Phyre 2 Results for P75682

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Email | l.a.kelley@imperial.ac.uk
Description | P75682
Date | Thu Jan 5 12:13:03 GMT 2012
Unique Job ID | 680ddef5808403e7

Summary |

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

Model (left) based on template c2v9dB_
Top template information
PDB header:lyase Chain: B: PDB Molecule:yage; PDBTitle: crystal structure of yage, a prophage protein belonging to2 the dihydrodipicolinic acid synthase family from e. coli3 k12
Confidence and coverage
Confidence: | 100.0% | Coverage: | 99%
298 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 | P | Q | S | A | L | F | T | G | I | I | P | P | V | S | T | I | F | T | A | D | G | Q | L | D | K | P | G | T | A | A | L | I | D | D | L | I | K | A | G | V | D | G | L | F | F | L | G | S | G | G | E | F | S | Q | L | G | A | E | E
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | R | K | A | I | A | R | F | A | I | D | H | V | D | R | R | V | P | V | L | I | G | T | G | G | T | N | A | R | E | T | I | E | L | S | Q | H | A | Q | Q | A | G | A | D | G | I | V | V | I | N | P | Y | Y | W | K | V | S | E | A | N | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | I | R | Y | F | E | Q | V | A | D | S | V | T | L | P | V | M | L | Y | N | F | P | A | L | T | G | Q | D | L | T | P | A | L | V | K | T | L | A | D | S | R | S | N | I | I | G | I | K | D | T | I | D | S | V | A | H | L | R | S | M | I
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | H | T | V | K | G | A | H | P | H | F | T | V | L | C | G | Y | D | D | H | L | F | N | T | L | L | L | G | G | D | G | A | I | S | A | S | G | N | F | A | P | Q | V | S | V | N | L | L | K | A | W | R | D | G | D | V | A | K | A | A | G
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | . | . | . | . | . | . | . | . | 290 | . | . | . | . | . | . | . | . | . | 300
Sequence |  | Y | H | Q | T | L | L | Q | I | P | Q | M | Y | Q | L | D | T | P | F | V | N | V | I | K | E | A | I | V | L | C | G | R | P | V | S | T | H | V | L | P | P | A | S | P | L | D | E | P | R | K | A | Q | L | K | T | L | L | Q | Q | L | K
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | .
Sequence |  | L | C
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 |
| c2v9dB_ |

### PDB 2v9d chain B

Region: 5 - 302
Aligned: 298
Modelled: 298
Confidence: 100.0%
Identity: 99%
PDB header:lyase
Chain: B: PDB Molecule:yage;
PDBTitle: crystal structure of yage, a prophage protein belonging to2 the dihydrodipicolinic acid synthase family from e. coli3 k12

Phyre2
2 |
| c3n2xB_ |

### PDB 3n2x chain B

Region: 5 - 302
Aligned: 297
Modelled: 298
Confidence: 100.0%
Identity: 100%
PDB header:lyase
Chain: B: PDB Molecule:uncharacterized protein yage;
PDBTitle: crystal structure of yage, a prophage protein belonging to the2 dihydrodipicolinic acid synthase family from e. coli k12 in complex3 with pyruvate

Phyre2
3 |
| c3g0sA_ |

### PDB 3g0s chain A

Region: 3 - 301
Aligned: 294
Modelled: 296
Confidence: 100.0%
Identity: 28%
PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: dihydrodipicolinate synthase from salmonella typhimurium lt2

Phyre2
4 |
| d2a6na1 |

### PDB 2a6n chain A domain 1

Region: 6 - 301
Aligned: 291
Modelled: 293
Confidence: 100.0%
Identity: 29%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2
5 |
| c3si9B_ |

### PDB 3si9 chain B

Region: 5 - 301
Aligned: 292
Modelled: 294
Confidence: 100.0%
Identity: 28%
PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from bartonella2 henselae

Phyre2
6 |
| d1xxxa1 |

### PDB 1xxx chain A domain 1

Region: 1 - 301
Aligned: 293
Modelled: 301
Confidence: 100.0%
Identity: 25%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2
7 |
| c3fluD_ |

### PDB 3flu chain D

Region: 5 - 301
Aligned: 291
Modelled: 297
Confidence: 100.0%
Identity: 32%
PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from the pathogen2 neisseria meningitidis

Phyre2
8 |
| c3noeA_ |

### PDB 3noe chain A

Region: 6 - 301
Aligned: 290
Modelled: 296
Confidence: 100.0%
Identity: 30%
PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from pseudomonas2 aeruginosa

Phyre2
9 |
| c3bi8A_ |

### PDB 3bi8 chain A

Region: 5 - 301
Aligned: 290
Modelled: 297
Confidence: 100.0%
Identity: 30%
PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: structure of dihydrodipicolinate synthase from clostridium2 botulinum

Phyre2
10 |
| d1o5ka_ |

### PDB 1o5k chain A

Region: 6 - 301
Aligned: 292
Modelled: 296
Confidence: 100.0%
Identity: 27%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2
11 |
| c2ehhE_ |

### PDB 2ehh chain E

Region: 6 - 301
Aligned: 290
Modelled: 296
Confidence: 100.0%
Identity: 27%
PDB header:lyase
Chain: E: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 aquifex aeolicus

Phyre2
12 |
| c3pueA_ |

### PDB 3pue chain A

Region: 7 - 301
Aligned: 289
Modelled: 295
Confidence: 100.0%
Identity: 29%
PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of the complex of dhydrodipicolinate synthase from2 acinetobacter baumannii with lysine at 2.6a resolution

Phyre2
13 |
| c2r8wB_ |

### PDB 2r8w chain B

Region: 2 - 300
Aligned: 296
Modelled: 297
Confidence: 100.0%
Identity: 24%
PDB header:lyase
Chain: B: PDB Molecule:agr_c_1641p;
PDBTitle: the crystal structure of dihydrodipicolinate synthase (atu0899) from2 agrobacterium tumefaciens str. c58

Phyre2
14 |
| d1hl2a_ |

### PDB 1hl2 chain A

Region: 5 - 299
Aligned: 289
Modelled: 295
Confidence: 100.0%
Identity: 25%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2
15 |
| c3eb2A_ |

### PDB 3eb2 chain A

Region: 7 - 299
Aligned: 287
Modelled: 293
Confidence: 100.0%
Identity: 29%
PDB header:lyase
Chain: A: PDB Molecule:putative dihydrodipicolinate synthetase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 rhodopseudomonas palustris at 2.0a resolution

Phyre2
16 |
| d1xkya1 |

### PDB 1xky chain A domain 1

Region: 5 - 299
Aligned: 289
Modelled: 295
Confidence: 100.0%
Identity: 29%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2
17 |
| c2yxgD_ |

### PDB 2yxg chain D

Region: 7 - 301
Aligned: 287
Modelled: 290
Confidence: 100.0%
Identity: 34%
PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihyrodipicolinate synthase (dapa)

Phyre2
18 |
| d1f74a_ |

### PDB 1f74 chain A

Region: 1 - 301
Aligned: 291
Modelled: 301
Confidence: 100.0%
Identity: 24%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2
19 |
| c3lciA_ |

### PDB 3lci chain A

Region: 7 - 299
Aligned: 287
Modelled: 293
Confidence: 100.0%
Identity: 25%
PDB header:lyase
Chain: A: PDB Molecule:n-acetylneuraminate lyase;
PDBTitle: the d-sialic acid aldolase mutant v251w

Phyre2
20 |
| c2rfgB_ |

### PDB 2rfg chain B

Region: 6 - 300
Aligned: 288
Modelled: 295
Confidence: 100.0%
Identity: 31%
PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from hahella2 chejuensis at 1.5a resolution

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c2v9dB_ |
|  | 100.0 | 99 | PDB header:lyase Chain: B: PDB Molecule:yage; PDBTitle: crystal structure of yage, a prophage protein belonging to2 the dihydrodipicolinic acid synthase family from e. coli3 k12
2 | c3n2xB_ |
|  | 100.0 | 100 | PDB header:lyase Chain: B: PDB Molecule:uncharacterized protein yage; PDBTitle: crystal structure of yage, a prophage protein belonging to the2 dihydrodipicolinic acid synthase family from e. coli k12 in complex3 with pyruvate
3 | c3g0sA_ |
|  | 100.0 | 28 | PDB header:lyase Chain: A: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: dihydrodipicolinate synthase from salmonella typhimurium lt2
4 | d2a6na1 |
|  | 100.0 | 29 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase
5 | c3si9B_ |
|  | 100.0 | 28 | PDB header:lyase Chain: B: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from bartonella2 henselae
6 | d1xxxa1 |
|  | 100.0 | 25 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase
7 | c3fluD_ |
|  | 100.0 | 32 | PDB header:lyase Chain: D: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from the pathogen2 neisseria meningitidis
8 | c3noeA_ |
|  | 100.0 | 30 | PDB header:lyase Chain: A: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from pseudomonas2 aeruginosa
9 | c3bi8A_ |
|  | 100.0 | 30 | PDB header:lyase Chain: A: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: structure of dihydrodipicolinate synthase from clostridium2 botulinum
10 | d1o5ka_ |
|  | 100.0 | 27 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase
11 | c2ehhE_ |
|  | 100.0 | 27 | PDB header:lyase Chain: E: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from2 aquifex aeolicus
12 | c3pueA_ |
|  | 100.0 | 29 | PDB header:lyase Chain: A: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of the complex of dhydrodipicolinate synthase from2 acinetobacter baumannii with lysine at 2.6a resolution
13 | c2r8wB_ |
|  | 100.0 | 24 | PDB header:lyase Chain: B: PDB Molecule:agr_c_1641p; PDBTitle: the crystal structure of dihydrodipicolinate synthase (atu0899) from2 agrobacterium tumefaciens str. c58
14 | d1hl2a_ |
|  | 100.0 | 25 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase
15 | c3eb2A_ |
|  | 100.0 | 29 | PDB header:lyase Chain: A: PDB Molecule:putative dihydrodipicolinate synthetase; PDBTitle: crystal structure of dihydrodipicolinate synthase from2 rhodopseudomonas palustris at 2.0a resolution
16 | d1xkya1 |
|  | 100.0 | 29 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase
17 | c2yxgD_ |
|  | 100.0 | 34 | PDB header:lyase Chain: D: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihyrodipicolinate synthase (dapa)
18 | d1f74a_ |
|  | 100.0 | 24 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase
19 | c3lciA_ |
|  | 100.0 | 25 | PDB header:lyase Chain: A: PDB Molecule:n-acetylneuraminate lyase; PDBTitle: the d-sialic acid aldolase mutant v251w
20 | c2rfgB_ |
|  | 100.0 | 31 | PDB header:lyase Chain: B: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from hahella2 chejuensis at 1.5a resolution
21 | c2vc6A_ |
| not modelled | 100.0 | 25 | PDB header:lyase Chain: A: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: structure of mosa from s. meliloti with pyruvate bound
22 | c3na8A_ |
| not modelled | 100.0 | 27 | PDB header:lyase Chain: A: PDB Molecule:putative dihydrodipicolinate synthetase; PDBTitle: crystal structure of a putative dihydrodipicolinate synthetase from2 pseudomonas aeruginosa
23 | c3s5oA_ |
| not modelled | 100.0 | 26 | PDB header:lyase Chain: A: PDB Molecule:4-hydroxy-2-oxoglutarate aldolase, mitochondrial; PDBTitle: crystal structure of human 4-hydroxy-2-oxoglutarate aldolase bound to2 pyruvate
24 | c3cprB_ |
| not modelled | 100.0 | 25 | PDB header:lyase Chain: B: PDB Molecule:dihydrodipicolinate synthetase; PDBTitle: the crystal structure of corynebacterium glutamicum2 dihydrodipicolinate synthase to 2.2 a resolution
25 | c3lerA_ |
| not modelled | 100.0 | 26 | PDB header:lyase Chain: A: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from2 campylobacter jejuni subsp. jejuni nctc 11168
26 | c3h5dD_ |
| not modelled | 100.0 | 26 | PDB header:lyase Chain: D: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: dihydrodipicolinate synthase from drug-resistant streptococcus2 pneumoniae
27 | c3daqB_ |
| not modelled | 100.0 | 27 | PDB header:lyase Chain: B: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from methicillin-2 resistant staphylococcus aureus
28 | c3fkkA_ |
| not modelled | 100.0 | 26 | PDB header:lyase Chain: A: PDB Molecule:l-2-keto-3-deoxyarabonate dehydratase; PDBTitle: structure of l-2-keto-3-deoxyarabonate dehydratase
29 | c3dz1A_ |
| not modelled | 100.0 | 19 | PDB header:lyase Chain: A: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from2 rhodopseudomonas palustris at 1.87a resolution
30 | c3e96B_ |
| not modelled | 100.0 | 23 | PDB header:lyase Chain: B: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from2 bacillus clausii
31 | d1w3ia_ |
| not modelled | 100.0 | 27 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase
32 | c3d0cB_ |
| not modelled | 100.0 | 23 | PDB header:lyase Chain: B: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from2 oceanobacillus iheyensis at 1.9 a resolution
33 | c2r94B_ |
| not modelled | 100.0 | 29 | PDB header:lyase Chain: B: PDB Molecule:2-keto-3-deoxy-(6-phospho-)gluconate aldolase; PDBTitle: crystal structure of kd(p)ga from t.tenax
34 | c3qfeB_ |
| not modelled | 100.0 | 26 | PDB header:lyase Chain: B: PDB Molecule:putative dihydrodipicolinate synthase family protein; PDBTitle: crystal structures of a putative dihydrodipicolinate synthase family2 protein from coccidioides immitis
35 | c2hmcA_ |
| not modelled | 100.0 | 21 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: the crystal structure of dihydrodipicolinate synthase dapa from2 agrobacterium tumefaciens
36 | c2nuxB_ |
| not modelled | 100.0 | 25 | PDB header:lyase Chain: B: PDB Molecule:2-keto-3-deoxygluconate/2-keto-3-deoxy-6-phospho gluconate PDBTitle: 2-keto-3-deoxygluconate aldolase from sulfolobus acidocaldarius,2 native structure in p6522 at 2.5 a resolution
37 | c3b4uB_ |
| not modelled | 100.0 | 24 | PDB header:lyase Chain: B: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from agrobacterium2 tumefaciens str. c58
38 | c2pcqA_ |
| not modelled | 100.0 | 29 | PDB header:lyase Chain: A: PDB Molecule:putative dihydrodipicolinate synthase; PDBTitle: crystal structure of putative dihydrodipicolinate synthase (ttha0737)2 from thermus thermophilus hb8
39 | d1muma_ |
| not modelled | 98.3 | 20 | Fold:TIM beta/alpha-barrel Superfamily:Phosphoenolpyruvate/pyruvate domain Family:Phosphoenolpyruvate mutase/Isocitrate lyase-like
40 | c3lyeA_ |
| not modelled | 98.2 | 17 | PDB header:hydrolase Chain: A: PDB Molecule:oxaloacetate acetyl hydrolase; PDBTitle: crystal structure of oxaloacetate acetylhydrolase
41 | d1ujqa_ |
| not modelled | 98.0 | 17 | Fold:TIM beta/alpha-barrel Superfamily:Phosphoenolpyruvate/pyruvate domain Family:Phosphoenolpyruvate mutase/Isocitrate lyase-like
42 | c2ze3A_ |
| not modelled | 98.0 | 20 | PDB header:isomerase Chain: A: PDB Molecule:dfa0005; PDBTitle: crystal structure of dfa0005 complexed with alpha-ketoglutarate: a2 novel member of the icl/pepm superfamily from alkali-tolerant3 deinococcus ficus
43 | c3eooL_ |
| not modelled | 98.0 | 22 | PDB header:lyase Chain: L: PDB Molecule:methylisocitrate lyase; PDBTitle: 2.9a crystal structure of methyl-isocitrate lyase from2 burkholderia pseudomallei
44 | c3ih1A_ |
| not modelled | 97.9 | 15 | PDB header:lyase Chain: A: PDB Molecule:methylisocitrate lyase; PDBTitle: crystal structure of carboxyvinyl-carboxyphosphonate phosphorylmutase2 from bacillus anthracis
45 | c1zlpA_ |
| not modelled | 97.9 | 20 | PDB header:lyase Chain: A: PDB Molecule:petal death protein; PDBTitle: petal death protein psr132 with cysteine-linked glutaraldehyde forming2 a thiohemiacetal adduct
46 | c3b8iF_ |
| not modelled | 97.9 | 22 | PDB header:lyase Chain: F: PDB Molecule:pa4872 oxaloacetate decarboxylase; PDBTitle: crystal structure of oxaloacetate decarboxylase from pseudomonas2 aeruginosa (pa4872) in complex with oxalate and mg2+.
47 | c3fa4D_ |
| not modelled | 97.8 | 15 | PDB header:lyase Chain: D: PDB Molecule:2,3-dimethylmalate lyase; PDBTitle: crystal structure of 2,3-dimethylmalate lyase, a pep mutase/isocitrate2 lyase superfamily member, triclinic crystal form
48 | d1s2wa_ |
| not modelled | 97.8 | 14 | Fold:TIM beta/alpha-barrel Superfamily:Phosphoenolpyruvate/pyruvate domain Family:Phosphoenolpyruvate mutase/Isocitrate lyase-like
49 | c2qiwA_ |
| not modelled | 97.8 | 23 | PDB header:transferase Chain: A: PDB Molecule:pep phosphonomutase; PDBTitle: crystal structure of a putative phosphoenolpyruvate phosphonomutase2 (ncgl1015, cgl1060) from corynebacterium glutamicum atcc 13032 at3 1.80 a resolution
50 | c2hjpA_ |
| not modelled | 97.7 | 15 | PDB header:hydrolase Chain: A: PDB Molecule:phosphonopyruvate hydrolase; PDBTitle: crystal structure of phosphonopyruvate hydrolase complex with2 phosphonopyruvate and mg++
51 | d1xcfa_ |
| not modelled | 97.6 | 17 | Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:Tryptophan biosynthesis enzymes
52 | c3thaB_ |
| not modelled | 97.2 | 13 | PDB header:lyase Chain: B: PDB Molecule:tryptophan synthase alpha chain; PDBTitle: tryptophan synthase subunit alpha from campylobacter jejuni.
53 | d1rbla1 |
| not modelled | 97.1 | 8 | Fold:TIM beta/alpha-barrel Superfamily:RuBisCo, C-terminal domain Family:RuBisCo, large subunit, C-terminal domain
54 | d1j5ta_ |
| not modelled | 97.1 | 15 | Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:Tryptophan biosynthesis enzymes
55 | c3gr7A_ |
| not modelled | 97.1 | 16 | PDB header:oxidoreductase Chain: A: PDB Molecule:nadph dehydrogenase; PDBTitle: structure of oye from geobacillus kaustophilus, hexagonal2 crystal form
56 | c3ez4B_ |
| not modelled | 97.0 | 27 | PDB header:transferase Chain: B: PDB Molecule:3-methyl-2-oxobutanoate hydroxymethyltransferase; PDBTitle: crystal structure of 3-methyl-2-oxobutanoate2 hydroxymethyltransferase from burkholderia pseudomallei
57 | d1geqa_ |
| not modelled | 96.9 | 13 | Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:Tryptophan biosynthesis enzymes
58 | d1ps9a1 |
| not modelled | 96.9 | 22 | Fold:TIM beta/alpha-barrel Superfamily:FMN-linked oxidoreductases Family:FMN-linked oxidoreductases
59 | d1qopa_ |
| not modelled | 96.9 | 16 | Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:Tryptophan biosynthesis enzymes
60 | d8ruca1 |
| not modelled | 96.9 | 6 | Fold:TIM beta/alpha-barrel Superfamily:RuBisCo, C-terminal domain Family:RuBisCo, large subunit, C-terminal domain
61 | c2h90A_ |
| not modelled | 96.9 | 20 | PDB header:oxidoreductase Chain: A: PDB Molecule:xenobiotic reductase a; PDBTitle: xenobiotic reductase a in complex with coumarin
62 | c3navB_ |
| not modelled | 96.8 | 16 | PDB header:lyase Chain: B: PDB Molecule:tryptophan synthase alpha chain; PDBTitle: crystal structure of an alpha subunit of tryptophan synthase from2 vibrio cholerae o1 biovar el tor str. n16961
63 | c3bolB_ |
| not modelled | 96.7 | 18 | PDB header:transferase Chain: B: PDB Molecule:5-methyltetrahydrofolate s-homocysteine PDBTitle: cobalamin-dependent methionine synthase (1-566) from2 thermotoga maritima complexed with zn2+
64 | c2d69B_ |
| not modelled | 96.7 | 13 | PDB header:lyase Chain: B: PDB Molecule:ribulose bisphosphate carboxylase; PDBTitle: crystal structure of the complex of sulfate ion and octameric2 ribulose-1,5-bisphosphate carboxylase/oxygenase (rubisco) from3 pyrococcus horikoshii ot3 (form-2 crystal)
65 | c1ps9A_ |
| not modelled | 96.7 | 21 | PDB header:oxidoreductase Chain: A: PDB Molecule:2,4-dienoyl-coa reductase; PDBTitle: the crystal structure and reaction mechanism of e. coli 2,4-2 dienoyl coa reductase
66 | d2d69a1 |
| not modelled | 96.7 | 14 | Fold:TIM beta/alpha-barrel Superfamily:RuBisCo, C-terminal domain Family:RuBisCo, large subunit, C-terminal domain
67 | c3nwrA_ |
| not modelled | 96.7 | 16 | PDB header:lyase Chain: A: PDB Molecule:a rubisco-like protein; PDBTitle: crystal structure of a rubisco-like protein from burkholderia fungorum
68 | d1piia2 |
| not modelled | 96.6 | 15 | Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:Tryptophan biosynthesis enzymes
69 | d1svda1 |
| not modelled | 96.6 | 8 | Fold:TIM beta/alpha-barrel Superfamily:RuBisCo, C-terminal domain Family:RuBisCo, large subunit, C-terminal domain
70 | d1yxya1 |
| not modelled | 96.6 | 9 | Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:NanE-like
71 | c1rcxH_ |
| not modelled | 96.5 | 12 | PDB header:lyase (carbon-carbon) Chain: H: PDB Molecule:ribulose bisphosphate carboxylase/oxygenase; PDBTitle: non-activated spinach rubisco in complex with its substrate2 ribulose-1,5-bisphosphate
72 | d1oy0a_ |
| not modelled | 96.5 | 26 | Fold:TIM beta/alpha-barrel Superfamily:Phosphoenolpyruvate/pyruvate domain Family:Ketopantoate hydroxymethyltransferase PanB
73 | d1ykwa1 |
| not modelled | 96.5 | 11 | Fold:TIM beta/alpha-barrel Superfamily:RuBisCo, C-terminal domain Family:RuBisCo, large subunit, C-terminal domain
74 | d1f61a_ |
| not modelled | 96.4 | 22 | Fold:TIM beta/alpha-barrel Superfamily:Phosphoenolpyruvate/pyruvate domain Family:Phosphoenolpyruvate mutase/Isocitrate lyase-like
75 | c3fk4A_ |
| not modelled | 96.4 | 20 | PDB header:isomerase Chain: A: PDB Molecule:rubisco-like protein; PDBTitle: crystal structure of rubisco-like protein from bacillus2 cereus atcc 14579
76 | d1wdda1 |
| not modelled | 96.4 | 7 | Fold:TIM beta/alpha-barrel Superfamily:RuBisCo, C-terminal domain Family:RuBisCo, large subunit, C-terminal domain
77 | c3hf3A_ |
| not modelled | 96.3 | 17 | PDB header:oxidoreductase Chain: A: PDB Molecule:chromate reductase; PDBTitle: old yellow enzyme from thermus scotoductus sa-01
78 | d1tv5a1 |
| not modelled | 96.3 | 12 | Fold:TIM beta/alpha-barrel Superfamily:FMN-linked oxidoreductases Family:FMN-linked oxidoreductases
79 | c1tv5A_ |
| not modelled | 96.3 | 12 | PDB header:oxidoreductase Chain: A: PDB Molecule:dihydroorotate dehydrogenase homolog, mitochondrial; PDBTitle: plasmodium falciparum dihydroorotate dehydrogenase with a bound2 inhibitor
80 | d1f76a_ |
| not modelled | 96.3 | 18 | Fold:TIM beta/alpha-barrel Superfamily:FMN-linked oxidoreductases Family:FMN-linked oxidoreductases
81 | d1z41a1 |
| not modelled | 96.2 | 17 | Fold:TIM beta/alpha-barrel Superfamily:FMN-linked oxidoreductases Family:FMN-linked oxidoreductases
82 | d1geha1 |
| not modelled | 96.2 | 15 | Fold:TIM beta/alpha-barrel Superfamily:RuBisCo, C-terminal domain Family:RuBisCo, large subunit, C-terminal domain
83 | d1gvfa_ |
| not modelled | 96.2 | 18 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class II FBP aldolase
84 | c1telA_ |
| not modelled | 96.2 | 11 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:ribulose bisphosphate carboxylase, large subunit; PDBTitle: crystal structure of a rubisco-like protein from chlorobium2 tepidum
85 | c2rduA_ |
| not modelled | 96.1 | 17 | PDB header:oxidoreductase Chain: A: PDB Molecule:hydroxyacid oxidase 1; PDBTitle: crystal structure of human glycolate oxidase in complex with2 glyoxylate
86 | c3irsB_ |
| not modelled | 96.1 | 9 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein bb4693; PDBTitle: crystal structure of uncharacterized tim-barrel protein bb4693 from2 bordetella bronchiseptica
87 | c3nurA_ |
| not modelled | 96.1 | 16 | PDB header:hydrolase Chain: A: PDB Molecule:amidohydrolase; PDBTitle: crystal structure of a putative amidohydrolase from staphylococcus2 aureus
88 | c2e77B_ |
| not modelled | 96.0 | 17 | PDB header:oxidoreductase Chain: B: PDB Molecule:lactate oxidase; PDBTitle: crystal structure of l-lactate oxidase with pyruvate complex
89 | c2cdh1_ |
| not modelled | 96.0 | 16 | PDB header:transferase Chain: 1: PDB Molecule:enoyl reductase; PDBTitle: architecture of the thermomyces lanuginosus fungal fatty2 acid synthase at 5 angstrom resolution.
90 | d1vyra_ |
| not modelled | 96.0 | 11 | Fold:TIM beta/alpha-barrel Superfamily:FMN-linked oxidoreductases Family:FMN-linked oxidoreductases
91 | c2ekcA_ |
| not modelled | 95.9 | 14 | PDB header:lyase Chain: A: PDB Molecule:tryptophan synthase alpha chain; PDBTitle: structural study of project id aq_1548 from aquifex aeolicus vf5
92 | d1rd5a_ |
| not modelled | 95.9 | 17 | Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:Tryptophan biosynthesis enzymes
93 | c3k30B_ |
| not modelled | 95.9 | 18 | PDB header:oxidoreductase Chain: B: PDB Molecule:histamine dehydrogenase; PDBTitle: histamine dehydrogenase from nocardiodes simplex
94 | d2f6ka1 |
| not modelled | 95.9 | 15 | Fold:TIM beta/alpha-barrel Superfamily:Metallo-dependent hydrolases Family:PP1699/LP2961-like
95 | c3gndC_ |
| not modelled | 95.8 | 18 | PDB header:lyase Chain: C: PDB Molecule:aldolase lsrf; PDBTitle: crystal structure of e. coli lsrf in complex with ribulose-5-phosphate
96 | d1bxna1 |
| not modelled | 95.8 | 12 | Fold:TIM beta/alpha-barrel Superfamily:RuBisCo, C-terminal domain Family:RuBisCo, large subunit, C-terminal domain
97 | d1goxa_ |
| not modelled | 95.8 | 18 | Fold:TIM beta/alpha-barrel Superfamily:FMN-linked oxidoreductases Family:FMN-linked oxidoreductases
98 | c2zviB_ |
| not modelled | 95.8 | 14 | PDB header:isomerase Chain: B: PDB Molecule:2,3-diketo-5-methylthiopentyl-1-phosphate PDBTitle: crystal structure of 2,3-diketo-5-methylthiopentyl-1-2 phosphate enolase from bacillus subtilis
99 | d1m3ua_ |
| not modelled | 95.7 | 24 | Fold:TIM beta/alpha-barrel Superfamily:Phosphoenolpyruvate/pyruvate domain Family:Ketopantoate hydroxymethyltransferase PanB
100 | c1jcnA_ |
| not modelled | 95.7 | 20 | PDB header:oxidoreductase Chain: A: PDB Molecule:inosine monophosphate dehydrogenase i; PDBTitle: binary complex of human type-i inosine monophosphate dehydrogenase2 with 6-cl-imp
101 | d1tb3a1 |
| not modelled | 95.6 | 17 | Fold:TIM beta/alpha-barrel Superfamily:FMN-linked oxidoreductases Family:FMN-linked oxidoreductases
102 | d1bwva1 |
| not modelled | 95.6 | 11 | Fold:TIM beta/alpha-barrel Superfamily:RuBisCo, C-terminal domain Family:RuBisCo, large subunit, C-terminal domain
103 | d1d3ga_ |
| not modelled | 95.5 | 17 | Fold:TIM beta/alpha-barrel Superfamily:FMN-linked oxidoreductases Family:FMN-linked oxidoreductases
104 | d2q02a1 |
| not modelled | 95.5 | 10 | Fold:TIM beta/alpha-barrel Superfamily:Xylose isomerase-like Family:IolI-like
105 | c2c3zA_ |
| not modelled | 95.4 | 15 | PDB header:lyase Chain: A: PDB Molecule:indole-3-glycerol phosphate synthase; PDBTitle: crystal structure of a truncated variant of indole-3-2 glycerol phosphate synthase from sulfolobus solfataricus
106 | d1to3a_ |
| not modelled | 95.4 | 17 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase
107 | c3sqsA_ |
| not modelled | 95.4 | 11 | PDB header:isomerase Chain: A: PDB Molecule:mandelate racemase/muconate lactonizing protein; PDBTitle: crystal structure of a putative mandelate racemase/muconate2 lactonizing protein from dinoroseobacter shibae dfl 12
108 | c1rldB_ |
| not modelled | 95.4 | 13 | PDB header:lyase(carbon-carbon) Chain: B: PDB Molecule:ribulose 1,5 bisphosphate carboxylase/oxygenase (large PDBTitle: solid-state phase transition in the crystal structure of ribulose 1,5-2 biphosphate carboxylase(slash)oxygenase
109 | c2qjhH_ |
| not modelled | 95.3 | 17 | PDB header:lyase Chain: H: PDB Molecule:putative aldolase mj0400; PDBTitle: m. jannaschii adh synthase covalently bound to2 dihydroxyacetone phosphate
110 | d1jpma1 |
| not modelled | 95.3 | 18 | Fold:TIM beta/alpha-barrel Superfamily:Enolase C-terminal domain-like Family:D-glucarate dehydratase-like
111 | c2iswB_ |
| not modelled | 95.3 | 19 | PDB header:lyase Chain: B: PDB Molecule:putative fructose-1,6-bisphosphate aldolase; PDBTitle: structure of giardia fructose-1,6-biphosphate aldolase in2 complex with phosphoglycolohydroxamate
112 | d1rpxa_ |
| not modelled | 95.3 | 13 | Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:D-ribulose-5-phosphate 3-epimerase
113 | c1djnB_ |
| not modelled | 95.3 | 15 | PDB header:oxidoreductase Chain: B: PDB Molecule:trimethylamine dehydrogenase; PDBTitle: structural and biochemical characterization of recombinant wild type2 trimethylamine dehydrogenase from methylophilus methylotrophus (sp.3 w3a1)
114 | c1kbiB_ |
| not modelled | 95.2 | 18 | PDB header:oxidoreductase Chain: B: PDB Molecule:cytochrome b2; PDBTitle: crystallographic study of the recombinant flavin-binding domain of2 baker's yeast flavocytochrome b2: comparison with the intact wild-3 type enzyme
115 | c3qfwB_ |
| not modelled | 95.2 | 14 | PDB header:lyase Chain: B: PDB Molecule:ribulose-1,5-bisphosphate carboxylase/oxygenase large PDBTitle: crystal structure of rubisco-like protein from rhodopseudomonas2 palustris
116 | d1ej7l1 |
| not modelled | 95.2 | 14 | Fold:TIM beta/alpha-barrel Superfamily:RuBisCo, C-terminal domain Family:RuBisCo, large subunit, C-terminal domain
117 | c2oemA_ |
| not modelled | 95.2 | 17 | PDB header:isomerase Chain: A: PDB Molecule:2,3-diketo-5-methylthiopentyl-1-phosphate enolase; PDBTitle: crystal structure of a rubisco-like protein from geobacillus2 kaustophilus liganded with mg2+ and 2,3-diketohexane 1-phosphate
118 | c2ftpA_ |
| not modelled | 95.1 | 13 | PDB header:lyase Chain: A: PDB Molecule:hydroxymethylglutaryl-coa lyase; PDBTitle: crystal structure of hydroxymethylglutaryl-coa lyase from pseudomonas2 aeruginosa
119 | c3stgA_ |
| not modelled | 94.9 | 13 | PDB header:transferase Chain: A: PDB Molecule:2-dehydro-3-deoxyphosphooctonate aldolase; PDBTitle: crystal structure of a58p, del(n59), and loop 7 truncated mutant of 3-2 deoxy-d-manno-octulosonate 8-phosphate synthase (kdo8ps) from3 neisseria meningitidis
120 | c2fptA_ |
| not modelled | 94.9 | 19 | PDB header:oxidoreductase Chain: A: PDB Molecule:dihydroorotate dehydrogenase, mitochondrial; PDBTitle: dual binding mode of a novel series of dhodh inhibitors

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