Phyre 2 Results for P06988

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Email | l.a.kelley@imperial.ac.uk
Description | P06988
Date | Thu Jan 5 10:59:46 GMT 2012
Unique Job ID | 8791e5b37cf5d74e

Summary |

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

Model (left) based on template d1k75a_
Top template information
Fold:ALDH-like Superfamily:ALDH-like Family:L-histidinol dehydrogenase HisD
Confidence and coverage
Confidence: | 100.0% | Coverage: | 99%
431 residues ( 99% 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 | S | F | N | T | I | I | D | W | N | S | C | T | A | E | Q | Q | R | Q | L | L | M | R | P | A | I | S | A | S | E | S | I | T | R | T | V | N | D | I | L | D | N | V | K | A | R | G | D | E | A | L | R | E | Y | S | A | K | F | D | K
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | T | T | V | T | A | L | K | V | S | A | E | E | I | A | A | A | S | E | R | L | S | D | E | L | K | Q | A | M | A | V | A | V | K | N | I | E | T | F | H | T | A | Q | K | L | P | P | V | D | V | E | T | Q | P | G | V | R | C | Q | Q | V
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  | ? |  |  |  | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | T | R | P | V | A | S | V | G | L | Y | I | P | G | G | S | A | P | L | F | S | T | V | L | M | L | A | T | P | A | S | I | A | G | C | K | K | V | V | L | C | S | P | P | P | I | A | D | E | I | L | Y | A | A | Q | L | C | G | V | Q | D
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | V | F | N | V | G | G | A | Q | A | I | A | A | L | A | F | G | T | E | S | V | P | K | V | D | K | I | F | G | P | G | N | A | F | V | T | E | A | K | R | Q | V | S | Q | R | L | D | G | A | A | I | D | M | P | A | G | P | S | E | V | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | . | . | . | . | . | . | . | . | 290 | . | . | . | . | . | . | . | . | . | 300
Sequence |  | V | I | A | D | S | G | A | T | P | D | F | V | A | S | D | L | L | S | Q | A | E | H | G | P | D | S | Q | V | I | L | L | T | P | A | A | D | M | A | R | R | V | A | E | A | V | E | R | Q | L | A | E | L | P | R | A | E | T | A | R | Q
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 310 | . | . | . | . | . | . | . | . | . | 320 | . | . | . | . | . | . | . | . | . | 330 | . | . | . | . | . | . | . | . | . | 340 | . | . | . | . | . | . | . | . | . | 350 | . | . | . | . | . | . | . | . | . | 360
Sequence |  | A | L | N | A | S | R | L | I | V | T | K | D | L | A | Q | C | V | E | I | S | N | Q | Y | G | P | E | H | L | I | I | Q | T | R | N | A | R | E | L | V | D | S | I | T | S | A | G | S | V | F | L | G | D | W | S | P | E | S | A | G | D
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 370 | . | . | . | . | . | . | . | . | . | 380 | . | . | . | . | . | . | . | . | . | 390 | . | . | . | . | . | . | . | . | . | 400 | . | . | . | . | . | . | . | . | . | 410 | . | . | . | . | . | . | . | . | . | 420
Sequence |  | Y | A | S | G | T | N | H | V | L | P | T | Y | G | Y | T | A | T | C | S | S | L | G | L | A | D | F | Q | K | R | M | T | V | Q | E | L | S | K | E | G | F | S | A | L | A | S | T | I | E | T | L | A | A | A | E | R | L | T | A | H | K
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 430 | . | . | . | .
Sequence |  | N | A | V | T | L | R | V | N | A | L | K | E | Q | A
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 |
| d1k75a_ |

### PDB 1k75 chain A

Region: 4 - 434
Aligned: 431
Modelled: 431
Confidence: 100.0%
Identity: 99%
Fold: ALDH-like
Superfamily: ALDH-like
Family: L-histidinol dehydrogenase HisD

Phyre2
2 |
| c2w8qA_ |

### PDB 2w8q chain A

Region: 9 - 395
Aligned: 341
Modelled: 351
Confidence: 99.1%
Identity: 16%
PDB header:oxidoreductase
Chain: A: PDB Molecule:succinate-semialdehyde dehydrogenase,
PDBTitle: the crystal structure of human ssadh in complex with ssa.

Phyre2
3 |
| d1ky8a_ |

### PDB 1ky8 chain A

Region: 9 - 393
Aligned: 334
Modelled: 349
Confidence: 99.0%
Identity: 18%
Fold: ALDH-like
Superfamily: ALDH-like
Family: ALDH-like

Phyre2
4 |
| d1euha_ |

### PDB 1euh chain A

Region: 9 - 394
Aligned: 343
Modelled: 357
Confidence: 98.9%
Identity: 14%
Fold: ALDH-like
Superfamily: ALDH-like
Family: ALDH-like

Phyre2
5 |
| c3ek1C_ |

### PDB 3ek1 chain C

Region: 9 - 394
Aligned: 337
Modelled: 348
Confidence: 98.9%
Identity: 19%
PDB header:oxidoreductase
Chain: C: PDB Molecule:aldehyde dehydrogenase;
PDBTitle: crystal structure of aldehyde dehydrogenase from brucella2 melitensis biovar abortus 2308

Phyre2
6 |
| c3k2wD_ |

### PDB 3k2w chain D

Region: 9 - 393
Aligned: 338
Modelled: 358
Confidence: 98.9%
Identity: 19%
PDB header:oxidoreductase
Chain: D: PDB Molecule:betaine-aldehyde dehydrogenase;
PDBTitle: crystal structure of betaine-aldehyde dehydrogenase from2 pseudoalteromonas atlantica t6c

Phyre2
7 |
| c3efvC_ |

### PDB 3efv chain C

Region: 9 - 394
Aligned: 336
Modelled: 351
Confidence: 98.8%
Identity: 17%
PDB header:oxidoreductase
Chain: C: PDB Molecule:putative succinate-semialdehyde dehydrogenase;
PDBTitle: crystal structure of a putative succinate-semialdehyde dehydrogenase2 from salmonella typhimurium lt2 with bound nad

Phyre2
8 |
| d1o04a_ |

### PDB 1o04 chain A

Region: 9 - 393
Aligned: 336
Modelled: 349
Confidence: 98.8%
Identity: 17%
Fold: ALDH-like
Superfamily: ALDH-like
Family: ALDH-like

Phyre2
9 |
| c3lnsD_ |

### PDB 3lns chain D

Region: 8 - 393
Aligned: 341
Modelled: 348
Confidence: 98.8%
Identity: 15%
PDB header:oxidoreductase
Chain: D: PDB Molecule:benzaldehyde dehydrogenase;
PDBTitle: benzaldehyde dehydrogenase, a class 3 aldehyde dehydrogenase, with2 bound nadp+ and benzoate adduct

Phyre2
10 |
| c2d4eB_ |

### PDB 2d4e chain B

Region: 9 - 393
Aligned: 337
Modelled: 347
Confidence: 98.8%
Identity: 15%
PDB header:oxidoreductase
Chain: B: PDB Molecule:5-carboxymethyl-2-hydroxymuconate semialdehyde
PDBTitle: crystal structure of the hpcc from thermus thermophilus hb8

Phyre2
11 |
| c3k9dD_ |

### PDB 3k9d chain D

Region: 9 - 394
Aligned: 336
Modelled: 352
Confidence: 98.8%
Identity: 16%
PDB header:oxidoreductase
Chain: D: PDB Molecule:aldehyde dehydrogenase;
PDBTitle: crystal structure of probable aldehyde dehydrogenase from listeria2 monocytogenes egd-e

Phyre2
12 |
| c3jz4C_ |

### PDB 3jz4 chain C

Region: 9 - 393
Aligned: 335
Modelled: 351
Confidence: 98.7%
Identity: 21%
PDB header:oxidoreductase
Chain: C: PDB Molecule:succinate-semialdehyde dehydrogenase [nadp+];
PDBTitle: crystal structure of e. coli nadp dependent enzyme

Phyre2
13 |
| d1ag8a_ |

### PDB 1ag8 chain A

Region: 9 - 393
Aligned: 337
Modelled: 351
Confidence: 98.7%
Identity: 18%
Fold: ALDH-like
Superfamily: ALDH-like
Family: ALDH-like

Phyre2
14 |
| c3prlD_ |

### PDB 3prl chain D

Region: 9 - 393
Aligned: 343
Modelled: 359
Confidence: 98.7%
Identity: 16%
PDB header:oxidoreductase
Chain: D: PDB Molecule:nadp-dependent glyceraldehyde-3-phosphate dehydrogenase;
PDBTitle: crystal structure of nadp-dependent glyceraldehyde-3-phosphate2 dehydrogenase from bacillus halodurans c-125

Phyre2
15 |
| c3rosA_ |

### PDB 3ros chain A

Region: 9 - 398
Aligned: 343
Modelled: 356
Confidence: 98.7%
Identity: 14%
PDB header:oxidoreductase
Chain: A: PDB Molecule:nad-dependent aldehyde dehydrogenase;
PDBTitle: crystal structure of nad-dependent aldehyde dehydrogenase from2 lactobacillus acidophilus

Phyre2
16 |
| d1ad3a_ |

### PDB 1ad3 chain A

Region: 8 - 394
Aligned: 344
Modelled: 358
Confidence: 98.7%
Identity: 14%
Fold: ALDH-like
Superfamily: ALDH-like
Family: ALDH-like

Phyre2
17 |
| c1vluB_ |

### PDB 1vlu chain B

Region: 9 - 360
Aligned: 317
Modelled: 335
Confidence: 98.6%
Identity: 11%
PDB header:oxidoreductase
Chain: B: PDB Molecule:gamma-glutamyl phosphate reductase;
PDBTitle: crystal structure of gamma-glutamyl phosphate reductase (yor323c) from2 saccharomyces cerevisiae at 2.40 a resolution

Phyre2
18 |
| c3r31A_ |

### PDB 3r31 chain A

Region: 9 - 393
Aligned: 334
Modelled: 353
Confidence: 98.6%
Identity: 16%
PDB header:oxidoreductase
Chain: A: PDB Molecule:betaine aldehyde dehydrogenase;
PDBTitle: crystal structure of betaine aldehyde dehydrogenase from agrobacterium2 tumefaciens

Phyre2
19 |
| d1a4sa_ |

### PDB 1a4s chain A

Region: 9 - 393
Aligned: 336
Modelled: 347
Confidence: 98.6%
Identity: 16%
Fold: ALDH-like
Superfamily: ALDH-like
Family: ALDH-like

Phyre2
20 |
| c2hg2A_ |

### PDB 2hg2 chain A

Region: 9 - 393
Aligned: 337
Modelled: 349
Confidence: 98.6%
Identity: 16%
PDB header:oxidoreductase
Chain: A: PDB Molecule:aldehyde dehydrogenase a;
PDBTitle: structure of lactaldehyde dehydrogenase

Phyre2
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87 |
88 |
89 |
90 |
91 |
92 |
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96 |
97 |
98 |
99 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1k75a_ |
|  | 100.0 | 99 | Fold:ALDH-like Superfamily:ALDH-like Family:L-histidinol dehydrogenase HisD
2 | c2w8qA_ |
|  | 99.1 | 16 | PDB header:oxidoreductase Chain: A: PDB Molecule:succinate-semialdehyde dehydrogenase, PDBTitle: the crystal structure of human ssadh in complex with ssa.
3 | d1ky8a_ |
|  | 99.0 | 18 | Fold:ALDH-like Superfamily:ALDH-like Family:ALDH-like
4 | d1euha_ |
|  | 98.9 | 14 | Fold:ALDH-like Superfamily:ALDH-like Family:ALDH-like
5 | c3ek1C_ |
|  | 98.9 | 19 | PDB header:oxidoreductase Chain: C: PDB Molecule:aldehyde dehydrogenase; PDBTitle: crystal structure of aldehyde dehydrogenase from brucella2 melitensis biovar abortus 2308
6 | c3k2wD_ |
|  | 98.9 | 19 | PDB header:oxidoreductase Chain: D: PDB Molecule:betaine-aldehyde dehydrogenase; PDBTitle: crystal structure of betaine-aldehyde dehydrogenase from2 pseudoalteromonas atlantica t6c
7 | c3efvC_ |
|  | 98.8 | 17 | PDB header:oxidoreductase Chain: C: PDB Molecule:putative succinate-semialdehyde dehydrogenase; PDBTitle: crystal structure of a putative succinate-semialdehyde dehydrogenase2 from salmonella typhimurium lt2 with bound nad
8 | d1o04a_ |
|  | 98.8 | 17 | Fold:ALDH-like Superfamily:ALDH-like Family:ALDH-like
9 | c3lnsD_ |
|  | 98.8 | 15 | PDB header:oxidoreductase Chain: D: PDB Molecule:benzaldehyde dehydrogenase; PDBTitle: benzaldehyde dehydrogenase, a class 3 aldehyde dehydrogenase, with2 bound nadp+ and benzoate adduct
10 | c2d4eB_ |
|  | 98.8 | 15 | PDB header:oxidoreductase Chain: B: PDB Molecule:5-carboxymethyl-2-hydroxymuconate semialdehyde PDBTitle: crystal structure of the hpcc from thermus thermophilus hb8
11 | c3k9dD_ |
|  | 98.8 | 16 | PDB header:oxidoreductase Chain: D: PDB Molecule:aldehyde dehydrogenase; PDBTitle: crystal structure of probable aldehyde dehydrogenase from listeria2 monocytogenes egd-e
12 | c3jz4C_ |
|  | 98.7 | 21 | PDB header:oxidoreductase Chain: C: PDB Molecule:succinate-semialdehyde dehydrogenase [nadp+]; PDBTitle: crystal structure of e. coli nadp dependent enzyme
13 | d1ag8a_ |
|  | 98.7 | 18 | Fold:ALDH-like Superfamily:ALDH-like Family:ALDH-like
14 | c3prlD_ |
|  | 98.7 | 16 | PDB header:oxidoreductase Chain: D: PDB Molecule:nadp-dependent glyceraldehyde-3-phosphate dehydrogenase; PDBTitle: crystal structure of nadp-dependent glyceraldehyde-3-phosphate2 dehydrogenase from bacillus halodurans c-125
15 | c3rosA_ |
|  | 98.7 | 14 | PDB header:oxidoreductase Chain: A: PDB Molecule:nad-dependent aldehyde dehydrogenase; PDBTitle: crystal structure of nad-dependent aldehyde dehydrogenase from2 lactobacillus acidophilus
16 | d1ad3a_ |
|  | 98.7 | 14 | Fold:ALDH-like Superfamily:ALDH-like Family:ALDH-like
17 | c1vluB_ |
|  | 98.6 | 11 | PDB header:oxidoreductase Chain: B: PDB Molecule:gamma-glutamyl phosphate reductase; PDBTitle: crystal structure of gamma-glutamyl phosphate reductase (yor323c) from2 saccharomyces cerevisiae at 2.40 a resolution
18 | c3r31A_ |
|  | 98.6 | 16 | PDB header:oxidoreductase Chain: A: PDB Molecule:betaine aldehyde dehydrogenase; PDBTitle: crystal structure of betaine aldehyde dehydrogenase from agrobacterium2 tumefaciens
19 | d1a4sa_ |
|  | 98.6 | 16 | Fold:ALDH-like Superfamily:ALDH-like Family:ALDH-like
20 | c2hg2A_ |
|  | 98.6 | 16 | PDB header:oxidoreductase Chain: A: PDB Molecule:aldehyde dehydrogenase a; PDBTitle: structure of lactaldehyde dehydrogenase
21 | c3iwkB_ |
| not modelled | 98.6 | 17 | PDB header:oxidoreductase Chain: B: PDB Molecule:aminoaldehyde dehydrogenase; PDBTitle: crystal structure of aminoaldehyde dehydrogenase 1 from2 pisum sativum (psamadh1)
22 | c3ed6B_ |
| not modelled | 98.6 | 17 | PDB header:oxidoreductase Chain: B: PDB Molecule:betaine aldehyde dehydrogenase; PDBTitle: 1.7 angstrom resolution crystal structure of betaine aldehyde2 dehydrogenase (betb) from staphylococcus aureus
23 | d1bxsa_ |
| not modelled | 98.6 | 15 | Fold:ALDH-like Superfamily:ALDH-like Family:ALDH-like
24 | c3ifgH_ |
| not modelled | 98.6 | 18 | PDB header:oxidoreductase Chain: H: PDB Molecule:succinate-semialdehyde dehydrogenase (nadp+); PDBTitle: crystal structure of succinate-semialdehyde dehydrogenase from2 burkholderia pseudomallei, part 1 of 2
25 | c3pqaA_ |
| not modelled | 98.5 | 18 | PDB header:oxidoreductase Chain: A: PDB Molecule:lactaldehyde dehydrogenase; PDBTitle: crystal structure of glyceraldehyde-3-phosphate dehydrogenase gapn2 from methanocaldococcus jannaschii dsm 2661
26 | d1o20a_ |
| not modelled | 98.4 | 13 | Fold:ALDH-like Superfamily:ALDH-like Family:ALDH-like
27 | c2jg7G_ |
| not modelled | 98.4 | 18 | PDB header:oxidoreductase Chain: G: PDB Molecule:antiquitin; PDBTitle: crystal structure of seabream antiquitin and elucidation of2 its substrate specificity
28 | c3rh9A_ |
| not modelled | 98.4 | 16 | PDB header:oxidoreductase Chain: A: PDB Molecule:succinate-semialdehyde dehydrogenase (nad(p)(+)); PDBTitle: the crystal structure of oxidoreductase from marinobacter aquaeolei
29 | d1uzba_ |
| not modelled | 98.4 | 21 | Fold:ALDH-like Superfamily:ALDH-like Family:ALDH-like
30 | c3r64A_ |
| not modelled | 98.4 | 16 | PDB header:oxidoreductase Chain: A: PDB Molecule:nad dependent benzaldehyde dehydrogenase; PDBTitle: crystal structure of a nad-dependent benzaldehyde dehydrogenase from2 corynebacterium glutamicum
31 | c3v4cB_ |
| not modelled | 98.4 | 16 | PDB header:oxidoreductase Chain: B: PDB Molecule:aldehyde dehydrogenase (nadp+); PDBTitle: crystal structure of a semialdehyde dehydrogenase from sinorhizobium2 meliloti 1021
32 | d1o9ja_ |
| not modelled | 98.3 | 16 | Fold:ALDH-like Superfamily:ALDH-like Family:ALDH-like
33 | c2o2qA_ |
| not modelled | 98.3 | 17 | PDB header:oxidoreductase Chain: A: PDB Molecule:formyltetrahydrofolate dehydrogenase; PDBTitle: crystal structure of the c-terminal domain of rat2 10'formyltetrahydrofolate dehydrogenase in complex with nadp
34 | c3b4wA_ |
| not modelled | 98.3 | 16 | PDB header:oxidoreductase Chain: A: PDB Molecule:aldehyde dehydrogenase; PDBTitle: crystal structure of mycobacterium tuberculosis aldehyde dehydrogenase2 complexed with nad+
35 | d1wnda_ |
| not modelled | 98.2 | 18 | Fold:ALDH-like Superfamily:ALDH-like Family:ALDH-like
36 | c3i44A_ |
| not modelled | 98.2 | 16 | PDB header:oxidoreductase Chain: A: PDB Molecule:aldehyde dehydrogenase; PDBTitle: crystal structure of aldehyde dehydrogenase from bartonella2 henselae at 2.0a resolution
37 | c3qanB_ |
| not modelled | 98.2 | 18 | PDB header:oxidoreductase Chain: B: PDB Molecule:1-pyrroline-5-carboxylate dehydrogenase 1; PDBTitle: crystal structure of 1-pyrroline-5-carboxylate dehydrogenase from2 bacillus halodurans
38 | c3ju8B_ |
| not modelled | 98.2 | 16 | PDB header:oxidoreductase Chain: B: PDB Molecule:succinylglutamic semialdehyde dehydrogenase; PDBTitle: crystal structure of succinylglutamic semialdehyde dehydrogenase from2 pseudomonas aeruginosa.
39 | c1t90B_ |
| not modelled | 98.1 | 19 | PDB header:oxidoreductase Chain: B: PDB Molecule:probable methylmalonate-semialdehyde PDBTitle: crystal structure of methylmalonate semialdehyde2 dehydrogenase from bacillus subtilis
40 | d1vlua_ |
| not modelled | 98.1 | 12 | Fold:ALDH-like Superfamily:ALDH-like Family:ALDH-like
41 | d1bi9a_ |
| not modelled | 98.1 | 15 | Fold:ALDH-like Superfamily:ALDH-like Family:ALDH-like
42 | c2ve5H_ |
| not modelled | 98.1 | 17 | PDB header:oxidoreductase Chain: H: PDB Molecule:betaine aldehyde dehydrogenase; PDBTitle: crystallographic structure of betaine aldehyde2 dehydrogenase from pseudomonas aeruginosa
43 | c3hazA_ |
| not modelled | 98.0 | 21 | PDB header:oxidoreductase Chain: A: PDB Molecule:proline dehydrogenase; PDBTitle: crystal structure of bifunctional proline utilization a2 (puta) protein
44 | c2h5gA_ |
| not modelled | 97.9 | 13 | PDB header:oxidoreductase Chain: A: PDB Molecule:delta 1-pyrroline-5-carboxylate synthetase; PDBTitle: crystal structure of human pyrroline-5-carboxylate synthetase
45 | c3my7A_ |
| not modelled | 97.8 | 16 | PDB header:oxidoreductase Chain: A: PDB Molecule:alcohol dehydrogenase/acetaldehyde dehydrogenase; PDBTitle: the crystal structure of the acdh domain of an alcohol dehydrogenase2 from vibrio parahaemolyticus to 2.25a
46 | d1ez0a_ |
| not modelled | 97.5 | 14 | Fold:ALDH-like Superfamily:ALDH-like Family:ALDH-like
47 | c2vroB_ |
| not modelled | 96.2 | 16 | PDB header:oxidoreductase Chain: B: PDB Molecule:aldehyde dehydrogenase; PDBTitle: crystal structure of aldehyde dehydrogenase from2 burkholderia xenovorans lb400
48 | c2ax3A_ |
| not modelled | 81.9 | 18 | PDB header:transferase Chain: A: PDB Molecule:hypothetical protein tm0922; PDBTitle: crystal structure of a putative carbohydrate kinase (tm0922) from2 thermotoga maritima msb8 at 2.25 a resolution
49 | d2csua2 |
| not modelled | 80.3 | 13 | Fold:Flavodoxin-like Superfamily:Succinyl-CoA synthetase domains Family:Succinyl-CoA synthetase domains
50 | d1jcea1 |
| not modelled | 66.0 | 34 | Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70
51 | d2e8aa1 |
| not modelled | 59.4 | 23 | Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70
52 | d1bupa1 |
| not modelled | 58.5 | 23 | Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70
53 | c1e1cA_ |
| not modelled | 58.5 | 20 | PDB header:isomerase Chain: A: PDB Molecule:methylmalonyl-coa mutase alpha chain; PDBTitle: methylmalonyl-coa mutase h244a mutant
54 | d3bc8a1 |
| not modelled | 48.7 | 9 | Fold:PLP-dependent transferase-like Superfamily:PLP-dependent transferases Family:SepSecS-like
55 | c2q8nB_ |
| not modelled | 42.2 | 14 | PDB header:isomerase Chain: B: PDB Molecule:glucose-6-phosphate isomerase; PDBTitle: crystal structure of glucose-6-phosphate isomerase (ec2 5.3.1.9) (tm1385) from thermotoga maritima at 1.82 a3 resolution
56 | c3ljkA_ |
| not modelled | 37.8 | 16 | PDB header:isomerase Chain: A: PDB Molecule:glucose-6-phosphate isomerase; PDBTitle: glucose-6-phosphate isomerase from francisella tularensis.
57 | d1oi7a2 |
| not modelled | 37.6 | 15 | Fold:Flavodoxin-like Superfamily:Succinyl-CoA synthetase domains Family:Succinyl-CoA synthetase domains
58 | c2duwA_ |
| not modelled | 36.2 | 12 | PDB header:ligand binding protein Chain: A: PDB Molecule:putative coa-binding protein; PDBTitle: solution structure of putative coa-binding protein of2 klebsiella pneumoniae
59 | c3ic5A_ |
| not modelled | 35.6 | 23 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative saccharopine dehydrogenase; PDBTitle: n-terminal domain of putative saccharopine dehydrogenase from ruegeria2 pomeroyi.
60 | c2csuB_ |
| not modelled | 32.5 | 13 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:457aa long hypothetical protein; PDBTitle: crystal structure of ph0766 from pyrococcus horikoshii ot3
61 | c2dc0A_ |
| not modelled | 32.3 | 14 | PDB header:hydrolase Chain: A: PDB Molecule:probable amidase; PDBTitle: crystal structure of amidase
62 | d1vdra_ |
| not modelled | 31.0 | 18 | Fold:Dihydrofolate reductase-like Superfamily:Dihydrofolate reductase-like Family:Dihydrofolate reductases
63 | d1mt5a_ |
| not modelled | 30.9 | 13 | Fold:Amidase signature (AS) enzymes Superfamily:Amidase signature (AS) enzymes Family:Amidase signature (AS) enzymes
64 | c3ketA_ |
| not modelled | 30.8 | 17 | PDB header:transcription/dna Chain: A: PDB Molecule:redox-sensing transcriptional repressor rex; PDBTitle: crystal structure of a rex-family transcriptional regulatory protein2 from streptococcus agalactiae bound to a palindromic operator
65 | d2dt5a2 |
| not modelled | 29.2 | 15 | Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Transcriptional repressor Rex, C-terminal domain
66 | c3jstA_ |
| not modelled | 27.9 | 14 | PDB header:lyase Chain: A: PDB Molecule:putative pterin-4-alpha-carbinolamine dehydratase; PDBTitle: crystal structure of transcriptional coactivator/pterin dehydratase2 from brucella melitensis
67 | d1ulza2 |
| not modelled | 27.3 | 27 | Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:BC N-terminal domain-like
68 | d1dkgd1 |
| not modelled | 26.9 | 25 | Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70
69 | d1xpma1 |
| not modelled | 25.1 | 13 | Fold:Thiolase-like Superfamily:Thiolase-like Family:Chalcone synthase-like
70 | c2khoA_ |
| not modelled | 24.7 | 25 | PDB header:chaperone Chain: A: PDB Molecule:heat shock protein 70; PDBTitle: nmr-rdc / xray structure of e. coli hsp70 (dnak) chaperone2 (1-605) complexed with adp and substrate
71 | c3lehA_ |
| not modelled | 24.7 | 13 | PDB header:transferase Chain: A: PDB Molecule:putative hydroxymethylglutaryl-coa synthase; PDBTitle: the crystal structure of smu.943c from streptococcus mutans ua159
72 | c1x9eB_ |
| not modelled | 24.4 | 14 | PDB header:lyase Chain: B: PDB Molecule:hmg-coa synthase; PDBTitle: crystal structure of hmg-coa synthase from enterococcus2 faecalis
73 | d2iela1 |
| not modelled | 24.1 | 29 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:Universal stress protein-like
74 | d1sp8a1 |
| not modelled | 23.7 | 16 | Fold:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Superfamily:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Family:Extradiol dioxygenases
75 | c3ilmD_ |
| not modelled | 23.7 | 19 | PDB header:structural genomics, unknown function Chain: D: PDB Molecule:alr3790 protein; PDBTitle: crystal structure of the alr3790 protein from anabaena sp. northeast2 structural genomics consortium target nsr437h
76 | c2vyaB_ |
| not modelled | 21.9 | 13 | PDB header:hydrolase Chain: B: PDB Molecule:fatty-acid amide hydrolase 1; PDBTitle: crystal structure of fatty acid amide hydrolase conjugated2 with the drug-like inhibitor pf-750
77 | d1k1va_ |
| not modelled | 21.2 | 11 | Fold:A DNA-binding domain in eukaryotic transcription factors Superfamily:A DNA-binding domain in eukaryotic transcription factors Family:A DNA-binding domain in eukaryotic transcription factors
78 | d1oi7a1 |
| not modelled | 20.1 | 17 | Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:CoA-binding domain
79 | d2j9ga2 |
| not modelled | 19.3 | 19 | Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:BC N-terminal domain-like
80 | c3ff1B_ |
| not modelled | 19.2 | 24 | PDB header:isomerase Chain: B: PDB Molecule:glucose-6-phosphate isomerase; PDBTitle: structure of glucose 6-phosphate isomerase from staphylococcus aureus
81 | d1iuka_ |
| not modelled | 18.5 | 15 | Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:CoA-binding domain
82 | c3mogA_ |
| not modelled | 18.2 | 13 | PDB header:oxidoreductase Chain: A: PDB Molecule:probable 3-hydroxybutyryl-coa dehydrogenase; PDBTitle: crystal structure of 3-hydroxybutyryl-coa dehydrogenase from2 escherichia coli k12 substr. mg1655
83 | c2ebbA_ |
| not modelled | 18.0 | 21 | PDB header:lyase Chain: A: PDB Molecule:pterin-4-alpha-carbinolamine dehydratase; PDBTitle: crystal structure of pterin-4-alpha-carbinolamine2 dehydratase (pterin carbinolamine dehydratase) from3 geobacillus kaustophilus hta426
84 | d1y81a1 |
| not modelled | 17.7 | 16 | Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:CoA-binding domain
85 | c3h0rP_ |
| not modelled | 17.6 | 11 | PDB header:ligase Chain: P: PDB Molecule:glutamyl-trna(gln) amidotransferase subunit a; PDBTitle: structure of trna-dependent amidotransferase gatcab from2 aquifex aeolicus
86 | c2dt5A_ |
| not modelled | 17.5 | 13 | PDB header:dna binding protein Chain: A: PDB Molecule:at-rich dna-binding protein; PDBTitle: crystal structure of ttha1657 (at-rich dna-binding protein) from2 thermus thermophilus hb8
87 | c1txtB_ |
| not modelled | 17.1 | 13 | PDB header:lyase Chain: B: PDB Molecule:3-hydroxy-3-methylglutaryl-coa synthase; PDBTitle: staphylococcus aureus 3-hydroxy-3-methylglutaryl-coa2 synthase
88 | c1zcjA_ |
| not modelled | 17.1 | 10 | PDB header:oxidoreductase Chain: A: PDB Molecule:peroxisomal bifunctional enzyme; PDBTitle: crystal structure of 3-hydroxyacyl-coa dehydrogenase
89 | c3hl2D_ |
| not modelled | 17.0 | 11 | PDB header:transferase Chain: D: PDB Molecule:o-phosphoseryl-trna(sec) selenium transferase; PDBTitle: the crystal structure of the human sepsecs-trnasec complex
90 | d1sqda1 |
| not modelled | 16.8 | 13 | Fold:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Superfamily:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Family:Extradiol dioxygenases
91 | c3k2gA_ |
| not modelled | 16.2 | 22 | PDB header:resiniferatoxin binding protein Chain: A: PDB Molecule:resiniferatoxin-binding, phosphotriesterase- PDBTitle: crystal structure of a resiniferatoxin-binding protein from2 rhodobacter sphaeroides
92 | d1sqia1 |
| not modelled | 16.1 | 7 | Fold:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Superfamily:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Family:Extradiol dioxygenases
93 | d1euca1 |
| not modelled | 15.9 | 31 | Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:CoA-binding domain
94 | c2kw3A_ |
| not modelled | 15.8 | 31 | PDB header:dna binding protein Chain: A: PDB Molecule:dna-binding protein rfx5; PDBTitle: heterotrimeric interaction between rfx5 and rfxap
95 | c3nkgA_ |
| not modelled | 15.4 | 16 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein geba250068378; PDBTitle: crystal structure of geba250068378 from sulfurospirillum deleyianum
96 | c3en0A_ |
| not modelled | 14.9 | 15 | PDB header:hydrolase Chain: A: PDB Molecule:cyanophycinase; PDBTitle: the structure of cyanophycinase
97 | c3tl8K_ |
| not modelled | 14.8 | 18 | PDB header:transferase/ligase Chain: K: PDB Molecule:effector protein hopab2; PDBTitle: the avrptob-bak1 complex reveals two structurally similar2 kinaseinteracting domains in a single type iii effector
98 | d2gi3a1 |
| not modelled | 14.8 | 17 | Fold:Amidase signature (AS) enzymes Superfamily:Amidase signature (AS) enzymes Family:Amidase signature (AS) enzymes
99 | c2v6uB_ |
| not modelled | 14.6 | 10 | PDB header:lyase Chain: B: PDB Molecule:pterin-4a-carbinolamine dehydratase; PDBTitle: high resolution crystal structure of pterin-4a-2 carbinolamine dehydratase from toxoplasma gondii

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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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