Phyre 2 Results for P21156

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Email | l.a.kelley@imperial.ac.uk
Description | P21156
Date | Thu Jan 5 11:37:52 GMT 2012
Unique Job ID | 9bfbabc29201b47d

Summary |

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

Model (left) based on template c2oq2B_
Top template information
PDB header:oxidoreductase Chain: B: PDB Molecule:phosphoadenosine phosphosulfate reductase; PDBTitle: crystal structure of yeast paps reductase with pap, a product complex
Confidence and coverage
Confidence: | 100.0% | Coverage: | 70%
212 residues ( 70% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
276 residues ( 91%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis |

Secondary structure and disorder prediction |

|  | 1 | . | . | . | . | . | . | . | . | 10 | . | . | . | . | . | . | . | . | . | 20 | . | . | . | . | . | . | . | . | . | 30 | . | . | . | . | . | . | . | . | . | 40 | . | . | . | . | . | . | . | . | . | 50 | . | . | . | . | . | . | . | . | . | 60
Sequence |  | M | D | Q | I | R | L | T | H | L | R | Q | L | E | A | E | S | I | H | I | I | R | E | V | A | A | E | F | S | N | P | V | M | L | Y | S | I | G | K | D | S | S | V | M | L | H | L | A | R | K | A | F | Y | P | G | T | L | P | F | P | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | L | H | V | D | T | G | W | K | F | R | E | M | Y | E | F | R | D | R | T | A | K | A | Y | G | C | E | L | L | V | H | K | N | P | E | G | V | A | M | G | I | N | P | F | V | H | G | S | A | K | H | T | D | I | M | K | T | E | G | L | K
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | Q | A | L | N | K | Y | G | F | D | A | A | F | G | G | A | R | R | D | E | E | K | S | R | A | K | E | R | I | Y | S | F | R | D | R | F | H | R | W | D | P | K | N | Q | R | P | E | L | W | H | N | Y | N | G | Q | I | N | K | G | E | S
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? |  | ? |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  | ? |  |  |  |  | ? |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | I | R | V | F | P | L | S | N | W | T | E | Q | D | I | W | Q | Y | I | W | L | E | N | I | D | I | V | P | L | Y | L | A | A | E | R | P | V | L | E | R | D | G | M | L | M | M | I | D | D | N | R | I | D | L | Q | P | G | E | V | I | K
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  | ? |  | ? | ? | ? | ? | ? | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | . | . | . | . | . | . | . | . | 290 | . | . | . | . | . | . | . | . | . | 300
Sequence |  | K | R | M | V | R | F | R | T | L | G | C | W | P | L | T | G | A | V | E | S | N | A | Q | T | L | P | E | I | I | E | E | M | L | V | S | T | T | S | E | R | Q | G | R | V | I | D | R | D | Q | A | G | S | M | E | L | K | K | R | Q | G
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  | ? |  |  | ? |  | ? | ? | ? |  | ? | ? |  | ? | ? |  | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  | ? | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | .
Sequence |  | Y | F
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 |
| c2oq2B_ |

### PDB 2oq2 chain B

Region: 1 - 284
Aligned: 212
Modelled: 213
Confidence: 100.0%
Identity: 27%
PDB header:oxidoreductase
Chain: B: PDB Molecule:phosphoadenosine phosphosulfate reductase;
PDBTitle: crystal structure of yeast paps reductase with pap, a product complex

Phyre2
2 |
| c2goyC_ |

### PDB 2goy chain C

Region: 1 - 285
Aligned: 210
Modelled: 219
Confidence: 100.0%
Identity: 27%
PDB header:oxidoreductase
Chain: C: PDB Molecule:adenosine phosphosulfate reductase;
PDBTitle: crystal structure of assimilatory adenosine 5'-2 phosphosulfate reductase with bound aps

Phyre2
3 |
| c2o8vA_ |

### PDB 2o8v chain A

Region: 3 - 261
Aligned: 197
Modelled: 201
Confidence: 100.0%
Identity: 26%
PDB header:oxidoreductase
Chain: A: PDB Molecule:phosphoadenosine phosphosulfate reductase;
PDBTitle: paps reductase in a covalent complex with thioredoxin c35a

Phyre2
4 |
| c3g59A_ |

### PDB 3g59 chain A

Region: 6 - 287
Aligned: 209
Modelled: 212
Confidence: 100.0%
Identity: 23%
PDB header:transferase
Chain: A: PDB Molecule:fmn adenylyltransferase;
PDBTitle: crystal structure of candida glabrata fmn2 adenylyltransferase in complex with atp

Phyre2
5 |
| c2wsiA_ |

### PDB 2wsi chain A

Region: 6 - 283
Aligned: 236
Modelled: 236
Confidence: 100.0%
Identity: 21%
PDB header:transferase
Chain: A: PDB Molecule:fad synthetase;
PDBTitle: crystal structure of yeast fad synthetase (fad1) in complex2 with fad

Phyre2
6 |
| c1zunA_ |

### PDB 1zun chain A

Region: 2 - 212
Aligned: 189
Modelled: 189
Confidence: 100.0%
Identity: 55%
PDB header:transferase
Chain: A: PDB Molecule:sulfate adenylyltransferase subunit 2;
PDBTitle: crystal structure of a gtp-regulated atp sulfurylase2 heterodimer from pseudomonas syringae

Phyre2
7 |
| d1sura_ |

### PDB 1sur chain A

Region: 16 - 253
Aligned: 176
Modelled: 180
Confidence: 100.0%
Identity: 26%
Fold: Adenine nucleotide alpha hydrolase-like
Superfamily: Adenine nucleotide alpha hydrolases-like
Family: PAPS reductase-like

Phyre2
8 |
| d1zuna1 |

### PDB 1zun chain A domain 1

Region: 4 - 212
Aligned: 195
Modelled: 195
Confidence: 100.0%
Identity: 79%
Fold: Adenine nucleotide alpha hydrolase-like
Superfamily: Adenine nucleotide alpha hydrolases-like
Family: PAPS reductase-like

Phyre2
9 |
| c3a2kB_ |

### PDB 3a2k chain B

Region: 15 - 282
Aligned: 244
Modelled: 268
Confidence: 99.9%
Identity: 15%
PDB header:ligase/rna
Chain: B: PDB Molecule:trna(ile)-lysidine synthase;
PDBTitle: crystal structure of tils complexed with trna

Phyre2
10 |
| c2e21A_ |

### PDB 2e21 chain A

Region: 6 - 235
Aligned: 205
Modelled: 215
Confidence: 99.9%
Identity: 14%
PDB header:ligase
Chain: A: PDB Molecule:trna(ile)-lysidine synthase;
PDBTitle: crystal structure of tils in a complex with amppnp from aquifex2 aeolicus.

Phyre2
11 |
| c1ni5A_ |

### PDB 1ni5 chain A

Region: 20 - 235
Aligned: 189
Modelled: 205
Confidence: 99.9%
Identity: 11%
PDB header:cell cycle
Chain: A: PDB Molecule:putative cell cycle protein mesj;
PDBTitle: structure of the mesj pp-atpase from escherichia coli

Phyre2
12 |
| d1wy5a1 |

### PDB 1wy5 chain A domain 1

Region: 13 - 235
Aligned: 198
Modelled: 208
Confidence: 99.9%
Identity: 16%
Fold: Adenine nucleotide alpha hydrolase-like
Superfamily: Adenine nucleotide alpha hydrolases-like
Family: PP-loop ATPase

Phyre2
13 |
| c3bl5E_ |

### PDB 3bl5 chain E

Region: 28 - 255
Aligned: 182
Modelled: 187
Confidence: 99.9%
Identity: 12%
PDB header:hydrolase
Chain: E: PDB Molecule:queuosine biosynthesis protein quec;
PDBTitle: crystal structure of quec from bacillus subtilis: an enzyme2 involved in preq1 biosynthesis

Phyre2
14 |
| d1ni5a1 |

### PDB 1ni5 chain A domain 1

Region: 20 - 243
Aligned: 197
Modelled: 213
Confidence: 99.9%
Identity: 11%
Fold: Adenine nucleotide alpha hydrolase-like
Superfamily: Adenine nucleotide alpha hydrolases-like
Family: PP-loop ATPase

Phyre2
15 |
| d1k92a1 |

### PDB 1k92 chain A domain 1

Region: 28 - 205
Aligned: 150
Modelled: 150
Confidence: 99.8%
Identity: 17%
Fold: Adenine nucleotide alpha hydrolase-like
Superfamily: Adenine nucleotide alpha hydrolases-like
Family: N-type ATP pyrophosphatases

Phyre2
16 |
| d1j20a1 |

### PDB 1j20 chain A domain 1

Region: 29 - 205
Aligned: 148
Modelled: 150
Confidence: 99.8%
Identity: 18%
Fold: Adenine nucleotide alpha hydrolase-like
Superfamily: Adenine nucleotide alpha hydrolases-like
Family: N-type ATP pyrophosphatases

Phyre2
17 |
| c2dplA_ |

### PDB 2dpl chain A

Region: 10 - 204
Aligned: 152
Modelled: 156
Confidence: 99.8%
Identity: 18%
PDB header:ligase
Chain: A: PDB Molecule:gmp synthase [glutamine-hydrolyzing] subunit b;
PDBTitle: crystal structure of the gmp synthase from pyrococcus horikoshii ot3

Phyre2
18 |
| d1vl2a1 |

### PDB 1vl2 chain A domain 1

Region: 28 - 205
Aligned: 148
Modelled: 154
Confidence: 99.7%
Identity: 18%
Fold: Adenine nucleotide alpha hydrolase-like
Superfamily: Adenine nucleotide alpha hydrolases-like
Family: N-type ATP pyrophosphatases

Phyre2
19 |
| d1gpma1 |

### PDB 1gpm chain A domain 1

Region: 9 - 204
Aligned: 159
Modelled: 163
Confidence: 99.7%
Identity: 17%
Fold: Adenine nucleotide alpha hydrolase-like
Superfamily: Adenine nucleotide alpha hydrolases-like
Family: N-type ATP pyrophosphatases

Phyre2
20 |
| c3p52B_ |

### PDB 3p52 chain B

Region: 10 - 205
Aligned: 164
Modelled: 167
Confidence: 99.7%
Identity: 13%
PDB header:ligase
Chain: B: PDB Molecule:nh(3)-dependent nad(+) synthetase;
PDBTitle: nh3-dependent nad synthetase from campylobacter jejuni subsp. jejuni2 nctc 11168 in complex with the nitrate ion

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c2oq2B_ |
|  | 100.0 | 27 | PDB header:oxidoreductase Chain: B: PDB Molecule:phosphoadenosine phosphosulfate reductase; PDBTitle: crystal structure of yeast paps reductase with pap, a product complex
2 | c2goyC_ |
|  | 100.0 | 27 | PDB header:oxidoreductase Chain: C: PDB Molecule:adenosine phosphosulfate reductase; PDBTitle: crystal structure of assimilatory adenosine 5'-2 phosphosulfate reductase with bound aps
3 | c2o8vA_ |
|  | 100.0 | 26 | PDB header:oxidoreductase Chain: A: PDB Molecule:phosphoadenosine phosphosulfate reductase; PDBTitle: paps reductase in a covalent complex with thioredoxin c35a
4 | c3g59A_ |
|  | 100.0 | 23 | PDB header:transferase Chain: A: PDB Molecule:fmn adenylyltransferase; PDBTitle: crystal structure of candida glabrata fmn2 adenylyltransferase in complex with atp
5 | c2wsiA_ |
|  | 100.0 | 21 | PDB header:transferase Chain: A: PDB Molecule:fad synthetase; PDBTitle: crystal structure of yeast fad synthetase (fad1) in complex2 with fad
6 | c1zunA_ |
|  | 100.0 | 55 | PDB header:transferase Chain: A: PDB Molecule:sulfate adenylyltransferase subunit 2; PDBTitle: crystal structure of a gtp-regulated atp sulfurylase2 heterodimer from pseudomonas syringae
7 | d1sura_ |
|  | 100.0 | 26 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:PAPS reductase-like
8 | d1zuna1 |
|  | 100.0 | 79 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:PAPS reductase-like
9 | c3a2kB_ |
|  | 99.9 | 15 | PDB header:ligase/rna Chain: B: PDB Molecule:trna(ile)-lysidine synthase; PDBTitle: crystal structure of tils complexed with trna
10 | c2e21A_ |
|  | 99.9 | 14 | PDB header:ligase Chain: A: PDB Molecule:trna(ile)-lysidine synthase; PDBTitle: crystal structure of tils in a complex with amppnp from aquifex2 aeolicus.
11 | c1ni5A_ |
|  | 99.9 | 11 | PDB header:cell cycle Chain: A: PDB Molecule:putative cell cycle protein mesj; PDBTitle: structure of the mesj pp-atpase from escherichia coli
12 | d1wy5a1 |
|  | 99.9 | 16 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:PP-loop ATPase
13 | c3bl5E_ |
|  | 99.9 | 12 | PDB header:hydrolase Chain: E: PDB Molecule:queuosine biosynthesis protein quec; PDBTitle: crystal structure of quec from bacillus subtilis: an enzyme2 involved in preq1 biosynthesis
14 | d1ni5a1 |
|  | 99.9 | 11 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:PP-loop ATPase
15 | d1k92a1 |
|  | 99.8 | 17 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:N-type ATP pyrophosphatases
16 | d1j20a1 |
|  | 99.8 | 18 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:N-type ATP pyrophosphatases
17 | c2dplA_ |
|  | 99.8 | 18 | PDB header:ligase Chain: A: PDB Molecule:gmp synthase [glutamine-hydrolyzing] subunit b; PDBTitle: crystal structure of the gmp synthase from pyrococcus horikoshii ot3
18 | d1vl2a1 |
|  | 99.7 | 18 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:N-type ATP pyrophosphatases
19 | d1gpma1 |
|  | 99.7 | 17 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:N-type ATP pyrophosphatases
20 | c3p52B_ |
|  | 99.7 | 13 | PDB header:ligase Chain: B: PDB Molecule:nh(3)-dependent nad(+) synthetase; PDBTitle: nh3-dependent nad synthetase from campylobacter jejuni subsp. jejuni2 nctc 11168 in complex with the nitrate ion
21 | c3tqiB_ |
| not modelled | 99.7 | 18 | PDB header:ligase Chain: B: PDB Molecule:gmp synthase [glutamine-hydrolyzing]; PDBTitle: structure of the gmp synthase (guaa) from coxiella burnetii
22 | c1vl2C_ |
| not modelled | 99.7 | 17 | PDB header:ligase Chain: C: PDB Molecule:argininosuccinate synthase; PDBTitle: crystal structure of argininosuccinate synthase (tm1780) from2 thermotoga maritima at 1.65 a resolution
23 | d2c5sa1 |
| not modelled | 99.7 | 13 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:ThiI-like
24 | c1kh2D_ |
| not modelled | 99.6 | 18 | PDB header:ligase Chain: D: PDB Molecule:argininosuccinate synthetase; PDBTitle: crystal structure of thermus thermophilus hb82 argininosuccinate synthetase in complex with atp
25 | c2nz2A_ |
| not modelled | 99.6 | 16 | PDB header:ligase Chain: A: PDB Molecule:argininosuccinate synthase; PDBTitle: crystal structure of human argininosuccinate synthase in complex with2 aspartate and citrulline
26 | c2e18B_ |
| not modelled | 99.6 | 19 | PDB header:ligase Chain: B: PDB Molecule:nh(3)-dependent nad(+) synthetase; PDBTitle: crystal structure of project ph0182 from pyrococcus horikoshii ot3
27 | c3k32D_ |
| not modelled | 99.6 | 17 | PDB header:transferase Chain: D: PDB Molecule:uncharacterized protein mj0690; PDBTitle: the crystal structure of predicted subunit of trna2 methyltransferase from methanocaldococcus jannaschii dsm
28 | c2derA_ |
| not modelled | 99.6 | 14 | PDB header:transferase/rna Chain: A: PDB Molecule:trna-specific 2-thiouridylase mnma; PDBTitle: cocrystal structure of an rna sulfuration enzyme mnma and2 trna-glu in the initial trna binding state
29 | c2hmaA_ |
| not modelled | 99.5 | 14 | PDB header:transferase Chain: A: PDB Molecule:probable trna (5-methylaminomethyl-2-thiouridylate)- PDBTitle: the crystal structure of trna (5-methylaminomethyl-2-thiouridylate)-2 methyltransferase trmu from streptococcus pneumoniae
30 | c2ywcC_ |
| not modelled | 99.5 | 21 | PDB header:ligase Chain: C: PDB Molecule:gmp synthase [glutamine-hydrolyzing]; PDBTitle: crystal structure of gmp synthetase from thermus thermophilus in2 complex with xmp
31 | c1gpmD_ |
| not modelled | 99.5 | 16 | PDB header:transferase (glutamine amidotransferase) Chain: D: PDB Molecule:gmp synthetase; PDBTitle: escherichia coli gmp synthetase complexed with amp and pyrophosphate
32 | d1xnga1 |
| not modelled | 99.5 | 12 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:N-type ATP pyrophosphatases
33 | c3fiuD_ |
| not modelled | 99.5 | 15 | PDB header:ligase Chain: D: PDB Molecule:nh(3)-dependent nad(+) synthetase; PDBTitle: structure of nmn synthetase from francisella tularensis
34 | c1k97A_ |
| not modelled | 99.5 | 15 | PDB header:ligase Chain: A: PDB Molecule:argininosuccinate synthase; PDBTitle: crystal structure of e. coli argininosuccinate synthetase in complex2 with aspartate and citrulline
35 | d2pg3a1 |
| not modelled | 99.5 | 13 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:N-type ATP pyrophosphatases
36 | c3uowB_ |
| not modelled | 99.4 | 17 | PDB header:ligase Chain: B: PDB Molecule:gmp synthetase; PDBTitle: crystal structure of pf10_0123, a gmp synthetase from plasmodium2 falciparum
37 | c2c5sA_ |
| not modelled | 99.4 | 14 | PDB header:rna-binding protein Chain: A: PDB Molecule:probable thiamine biosynthesis protein thii; PDBTitle: crystal structure of bacillus anthracis thii, a trna-2 modifying enzyme containing the predicted rna-binding3 thump domain
38 | c2vxoB_ |
| not modelled | 99.4 | 17 | PDB header:ligase Chain: B: PDB Molecule:gmp synthase [glutamine-hydrolyzing]; PDBTitle: human gmp synthetase in complex with xmp
39 | d1vbka1 |
| not modelled | 99.2 | 12 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:ThiI-like
40 | d1kqpa_ |
| not modelled | 99.1 | 12 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:N-type ATP pyrophosphatases
41 | c3q4gA_ |
| not modelled | 99.0 | 12 | PDB header:ligase Chain: A: PDB Molecule:nh(3)-dependent nad(+) synthetase; PDBTitle: structure of nad synthetase from vibrio cholerae
42 | c3dpiA_ |
| not modelled | 98.8 | 16 | PDB header:ligase Chain: A: PDB Molecule:nad+ synthetase; PDBTitle: crystal structure of nad+ synthetase from burkholderia pseudomallei
43 | d1wxia1 |
| not modelled | 98.7 | 10 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:N-type ATP pyrophosphatases
44 | d1ru8a_ |
| not modelled | 98.7 | 21 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:N-type ATP pyrophosphatases
45 | c3n05B_ |
| not modelled | 98.5 | 14 | PDB header:ligase Chain: B: PDB Molecule:nh(3)-dependent nad(+) synthetase; PDBTitle: crystal structure of nh3-dependent nad+ synthetase from streptomyces2 avermitilis
46 | d2d13a1 |
| not modelled | 98.2 | 22 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:N-type ATP pyrophosphatases
47 | c1ct9D_ |
| not modelled | 98.0 | 14 | PDB header:ligase Chain: D: PDB Molecule:asparagine synthetase b; PDBTitle: crystal structure of asparagine synthetase b from2 escherichia coli
48 | d1jgta1 |
| not modelled | 98.0 | 16 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:N-type ATP pyrophosphatases
49 | d1ct9a1 |
| not modelled | 97.8 | 14 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:N-type ATP pyrophosphatases
50 | d1q15a1 |
| not modelled | 97.8 | 17 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:N-type ATP pyrophosphatases
51 | c1m1zB_ |
| not modelled | 97.5 | 16 | PDB header:hydrolase Chain: B: PDB Molecule:beta-lactam synthetase; PDBTitle: beta-lactam synthetase apo enzyme
52 | c1q15A_ |
| not modelled | 97.5 | 16 | PDB header:biosynthetic protein Chain: A: PDB Molecule:cara; PDBTitle: carbapenam synthetase
53 | c3ilvA_ |
| not modelled | 97.3 | 13 | PDB header:ligase Chain: A: PDB Molecule:glutamine-dependent nad(+) synthetase; PDBTitle: crystal structure of a glutamine-dependent nad(+) synthetase2 from cytophaga hutchinsonii
54 | c1vbkA_ |
| not modelled | 97.1 | 14 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ph1313; PDBTitle: crystal structure of ph1313 from pyrococcus horikoshii ot3
55 | c3dlaD_ |
| not modelled | 95.2 | 14 | 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
56 | c2pfsA_ |
| not modelled | 91.7 | 13 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:universal stress protein; PDBTitle: crystal structure of universal stress protein from nitrosomonas2 europaea
57 | d1tq8a_ |
| not modelled | 91.3 | 12 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:Universal stress protein-like
58 | c3loqA_ |
| not modelled | 88.8 | 17 | PDB header:structure genomics, unknown function Chain: A: PDB Molecule:universal stress protein; PDBTitle: the crystal structure of a universal stress protein from2 archaeoglobus fulgidus dsm 4304
59 | c3rhfB_ |
| not modelled | 87.1 | 15 | PDB header:transferase Chain: B: PDB Molecule:putative polyphosphate kinase 2 family protein; PDBTitle: crystal structure of polyphosphate kinase 2 from arthrobacter2 aurescens tc1
60 | c3mt0A_ |
| not modelled | 85.4 | 8 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein pa1789; PDBTitle: the crystal structure of a functionally unknown protein pa1789 from2 pseudomonas aeruginosa pao1
61 | c2j0eA_ |
| not modelled | 83.6 | 11 | PDB header:hydrolase Chain: A: PDB Molecule:6-phosphogluconolactonase; PDBTitle: three dimensional structure and catalytic mechanism of 6-2 phosphogluconolactonase from trypanosoma brucei
62 | c3czpA_ |
| not modelled | 81.3 | 14 | PDB header:transferase Chain: A: PDB Molecule:putative polyphosphate kinase 2; PDBTitle: crystal structure of putative polyphosphate kinase 2 from pseudomonas2 aeruginosa pa01
63 | c3nbmA_ |
| not modelled | 80.8 | 8 | PDB header:transferase Chain: A: PDB Molecule:pts system, lactose-specific iibc components; PDBTitle: the lactose-specific iib component domain structure of the2 phosphoenolpyruvate:carbohydrate phosphotransferase system (pts) from3 streptococcus pneumoniae.
64 | c1y89B_ |
| not modelled | 78.9 | 9 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:devb protein; PDBTitle: crystal structure of devb protein
65 | c3lwdA_ |
| not modelled | 78.3 | 13 | PDB header:hydrolase Chain: A: PDB Molecule:6-phosphogluconolactonase; PDBTitle: crystal structure of putative 6-phosphogluconolactonase (yp_574786.1)2 from chromohalobacter salexigens dsm 3043 at 1.88 a resolution
66 | c3hgmD_ |
| not modelled | 77.2 | 13 | PDB header:signaling protein Chain: D: PDB Molecule:universal stress protein tead; PDBTitle: universal stress protein tead from the trap transporter2 teaabc of halomonas elongata
67 | d2z3va1 |
| not modelled | 69.2 | 13 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:Universal stress protein-like
68 | c3lhiA_ |
| not modelled | 68.6 | 11 | PDB header:hydrolase Chain: A: PDB Molecule:putative 6-phosphogluconolactonase; PDBTitle: crystal structure of putative 6-2 phosphogluconolactonase(yp_207848.1) from neisseria3 gonorrhoeae fa 1090 at 1.33 a resolution
69 | c3nwpA_ |
| not modelled | 66.3 | 13 | PDB header:hydrolase Chain: A: PDB Molecule:6-phosphogluconolactonase; PDBTitle: crystal structure of a 6-phosphogluconolactonase (sbal_2240) from2 shewanella baltica os155 at 1.40 a resolution
70 | c1pbtA_ |
| not modelled | 64.2 | 7 | PDB header:hydrolase, oxidoreductase Chain: A: PDB Molecule:6-phosphogluconolactonase; PDBTitle: the crystal structure of tm1154, oxidoreductase, sol/devb2 family from thermotoga maritima
71 | c3dloC_ |
| not modelled | 60.8 | 16 | PDB header:structural genomics, unknown function Chain: C: PDB Molecule:universal stress protein; PDBTitle: structure of universal stress protein from archaeoglobus fulgidus
72 | c3o1lB_ |
| not modelled | 60.4 | 10 | PDB header:hydrolase Chain: B: PDB Molecule:formyltetrahydrofolate deformylase; PDBTitle: crystal structure of a formyltetrahydrofolate deformylase (pspto_4314)2 from pseudomonas syringae pv. tomato str. dc3000 at 2.20 a resolution
73 | c3s3tD_ |
| not modelled | 58.2 | 16 | PDB header:chaperone Chain: D: PDB Molecule:nucleotide-binding protein, universal stress protein uspa PDBTitle: universal stress protein uspa from lactobacillus plantarum
74 | c3hn6D_ |
| not modelled | 58.0 | 13 | PDB header:isomerase Chain: D: PDB Molecule:glucosamine-6-phosphate deaminase; PDBTitle: crystal structure of glucosamine-6-phosphate deaminase from borrelia2 burgdorferi
75 | d1q77a_ |
| not modelled | 55.3 | 12 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:Universal stress protein-like
76 | c2l2qA_ |
| not modelled | 54.6 | 13 | PDB header:transferase Chain: A: PDB Molecule:pts system, cellobiose-specific iib component (cela); PDBTitle: solution structure of cellobiose-specific phosphotransferase iib2 component protein from borrelia burgdorferi
77 | c2zxrA_ |
| not modelled | 54.4 | 16 | PDB header:hydrolase Chain: A: PDB Molecule:single-stranded dna specific exonuclease recj; PDBTitle: crystal structure of recj in complex with mg2+ from thermus2 thermophilus hb8
78 | d1pk1c1 |
| not modelled | 53.8 | 28 | Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:SAM (sterile alpha motif) domain
79 | c3bq7A_ |
| not modelled | 53.8 | 10 | PDB header:transferase Chain: A: PDB Molecule:diacylglycerol kinase delta; PDBTitle: sam domain of diacylglycerol kinase delta1 (e35g)
80 | d1vl1a_ |
| not modelled | 53.5 | 7 | Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:NagB-like
81 | c1wozA_ |
| not modelled | 52.2 | 14 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:177aa long conserved hypothetical protein (st1454); PDBTitle: crystal structure of uncharacterized protein st1454 from sulfolobus2 tokodaii
82 | c3olqA_ |
| not modelled | 51.5 | 14 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:universal stress protein e; PDBTitle: the crystal structure of a universal stress protein e from proteus2 mirabilis hi4320
83 | c3n0vD_ |
| not modelled | 50.8 | 11 | PDB header:hydrolase Chain: D: PDB Molecule:formyltetrahydrofolate deformylase; PDBTitle: crystal structure of a formyltetrahydrofolate deformylase (pp_0327)2 from pseudomonas putida kt2440 at 2.25 a resolution
84 | c2ah6B_ |
| not modelled | 50.0 | 15 | PDB header:transferase Chain: B: PDB Molecule:bh1595, unknown conserved protein; PDBTitle: crystal structure of a putative cobalamin adenosyltransferase (bh1595)2 from bacillus halodurans c-125 at 1.60 a resolution
85 | c2g2dA_ |
| not modelled | 49.8 | 14 | PDB header:transferase Chain: A: PDB Molecule:atp:cobalamin adenosyltransferase; PDBTitle: crystal structure of a putative pduo-type atp:cobalamin2 adenosyltransferase from mycobacterium tuberculosis
86 | c2d1fA_ |
| not modelled | 49.7 | 10 | PDB header:lyase Chain: A: PDB Molecule:threonine synthase; PDBTitle: structure of mycobacterium tuberculosis threonine synthase
87 | d1ne7a_ |
| not modelled | 45.2 | 10 | Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:NagB-like
88 | d1fsfa_ |
| not modelled | 44.7 | 14 | Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:NagB-like
89 | c2afdA_ |
| not modelled | 43.7 | 13 | PDB header:ligand binding protein Chain: A: PDB Molecule:protein asl1650; PDBTitle: solution structure of asl1650, an acyl carrier protein from anabaena2 sp. pcc 7120 with a variant phosphopantetheinylation-site sequence
90 | c2dumD_ |
| not modelled | 43.1 | 16 | PDB header:structural genomics, unknown function Chain: D: PDB Molecule:hypothetical protein ph0823; PDBTitle: crystal structure of hypothetical protein, ph0823
91 | c3bs7A_ |
| not modelled | 43.0 | 16 | PDB header:signaling protein Chain: A: PDB Molecule:protein aveugle; PDBTitle: crystal structure of the sterile alpha motif (sam) domain2 of hyphen/aveugle
92 | c3p9xB_ |
| not modelled | 40.7 | 11 | PDB header:transferase Chain: B: PDB Molecule:phosphoribosylglycinamide formyltransferase; PDBTitle: crystal structure of phosphoribosylglycinamide formyltransferase from2 bacillus halodurans
93 | c1jbqD_ |
| not modelled | 39.9 | 16 | PDB header:lyase Chain: D: PDB Molecule:cystathionine beta-synthase; PDBTitle: structure of human cystathionine beta-synthase: a unique pyridoxal 5'-2 phosphate dependent hemeprotein
94 | d1jbqa_ |
| not modelled | 39.6 | 16 | Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
95 | c1nogA_ |
| not modelled | 39.0 | 15 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved hypothetical protein ta0546; PDBTitle: crystal structure of conserved protein 0546 from thermoplasma2 acidophilum
96 | d1noga_ |
| not modelled | 39.0 | 15 | Fold:Ferritin-like Superfamily:Cobalamin adenosyltransferase-like Family:Cobalamin adenosyltransferase
97 | d1jmva_ |
| not modelled | 37.9 | 14 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:Universal stress protein-like
98 | c3oc6A_ |
| not modelled | 37.6 | 11 | PDB header:hydrolase Chain: A: PDB Molecule:6-phosphogluconolactonase; PDBTitle: crystal structure of 6-phosphogluconolactonase from mycobacterium2 smegmatis, apo form
99 | c2nt8A_ |
| not modelled | 37.5 | 18 | PDB header:transferase Chain: A: PDB Molecule:cobalamin adenosyltransferase; PDBTitle: atp bound at the active site of a pduo type atp:co(i)rrinoid2 adenosyltransferase from lactobacillus reuteri
100 | c2px0D_ |
| not modelled | 36.8 | 13 | PDB header:biosynthetic protein Chain: D: PDB Molecule:flagellar biosynthesis protein flhf; PDBTitle: crystal structure of flhf complexed with gmppnp/mg(2+)
101 | c1pk1A_ |
| not modelled | 36.1 | 28 | PDB header:transcription repression Chain: A: PDB Molecule:polyhomeotic-proximal chromatin protein; PDBTitle: hetero sam domain structure of ph and scm.
102 | c3ci1A_ |
| not modelled | 35.6 | 18 | PDB header:transferase Chain: A: PDB Molecule:cobalamin adenosyltransferase pduo-like protein; PDBTitle: structure of the pduo-type atp:co(i)rrinoid2 adenosyltransferase from lactobacillus reuteri complexed3 with four-coordinate cob(ii)alamin and atp
103 | c3cssA_ |
| not modelled | 35.0 | 9 | PDB header:hydrolase Chain: A: PDB Molecule:6-phosphogluconolactonase; PDBTitle: crystal structure of 6-phosphogluconolactonase from leishmania2 guyanensis
104 | d1xx6a1 |
| not modelled | 34.9 | 15 | Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Type II thymidine kinase
105 | c3bs5A_ |
| not modelled | 34.8 | 17 | PDB header:signaling protein/membrane protein Chain: A: PDB Molecule:protein aveugle; PDBTitle: crystal structure of hcnk2-sam/dhyp-sam complex
106 | d1v7ca_ |
| not modelled | 34.7 | 16 | Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
107 | d1wwva1 |
| not modelled | 33.7 | 15 | Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:SAM (sterile alpha motif) domain
108 | d1z7wa1 |
| not modelled | 33.7 | 18 | Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
109 | d1kw4a_ |
| not modelled | 33.5 | 28 | Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:SAM (sterile alpha motif) domain
110 | c3icoA_ |
| not modelled | 32.6 | 11 | PDB header:hydrolase Chain: A: PDB Molecule:6-phosphogluconolactonase; PDBTitle: crystal structure of 6-phosphogluconolactonase from2 mycobacterium tuberculosis
111 | c2zhzC_ |
| not modelled | 32.4 | 11 | PDB header:transferase Chain: C: PDB Molecule:atp:cob(i)alamin adenosyltransferase, putative; PDBTitle: crystal structure of a pduo-type atp:cobalamin adenosyltransferase2 from burkholderia thailandensis
112 | c3czqA_ |
| not modelled | 31.6 | 10 | PDB header:transferase Chain: A: PDB Molecule:putative polyphosphate kinase 2; PDBTitle: crystal structure of putative polyphosphate kinase 2 from2 sinorhizobium meliloti
113 | c2ju2A_ |
| not modelled | 31.3 | 15 | PDB header:transferase Chain: A: PDB Molecule:erythronolide synthase; PDBTitle: minimized mean solution structure of the acyl carrier2 protein domain from module 2 of 6-deoxyerythronolide b3 synthase (debs)
114 | c3ke4B_ |
| not modelled | 31.0 | 15 | PDB header:transferase Chain: B: PDB Molecule:hypothetical cytosolic protein; PDBTitle: crystal structure of a pduo-type atp:cob(i)alamin adenosyltransferase2 from bacillus cereus
115 | c1pk1B_ |
| not modelled | 30.2 | 33 | PDB header:transcription repression Chain: B: PDB Molecule:sex comb on midleg cg9495-pa; PDBTitle: hetero sam domain structure of ph and scm.
116 | c1ir6A_ |
| not modelled | 30.2 | 5 | PDB header:hydrolase Chain: A: PDB Molecule:exonuclease recj; PDBTitle: crystal structure of exonuclease recj bound to manganese
117 | d1ir6a_ |
| not modelled | 30.2 | 5 | Fold:DHH phosphoesterases Superfamily:DHH phosphoesterases Family:Exonuclease RecJ
118 | c2zsjB_ |
| not modelled | 30.1 | 13 | PDB header:lyase Chain: B: PDB Molecule:threonine synthase; PDBTitle: crystal structure of threonine synthase from aquifex aeolicus vf5
119 | d1mjha_ |
| not modelled | 28.7 | 14 | Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Adenine nucleotide alpha hydrolases-like Family:Universal stress protein-like
120 | d2zdra2 |
| not modelled | 28.2 | 15 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:NeuB-like

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