Phyre 2 Results for P76280

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Email | l.a.kelley@imperial.ac.uk
Description | P76280
Date | Thu Jan 5 12:21:33 GMT 2012
Unique Job ID | 00e69d2344ae1a6c

Summary |

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

Model (left) based on template c2vhiG_
Top template information
PDB header:hydrolase Chain: G: PDB Molecule:cg3027-pa; PDBTitle: crystal structure of a pyrimidine degrading enzyme from2 drosophila melanogaster
Confidence and coverage
Confidence: | 100.0% | Coverage: | 93%
203 residues ( 93% 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 | W | K | V | A | A | A | Q | Y | E | P | R | K | T | S | L | T | E | Q | V | A | H | H | L | E | F | V | R | A | A | A | R | Q | Q | C | Q | L | L | V | F | P | S | L | S | L | L | G | C | D | Y | S | R | R | A | L | P | A | P
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | P | D | L | S | L | L | D | P | L | C | Y | A | A | T | T | W | R | M | T | I | I | A | G | L | P | V | E | Y | N | D | R | F | I | R | G | I | A | V | F | A | P | W | R | K | T | P | G | I | Y | H | Q | S | H | G | A | C | L | G | R | R
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | S | R | T | I | T | V | V | D | E | Q | P | Q | G | M | D | M | D | P | T | C | S | L | F | T | T | G | Q | C | L | G | E | P | D | L | L | A | S | A | R | R | L | Q | F | F | S | H | Q | Y | S | I | A | V | L | M | A | N | A | R | G | N
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | .
Sequence |  | S | A | L | W | D | E | Y | G | R | L | I | V | R | A | D | R | G | S | L | L | L | V | G | Q | R | S | S | Q | G | W | Q | G | D | I | I | P | L | R
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 |
| c2vhiG_ |

### PDB 2vhi chain G

Region: 2 - 204
Aligned: 203
Modelled: 202
Confidence: 100.0%
Identity: 18%
PDB header:hydrolase
Chain: G: PDB Molecule:cg3027-pa;
PDBTitle: crystal structure of a pyrimidine degrading enzyme from2 drosophila melanogaster

Phyre2
2 |
| c2e2kC_ |

### PDB 2e2k chain C

Region: 4 - 208
Aligned: 205
Modelled: 204
Confidence: 100.0%
Identity: 12%
PDB header:hydrolase
Chain: C: PDB Molecule:formamidase;
PDBTitle: helicobacter pylori formamidase amif contains a fine-tuned cysteine-2 glutamate-lysine catalytic triad

Phyre2
3 |
| c2e11B_ |

### PDB 2e11 chain B

Region: 1 - 204
Aligned: 202
Modelled: 204
Confidence: 100.0%
Identity: 15%
PDB header:hydrolase
Chain: B: PDB Molecule:hydrolase;
PDBTitle: the crystal structure of xc1258 from xanthomonas campestris: a cn-2 hydrolase superfamily protein with an arsenic adduct in the active3 site

Phyre2
4 |
| c1emsB_ |

### PDB 1ems chain B

Region: 2 - 204
Aligned: 202
Modelled: 203
Confidence: 100.0%
Identity: 13%
PDB header:antitumor protein
Chain: B: PDB Molecule:nit-fragile histidine triad fusion protein;
PDBTitle: crystal structure of the c. elegans nitfhit protein

Phyre2
5 |
| c2plqA_ |

### PDB 2plq chain A

Region: 4 - 204
Aligned: 201
Modelled: 198
Confidence: 100.0%
Identity: 18%
PDB header:hydrolase
Chain: A: PDB Molecule:aliphatic amidase;
PDBTitle: crystal structure of the amidase from geobacillus pallidus rapc8

Phyre2
6 |
| c2w1vA_ |

### PDB 2w1v chain A

Region: 1 - 204
Aligned: 203
Modelled: 204
Confidence: 100.0%
Identity: 16%
PDB header:hydrolase
Chain: A: PDB Molecule:nitrilase homolog 2;
PDBTitle: crystal structure of mouse nitrilase-2 at 1.4a resolution

Phyre2
7 |
| d1uf5a_ |

### PDB 1uf5 chain A

Region: 2 - 204
Aligned: 203
Modelled: 203
Confidence: 100.0%
Identity: 18%
Fold: Carbon-nitrogen hydrolase
Superfamily: Carbon-nitrogen hydrolase
Family: Carbamilase

Phyre2
8 |
| c3dlaD_ |

### PDB 3dla chain D

Region: 3 - 204
Aligned: 201
Modelled: 202
Confidence: 100.0%
Identity: 21%
PDB header:ligase
Chain: D: PDB Molecule:glutamine-dependent nad(+) synthetase;
PDBTitle: x-ray crystal structure of glutamine-dependent nad+ synthetase from2 mycobacterium tuberculosis bound to naad+ and don

Phyre2
9 |
| c3hkxA_ |

### PDB 3hkx chain A

Region: 2 - 208
Aligned: 207
Modelled: 204
Confidence: 100.0%
Identity: 17%
PDB header:hydrolase
Chain: A: PDB Molecule:amidase;
PDBTitle: crystal structure analysis of an amidase from nesterenkonia sp.

Phyre2
10 |
| d1f89a_ |

### PDB 1f89 chain A

Region: 1 - 208
Aligned: 208
Modelled: 208
Confidence: 100.0%
Identity: 15%
Fold: Carbon-nitrogen hydrolase
Superfamily: Carbon-nitrogen hydrolase
Family: Nitrilase

Phyre2
11 |
| d1emsa2 |

### PDB 1ems chain A domain 2

Region: 2 - 204
Aligned: 202
Modelled: 201
Confidence: 100.0%
Identity: 13%
Fold: Carbon-nitrogen hydrolase
Superfamily: Carbon-nitrogen hydrolase
Family: Nitrilase

Phyre2
12 |
| c3n05B_ |

### PDB 3n05 chain B

Region: 1 - 208
Aligned: 206
Modelled: 208
Confidence: 100.0%
Identity: 16%
PDB header:ligase
Chain: B: PDB Molecule:nh(3)-dependent nad(+) synthetase;
PDBTitle: crystal structure of nh3-dependent nad+ synthetase from streptomyces2 avermitilis

Phyre2
13 |
| d1j31a_ |

### PDB 1j31 chain A

Region: 5 - 204
Aligned: 196
Modelled: 199
Confidence: 100.0%
Identity: 18%
Fold: Carbon-nitrogen hydrolase
Superfamily: Carbon-nitrogen hydrolase
Family: Carbamilase

Phyre2
14 |
| c3ilvA_ |

### PDB 3ilv chain A

Region: 2 - 198
Aligned: 191
Modelled: 197
Confidence: 100.0%
Identity: 17%
PDB header:ligase
Chain: A: PDB Molecule:glutamine-dependent nad(+) synthetase;
PDBTitle: crystal structure of a glutamine-dependent nad(+) synthetase2 from cytophaga hutchinsonii

Phyre2
15 |
| d1d9ea_ |

### PDB 1d9e chain A

Region: 13 - 84
Aligned: 67
Modelled: 67
Confidence: 74.3%
Identity: 12%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I DAHP synthetase

Phyre2
16 |
| d1uf3a_ |

### PDB 1uf3 chain A

Region: 2 - 42
Aligned: 35
Modelled: 41
Confidence: 74.2%
Identity: 11%
Fold: Metallo-dependent phosphatases
Superfamily: Metallo-dependent phosphatases
Family: TT1561-like

Phyre2
17 |
| c3stgA_ |

### PDB 3stg chain A

Region: 13 - 83
Aligned: 69
Modelled: 71
Confidence: 67.0%
Identity: 9%
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

Phyre2
18 |
| d1o60a_ |

### PDB 1o60 chain A

Region: 13 - 83
Aligned: 64
Modelled: 71
Confidence: 66.9%
Identity: 11%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I DAHP synthetase

Phyre2
19 |
| c3dx5A_ |

### PDB 3dx5 chain A

Region: 1 - 82
Aligned: 80
Modelled: 81
Confidence: 62.5%
Identity: 4%
PDB header:lyase
Chain: A: PDB Molecule:uncharacterized protein asbf;
PDBTitle: crystal structure of the probable 3-dhs dehydratase asbf involved in2 the petrobactin synthesis from bacillus anthracis

Phyre2
20 |
| c3sz8D_ |

### PDB 3sz8 chain D

Region: 13 - 82
Aligned: 63
Modelled: 70
Confidence: 57.8%
Identity: 13%
PDB header:transferase
Chain: D: PDB Molecule:2-dehydro-3-deoxyphosphooctonate aldolase 2;
PDBTitle: crystal structure of 2-dehydro-3-deoxyphosphooctonate aldolase from2 burkholderia pseudomallei

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c2vhiG_ |
|  | 100.0 | 18 | PDB header:hydrolase Chain: G: PDB Molecule:cg3027-pa; PDBTitle: crystal structure of a pyrimidine degrading enzyme from2 drosophila melanogaster
2 | c2e2kC_ |
|  | 100.0 | 12 | PDB header:hydrolase Chain: C: PDB Molecule:formamidase; PDBTitle: helicobacter pylori formamidase amif contains a fine-tuned cysteine-2 glutamate-lysine catalytic triad
3 | c2e11B_ |
|  | 100.0 | 15 | PDB header:hydrolase Chain: B: PDB Molecule:hydrolase; PDBTitle: the crystal structure of xc1258 from xanthomonas campestris: a cn-2 hydrolase superfamily protein with an arsenic adduct in the active3 site
4 | c1emsB_ |
|  | 100.0 | 13 | PDB header:antitumor protein Chain: B: PDB Molecule:nit-fragile histidine triad fusion protein; PDBTitle: crystal structure of the c. elegans nitfhit protein
5 | c2plqA_ |
|  | 100.0 | 18 | PDB header:hydrolase Chain: A: PDB Molecule:aliphatic amidase; PDBTitle: crystal structure of the amidase from geobacillus pallidus rapc8
6 | c2w1vA_ |
|  | 100.0 | 16 | PDB header:hydrolase Chain: A: PDB Molecule:nitrilase homolog 2; PDBTitle: crystal structure of mouse nitrilase-2 at 1.4a resolution
7 | d1uf5a_ |
|  | 100.0 | 18 | Fold:Carbon-nitrogen hydrolase Superfamily:Carbon-nitrogen hydrolase Family:Carbamilase
8 | c3dlaD_ |
|  | 100.0 | 21 | PDB header:ligase Chain: D: PDB Molecule:glutamine-dependent nad(+) synthetase; PDBTitle: x-ray crystal structure of glutamine-dependent nad+ synthetase from2 mycobacterium tuberculosis bound to naad+ and don
9 | c3hkxA_ |
|  | 100.0 | 17 | PDB header:hydrolase Chain: A: PDB Molecule:amidase; PDBTitle: crystal structure analysis of an amidase from nesterenkonia sp.
10 | d1f89a_ |
|  | 100.0 | 15 | Fold:Carbon-nitrogen hydrolase Superfamily:Carbon-nitrogen hydrolase Family:Nitrilase
11 | d1emsa2 |
|  | 100.0 | 13 | Fold:Carbon-nitrogen hydrolase Superfamily:Carbon-nitrogen hydrolase Family:Nitrilase
12 | c3n05B_ |
|  | 100.0 | 16 | PDB header:ligase Chain: B: PDB Molecule:nh(3)-dependent nad(+) synthetase; PDBTitle: crystal structure of nh3-dependent nad+ synthetase from streptomyces2 avermitilis
13 | d1j31a_ |
|  | 100.0 | 18 | Fold:Carbon-nitrogen hydrolase Superfamily:Carbon-nitrogen hydrolase Family:Carbamilase
14 | c3ilvA_ |
|  | 100.0 | 17 | PDB header:ligase Chain: A: PDB Molecule:glutamine-dependent nad(+) synthetase; PDBTitle: crystal structure of a glutamine-dependent nad(+) synthetase2 from cytophaga hutchinsonii
15 | d1d9ea_ |
|  | 74.3 | 12 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I DAHP synthetase
16 | d1uf3a_ |
|  | 74.2 | 11 | Fold:Metallo-dependent phosphatases Superfamily:Metallo-dependent phosphatases Family:TT1561-like
17 | c3stgA_ |
|  | 67.0 | 9 | 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
18 | d1o60a_ |
|  | 66.9 | 11 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I DAHP synthetase
19 | c3dx5A_ |
|  | 62.5 | 4 | PDB header:lyase Chain: A: PDB Molecule:uncharacterized protein asbf; PDBTitle: crystal structure of the probable 3-dhs dehydratase asbf involved in2 the petrobactin synthesis from bacillus anthracis
20 | c3sz8D_ |
|  | 57.8 | 13 | PDB header:transferase Chain: D: PDB Molecule:2-dehydro-3-deoxyphosphooctonate aldolase 2; PDBTitle: crystal structure of 2-dehydro-3-deoxyphosphooctonate aldolase from2 burkholderia pseudomallei
21 | c2qw5B_ |
| not modelled | 57.1 | 14 | PDB header:isomerase Chain: B: PDB Molecule:xylose isomerase-like tim barrel; PDBTitle: crystal structure of a putative sugar phosphate isomerase/epimerase2 (ava4194) from anabaena variabilis atcc 29413 at 1.78 a resolution
22 | c3qxbB_ |
| not modelled | 56.9 | 13 | PDB header:isomerase Chain: B: PDB Molecule:putative xylose isomerase; PDBTitle: crystal structure of a putative xylose isomerase (yp_426450.1) from2 rhodospirillum rubrum atcc 11170 at 1.90 a resolution
23 | d1vlia2 |
| not modelled | 53.8 | 9 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:NeuB-like
24 | c1vliA_ |
| not modelled | 50.3 | 9 | PDB header:biosynthetic protein Chain: A: PDB Molecule:spore coat polysaccharide biosynthesis protein spse; PDBTitle: crystal structure of spore coat polysaccharide biosynthesis protein2 spse (bsu37870) from bacillus subtilis at 2.38 a resolution
25 | d2zdra2 |
| not modelled | 49.5 | 11 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:NeuB-like
26 | c2ou4C_ |
| not modelled | 47.5 | 3 | PDB header:isomerase Chain: C: PDB Molecule:d-tagatose 3-epimerase; PDBTitle: crystal structure of d-tagatose 3-epimerase from2 pseudomonas cichorii
27 | d1yx1a1 |
| not modelled | 47.0 | 14 | Fold:TIM beta/alpha-barrel Superfamily:Xylose isomerase-like Family:KguE-like
28 | d1i60a_ |
| not modelled | 46.2 | 11 | Fold:TIM beta/alpha-barrel Superfamily:Xylose isomerase-like Family:IolI-like
29 | c3pnxF_ |
| not modelled | 45.4 | 8 | PDB header:transferase Chain: F: PDB Molecule:putative sulfurtransferase dsre; PDBTitle: crystal structure of a putative sulfurtransferase dsre (swol_2425)2 from syntrophomonas wolfei str. goettingen at 1.92 a resolution
30 | c2ei9A_ |
| not modelled | 44.9 | 6 | PDB header:gene regulation Chain: A: PDB Molecule:non-ltr retrotransposon r1bmks orf2 protein; PDBTitle: crystal structure of r1bm endonuclease domain
31 | d2vgna3 |
| not modelled | 41.7 | 22 | Fold:Bacillus chorismate mutase-like Superfamily:L30e-like Family:ERF1/Dom34 C-terminal domain-like
32 | c3s5oA_ |
| not modelled | 41.2 | 15 | 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
33 | c1xuzA_ |
| not modelled | 39.2 | 13 | PDB header:biosynthetic protein Chain: A: PDB Molecule:polysialic acid capsule biosynthesis protein siac; PDBTitle: crystal structure analysis of sialic acid synthase (neub)from2 neisseria meningitidis, bound to mn2+, phosphoenolpyruvate, and n-3 acetyl mannosaminitol
34 | d1oi7a1 |
| not modelled | 39.0 | 19 | Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:CoA-binding domain
35 | d1wdua_ |
| not modelled | 38.7 | 7 | Fold:DNase I-like Superfamily:DNase I-like Family:DNase I-like
36 | d2nu7a1 |
| not modelled | 34.6 | 5 | Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:CoA-binding domain
37 | c2r94B_ |
| not modelled | 31.8 | 6 | 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
38 | c2zdsB_ |
| not modelled | 31.7 | 14 | PDB header:dna binding protein Chain: B: PDB Molecule:putative dna-binding protein; PDBTitle: crystal structure of sco6571 from streptomyces coelicolor2 a3(2)
39 | c3qfnA_ |
| not modelled | 30.8 | 4 | PDB header:hydrolase Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of streptococcal asymmetric ap4a hydrolase and2 phosphodiesterase spr1479/saph in complex with inorganic phosphate
40 | c3ngfA_ |
| not modelled | 29.4 | 12 | PDB header:isomerase Chain: A: PDB Molecule:ap endonuclease, family 2; PDBTitle: crystal structure of ap endonuclease, family 2 from brucella2 melitensis
41 | c3bi8A_ |
| not modelled | 28.8 | 16 | PDB header:lyase Chain: A: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: structure of dihydrodipicolinate synthase from clostridium2 botulinum
42 | c3ju2A_ |
| not modelled | 28.0 | 11 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein smc04130; PDBTitle: crystal structure of protein smc04130 from sinorhizobium meliloti 1021
43 | d1x52a1 |
| not modelled | 27.3 | 16 | Fold:Bacillus chorismate mutase-like Superfamily:L30e-like Family:ERF1/Dom34 C-terminal domain-like
44 | d2yvta1 |
| not modelled | 25.9 | 27 | Fold:Metallo-dependent phosphatases Superfamily:Metallo-dependent phosphatases Family:TT1561-like
45 | c1vs1B_ |
| not modelled | 25.2 | 20 | PDB header:transferase Chain: B: PDB Molecule:3-deoxy-7-phosphoheptulonate synthase; PDBTitle: crystal structure of 3-deoxy-d-arabino-heptulosonate-7-2 phosphate synthase (dahp synthase) from aeropyrum pernix3 in complex with mn2+ and pep
46 | d1w3ia_ |
| not modelled | 24.7 | 4 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase
47 | c3obyB_ |
| not modelled | 24.2 | 8 | PDB header:hydrolase Chain: B: PDB Molecule:protein pelota homolog; PDBTitle: crystal structure of archaeoglobus fulgidus pelota reveals inter-2 domain structural plasticity
48 | c1s3mA_ |
| not modelled | 23.8 | 0 | PDB header:phosphodiesterase Chain: A: PDB Molecule:hypothetical protein mj0936; PDBTitle: structural and functional characterization of a novel2 archaeal phosphodiesterase
49 | d1s3la_ |
| not modelled | 23.8 | 0 | Fold:Metallo-dependent phosphatases Superfamily:Metallo-dependent phosphatases Family:YfcE-like
50 | c3obwA_ |
| not modelled | 22.5 | 7 | PDB header:hydrolase Chain: A: PDB Molecule:protein pelota homolog; PDBTitle: crystal structure of two archaeal pelotas reveal inter-domain2 structural plasticity
51 | c3agjB_ |
| not modelled | 22.5 | 19 | PDB header:translation/hydrolase Chain: B: PDB Molecule:protein pelota homolog; PDBTitle: crystal structure of archaeal pelota and gtp-bound ef1 alpha complex
52 | c3agjD_ |
| not modelled | 22.5 | 19 | PDB header:translation/hydrolase Chain: D: PDB Molecule:protein pelota homolog; PDBTitle: crystal structure of archaeal pelota and gtp-bound ef1 alpha complex
53 | c3fkkA_ |
| not modelled | 21.4 | 11 | PDB header:lyase Chain: A: PDB Molecule:l-2-keto-3-deoxyarabonate dehydratase; PDBTitle: structure of l-2-keto-3-deoxyarabonate dehydratase
54 | c1su1A_ |
| not modelled | 20.0 | 14 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein yfce; PDBTitle: structural and biochemical characterization of yfce, a2 phosphoesterase from e. coli
55 | d1su1a_ |
| not modelled | 20.0 | 14 | Fold:Metallo-dependent phosphatases Superfamily:Metallo-dependent phosphatases Family:YfcE-like
56 | c3kwsB_ |
| not modelled | 19.6 | 9 | PDB header:isomerase Chain: B: PDB Molecule:putative sugar isomerase; PDBTitle: crystal structure of putative sugar isomerase (yp_001305149.1) from2 parabacteroides distasonis atcc 8503 at 1.68 a resolution
57 | c2nuxB_ |
| not modelled | 19.4 | 13 | 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
58 | c2j63B_ |
| not modelled | 19.4 | 18 | PDB header:lyase Chain: B: PDB Molecule:ap-endonuclease; PDBTitle: crystal structure of ap endonuclease lmap from leishmania2 major
59 | c3pg8B_ |
| not modelled | 19.2 | 17 | PDB header:transferase Chain: B: PDB Molecule:phospho-2-dehydro-3-deoxyheptonate aldolase; PDBTitle: truncated form of 3-deoxy-d-arabino-heptulosonate 7-phosphate synthase2 from thermotoga maritima
60 | c3cnyA_ |
| not modelled | 18.8 | 5 | PDB header:biosynthetic protein Chain: A: PDB Molecule:inositol catabolism protein iole; PDBTitle: crystal structure of a putative inositol catabolism protein iole2 (iole, lp_3607) from lactobacillus plantarum wcfs1 at 1.85 a3 resolution
61 | c3p94A_ |
| not modelled | 18.7 | 12 | PDB header:hydrolase Chain: A: PDB Molecule:gdsl-like lipase; PDBTitle: crystal structure of a gdsl-like lipase (bdi_0976) from2 parabacteroides distasonis atcc 8503 at 1.93 a resolution
62 | c1zcoA_ |
| not modelled | 18.6 | 15 | PDB header:lyase Chain: A: PDB Molecule:2-dehydro-3-deoxyphosphoheptonate aldolase; PDBTitle: crystal structure of pyrococcus furiosus 3-deoxy-d-arabino-2 heptulosonate 7-phosphate synthase
63 | c2vyeA_ |
| not modelled | 18.5 | 16 | PDB header:hydrolase Chain: A: PDB Molecule:replicative dna helicase; PDBTitle: crystal structure of the dnac-ssdna complex
64 | d1sgva1 |
| not modelled | 18.4 | 19 | Fold:PUA domain-like Superfamily:PUA domain-like Family:PUA domain
65 | c2zsmA_ |
| not modelled | 18.4 | 17 | PDB header:isomerase Chain: A: PDB Molecule:glutamate-1-semialdehyde 2,1-aminomutase; PDBTitle: crystal structure of glutamate-1-semialdehyde 2,1-2 aminomutase from aeropyrum pernix, hexagonal form
66 | c2hk1D_ |
| not modelled | 18.2 | 12 | PDB header:isomerase Chain: D: PDB Molecule:d-psicose 3-epimerase; PDBTitle: crystal structure of d-psicose 3-epimerase (dpease) in the presence of2 d-fructose
67 | d2csua1 |
| not modelled | 18.1 | 11 | Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:CoA-binding domain
68 | c2vgmA_ |
| not modelled | 17.0 | 22 | PDB header:cell cycle Chain: A: PDB Molecule:dom34; PDBTitle: structure of yeast dom34 : a protein related to translation2 termination factor erf1 and involved in no-go decay.
69 | c3dmyA_ |
| not modelled | 16.6 | 13 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein fdra; PDBTitle: crystal structure of a predicated acyl-coa synthetase from e.coli
70 | c3noeA_ |
| not modelled | 16.3 | 12 | PDB header:lyase Chain: A: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from pseudomonas2 aeruginosa
71 | c3e96B_ |
| not modelled | 15.9 | 8 | PDB header:lyase Chain: B: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from2 bacillus clausii
72 | c2hnhA_ |
| not modelled | 15.9 | 25 | PDB header:transferase Chain: A: PDB Molecule:dna polymerase iii alpha subunit; PDBTitle: crystal structure of the catalytic alpha subunit of e. coli2 replicative dna polymerase iii
73 | d1q7ra_ |
| not modelled | 15.7 | 24 | Fold:Flavodoxin-like Superfamily:Class I glutamine amidotransferase-like Family:Class I glutamine amidotransferases (GAT)
74 | d1iuka_ |
| not modelled | 15.7 | 9 | Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:CoA-binding domain
75 | c3l44A_ |
| not modelled | 15.6 | 17 | PDB header:isomerase Chain: A: PDB Molecule:glutamate-1-semialdehyde 2,1-aminomutase 1; PDBTitle: crystal structure of bacillus anthracis heml-1, glutamate semialdehyde2 aminotransferase
76 | c3bleA_ |
| not modelled | 15.2 | 11 | PDB header:transferase Chain: A: PDB Molecule:citramalate synthase from leptospira interrogans; PDBTitle: crystal structure of the catalytic domain of licms in2 complexed with malonate
77 | c3na8A_ |
| not modelled | 15.0 | 8 | PDB header:lyase Chain: A: PDB Molecule:putative dihydrodipicolinate synthetase; PDBTitle: crystal structure of a putative dihydrodipicolinate synthetase from2 pseudomonas aeruginosa
78 | c3rqzC_ |
| not modelled | 14.8 | 6 | PDB header:hydrolase Chain: C: PDB Molecule:metallophosphoesterase; PDBTitle: crystal structure of metallophosphoesterase from sphaerobacter2 thermophilus
79 | d2gsaa_ |
| not modelled | 14.2 | 11 | Fold:PLP-dependent transferase-like Superfamily:PLP-dependent transferases Family:GABA-aminotransferase-like
80 | c3g8rA_ |
| not modelled | 14.2 | 11 | PDB header:biosynthetic protein Chain: A: PDB Molecule:probable spore coat polysaccharide biosynthesis protein e; PDBTitle: crystal structure of putative spore coat polysaccharide biosynthesis2 protein e from chromobacterium violaceum atcc 12472
81 | c3si9B_ |
| not modelled | 14.1 | 12 | PDB header:lyase Chain: B: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from bartonella2 henselae
82 | c3fluD_ |
| not modelled | 14.0 | 10 | PDB header:lyase Chain: D: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from the pathogen2 neisseria meningitidis
83 | c3pueA_ |
| not modelled | 14.0 | 16 | 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
84 | c2o14A_ |
| not modelled | 13.9 | 9 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein yxim; PDBTitle: x-ray crystal structure of protein yxim_bacsu from bacillus2 subtilis. northeast structural genomics consortium target3 sr595
85 | c3t4cD_ |
| not modelled | 13.8 | 16 | PDB header:transferase Chain: D: PDB Molecule:2-dehydro-3-deoxyphosphooctonate aldolase 1; PDBTitle: crystal structure of 2-dehydro-3-deoxyphosphooctonate aldolase from2 burkholderia ambifaria
86 | d1g5ba_ |
| not modelled | 13.8 | 10 | Fold:Metallo-dependent phosphatases Superfamily:Metallo-dependent phosphatases Family:Protein serine/threonine phosphatase
87 | d1f74a_ |
| not modelled | 13.7 | 8 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase
88 | c3fs2A_ |
| not modelled | 13.6 | 11 | PDB header:transferase Chain: A: PDB Molecule:2-dehydro-3-deoxyphosphooctonate aldolase; PDBTitle: crystal structure of 2-dehydro-3-deoxyphosphooctonate2 aldolase from bruciella melitensis at 1.85a resolution
89 | c3mcaB_ |
| not modelled | 13.6 | 22 | PDB header:translation regulation/hydrolase Chain: B: PDB Molecule:protein dom34; PDBTitle: structure of the dom34-hbs1 complex and implications for its role in2 no-go decay
90 | c2v9dB_ |
| not modelled | 13.3 | 10 | 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
91 | d1k77a_ |
| not modelled | 12.9 | 10 | Fold:TIM beta/alpha-barrel Superfamily:Xylose isomerase-like Family:Hypothetical protein YgbM (EC1530)
92 | c1jvnB_ |
| not modelled | 12.8 | 14 | PDB header:transferase Chain: B: PDB Molecule:bifunctional histidine biosynthesis protein hishf; PDBTitle: crystal structure of imidazole glycerol phosphate synthase: a tunnel2 through a (beta/alpha)8 barrel joins two active sites
93 | c3eb2A_ |
| not modelled | 12.5 | 8 | PDB header:lyase Chain: A: PDB Molecule:putative dihydrodipicolinate synthetase; PDBTitle: crystal structure of dihydrodipicolinate synthase from2 rhodopseudomonas palustris at 2.0a resolution
94 | c2cjdA_ |
| not modelled | 12.5 | 11 | PDB header:transferase Chain: A: PDB Molecule:l-lysine-epsilon aminotransferase; PDBTitle: lysine aminotransferase from m. tuberculosis in external2 aldimine form
95 | c3i4jC_ |
| not modelled | 12.5 | 8 | PDB header:transferase Chain: C: PDB Molecule:aminotransferase, class iii; PDBTitle: crystal structure of aminotransferase, class iii from2 deinococcus radiodurans
96 | c2cy8A_ |
| not modelled | 12.3 | 17 | PDB header:transferase Chain: A: PDB Molecule:d-phenylglycine aminotransferase; PDBTitle: crystal structure of d-phenylglycine aminotransferase (d-phgat) from2 pseudomonas strutzeri st-201
97 | d2qi2a3 |
| not modelled | 12.1 | 7 | Fold:Bacillus chorismate mutase-like Superfamily:L30e-like Family:ERF1/Dom34 C-terminal domain-like
98 | d1xkya1 |
| not modelled | 12.0 | 6 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase
99 | c2yxgD_ |
| not modelled | 11.9 | 14 | PDB header:lyase Chain: D: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihyrodipicolinate synthase (dapa)

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