Phyre 2 Results for P0A8K1

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Email | l.a.kelley@imperial.ac.uk
Description | P0A8K1
Date | Thu Jan 5 11:08:01 GMT 2012
Unique Job ID | 6b9d16282375025e

Summary |

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

Model (left) based on template d2gpra_
Top template information
Fold:Barrel-sandwich hybrid Superfamily:Duplicated hybrid motif Family:Glucose permease-like
Confidence and coverage
Confidence: | 97.4% | Coverage: | 43%
138 residues ( 43% of your sequence) have been modelled with 97.4% confidence by the single highest scoring template.
You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.
3D viewing
Interactive 3D view in Jmol

Sequence analysis |

Secondary structure and disorder prediction |

|  | 1 | . | . | . | . | . | . | . | . | 10 | . | . | . | . | . | . | . | . | . | 20 | . | . | . | . | . | . | . | . | . | 30 | . | . | . | . | . | . | . | . | . | 40 | . | . | . | . | . | . | . | . | . | 50 | . | . | . | . | . | . | . | . | . | 60
Sequence |  | M | L | N | S | F | K | L | S | L | Q | Y | I | L | P | K | L | W | L | T | R | L | A | G | W | G | A | S | K | R | A | G | W | L | T | K | L | V | I | D | L | F | V | K | Y | Y | K | V | D | M | K | E | A | Q | K | P | D | T | A | S | Y
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | R | T | F | N | E | F | F | V | R | P | L | R | D | E | V | R | P | I | D | T | D | P | N | V | L | V | M | P | A | D | G | V | I | S | Q | L | G | K | I | E | E | D | K | I | L | Q | A | K | G | H | N | Y | S | L | E | A | L | L | A | G
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | N | Y | L | M | A | D | L | F | R | N | G | T | F | V | T | T | Y | L | S | P | R | D | Y | H | R | V | H | M | P | C | N | G | I | L | R | E | M | I | Y | V | P | G | D | L | F | S | V | N | H | L | T | A | Q | N | V | P | N | L | F | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | R | N | E | R | V | I | C | L | F | D | T | E | F | G | P | M | A | Q | I | L | V | G | A | T | I | V | G | S | I | E | T | V | W | A | G | T | I | T | P | P | R | E | G | I | I | K | R | W | T | W | P | A | G | E | N | D | G | S | V | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | . | . | . | . | . | . | . | . | 290 | . | . | . | . | . | . | . | . | . | 300
Sequence |  | L | L | K | G | Q | E | M | G | R | F | K | L | G | S | T | V | I | N | L | F | A | P | G | K | V | N | L | V | E | Q | L | E | S | L | S | V | T | K | I | G | Q | P | L | A | V | S | T | E | T | F | V | T | P | D | A | E | P | A | P | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  | ? |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 310 | . | . | . | . | . | . | . | . | . | 320 | . | .
Sequence |  | P | A | E | E | I | E | A | E | H | D | A | S | P | L | V | D | D | K | K | D | Q | V
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 |
| d2gpra_ |

### PDB 2gpr chain A

Region: 84 - 286
Aligned: 138
Modelled: 142
Confidence: 97.4%
Identity: 17%
Fold: Barrel-sandwich hybrid
Superfamily: Duplicated hybrid motif
Family: Glucose permease-like

Phyre2
2 |
| d1gpra_ |

### PDB 1gpr chain A

Region: 81 - 282
Aligned: 137
Modelled: 141
Confidence: 96.7%
Identity: 17%
Fold: Barrel-sandwich hybrid
Superfamily: Duplicated hybrid motif
Family: Glucose permease-like

Phyre2
3 |
| d2f3ga_ |

### PDB 2f3g chain A

Region: 84 - 289
Aligned: 141
Modelled: 145
Confidence: 96.6%
Identity: 16%
Fold: Barrel-sandwich hybrid
Superfamily: Duplicated hybrid motif
Family: Glucose permease-like

Phyre2
4 |
| d1glaf_ |

### PDB 1gla chain F

Region: 80 - 289
Aligned: 144
Modelled: 149
Confidence: 96.4%
Identity: 13%
Fold: Barrel-sandwich hybrid
Superfamily: Duplicated hybrid motif
Family: Glucose permease-like

Phyre2
5 |
| c2dncA_ |

### PDB 2dnc chain A

Region: 202 - 302
Aligned: 96
Modelled: 101
Confidence: 89.6%
Identity: 16%
PDB header:transferase
Chain: A: PDB Molecule:pyruvate dehydrogenase protein x component;
PDBTitle: solution structure of rsgi ruh-054, a lipoyl domain from2 human 2-oxoacid dehydrogenase

Phyre2
6 |
| c2ejmA_ |

### PDB 2ejm chain A

Region: 233 - 303
Aligned: 70
Modelled: 71
Confidence: 88.8%
Identity: 9%
PDB header:ligase
Chain: A: PDB Molecule:methylcrotonoyl-coa carboxylase subunit alpha;
PDBTitle: solution structure of ruh-072, an apo-biotnyl domain form2 human acetyl coenzyme a carboxylase

Phyre2
7 |
| c2dn8A_ |

### PDB 2dn8 chain A

Region: 213 - 302
Aligned: 88
Modelled: 90
Confidence: 88.7%
Identity: 9%
PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: solution structure of rsgi ruh-053, an apo-biotin carboxy2 carrier protein from human transcarboxylase

Phyre2
8 |
| d1bdoa_ |

### PDB 1bdo chain A

Region: 200 - 286
Aligned: 73
Modelled: 73
Confidence: 88.4%
Identity: 12%
Fold: Barrel-sandwich hybrid
Superfamily: Single hybrid motif
Family: Biotinyl/lipoyl-carrier proteins and domains

Phyre2
9 |
| c2b8gA_ |

### PDB 2b8g chain A

Region: 201 - 291
Aligned: 70
Modelled: 70
Confidence: 88.2%
Identity: 13%
PDB header:biosynthetic protein
Chain: A: PDB Molecule:biotin/lipoyl attachment protein;
PDBTitle: solution structure of bacillus subtilis blap biotinylated-2 form (energy minimized mean structure)

Phyre2
10 |
| d1laba_ |

### PDB 1lab chain A

Region: 233 - 288
Aligned: 56
Modelled: 56
Confidence: 87.1%
Identity: 11%
Fold: Barrel-sandwich hybrid
Superfamily: Single hybrid motif
Family: Biotinyl/lipoyl-carrier proteins and domains

Phyre2
11 |
| c2ejgD_ |

### PDB 2ejg chain D

Region: 220 - 286
Aligned: 67
Modelled: 67
Confidence: 87.0%
Identity: 10%
PDB header:ligase
Chain: D: PDB Molecule:149aa long hypothetical methylmalonyl-coa decarboxylase
PDBTitle: crystal structure of the biotin protein ligase (mutation r48a) and2 biotin carboxyl carrier protein complex from pyrococcus horikoshii3 ot3

Phyre2
12 |
| d1y8ob1 |

### PDB 1y8o chain B domain 1

Region: 232 - 303
Aligned: 72
Modelled: 72
Confidence: 85.9%
Identity: 13%
Fold: Barrel-sandwich hybrid
Superfamily: Single hybrid motif
Family: Biotinyl/lipoyl-carrier proteins and domains

Phyre2
13 |
| d1dcza_ |

### PDB 1dcz chain A

Region: 200 - 286
Aligned: 66
Modelled: 66
Confidence: 85.9%
Identity: 11%
Fold: Barrel-sandwich hybrid
Superfamily: Single hybrid motif
Family: Biotinyl/lipoyl-carrier proteins and domains

Phyre2
14 |
| d1ghja_ |

### PDB 1ghj chain A

Region: 231 - 289
Aligned: 59
Modelled: 59
Confidence: 85.1%
Identity: 12%
Fold: Barrel-sandwich hybrid
Superfamily: Single hybrid motif
Family: Biotinyl/lipoyl-carrier proteins and domains

Phyre2
15 |
| c2dneA_ |

### PDB 2dne chain A

Region: 202 - 311
Aligned: 105
Modelled: 110
Confidence: 84.6%
Identity: 12%
PDB header:transferase
Chain: A: PDB Molecule:dihydrolipoyllysine-residue acetyltransferase
PDBTitle: solution structure of rsgi ruh-058, a lipoyl domain of2 human 2-oxoacid dehydrogenase

Phyre2
16 |
| c2qikA_ |

### PDB 2qik chain A

Region: 159 - 254
Aligned: 75
Modelled: 96
Confidence: 83.5%
Identity: 19%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:upf0131 protein ykqa;
PDBTitle: crystal structure of ykqa from bacillus subtilis. northeast2 structural genomics target sr631

Phyre2
17 |
| c2l5tA_ |

### PDB 2l5t chain A

Region: 232 - 286
Aligned: 55
Modelled: 55
Confidence: 81.8%
Identity: 13%
PDB header:transferase
Chain: A: PDB Molecule:lipoamide acyltransferase;
PDBTitle: solution nmr structure of e2 lipoyl domain from thermoplasma2 acidophilum

Phyre2
18 |
| d1qjoa_ |

### PDB 1qjo chain A

Region: 233 - 290
Aligned: 58
Modelled: 58
Confidence: 81.7%
Identity: 7%
Fold: Barrel-sandwich hybrid
Superfamily: Single hybrid motif
Family: Biotinyl/lipoyl-carrier proteins and domains

Phyre2
19 |
| d1iyua_ |

### PDB 1iyu chain A

Region: 232 - 290
Aligned: 59
Modelled: 59
Confidence: 81.5%
Identity: 7%
Fold: Barrel-sandwich hybrid
Superfamily: Single hybrid motif
Family: Biotinyl/lipoyl-carrier proteins and domains

Phyre2
20 |
| d1gjxa_ |

### PDB 1gjx chain A

Region: 233 - 286
Aligned: 54
Modelled: 54
Confidence: 81.3%
Identity: 9%
Fold: Barrel-sandwich hybrid
Superfamily: Single hybrid motif
Family: Biotinyl/lipoyl-carrier proteins and domains

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d2gpra_ |
|  | 97.4 | 17 | Fold:Barrel-sandwich hybrid Superfamily:Duplicated hybrid motif Family:Glucose permease-like
2 | d1gpra_ |
|  | 96.7 | 17 | Fold:Barrel-sandwich hybrid Superfamily:Duplicated hybrid motif Family:Glucose permease-like
3 | d2f3ga_ |
|  | 96.6 | 16 | Fold:Barrel-sandwich hybrid Superfamily:Duplicated hybrid motif Family:Glucose permease-like
4 | d1glaf_ |
|  | 96.4 | 13 | Fold:Barrel-sandwich hybrid Superfamily:Duplicated hybrid motif Family:Glucose permease-like
5 | c2dncA_ |
|  | 89.6 | 16 | PDB header:transferase Chain: A: PDB Molecule:pyruvate dehydrogenase protein x component; PDBTitle: solution structure of rsgi ruh-054, a lipoyl domain from2 human 2-oxoacid dehydrogenase
6 | c2ejmA_ |
|  | 88.8 | 9 | PDB header:ligase Chain: A: PDB Molecule:methylcrotonoyl-coa carboxylase subunit alpha; PDBTitle: solution structure of ruh-072, an apo-biotnyl domain form2 human acetyl coenzyme a carboxylase
7 | c2dn8A_ |
|  | 88.7 | 9 | PDB header:ligase Chain: A: PDB Molecule:acetyl-coa carboxylase 2; PDBTitle: solution structure of rsgi ruh-053, an apo-biotin carboxy2 carrier protein from human transcarboxylase
8 | d1bdoa_ |
|  | 88.4 | 12 | Fold:Barrel-sandwich hybrid Superfamily:Single hybrid motif Family:Biotinyl/lipoyl-carrier proteins and domains
9 | c2b8gA_ |
|  | 88.2 | 13 | PDB header:biosynthetic protein Chain: A: PDB Molecule:biotin/lipoyl attachment protein; PDBTitle: solution structure of bacillus subtilis blap biotinylated-2 form (energy minimized mean structure)
10 | d1laba_ |
|  | 87.1 | 11 | Fold:Barrel-sandwich hybrid Superfamily:Single hybrid motif Family:Biotinyl/lipoyl-carrier proteins and domains
11 | c2ejgD_ |
|  | 87.0 | 10 | PDB header:ligase Chain: D: PDB Molecule:149aa long hypothetical methylmalonyl-coa decarboxylase PDBTitle: crystal structure of the biotin protein ligase (mutation r48a) and2 biotin carboxyl carrier protein complex from pyrococcus horikoshii3 ot3
12 | d1y8ob1 |
|  | 85.9 | 13 | Fold:Barrel-sandwich hybrid Superfamily:Single hybrid motif Family:Biotinyl/lipoyl-carrier proteins and domains
13 | d1dcza_ |
|  | 85.9 | 11 | Fold:Barrel-sandwich hybrid Superfamily:Single hybrid motif Family:Biotinyl/lipoyl-carrier proteins and domains
14 | d1ghja_ |
|  | 85.1 | 12 | Fold:Barrel-sandwich hybrid Superfamily:Single hybrid motif Family:Biotinyl/lipoyl-carrier proteins and domains
15 | c2dneA_ |
|  | 84.6 | 12 | PDB header:transferase Chain: A: PDB Molecule:dihydrolipoyllysine-residue acetyltransferase PDBTitle: solution structure of rsgi ruh-058, a lipoyl domain of2 human 2-oxoacid dehydrogenase
16 | c2qikA_ |
|  | 83.5 | 19 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0131 protein ykqa; PDBTitle: crystal structure of ykqa from bacillus subtilis. northeast2 structural genomics target sr631
17 | c2l5tA_ |
|  | 81.8 | 13 | PDB header:transferase Chain: A: PDB Molecule:lipoamide acyltransferase; PDBTitle: solution nmr structure of e2 lipoyl domain from thermoplasma2 acidophilum
18 | d1qjoa_ |
|  | 81.7 | 7 | Fold:Barrel-sandwich hybrid Superfamily:Single hybrid motif Family:Biotinyl/lipoyl-carrier proteins and domains
19 | d1iyua_ |
|  | 81.5 | 7 | Fold:Barrel-sandwich hybrid Superfamily:Single hybrid motif Family:Biotinyl/lipoyl-carrier proteins and domains
20 | d1gjxa_ |
|  | 81.3 | 9 | Fold:Barrel-sandwich hybrid Superfamily:Single hybrid motif Family:Biotinyl/lipoyl-carrier proteins and domains
21 | c2kccA_ |
| not modelled | 78.9 | 8 | PDB header:ligase Chain: A: PDB Molecule:acetyl-coa carboxylase 2; PDBTitle: solution structure of biotinoyl domain from human acetyl-2 coa carboxylase 2
22 | d1k8ma_ |
| not modelled | 77.8 | 10 | Fold:Barrel-sandwich hybrid Superfamily:Single hybrid motif Family:Biotinyl/lipoyl-carrier proteins and domains
23 | c2q8iB_ |
| not modelled | 75.7 | 14 | PDB header:transferase Chain: B: PDB Molecule:dihydrolipoyllysine-residue acetyltransferase component of PDBTitle: pyruvate dehydrogenase kinase isoform 3 in complex with antitumor drug2 radicicol
24 | d1pmra_ |
| not modelled | 75.4 | 7 | Fold:Barrel-sandwich hybrid Superfamily:Single hybrid motif Family:Biotinyl/lipoyl-carrier proteins and domains
25 | d1o78a_ |
| not modelled | 73.1 | 9 | Fold:Barrel-sandwich hybrid Superfamily:Single hybrid motif Family:Biotinyl/lipoyl-carrier proteins and domains
26 | c1urzC_ |
| not modelled | 59.5 | 34 | PDB header:virus/viral protein Chain: C: PDB Molecule:envelope protein; PDBTitle: low ph induced, membrane fusion conformation of the2 envelope protein of tick-borne encephalitis virus
27 | c3cdxB_ |
| not modelled | 50.4 | 13 | PDB header:hydrolase Chain: B: PDB Molecule:succinylglutamatedesuccinylase/aspartoacylase; PDBTitle: crystal structure of2 succinylglutamatedesuccinylase/aspartoacylase from3 rhodobacter sphaeroides
28 | d1z66a1 |
| not modelled | 45.9 | 22 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Class II viral fusion proteins C-terminal domain
29 | c2jqmA_ |
| not modelled | 40.9 | 31 | PDB header:transferase Chain: A: PDB Molecule:envelope protein e; PDBTitle: yellow fever envelope protein domain iii nmr structure2 (s288-k398)
30 | c3na6A_ |
| not modelled | 39.7 | 19 | PDB header:hydrolase Chain: A: PDB Molecule:succinylglutamate desuccinylase/aspartoacylase; PDBTitle: crystal structure of a succinylglutamate desuccinylase (tm1040_2694)2 from silicibacter sp. tm1040 at 2.00 a resolution
31 | c1vdzA_ |
| not modelled | 39.5 | 17 | PDB header:hydrolase Chain: A: PDB Molecule:a-type atpase subunit a; PDBTitle: crystal structure of a-type atpase catalytic subunit a from2 pyrococcus horikoshii ot3
32 | c2hsiB_ |
| not modelled | 38.5 | 18 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative peptidase m23; PDBTitle: crystal structure of putative peptidase m23 from2 pseudomonas aeruginosa, new york structural genomics3 consortium
33 | c2h0pA_ |
| not modelled | 38.4 | 28 | PDB header:viral protein Chain: A: PDB Molecule:envelope glycoprotein; PDBTitle: nmr structure of the dengue-4 virus envelope protein domain2 iii
34 | c2qj8B_ |
| not modelled | 37.5 | 11 | PDB header:hydrolase Chain: B: PDB Molecule:mlr6093 protein; PDBTitle: crystal structure of an aspartoacylase family protein (mlr6093) from2 mesorhizobium loti maff303099 at 2.00 a resolution
35 | d1svba1 |
| not modelled | 36.9 | 22 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Class II viral fusion proteins C-terminal domain
36 | d1pjwa_ |
| not modelled | 30.2 | 31 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Class II viral fusion proteins C-terminal domain
37 | d1xpma2 |
| not modelled | 30.2 | 40 | Fold:Thiolase-like Superfamily:Thiolase-like Family:Chalcone synthase-like
38 | c2ka7A_ |
| not modelled | 29.7 | 30 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:glycine cleavage system h protein; PDBTitle: nmr solution structure of tm0212 at 40 c
39 | d1qwya_ |
| not modelled | 29.6 | 20 | Fold:Barrel-sandwich hybrid Superfamily:Duplicated hybrid motif Family:Peptidoglycan hydrolase LytM
40 | c3mxuA_ |
| not modelled | 29.5 | 20 | PDB header:oxidoreductase Chain: A: PDB Molecule:glycine cleavage system h protein; PDBTitle: crystal structure of glycine cleavage system protein h from bartonella2 henselae
41 | c3lazB_ |
| not modelled | 28.5 | 5 | PDB header:lyase Chain: B: PDB Molecule:d-galactarate dehydratase; PDBTitle: the crystal structure of the n-terminal domain of d-2 galactarate dehydratase from escherichia coli cft073
42 | c2aujD_ |
| not modelled | 28.4 | 15 | PDB header:transferase Chain: D: PDB Molecule:dna-directed rna polymerase beta' chain; PDBTitle: structure of thermus aquaticus rna polymerase beta'-subunit2 insert
43 | c1otcB_ |
| not modelled | 26.9 | 35 | PDB header:protein/dna Chain: B: PDB Molecule:protein (telomere-binding protein beta subunit); PDBTitle: the o. nova telomere end binding protein complexed with2 single strand dna
44 | c2i0qB_ |
| not modelled | 26.5 | 35 | PDB header:structural protein/dna Chain: B: PDB Molecule:telomere-binding protein beta subunit; PDBTitle: crystal structure of a telomere single-strand dna-protein2 complex from o. nova with full-length alpha and beta3 telomere proteins
45 | d1jb7b_ |
| not modelled | 26.5 | 35 | Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB
46 | d1ok8a1 |
| not modelled | 26.0 | 25 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Class II viral fusion proteins C-terminal domain
47 | c3egpA_ |
| not modelled | 25.3 | 25 | PDB header:viral protein Chain: A: PDB Molecule:envelope protein; PDBTitle: crystal structure analysis of dengue-1 envelope protein2 domain iii
48 | c2jkuA_ |
| not modelled | 24.7 | 13 | PDB header:ligase Chain: A: PDB Molecule:propionyl-coa carboxylase alpha chain, PDBTitle: crystal structure of the n-terminal region of the biotin2 acceptor domain of human propionyl-coa carboxylase
49 | c2aukA_ |
| not modelled | 24.0 | 23 | PDB header:transferase Chain: A: PDB Molecule:dna-directed rna polymerase beta' chain; PDBTitle: structure of e. coli rna polymerase beta' g/g' insert
50 | c2b44A_ |
| not modelled | 23.8 | 20 | PDB header:hydrolase Chain: A: PDB Molecule:glycyl-glycine endopeptidase lytm; PDBTitle: truncated s. aureus lytm, p 32 2 1 crystal form
51 | c3it5B_ |
| not modelled | 22.4 | 18 | PDB header:hydrolase Chain: B: PDB Molecule:protease lasa; PDBTitle: crystal structure of the lasa virulence factor from pseudomonas2 aeruginosa
52 | c3iftA_ |
| not modelled | 21.2 | 18 | PDB header:oxidoreductase Chain: A: PDB Molecule:glycine cleavage system h protein; PDBTitle: crystal structure of glycine cleavage system protein h from2 mycobacterium tuberculosis, using x-rays from the compact light3 source.
53 | c2edgA_ |
| not modelled | 20.7 | 18 | PDB header:biosynthetic protein Chain: A: PDB Molecule:glycine cleavage system h protein; PDBTitle: solution structure of the gcv_h domain from mouse glycine
54 | c2r9qD_ |
| not modelled | 19.9 | 22 | PDB header:hydrolase Chain: D: PDB Molecule:2'-deoxycytidine 5'-triphosphate deaminase; PDBTitle: crystal structure of 2'-deoxycytidine 5'-triphosphate deaminase from2 agrobacterium tumefaciens
55 | d1wqla2 |
| not modelled | 19.5 | 24 | Fold:TBP-like Superfamily:Bet v1-like Family:Ring hydroxylating alpha subunit catalytic domain
56 | d1r0va2 |
| not modelled | 19.3 | 11 | Fold:Restriction endonuclease-like Superfamily:tRNA-intron endonuclease catalytic domain-like Family:tRNA-intron endonuclease catalytic domain-like
57 | c2k33A_ |
| not modelled | 19.0 | 24 | PDB header:membrane protein, transport protein Chain: A: PDB Molecule:acra; PDBTitle: solution structure of an n-glycosylated protein using in2 vitro glycosylation
58 | d2b1xa2 |
| not modelled | 18.2 | 21 | Fold:TBP-like Superfamily:Bet v1-like Family:Ring hydroxylating alpha subunit catalytic domain
59 | d1onla_ |
| not modelled | 18.0 | 34 | Fold:Barrel-sandwich hybrid Superfamily:Single hybrid motif Family:Biotinyl/lipoyl-carrier proteins and domains
60 | c2gu1A_ |
| not modelled | 16.4 | 16 | PDB header:hydrolase Chain: A: PDB Molecule:zinc peptidase; PDBTitle: crystal structure of a zinc containing peptidase from2 vibrio cholerae
61 | c3fmcC_ |
| not modelled | 15.9 | 18 | PDB header:hydrolase Chain: C: PDB Molecule:putative succinylglutamate desuccinylase / aspartoacylase; PDBTitle: crystal structure of a putative succinylglutamate desuccinylase /2 aspartoacylase family protein (sama_0604) from shewanella amazonensis3 sb2b at 1.80 a resolution
62 | d2q07a1 |
| not modelled | 15.6 | 21 | Fold:PUA domain-like Superfamily:PUA domain-like Family:PUA domain
63 | d1ulia2 |
| not modelled | 14.8 | 24 | Fold:TBP-like Superfamily:Bet v1-like Family:Ring hydroxylating alpha subunit catalytic domain
64 | d2bmoa2 |
| not modelled | 14.7 | 16 | Fold:TBP-like Superfamily:Bet v1-like Family:Ring hydroxylating alpha subunit catalytic domain
65 | d1o7na2 |
| not modelled | 14.5 | 16 | Fold:TBP-like Superfamily:Bet v1-like Family:Ring hydroxylating alpha subunit catalytic domain
66 | c3c6dB_ |
| not modelled | 13.7 | 31 | PDB header:virus Chain: B: PDB Molecule:polyprotein; PDBTitle: the pseudo-atomic structure of dengue immature virus
67 | d2f5tx2 |
| not modelled | 13.6 | 21 | Fold:Phospholipase D/nuclease Superfamily:Phospholipase D/nuclease Family:TrmB middle domain-like
68 | c3lehA_ |
| not modelled | 13.5 | 35 | PDB header:transferase Chain: A: PDB Molecule:putative hydroxymethylglutaryl-coa synthase; PDBTitle: the crystal structure of smu.943c from streptococcus mutans ua159
69 | c2f9aA_ |
| not modelled | 12.9 | 33 | PDB header:transferase Chain: A: PDB Molecule:3-hydroxy-3-methylglutaryl coenzyme a synthase 1; PDBTitle: hmg-coa synthase from brassica juncea in complex with f-244
70 | d1miua3 |
| not modelled | 12.5 | 24 | Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB
71 | c2lc0A_ |
| not modelled | 12.4 | 15 | PDB header:protein binding Chain: A: PDB Molecule:putative uncharacterized protein tb39.8; PDBTitle: rv0020c_nter structure
72 | d1s6na_ |
| not modelled | 12.3 | 32 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Class II viral fusion proteins C-terminal domain
73 | c3k3sG_ |
| not modelled | 12.3 | 15 | PDB header:hydrolase Chain: G: PDB Molecule:altronate hydrolase; PDBTitle: crystal structure of altronate hydrolase (fragment 1-84) from shigella2 flexneri.
74 | c3csqC_ |
| not modelled | 12.3 | 40 | PDB header:hydrolase Chain: C: PDB Molecule:morphogenesis protein 1; PDBTitle: crystal and cryoem structural studies of a cell wall2 degrading enzyme in the bacteriophage phi29 tail
75 | c3uajA_ |
| not modelled | 12.2 | 21 | PDB header:viral protein/immune system Chain: A: PDB Molecule:envelope protein; PDBTitle: crystal structure of the envelope glycoprotein ectodomain from dengue2 virus serotype 4 in complex with the fab fragment of the chimpanzee3 monoclonal antibody 5h2
76 | c3c64A_ |
| not modelled | 12.0 | 25 | PDB header:cd36-binding protein,cell adhesion Chain: A: PDB Molecule:pfemp1 variant 2 of strain mc; PDBTitle: the mc179 portion of the cysteine-rich interdomain region2 (cidr) of a plasmodium falciparum erythrocyte membrane3 protein-1 (pfemp1)
77 | c2f1mA_ |
| not modelled | 11.9 | 15 | PDB header:transport protein Chain: A: PDB Molecule:acriflavine resistance protein a; PDBTitle: conformational flexibility in the multidrug efflux system protein acra
78 | c1x9eB_ |
| not modelled | 11.5 | 35 | PDB header:lyase Chain: B: PDB Molecule:hmg-coa synthase; PDBTitle: crystal structure of hmg-coa synthase from enterococcus2 faecalis
79 | d2nqwa1 |
| not modelled | 11.5 | 11 | Fold:FAD-binding/transporter-associated domain-like Superfamily:FAD-binding/transporter-associated domain-like Family:CorC/HlyC domain-like
80 | c1txtB_ |
| not modelled | 11.5 | 40 | PDB header:lyase Chain: B: PDB Molecule:3-hydroxy-3-methylglutaryl-coa synthase; PDBTitle: staphylococcus aureus 3-hydroxy-3-methylglutaryl-coa2 synthase
81 | c2wusR_ |
| not modelled | 11.3 | 18 | PDB header:structural protein Chain: R: PDB Molecule:putative uncharacterized protein; PDBTitle: bacterial actin mreb assembles in complex with cell shape2 protein rodz
82 | c3nyyA_ |
| not modelled | 10.9 | 18 | PDB header:hydrolase Chain: A: PDB Molecule:putative glycyl-glycine endopeptidase lytm; PDBTitle: crystal structure of a putative glycyl-glycine endopeptidase lytm2 (rumgna_02482) from ruminococcus gnavus atcc 29149 at 1.60 a3 resolution
83 | c2f5tX_ |
| not modelled | 10.5 | 21 | PDB header:transcription Chain: X: PDB Molecule:archaeal transcriptional regulator trmb; PDBTitle: crystal structure of the sugar binding domain of the archaeal2 transcriptional regulator trmb
84 | d1ztxe1 |
| not modelled | 10.5 | 27 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Class II viral fusion proteins C-terminal domain
85 | c2p8uB_ |
| not modelled | 10.0 | 43 | PDB header:transferase Chain: B: PDB Molecule:hydroxymethylglutaryl-coa synthase, cytoplasmic; PDBTitle: crystal structure of human 3-hydroxy-3-methylglutaryl coa synthase i
86 | c3d4rE_ |
| not modelled | 9.9 | 18 | PDB header:unknown function Chain: E: PDB Molecule:domain of unknown function from the pfam-b_34464 family; PDBTitle: crystal structure of a duf2118 family protein (mmp0046) from2 methanococcus maripaludis at 2.20 a resolution
87 | c1orhA_ |
| not modelled | 9.5 | 14 | PDB header:transferase Chain: A: PDB Molecule:protein arginine n-methyltransferase 1; PDBTitle: structure of the predominant protein arginine methyltransferase prmt1
88 | c3e9uA_ |
| not modelled | 9.1 | 24 | PDB header:membrane protein Chain: A: PDB Molecule:na/ca exchange protein; PDBTitle: crystal structure of calx cbd2 domain
89 | d2gtaa1 |
| not modelled | 9.0 | 13 | Fold:all-alpha NTP pyrophosphatases Superfamily:all-alpha NTP pyrophosphatases Family:MazG-like
90 | c3ddcB_ |
| not modelled | 8.9 | 11 | PDB header:hydrolase/apoptosis Chain: B: PDB Molecule:ras association domain-containing family protein 5; PDBTitle: crystal structure of nore1a in complex with ras
91 | c3n6rK_ |
| not modelled | 8.8 | 16 | PDB header:ligase Chain: K: PDB Molecule:propionyl-coa carboxylase, alpha subunit; PDBTitle: crystal structure of the holoenzyme of propionyl-coa carboxylase (pcc)
92 | d1iyjb3 |
| not modelled | 8.6 | 24 | Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB
93 | c3fymA_ |
| not modelled | 8.3 | 5 | PDB header:dna binding protein Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: the 1a structure of ymfm, a putative dna-binding membrane2 protein from staphylococcus aureus
94 | c3llbA_ |
| not modelled | 8.2 | 8 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: the crystal structure of the protein pa3983 with unknown2 function from pseudomonas aeruginosa pao1
95 | c1t5eB_ |
| not modelled | 8.1 | 21 | PDB header:transport protein Chain: B: PDB Molecule:multidrug resistance protein mexa; PDBTitle: the structure of mexa
96 | d1y7ma2 |
| not modelled | 7.7 | 13 | Fold:LysM domain Superfamily:LysM domain Family:LysM domain
97 | d3brda3 |
| not modelled | 7.6 | 13 | Fold:beta-Trefoil Superfamily:DNA-binding protein LAG-1 (CSL) Family:DNA-binding protein LAG-1 (CSL)
98 | d2a9da1 |
| not modelled | 7.4 | 28 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Molybdenum-containing oxidoreductases-like dimerisation domain
99 | d2fx0a2 |
| not modelled | 7.4 | 33 | Fold:Tetracyclin repressor-like, C-terminal domain Superfamily:Tetracyclin repressor-like, C-terminal domain Family:Tetracyclin repressor-like, C-terminal 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