp_1160)2 from streptococcus pneumoniae tigr4 at 1.99 a resolution
60 | c2yvsA_ |
| not modelled | 59.6 | 14 | PDB header:oxidoreductase Chain: A: PDB Molecule:glycolate oxidase subunit glce; PDBTitle: crystal structure of glycolate oxidase subunit glce from thermus2 thermophilus hb8
61 | d1v8ba2 |
| not modelled | 56.1 | 16 | Fold:Flavodoxin-like Superfamily:Formate/glycerate dehydrogenase catalytic domain-like Family:S-adenosylhomocystein hydrolase
62 | c2qq4A_ |
| not modelled | 50.3 | 10 | PDB header:metal binding protein Chain: A: PDB Molecule:iron-sulfur cluster biosynthesis protein iscu; PDBTitle: crystal structure of iron-sulfur cluster biosynthesis2 protein iscu (ttha1736) from thermus thermophilus hb8
63 | c3d64A_ |
| not modelled | 44.5 | 14 | PDB header:hydrolase Chain: A: PDB Molecule:adenosylhomocysteinase; PDBTitle: crystal structure of s-adenosyl-l-homocysteine hydrolase from2 burkholderia pseudomallei
64 | c3dhyC_ |
| not modelled | 43.0 | 17 | PDB header:hydrolase Chain: C: PDB Molecule:adenosylhomocysteinase; PDBTitle: crystal structures of mycobacterium tuberculosis s-adenosyl-l-2 homocysteine hydrolase in ternary complex with substrate and3 inhibitors
65 | c1v8bA_ |
| not modelled | 42.7 | 16 | PDB header:hydrolase Chain: A: PDB Molecule:adenosylhomocysteinase; PDBTitle: crystal structure of a hydrolase
66 | c3oneA_ |
| not modelled | 41.1 | 16 | PDB header:hydrolase/hydrolase substrate Chain: A: PDB Molecule:adenosylhomocysteinase; PDBTitle: crystal structure of lupinus luteus s-adenosyl-l-homocysteine2 hydrolase in complex with adenine
67 | d1wfza_ |
| not modelled | 35.9 | 13 | Fold:SufE/NifU Superfamily:SufE/NifU Family:NifU/IscU domain
68 | d1r9pa_ |
| not modelled | 35.5 | 13 | Fold:SufE/NifU Superfamily:SufE/NifU Family:NifU/IscU domain
69 | c3n58D_ |
| not modelled | 32.7 | 19 | PDB header:hydrolase Chain: D: PDB Molecule:adenosylhomocysteinase; PDBTitle: crystal structure of s-adenosyl-l-homocysteine hydrolase from brucella2 melitensis in ternary complex with nad and adenosine, orthorhombic3 form
70 | d1frfl_ |
| not modelled | 31.7 | 13 | Fold:HydB/Nqo4-like Superfamily:HydB/Nqo4-like Family:Nickel-iron hydrogenase, large subunit
71 | d1e3db_ |
| not modelled | 29.8 | 17 | Fold:HydB/Nqo4-like Superfamily:HydB/Nqo4-like Family:Nickel-iron hydrogenase, large subunit
72 | d1wuil1 |
| not modelled | 28.0 | 13 | Fold:HydB/Nqo4-like Superfamily:HydB/Nqo4-like Family:Nickel-iron hydrogenase, large subunit
73 | c2z7eB_ |
| not modelled | 25.8 | 9 | PDB header:biosynthetic protein Chain: B: PDB Molecule:nifu-like protein; PDBTitle: crystal structure of aquifex aeolicus iscu with bound [2fe-2 2s] cluster
74 | c2wpnB_ |
| not modelled | 23.4 | 7 | PDB header:oxidoreductase Chain: B: PDB Molecule:periplasmic [nifese] hydrogenase, large subunit, PDBTitle: structure of the oxidised, as-isolated nifese hydrogenase2 from d. vulgaris hildenborough
75 | d1yq9h1 |
| not modelled | 22.8 | 15 | Fold:HydB/Nqo4-like Superfamily:HydB/Nqo4-like Family:Nickel-iron hydrogenase, large subunit
76 | c1h2aL_ |
| not modelled | 22.1 | 14 | PDB header:oxidoreductase Chain: L: PDB Molecule:hydrogenase; PDBTitle: single crystals of hydrogenase from desulfovibrio vulgaris
77 | d1j3ka_ |
| not modelled | 20.1 | 24 | Fold:Dihydrofolate reductase-like Superfamily:Dihydrofolate reductase-like Family:Dihydrofolate reductases
78 | c3ix9B_ |
| not modelled | 19.3 | 7 | PDB header:oxidoreductase Chain: B: PDB Molecule:dihydrofolate reductase; PDBTitle: crystal structure of streptococcus pneumoniae dihydrofolate2 reductase - sp9 mutant
79 | c3dg8B_ |
| not modelled | 18.8 | 24 | PDB header:oxidoreductase, transferase Chain: B: PDB Molecule:bifunctional dihydrofolate reductase-thymidylate PDBTitle: quadruple mutant (n51i+c59r+s108n+i164l) plasmodium2 falciparum dihydrofolate reductase-thymidylate synthase3 (pfdhfr-ts) complexed with rjf670, nadph, and dump
80 | d2ji7a1 |
| not modelled | 18.7 | 17 | Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain
81 | d1fmta1 |
| not modelled | 18.0 | 13 | Fold:FMT C-terminal domain-like Superfamily:FMT C-terminal domain-like Family:Post formyltransferase domain
82 | c2blcA_ |
| not modelled | 17.7 | 21 | PDB header:oxidoreductase Chain: A: PDB Molecule:dihydrofolate reductase-thymidylate synthase; PDBTitle: sp21 double mutant p. vivax dihydrofolate reductase in2 complex with des-chloropyrimethamine
83 | c1zdrB_ |
| not modelled | 17.7 | 14 | PDB header:oxidoreductase Chain: B: PDB Molecule:dihydrofolate reductase; PDBTitle: dhfr from bacillus stearothermophilus
84 | d2qdya1 |
| not modelled | 17.5 | 20 | Fold:Nitrile hydratase alpha chain Superfamily:Nitrile hydratase alpha chain Family:Nitrile hydratase alpha chain
85 | c2qyaA_ |
| not modelled | 17.4 | 12 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized conserved protein; PDBTitle: crystal structure of an uncharacterized conserved protein2 from methanopyrus kandleri
86 | c1d4fD_ |
| not modelled | 14.8 | 14 | PDB header:hydrolase Chain: D: PDB Molecule:s-adenosylhomocysteine hydrolase; PDBTitle: crystal structure of recombinant rat-liver d244e mutant s-2 adenosylhomocysteine hydrolase
87 | c3qyhG_ |
| not modelled | 14.5 | 11 | PDB header:lyase Chain: G: PDB Molecule:co-type nitrile hydratase alpha subunit; PDBTitle: crystal structure of co-type nitrile hydratase beta-h71l from2 pseudomonas putida.
88 | d1ozha1 |
| not modelled | 14.2 | 17 | Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain
89 | d2djia1 |
| not modelled | 13.8 | 26 | Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain
90 | d1aoea_ |
| not modelled | 13.0 | 21 | Fold:Dihydrofolate reductase-like Superfamily:Dihydrofolate reductase-like Family:Dihydrofolate reductases
91 | d1oj7a_ |
| not modelled | 12.8 | 18 | Fold:Dehydroquinate synthase-like Superfamily:Dehydroquinate synthase-like Family:Iron-containing alcohol dehydrogenase
92 | c2dyoB_ |
| not modelled | 12.3 | 56 | PDB header:protein turnover/protein turnover Chain: B: PDB Molecule:autophagy protein 16; PDBTitle: the crystal structure of saccharomyces cerevisiae atg5-2 atg16(1-57) complex
93 | d1cc1l_ |
| not modelled | 12.2 | 10 | Fold:HydB/Nqo4-like Superfamily:HydB/Nqo4-like Family:Nickel-iron hydrogenase, large subunit
94 | d1jr1a4 |
| not modelled | 12.0 | 29 | Fold:CBS-domain pair Superfamily:CBS-domain pair Family:CBS-domain pair
95 | c3gxxB_ |
| not modelled | 11.9 | 13 | PDB header:transcription Chain: B: PDB Molecule:transcription elongation factor spt6; PDBTitle: structure of the sh2 domain of the candida glabrata2 transcription elongation factor spt6, crystal form b
96 | d2fug41 |
| not modelled | 11.2 | 11 | Fold:HydB/Nqo4-like Superfamily:HydB/Nqo4-like Family:Nqo4-like
97 | c2fug4_ |
| not modelled | 11.2 | 11 | PDB header:oxidoreductase Chain: 4: PDB Molecule:nadh-quinone oxidoreductase chain 4; PDBTitle: crystal structure of the hydrophilic domain of respiratory complex i2 from thermus thermophilus
98 | d1ybha1 |
| not modelled | 11.0 | 22 | Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Pyruvate oxidase and decarboxylase, middle domain
99 | c1b7gO_ |
| not modelled | 11.0 | 19 | PDB header:oxidoreductase Chain: O: PDB Molecule:protein (glyceraldehyde 3-phosphate dehydrogenase); PDBTitle: glyceraldehyde 3-phosphate dehydrogenase

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