Phyre 2 Results for P32664

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Email | l.a.kelley@imperial.ac.uk
Description | P32664
Date | Thu Jan 5 11:49:56 GMT 2012
Unique Job ID | 6aac3adab07b09ec

Summary |

Top model
Image coloured by rainbow N → C terminus
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Model (left) based on template c2gb5B_
Top template information
PDB header:hydrolase Chain: B: PDB Molecule:nadh pyrophosphatase; PDBTitle: crystal structure of nadh pyrophosphatase (ec 3.6.1.22) (1790429) from2 escherichia coli k12 at 2.30 a resolution
Confidence and coverage
Confidence: | 100.0% | Coverage: | 99%
255 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 | D | R | I | I | E | K | L | D | H | G | W | W | V | V | S | H | E | Q | K | L | W | L | P | K | G | E | L | P | Y | G | E | A | A | N | F | D | L | V | G | Q | R | A | L | Q | I | G | E | W | Q | G | E | P | V | W | L | V | Q | Q | Q
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | R | R | H | D | M | G | S | V | R | Q | V | I | D | L | D | V | G | L | F | Q | L | A | G | R | G | V | Q | L | A | E | F | Y | R | S | H | K | Y | C | G | Y | C | G | H | E | M | Y | P | S | K | T | E | W | A | M | L | C | S | H | C | R
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  | ? |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | E | R | Y | Y | P | Q | I | A | P | C | I | I | V | A | I | R | R | D | D | S | I | L | L | A | Q | H | T | R | H | R | N | G | V | H | T | V | L | A | G | F | V | E | V | G | E | T | L | E | Q | A | V | A | R | E | V | M | E | E | S | G
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | I | K | V | K | N | L | R | Y | V | T | S | Q | P | W | P | F | P | Q | S | L | M | T | A | F | M | A | E | Y | D | S | G | D | I | V | I | D | P | K | E | L | L | E | A | N | W | Y | R | Y | D | D | L | P | L | L | P | P | P | G | T | V
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | .
Sequence |  | A | R | R | L | I | E | D | T | V | A | M | C | R | A | E | Y | E
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 |
| c2gb5B_ |

### PDB 2gb5 chain B

Region: 2 - 256
Aligned: 255
Modelled: 255
Confidence: 100.0%
Identity: 97%
PDB header:hydrolase
Chain: B: PDB Molecule:nadh pyrophosphatase;
PDBTitle: crystal structure of nadh pyrophosphatase (ec 3.6.1.22) (1790429) from2 escherichia coli k12 at 2.30 a resolution

Phyre2
2 |
| c3cngC_ |

### PDB 3cng chain C

Region: 95 - 253
Aligned: 158
Modelled: 158
Confidence: 100.0%
Identity: 23%
PDB header:hydrolase
Chain: C: PDB Molecule:nudix hydrolase;
PDBTitle: crystal structure of nudix hydrolase from nitrosomonas europaea

Phyre2
3 |
| d1vk6a2 |

### PDB 1vk6 chain A domain 2

Region: 126 - 256
Aligned: 131
Modelled: 131
Confidence: 100.0%
Identity: 97%
Fold: Nudix
Superfamily: Nudix
Family: NADH pyrophosphatase

Phyre2
4 |
| c3q4iA_ |

### PDB 3q4i chain A

Region: 79 - 256
Aligned: 153
Modelled: 157
Confidence: 99.9%
Identity: 17%
PDB header:hydrolase
Chain: A: PDB Molecule:phosphohydrolase (mutt/nudix family protein);
PDBTitle: crystal structure of cdp-chase in complex with gd3+

Phyre2
5 |
| d2fb1a2 |

### PDB 2fb1 chain A domain 2

Region: 124 - 255
Aligned: 129
Modelled: 130
Confidence: 99.9%
Identity: 19%
Fold: Nudix
Superfamily: Nudix
Family: BT0354 N-terminal domain-like

Phyre2
6 |
| c3gz8C_ |

### PDB 3gz8 chain C

Region: 116 - 253
Aligned: 137
Modelled: 138
Confidence: 99.9%
Identity: 17%
PDB header:dna binding protein
Chain: C: PDB Molecule:mutt/nudix family protein;
PDBTitle: cocrystal structure of nudix domain of shewanella oneidensis2 nrtr complexed with adp ribose

Phyre2
7 |
| c2fb1A_ |

### PDB 2fb1 chain A

Region: 124 - 255
Aligned: 129
Modelled: 132
Confidence: 99.9%
Identity: 19%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved hypothetical protein;
PDBTitle: crystal structure of protein bt0354 from bacteroides thetaiotaomicron

Phyre2
8 |
| c3h95A_ |

### PDB 3h95 chain A

Region: 126 - 253
Aligned: 125
Modelled: 128
Confidence: 99.9%
Identity: 20%
PDB header:gene regulation
Chain: A: PDB Molecule:nucleoside diphosphate-linked moiety x motif 6;
PDBTitle: crystal structure of the nudix domain of nudt6

Phyre2
9 |
| c3dkuB_ |

### PDB 3dku chain B

Region: 126 - 257
Aligned: 132
Modelled: 132
Confidence: 99.9%
Identity: 19%
PDB header:hydrolase
Chain: B: PDB Molecule:putative phosphohydrolase;
PDBTitle: crystal structure of nudix hydrolase orf153, ymfb, from2 escherichia coli k-1

Phyre2
10 |
| d2b0va1 |

### PDB 2b0v chain A domain 1

Region: 126 - 253
Aligned: 128
Modelled: 128
Confidence: 99.9%
Identity: 24%
Fold: Nudix
Superfamily: Nudix
Family: MutT-like

Phyre2
11 |
| d2fmla2 |

### PDB 2fml chain A domain 2

Region: 96 - 257
Aligned: 161
Modelled: 162
Confidence: 99.9%
Identity: 19%
Fold: Nudix
Superfamily: Nudix
Family: BT0354 N-terminal domain-like

Phyre2
12 |
| c3o8sA_ |

### PDB 3o8s chain A

Region: 126 - 257
Aligned: 127
Modelled: 132
Confidence: 99.9%
Identity: 23%
PDB header:hydrolase
Chain: A: PDB Molecule:adp-ribose pyrophosphatase;
PDBTitle: crystal structure of an adp-ribose pyrophosphatase (ssu98_1448) from2 streptococcus suis 89-1591 at 2.27 a resolution

Phyre2
13 |
| c2pq1B_ |

### PDB 2pq1 chain B

Region: 130 - 253
Aligned: 119
Modelled: 124
Confidence: 99.9%
Identity: 20%
PDB header:hydrolase
Chain: B: PDB Molecule:ap4a hydrolase;
PDBTitle: crystal structure of ap4a hydrolase complexed with amp and2 atp (aq_158) from aquifex aeolicus vf5

Phyre2
14 |
| c3gg6A_ |

### PDB 3gg6 chain A

Region: 121 - 256
Aligned: 134
Modelled: 136
Confidence: 99.9%
Identity: 24%
PDB header:hydrolase
Chain: A: PDB Molecule:nucleoside diphosphate-linked moiety x motif 18;
PDBTitle: crystal structure of the nudix domain of human nudt18

Phyre2
15 |
| c2qjoB_ |

### PDB 2qjo chain B

Region: 124 - 252
Aligned: 129
Modelled: 129
Confidence: 99.9%
Identity: 19%
PDB header:transferase, hydrolase
Chain: B: PDB Molecule:bifunctional nmn adenylyltransferase/nudix hydrolase;
PDBTitle: crystal structure of a bifunctional nmn adenylyltransferase/adp ribose2 pyrophosphatase (nadm) complexed with adprp and nad from3 synechocystis sp.

Phyre2
16 |
| c3gz6A_ |

### PDB 3gz6 chain A

Region: 130 - 255
Aligned: 125
Modelled: 126
Confidence: 99.8%
Identity: 18%
PDB header:dna binding protein/dna
Chain: A: PDB Molecule:mutt/nudix family protein;
PDBTitle: crystal structure of shewanella oneidensis nrtr complexed2 with a 27mer dna

Phyre2
17 |
| d1sjya_ |

### PDB 1sjy chain A

Region: 118 - 253
Aligned: 136
Modelled: 136
Confidence: 99.8%
Identity: 24%
Fold: Nudix
Superfamily: Nudix
Family: MutT-like

Phyre2
18 |
| c3rh7A_ |

### PDB 3rh7 chain A

Region: 127 - 253
Aligned: 114
Modelled: 127
Confidence: 99.8%
Identity: 14%
PDB header:oxidoreductase
Chain: A: PDB Molecule:hypothetical oxidoreductase;
PDBTitle: crystal structure of a hypothetical oxidoreductase (sma0793) from2 sinorhizobium meliloti 1021 at 3.00 a resolution

Phyre2
19 |
| c3ef5A_ |

### PDB 3ef5 chain A

Region: 129 - 252
Aligned: 123
Modelled: 124
Confidence: 99.8%
Identity: 22%
PDB header:hydrolase
Chain: A: PDB Molecule:probable pyrophosphohydrolase;
PDBTitle: structure of the rna pyrophosphohydrolase bdrpph in complex with dgtp

Phyre2
20 |
| c3grnB_ |

### PDB 3grn chain B

Region: 125 - 253
Aligned: 128
Modelled: 129
Confidence: 99.8%
Identity: 21%
PDB header:hydrolase
Chain: B: PDB Molecule:mutt related protein;
PDBTitle: crystal structure of mutt protein from methanosarcina mazei go1

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c2gb5B_ |
|  | 100.0 | 97 | PDB header:hydrolase Chain: B: PDB Molecule:nadh pyrophosphatase; PDBTitle: crystal structure of nadh pyrophosphatase (ec 3.6.1.22) (1790429) from2 escherichia coli k12 at 2.30 a resolution
2 | c3cngC_ |
|  | 100.0 | 23 | PDB header:hydrolase Chain: C: PDB Molecule:nudix hydrolase; PDBTitle: crystal structure of nudix hydrolase from nitrosomonas europaea
3 | d1vk6a2 |
|  | 100.0 | 97 | Fold:Nudix Superfamily:Nudix Family:NADH pyrophosphatase
4 | c3q4iA_ |
|  | 99.9 | 17 | PDB header:hydrolase Chain: A: PDB Molecule:phosphohydrolase (mutt/nudix family protein); PDBTitle: crystal structure of cdp-chase in complex with gd3+
5 | d2fb1a2 |
|  | 99.9 | 19 | Fold:Nudix Superfamily:Nudix Family:BT0354 N-terminal domain-like
6 | c3gz8C_ |
|  | 99.9 | 17 | PDB header:dna binding protein Chain: C: PDB Molecule:mutt/nudix family protein; PDBTitle: cocrystal structure of nudix domain of shewanella oneidensis2 nrtr complexed with adp ribose
7 | c2fb1A_ |
|  | 99.9 | 19 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved hypothetical protein; PDBTitle: crystal structure of protein bt0354 from bacteroides thetaiotaomicron
8 | c3h95A_ |
|  | 99.9 | 20 | PDB header:gene regulation Chain: A: PDB Molecule:nucleoside diphosphate-linked moiety x motif 6; PDBTitle: crystal structure of the nudix domain of nudt6
9 | c3dkuB_ |
|  | 99.9 | 19 | PDB header:hydrolase Chain: B: PDB Molecule:putative phosphohydrolase; PDBTitle: crystal structure of nudix hydrolase orf153, ymfb, from2 escherichia coli k-1
10 | d2b0va1 |
|  | 99.9 | 24 | Fold:Nudix Superfamily:Nudix Family:MutT-like
11 | d2fmla2 |
|  | 99.9 | 19 | Fold:Nudix Superfamily:Nudix Family:BT0354 N-terminal domain-like
12 | c3o8sA_ |
|  | 99.9 | 23 | PDB header:hydrolase Chain: A: PDB Molecule:adp-ribose pyrophosphatase; PDBTitle: crystal structure of an adp-ribose pyrophosphatase (ssu98_1448) from2 streptococcus suis 89-1591 at 2.27 a resolution
13 | c2pq1B_ |
|  | 99.9 | 20 | PDB header:hydrolase Chain: B: PDB Molecule:ap4a hydrolase; PDBTitle: crystal structure of ap4a hydrolase complexed with amp and2 atp (aq_158) from aquifex aeolicus vf5
14 | c3gg6A_ |
|  | 99.9 | 24 | PDB header:hydrolase Chain: A: PDB Molecule:nucleoside diphosphate-linked moiety x motif 18; PDBTitle: crystal structure of the nudix domain of human nudt18
15 | c2qjoB_ |
|  | 99.9 | 19 | PDB header:transferase, hydrolase Chain: B: PDB Molecule:bifunctional nmn adenylyltransferase/nudix hydrolase; PDBTitle: crystal structure of a bifunctional nmn adenylyltransferase/adp ribose2 pyrophosphatase (nadm) complexed with adprp and nad from3 synechocystis sp.
16 | c3gz6A_ |
|  | 99.8 | 18 | PDB header:dna binding protein/dna Chain: A: PDB Molecule:mutt/nudix family protein; PDBTitle: crystal structure of shewanella oneidensis nrtr complexed2 with a 27mer dna
17 | d1sjya_ |
|  | 99.8 | 24 | Fold:Nudix Superfamily:Nudix Family:MutT-like
18 | c3rh7A_ |
|  | 99.8 | 14 | PDB header:oxidoreductase Chain: A: PDB Molecule:hypothetical oxidoreductase; PDBTitle: crystal structure of a hypothetical oxidoreductase (sma0793) from2 sinorhizobium meliloti 1021 at 3.00 a resolution
19 | c3ef5A_ |
|  | 99.8 | 22 | PDB header:hydrolase Chain: A: PDB Molecule:probable pyrophosphohydrolase; PDBTitle: structure of the rna pyrophosphohydrolase bdrpph in complex with dgtp
20 | c3grnB_ |
|  | 99.8 | 21 | PDB header:hydrolase Chain: B: PDB Molecule:mutt related protein; PDBTitle: crystal structure of mutt protein from methanosarcina mazei go1
21 | c2yyhC_ |
| not modelled | 99.8 | 22 | PDB header:hydrolase Chain: C: PDB Molecule:8-oxo-dgtpase domain; PDBTitle: crystal structure of nudix family protein from aquifex aeolicus
22 | c2r5wA_ |
| not modelled | 99.8 | 19 | PDB header:hydrolase, transferase Chain: A: PDB Molecule:nicotinamide-nucleotide adenylyltransferase; PDBTitle: crystal structure of a bifunctional nmn2 adenylyltransferase/adp ribose pyrophosphatase from3 francisella tularensis
23 | d1vhza_ |
| not modelled | 99.8 | 18 | Fold:Nudix Superfamily:Nudix Family:MutT-like
24 | c3fk9B_ |
| not modelled | 99.8 | 23 | PDB header:hydrolase Chain: B: PDB Molecule:mutator mutt protein; PDBTitle: crystal structure of mmutator mutt protein from bacillus2 halodurans
25 | d1vk6a3 |
| not modelled | 99.8 | 98 | Fold:Nudix Superfamily:Nudix Family:NADH pyrophosphatase
26 | c3f6aA_ |
| not modelled | 99.8 | 22 | PDB header:hydrolase Chain: A: PDB Molecule:hydrolase, nudix family; PDBTitle: crystal structure of a hydrolase, nudix family from2 clostridium perfringens
27 | d1ryaa_ |
| not modelled | 99.8 | 18 | Fold:Nudix Superfamily:Nudix Family:GDP-mannose mannosyl hydrolase NudD
28 | c3gwyA_ |
| not modelled | 99.8 | 23 | PDB header:hydrolase Chain: A: PDB Molecule:putative ctp pyrophosphohydrolase; PDBTitle: crystal structure of putative ctp pyrophosphohydrolase from2 bacteroides fragilis
29 | c2fmlB_ |
| not modelled | 99.8 | 22 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:mutt/nudix family protein; PDBTitle: crystal structure of mutt/nudix family protein from enterococcus2 faecalis
30 | c2kdvA_ |
| not modelled | 99.8 | 24 | PDB header:hydrolase Chain: A: PDB Molecule:rna pyrophosphohydrolase; PDBTitle: solution structure of rna pyrophosphohydrolase rpph from2 escherichia coli
31 | c3i9xA_ |
| not modelled | 99.8 | 19 | PDB header:hydrolase Chain: A: PDB Molecule:mutt/nudix family protein; PDBTitle: crystal structure of a mutt/nudix family protein from listeria innocua
32 | d2azwa1 |
| not modelled | 99.8 | 20 | Fold:Nudix Superfamily:Nudix Family:MutT-like
33 | d1irya_ |
| not modelled | 99.8 | 22 | Fold:Nudix Superfamily:Nudix Family:MutT-like
34 | c3e57A_ |
| not modelled | 99.8 | 15 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein tm1382; PDBTitle: crystal structure of tm1382, a putative nudix hydrolase
35 | d1k2ea_ |
| not modelled | 99.8 | 23 | Fold:Nudix Superfamily:Nudix Family:MutT-like
36 | c3r03B_ |
| not modelled | 99.8 | 24 | PDB header:hydrolase Chain: B: PDB Molecule:nudix hydrolase; PDBTitle: the crystal structure of nudix hydrolase from rhodospirillum rubrum
37 | d2b06a1 |
| not modelled | 99.8 | 23 | Fold:Nudix Superfamily:Nudix Family:MutT-like
38 | c3hhjA_ |
| not modelled | 99.8 | 23 | PDB header:hydrolase Chain: A: PDB Molecule:mutator mutt protein; PDBTitle: crystal structure of mutator mutt from bartonella henselae
39 | c2w4eA_ |
| not modelled | 99.8 | 19 | PDB header:hydrolase Chain: A: PDB Molecule:mutt/nudix family protein; PDBTitle: structure of an n-terminally truncated nudix hydrolase2 dr2204 from deinococcus radiodurans
40 | d1v8ya_ |
| not modelled | 99.8 | 22 | Fold:Nudix Superfamily:Nudix Family:MutT-like
41 | d2fkba1 |
| not modelled | 99.8 | 15 | Fold:Nudix Superfamily:Nudix Family:IPP isomerase-like
42 | c2yvoA_ |
| not modelled | 99.8 | 28 | PDB header:hydrolase Chain: A: PDB Molecule:mutt/nudix family protein; PDBTitle: crystal structure of ndx2 in complex with mg2+ and amp from thermus2 thermophilus hb8
43 | d1vcda1 |
| not modelled | 99.8 | 21 | Fold:Nudix Superfamily:Nudix Family:MutT-like
44 | d1g0sa_ |
| not modelled | 99.8 | 18 | Fold:Nudix Superfamily:Nudix Family:MutT-like
45 | c3id9B_ |
| not modelled | 99.8 | 27 | PDB header:hydrolase Chain: B: PDB Molecule:mutt/nudix family protein; PDBTitle: crystal structure of a mutt/nudix family protein from2 bacillus thuringiensis
46 | c2jvbA_ |
| not modelled | 99.8 | 17 | PDB header:hydrolase Chain: A: PDB Molecule:mrna-decapping enzyme subunit 2; PDBTitle: solution structure of catalytic domain of ydcp2
47 | c2pqvA_ |
| not modelled | 99.8 | 18 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:mutt/nudix family protein; PDBTitle: crystal structure of mutt/nudix family protein from streptococcus2 pneumoniae
48 | c3n77B_ |
| not modelled | 99.8 | 25 | PDB header:hydrolase Chain: B: PDB Molecule:nucleoside triphosphatase nudi; PDBTitle: crystal structure of idp01880, putative ntp pyrophosphohydrolase of2 salmonella typhimurium lt2
49 | c3fjyB_ |
| not modelled | 99.8 | 20 | PDB header:hydrolase Chain: B: PDB Molecule:probable mutt1 protein; PDBTitle: crystal structure of a probable mutt1 protein from bifidobacterium2 adolescentis
50 | d2fvva1 |
| not modelled | 99.8 | 20 | Fold:Nudix Superfamily:Nudix Family:MutT-like
51 | c2fvvA_ |
| not modelled | 99.8 | 20 | PDB header:hydrolase Chain: A: PDB Molecule:diphosphoinositol polyphosphate phosphohydrolase PDBTitle: human diphosphoinositol polyphosphate phosphohydrolase 1
52 | c3exqA_ |
| not modelled | 99.8 | 21 | PDB header:hydrolase Chain: A: PDB Molecule:nudix family hydrolase; PDBTitle: crystal structure of a nudix family hydrolase from2 lactobacillus brevis
53 | d1puna_ |
| not modelled | 99.8 | 20 | Fold:Nudix Superfamily:Nudix Family:MutT-like
54 | c3bm4B_ |
| not modelled | 99.7 | 20 | PDB header:hydrolase Chain: B: PDB Molecule:adp-sugar pyrophosphatase; PDBTitle: crystal structure of human adp-ribose pyrophosphatase nudt52 in complex with magnesium and ampcpr
55 | c2o1cB_ |
| not modelled | 99.7 | 23 | PDB header:hydrolase Chain: B: PDB Molecule:datp pyrophosphohydrolase; PDBTitle: structure of the e. coli dihydroneopterin triphosphate2 pyrophosphohydrolase
56 | c3f13A_ |
| not modelled | 99.7 | 22 | PDB header:hydrolase Chain: A: PDB Molecule:putative nudix hydrolase family member; PDBTitle: crystal structure of putative nudix hydrolase family member2 from chromobacterium violaceum
57 | d1ktga_ |
| not modelled | 99.7 | 19 | Fold:Nudix Superfamily:Nudix Family:MutT-like
58 | d1jkna_ |
| not modelled | 99.7 | 18 | Fold:Nudix Superfamily:Nudix Family:MutT-like
59 | d2a6ta2 |
| not modelled | 99.7 | 15 | Fold:Nudix Superfamily:Nudix Family:mRNA decapping enzyme-like
60 | d1xsba_ |
| not modelled | 99.7 | 17 | Fold:Nudix Superfamily:Nudix Family:MutT-like
61 | d1nqza_ |
| not modelled | 99.7 | 20 | Fold:Nudix Superfamily:Nudix Family:MutT-like
62 | c3sonB_ |
| not modelled | 99.7 | 16 | PDB header:hydrolase Chain: B: PDB Molecule:hypothetical nudix hydrolase; PDBTitle: crystal structure of a hypothetical nudix hydrolase (lmof2365_2679)2 from listeria monocytogenes (atcc 19115) at 1.70 a resolution
63 | c2qkmF_ |
| not modelled | 99.7 | 16 | PDB header:hydrolase Chain: F: PDB Molecule:spac19a8.12 protein; PDBTitle: the crystal structure of fission yeast mrna decapping enzyme dcp1-dcp22 complex
64 | d2o5fa1 |
| not modelled | 99.7 | 18 | Fold:Nudix Superfamily:Nudix Family:IPP isomerase-like
65 | c3edsA_ |
| not modelled | 99.7 | 25 | PDB header:hydrolase Chain: A: PDB Molecule:mutt/nudix family protein; PDBTitle: crystal structure of a mut/nudix family protein from bacillus2 thuringiensis
66 | d1q33a_ |
| not modelled | 99.7 | 22 | Fold:Nudix Superfamily:Nudix Family:MutT-like
67 | d1ppva_ |
| not modelled | 99.7 | 18 | Fold:Nudix Superfamily:Nudix Family:IPP isomerase-like
68 | c3fcmA_ |
| not modelled | 99.7 | 10 | PDB header:hydrolase Chain: A: PDB Molecule:hydrolase, nudix family; PDBTitle: crystal structure of a nudix hydrolase from clostridium2 perfringens
69 | d1hzta_ |
| not modelled | 99.7 | 17 | Fold:Nudix Superfamily:Nudix Family:IPP isomerase-like
70 | d1mqea_ |
| not modelled | 99.7 | 19 | Fold:Nudix Superfamily:Nudix Family:MutT-like
71 | d1viua_ |
| not modelled | 99.7 | 18 | Fold:Nudix Superfamily:Nudix Family:MutT-like
72 | c3q91D_ |
| not modelled | 99.6 | 21 | PDB header:hydrolase Chain: D: PDB Molecule:uridine diphosphate glucose pyrophosphatase; PDBTitle: crystal structure of human uridine diphosphate glucose pyrophosphatase2 (nudt14)
73 | c1rrqA_ |
| not modelled | 99.6 | 13 | PDB header:hydrolase/dna Chain: A: PDB Molecule:muty; PDBTitle: muty adenine glycosylase in complex with dna containing an2 a:oxog pair
74 | d1x51a1 |
| not modelled | 99.6 | 12 | Fold:Nudix Superfamily:Nudix Family:MutY C-terminal domain-like
75 | d1rrqa2 |
| not modelled | 99.6 | 13 | Fold:Nudix Superfamily:Nudix Family:MutY C-terminal domain-like
76 | c2i6kA_ |
| not modelled | 99.5 | 17 | PDB header:isomerase Chain: A: PDB Molecule:isopentenyl-diphosphate delta-isomerase 1; PDBTitle: crystal structure of human type i ipp isomerase complexed2 with a substrate analog
77 | c3dupB_ |
| not modelled | 99.4 | 11 | PDB header:hydrolase Chain: B: PDB Molecule:mutt/nudix family protein; PDBTitle: crystal structure of mutt/nudix family hydrolase from rhodospirillum2 rubrum atcc 11170
78 | c2pnyA_ |
| not modelled | 99.3 | 16 | PDB header:isomerase Chain: A: PDB Molecule:isopentenyl-diphosphate delta-isomerase 2; PDBTitle: structure of human isopentenyl-diphosphate delta-isomerase 2
79 | d1u20a1 |
| not modelled | 99.3 | 19 | Fold:Nudix Superfamily:Nudix Family:MutT-like
80 | c2j8qB_ |
| not modelled | 99.2 | 16 | PDB header:nuclear protein Chain: B: PDB Molecule:cleavage and polyadenylation specificity factor 5; PDBTitle: crystal structure of human cleavage and polyadenylation2 specificity factor 5 (cpsf5) in complex with a sulphate3 ion.
81 | c3qsjA_ |
| not modelled | 98.9 | 32 | PDB header:hydrolase Chain: A: PDB Molecule:nudix hydrolase; PDBTitle: crystal structure of nudix hydrolase from alicyclobacillus2 acidocaldarius
82 | c3couA_ |
| not modelled | 98.4 | 24 | PDB header:hydrolase Chain: A: PDB Molecule:nucleoside diphosphate-linked moiety x motif 16; PDBTitle: crystal structure of human nudix motif 16 (nudt16)
83 | c3kvhA_ |
| not modelled | 97.9 | 15 | PDB header:rna binding protein Chain: A: PDB Molecule:protein syndesmos; PDBTitle: crystal structure of human protein syndesmos (nudt16-like protein)
84 | c3p5tE_ |
| not modelled | 95.2 | 17 | PDB header:rna binding protein Chain: E: PDB Molecule:cleavage and polyadenylation specificity factor subunit 5; PDBTitle: cfim25-cfim68 complex
85 | d2ct7a1 |
| not modelled | 94.1 | 13 | Fold:RING/U-box Superfamily:RING/U-box Family:IBR domain
86 | d2fiya1 |
| not modelled | 93.2 | 23 | Fold:FdhE-like Superfamily:FdhE-like Family:FdhE-like
87 | c1i3qI_ |
| not modelled | 93.0 | 21 | PDB header:transcription Chain: I: PDB Molecule:dna-directed rna polymerase ii 14.2kd PDBTitle: rna polymerase ii crystal form i at 3.1 a resolution
88 | c1nnjA_ |
| not modelled | 92.8 | 21 | PDB header:hydrolase Chain: A: PDB Molecule:formamidopyrimidine-dna glycosylase; PDBTitle: crystal structure complex between the lactococcus lactis fpg and an2 abasic site containing dna
89 | d2k4xa1 |
| not modelled | 92.6 | 22 | Fold:Rubredoxin-like Superfamily:Zn-binding ribosomal proteins Family:Ribosomal protein S27a
90 | c2js4A_ |
| not modelled | 92.5 | 15 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0434 protein bb2007; PDBTitle: solution nmr structure of bordetella bronchiseptica protein2 bb2007. northeast structural genomics consortium target3 bor54
91 | c2f5qA_ |
| not modelled | 92.5 | 21 | PDB header:hydrolase/dna Chain: A: PDB Molecule:formamidopyrimidine-dna glycosidase; PDBTitle: catalytically inactive (e3q) mutm crosslinked to oxog:c2 containing dna cc2
92 | c2jr6A_ |
| not modelled | 92.0 | 8 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0434 protein nma0874; PDBTitle: solution structure of upf0434 protein nma0874. northeast structural2 genomics target mr32
93 | c3h0gI_ |
| not modelled | 92.0 | 25 | PDB header:transcription Chain: I: PDB Molecule:dna-directed rna polymerase ii subunit rpb9; PDBTitle: rna polymerase ii from schizosaccharomyces pombe
94 | c1k82D_ |
| not modelled | 91.9 | 20 | PDB header:hydrolase/dna Chain: D: PDB Molecule:formamidopyrimidine-dna glycosylase; PDBTitle: crystal structure of e.coli formamidopyrimidine-dna2 glycosylase (fpg) covalently trapped with dna
95 | c2opfA_ |
| not modelled | 91.8 | 20 | PDB header:hydrolase/dna Chain: A: PDB Molecule:endonuclease viii; PDBTitle: crystal structure of the dna repair enzyme endonuclease-viii (nei)2 from e. coli (r252a) in complex with ap-site containing dna substrate
96 | d2jnya1 |
| not modelled | 91.4 | 12 | Fold:Trm112p-like Superfamily:Trm112p-like Family:Trm112p-like
97 | c2aklA_ |
| not modelled | 90.6 | 20 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:phna-like protein pa0128; PDBTitle: solution structure for phn-a like protein pa0128 from2 pseudomonas aeruginosa
98 | d2pk7a1 |
| not modelled | 90.0 | 15 | Fold:Trm112p-like Superfamily:Trm112p-like Family:Trm112p-like
99 | c2kpiA_ |
| not modelled | 89.2 | 19 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein sco3027; PDBTitle: solution nmr structure of streptomyces coelicolor sco30272 modeled with zn+2 bound, northeast structural genomics3 consortium target rr58
100 | c1ee8A_ |
| not modelled | 89.1 | 21 | PDB header:dna binding protein Chain: A: PDB Molecule:mutm (fpg) protein; PDBTitle: crystal structure of mutm (fpg) protein from thermus thermophilus hb8
101 | d2hf1a1 |
| not modelled | 88.9 | 19 | Fold:Trm112p-like Superfamily:Trm112p-like Family:Trm112p-like
102 | d1pfta_ |
| not modelled | 88.1 | 21 | Fold:Rubredoxin-like Superfamily:Zinc beta-ribbon Family:Transcriptional factor domain
103 | c2pziA_ |
| not modelled | 87.9 | 13 | PDB header:transferase Chain: A: PDB Molecule:probable serine/threonine-protein kinase pkng; PDBTitle: crystal structure of protein kinase pkng from mycobacterium2 tuberculosis in complex with tetrahydrobenzothiophene ax20017
104 | c1hk8A_ |
| not modelled | 87.4 | 25 | PDB header:oxidoreductase Chain: A: PDB Molecule:anaerobic ribonucleotide-triphosphate reductase; PDBTitle: structural basis for allosteric substrate specificity2 regulation in class iii ribonucleotide reductases:3 nrdd in complex with dgtp
105 | d1hk8a_ |
| not modelled | 87.4 | 25 | Fold:PFL-like glycyl radical enzymes Superfamily:PFL-like glycyl radical enzymes Family:Class III anaerobic ribonucleotide reductase NRDD subunit
106 | c2k5cA_ |
| not modelled | 86.9 | 28 | PDB header:metal binding protein Chain: A: PDB Molecule:uncharacterized protein pf0385; PDBTitle: nmr structure for pf0385
107 | d2akla2 |
| not modelled | 86.0 | 22 | Fold:Rubredoxin-like Superfamily:Zinc beta-ribbon Family:PhnA zinc-binding domain
108 | d1ee8a3 |
| not modelled | 85.7 | 21 | Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins
109 | c1vddC_ |
| not modelled | 85.5 | 19 | PDB header:recombination Chain: C: PDB Molecule:recombination protein recr; PDBTitle: crystal structure of recombinational repair protein recr
110 | d1tdza3 |
| not modelled | 85.2 | 21 | Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins
111 | d1vdda_ |
| not modelled | 85.1 | 15 | Fold:Recombination protein RecR Superfamily:Recombination protein RecR Family:Recombination protein RecR
112 | d1x3za1 |
| not modelled | 84.5 | 20 | Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Transglutaminase core
113 | d1r2za3 |
| not modelled | 84.4 | 21 | Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins
114 | c2ba1B_ |
| not modelled | 83.4 | 23 | PDB header:rna binding protein Chain: B: PDB Molecule:archaeal exosome rna binding protein csl4; PDBTitle: archaeal exosome core
115 | d2f4ma1 |
| not modelled | 82.9 | 19 | Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Transglutaminase core
116 | d1k82a3 |
| not modelled | 82.1 | 21 | Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins
117 | d1k3xa3 |
| not modelled | 82.0 | 21 | Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins
118 | c2owoA_ |
| not modelled | 81.9 | 22 | PDB header:ligase/dna Chain: A: PDB Molecule:dna ligase; PDBTitle: last stop on the road to repair: structure of e.coli dna ligase bound2 to nicked dna-adenylate
119 | c3k7aM_ |
| not modelled | 81.7 | 17 | PDB header:transcription Chain: M: PDB Molecule:transcription initiation factor iib; PDBTitle: crystal structure of an rna polymerase ii-tfiib complex
120 | d1dl6a_ |
| not modelled | 81.5 | 13 | Fold:Rubredoxin-like Superfamily:Zinc beta-ribbon Family:Transcriptional factor domain

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