Phyre 2 Results for P0CE45

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Email | l.a.kelley@imperial.ac.uk
Description | P0CE45
Date | Thu Jan 5 11:30:13 GMT 2012
Unique Job ID | 6bb8930fbc257fae

Summary |

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

Model (left) based on template d1pv7a_
Top template information
Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:LacY-like proton/sugar symporter
Confidence and coverage
Confidence: | 99.9% | Coverage: | 91%
414 residues ( 91% of your sequence) have been modelled with 99.9% 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 | N | Q | Q | L | S | W | R | T | I | V | G | Y | S | L | G | D | V | A | N | N | F | A | F | A | M | G | A | L | F | L | L | S | Y | Y | T | D | V | A | G | V | G | A | A | A | A | G | T | M | L | L | L | V | R | V | F | D | A | F | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | D | V | F | A | G | R | V | V | D | S | V | N | T | R | W | G | K | F | R | P | F | L | L | F | G | T | A | P | L | M | I | F | S | V | L | V | F | W | V | P | T | D | W | S | H | G | S | K | V | V | Y | A | Y | L | T | Y | M | G | L | G
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | L | C | Y | S | L | V | N | I | P | Y | G | S | L | A | T | A | M | T | Q | Q | P | Q | S | R | A | R | L | G | A | A | R | G | I | A | A | S | L | T | F | V | C | L | A | F | L | I | G | P | S | I | K | N | S | S | P | E | E | M | V | S
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | V | Y | H | F | W | T | I | V | L | A | I | A | G | M | V | L | Y | F | I | C | F | K | S | T | R | E | N | V | V | R | I | V | A | Q | P | S | L | N | I | S | L | Q | T | L | K | R | N | R | P | L | F | M | L | C | I | G | A | L | C | V
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | . | . | . | . | . | . | . | . | 290 | . | . | . | . | . | . | . | . | . | 300
Sequence |  | L | I | S | T | F | A | V | S | A | S | S | L | F | Y | V | R | Y | V | L | N | D | T | G | L | F | T | V | L | V | L | V | Q | N | L | V | G | T | V | A | S | A | P | L | V | P | G | M | V | A | R | I | G | K | K | N | T | F | L | I | G
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 310 | . | . | . | . | . | . | . | . | . | 320 | . | . | . | . | . | . | . | . | . | 330 | . | . | . | . | . | . | . | . | . | 340 | . | . | . | . | . | . | . | . | . | 350 | . | . | . | . | . | . | . | . | . | 360
Sequence |  | A | L | L | G | T | C | G | Y | L | L | F | F | W | V | S | V | W | S | L | P | V | A | L | V | A | L | A | I | A | S | I | G | Q | G | V | T | M | T | V | M | W | A | L | E | A | D | T | V | E | Y | G | E | Y | L | T | G | V | R | I | E
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 370 | . | . | . | . | . | . | . | . | . | 380 | . | . | . | . | . | . | . | . | . | 390 | . | . | . | . | . | . | . | . | . | 400 | . | . | . | . | . | . | . | . | . | 410 | . | . | . | . | . | . | . | . | . | 420
Sequence |  | G | L | T | Y | S | L | F | S | F | T | R | K | C | G | Q | A | I | G | G | S | I | P | A | F | I | L | G | L | S | G | Y | I | A | N | Q | V | Q | T | P | E | V | I | M | G | I | R | T | S | I | A | L | V | P | C | G | F | M | L | L | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 430 | . | . | . | . | . | . | . | . | . | 440 | . | . | . | . | . | . | . | . | . | 450 | . | . | . | . | . | . | .
Sequence |  | F | V | I | I | W | F | Y | P | L | T | D | K | K | F | K | E | I | V | V | E | I | D | N | R | K | K | V | Q | Q | Q | L | I | S | D | I | T | N
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 |
| d1pv7a_ |

### PDB 1pv7 chain A

Region: 3 - 444
Aligned: 414
Modelled: 420
Confidence: 99.9%
Identity: 12%
Fold: MFS general substrate transporter
Superfamily: MFS general substrate transporter
Family: LacY-like proton/sugar symporter

Phyre2
2 |
| d1pw4a_ |

### PDB 1pw4 chain A

Region: 3 - 441
Aligned: 408
Modelled: 425
Confidence: 99.9%
Identity: 13%
Fold: MFS general substrate transporter
Superfamily: MFS general substrate transporter
Family: Glycerol-3-phosphate transporter

Phyre2
3 |
| c2gfpA_ |

### PDB 2gfp chain A

Region: 10 - 418
Aligned: 368
Modelled: 385
Confidence: 99.8%
Identity: 12%
PDB header:membrane protein
Chain: A: PDB Molecule:multidrug resistance protein d;
PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli

Phyre2
4 |
| c3o7pA_ |

### PDB 3o7p chain A

Region: 8 - 430
Aligned: 386
Modelled: 409
Confidence: 99.8%
Identity: 13%
PDB header:transport protein
Chain: A: PDB Molecule:l-fucose-proton symporter;
PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a)

Phyre2
5 |
| c2xutC_ |

### PDB 2xut chain C

Region: 14 - 419
Aligned: 388
Modelled: 401
Confidence: 99.8%
Identity: 11%
PDB header:transport protein
Chain: C: PDB Molecule:proton/peptide symporter family protein;
PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter.

Phyre2
6 |
| d2f23a1 |

### PDB 2f23 chain A domain 1

Region: 427 - 455
Aligned: 29
Modelled: 29
Confidence: 62.4%
Identity: 10%
Fold: Long alpha-hairpin
Superfamily: GreA transcript cleavage protein, N-terminal domain
Family: GreA transcript cleavage protein, N-terminal domain

Phyre2
7 |
| d1grja1 |

### PDB 1grj chain A domain 1

Region: 427 - 455
Aligned: 29
Modelled: 29
Confidence: 50.2%
Identity: 24%
Fold: Long alpha-hairpin
Superfamily: GreA transcript cleavage protein, N-terminal domain
Family: GreA transcript cleavage protein, N-terminal domain

Phyre2
8 |
| c3qnqD_ |

### PDB 3qnq chain D

Region: 373 - 449
Aligned: 77
Modelled: 77
Confidence: 49.6%
Identity: 14%
PDB header:membrane protein, transport protein
Chain: D: PDB Molecule:pts system, cellobiose-specific iic component;
PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system

Phyre2
9 |
| c1zxaB_ |

### PDB 1zxa chain B

Region: 435 - 455
Aligned: 21
Modelled: 21
Confidence: 32.9%
Identity: 19%
PDB header:transferase
Chain: B: PDB Molecule:cgmp-dependent protein kinase 1, alpha isozyme;
PDBTitle: solution structure of the coiled-coil domain of cgmp-2 dependent protein kinase ia

Phyre2
10 |
| c1by0A_ |

### PDB 1by0 chain A

Region: 431 - 455
Aligned: 25
Modelled: 25
Confidence: 29.6%
Identity: 28%
PDB header:rna binding protein
Chain: A: PDB Molecule:protein (hepatitis delta antigen);
PDBTitle: n-terminal leucine-repeat region of hepatitis delta antigen

Phyre2
11 |
| c2q7cC_ |

### PDB 2q7c chain C

Region: 433 - 455
Aligned: 23
Modelled: 23
Confidence: 25.0%
Identity: 22%
PDB header:viral protein
Chain: C: PDB Molecule:fusion protein between yeast variant gcn4 and
PDBTitle: crystal structure of iqn17

Phyre2
12 |
| d1f6ga_ |

### PDB 1f6g chain A

Region: 390 - 456
Aligned: 67
Modelled: 67
Confidence: 24.9%
Identity: 13%
Fold: Voltage-gated potassium channels
Superfamily: Voltage-gated potassium channels
Family: Voltage-gated potassium channels

Phyre2
13 |
| c3hd6A_ |

### PDB 3hd6 chain A

Region: 213 - 453
Aligned: 220
Modelled: 241
Confidence: 23.7%
Identity: 7%
PDB header:membrane protein, transport protein
Chain: A: PDB Molecule:ammonium transporter rh type c;
PDBTitle: crystal structure of the human rhesus glycoprotein rhcg

Phyre2
14 |
| d1oqwa_ |

### PDB 1oqw chain A

Region: 408 - 454
Aligned: 47
Modelled: 47
Confidence: 20.4%
Identity: 13%
Fold: Pili subunits
Superfamily: Pili subunits
Family: Pilin

Phyre2
15 |
| d1xmpa_ |

### PDB 1xmp chain A

Region: 435 - 454
Aligned: 20
Modelled: 20
Confidence: 19.7%
Identity: 10%
Fold: Flavodoxin-like
Superfamily: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)
Family: N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)

Phyre2
16 |
| d2h8aa1 |

### PDB 2h8a chain A domain 1

Region: 404 - 457
Aligned: 54
Modelled: 54
Confidence: 17.4%
Identity: 7%
Fold: MAPEG domain-like
Superfamily: MAPEG domain-like
Family: MAPEG domain

Phyre2
17 |
| d2pila_ |

### PDB 2pil chain A

Region: 408 - 454
Aligned: 47
Modelled: 47
Confidence: 17.1%
Identity: 9%
Fold: Pili subunits
Superfamily: Pili subunits
Family: Pilin

Phyre2
18 |
| c3jqhA_ |

### PDB 3jqh chain A

Region: 430 - 454
Aligned: 25
Modelled: 22
Confidence: 13.8%
Identity: 24%
PDB header:sugar binding protein
Chain: A: PDB Molecule:c-type lectin domain family 4 member m;
PDBTitle: structure of the neck region of the glycan-binding receptor2 dc-signr

Phyre2
19 |
| d1ji6a3 |

### PDB 1ji6 chain A domain 3

Region: 374 - 457
Aligned: 64
Modelled: 67
Confidence: 13.3%
Identity: 14%
Fold: Toxins' membrane translocation domains
Superfamily: delta-Endotoxin (insectocide), N-terminal domain
Family: delta-Endotoxin (insectocide), N-terminal domain

Phyre2
20 |
| c2hjmB_ |

### PDB 2hjm chain B

Region: 409 - 450
Aligned: 42
Modelled: 42
Confidence: 12.8%
Identity: 10%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:hypothetical protein pf1176;
PDBTitle: crystal structure of a singleton protein pf1176 from p. furiosus

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1pv7a_ |
|  | 99.9 | 12 | Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:LacY-like proton/sugar symporter
2 | d1pw4a_ |
|  | 99.9 | 13 | Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter
3 | c2gfpA_ |
|  | 99.8 | 12 | PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli
4 | c3o7pA_ |
|  | 99.8 | 13 | PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a)
5 | c2xutC_ |
|  | 99.8 | 11 | PDB header:transport protein Chain: C: PDB Molecule:proton/peptide symporter family protein; PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter.
6 | d2f23a1 |
|  | 62.4 | 10 | Fold:Long alpha-hairpin Superfamily:GreA transcript cleavage protein, N-terminal domain Family:GreA transcript cleavage protein, N-terminal domain
7 | d1grja1 |
|  | 50.2 | 24 | Fold:Long alpha-hairpin Superfamily:GreA transcript cleavage protein, N-terminal domain Family:GreA transcript cleavage protein, N-terminal domain
8 | c3qnqD_ |
|  | 49.6 | 14 | PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system
9 | c1zxaB_ |
|  | 32.9 | 19 | PDB header:transferase Chain: B: PDB Molecule:cgmp-dependent protein kinase 1, alpha isozyme; PDBTitle: solution structure of the coiled-coil domain of cgmp-2 dependent protein kinase ia
10 | c1by0A_ |
|  | 29.6 | 28 | PDB header:rna binding protein Chain: A: PDB Molecule:protein (hepatitis delta antigen); PDBTitle: n-terminal leucine-repeat region of hepatitis delta antigen
11 | c2q7cC_ |
|  | 25.0 | 22 | PDB header:viral protein Chain: C: PDB Molecule:fusion protein between yeast variant gcn4 and PDBTitle: crystal structure of iqn17
12 | d1f6ga_ |
|  | 24.9 | 13 | Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels
13 | c3hd6A_ |
|  | 23.7 | 7 | PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg
14 | d1oqwa_ |
|  | 20.4 | 13 | Fold:Pili subunits Superfamily:Pili subunits Family:Pilin
15 | d1xmpa_ |
|  | 19.7 | 10 | Fold:Flavodoxin-like Superfamily:N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) Family:N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)
16 | d2h8aa1 |
|  | 17.4 | 7 | Fold:MAPEG domain-like Superfamily:MAPEG domain-like Family:MAPEG domain
17 | d2pila_ |
|  | 17.1 | 9 | Fold:Pili subunits Superfamily:Pili subunits Family:Pilin
18 | c3jqhA_ |
|  | 13.8 | 24 | PDB header:sugar binding protein Chain: A: PDB Molecule:c-type lectin domain family 4 member m; PDBTitle: structure of the neck region of the glycan-binding receptor2 dc-signr
19 | d1ji6a3 |
|  | 13.3 | 14 | Fold:Toxins' membrane translocation domains Superfamily:delta-Endotoxin (insectocide), N-terminal domain Family:delta-Endotoxin (insectocide), N-terminal domain
20 | c2hjmB_ |
|  | 12.8 | 10 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein pf1176; PDBTitle: crystal structure of a singleton protein pf1176 from p. furiosus
21 | d2ce7a1 |
| not modelled | 12.0 | 13 | Fold:FtsH protease domain-like Superfamily:FtsH protease domain-like Family:FtsH protease domain-like
22 | c1a92B_ |
| not modelled | 11.8 | 29 | PDB header:leucine zipper Chain: B: PDB Molecule:delta antigen; PDBTitle: oligomerization domain of hepatitis delta antigen
23 | c1m46B_ |
| not modelled | 11.7 | 29 | PDB header:cell cycle protein Chain: B: PDB Molecule:iq4 motif from myo2p, a class v myosin; PDBTitle: crystal structure of mlc1p bound to iq4 of myo2p, a class v2 myosin
24 | c2nuxB_ |
| not modelled | 11.5 | 35 | PDB header:lyase Chain: B: PDB Molecule:2-keto-3-deoxygluconate/2-keto-3-deoxy-6-phospho gluconate PDBTitle: 2-keto-3-deoxygluconate aldolase from sulfolobus acidocaldarius,2 native structure in p6522 at 2.5 a resolution
25 | c2oqqB_ |
| not modelled | 11.5 | 16 | PDB header:transcription Chain: B: PDB Molecule:transcription factor hy5; PDBTitle: crystal structure of hy5 leucine zipper homodimer from2 arabidopsis thaliana
26 | c3eh0C_ |
| not modelled | 10.4 | 8 | PDB header:transferase Chain: C: PDB Molecule:udp-3-o-[3-hydroxymyristoyl] glucosamine n- PDBTitle: crystal structure of lpxd from escherichia coli
27 | d1u69a_ |
| not modelled | 9.6 | 27 | Fold:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Superfamily:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Family:3-demethylubiquinone-9 3-methyltransferase
28 | c2wl2B_ |
| not modelled | 9.2 | 11 | PDB header:isomerase Chain: B: PDB Molecule:dna gyrase subunit a; PDBTitle: crystal structure of n-terminal domain of gyra with the2 antibiotic simocyclinone d8
29 | c2xseA_ |
| not modelled | 9.2 | 21 | PDB header:oxidoreductase Chain: A: PDB Molecule:thymine dioxygenase jbp1; PDBTitle: the structural basis for recognition of j-base containing2 dna by a novel dna-binding domain in jbp1
30 | c1c94B_ |
| not modelled | 8.8 | 15 | PDB header:gene regulation Chain: B: PDB Molecule:retro-gcn4 leucine zipper; PDBTitle: reversing the sequence of the gcn4 leucine zipper does not2 affect its fold.
31 | c2kncA_ |
| not modelled | 8.8 | 13 | PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex
32 | c1l4aE_ |
| not modelled | 8.7 | 22 | PDB header:endocytosis/exocytosis Chain: E: PDB Molecule:synaphin a; PDBTitle: x-ray structure of the neuronal complexin/snare complex2 from the squid loligo pealei
33 | c3s2xB_ |
| not modelled | 8.5 | 23 | PDB header:transferase Chain: B: PDB Molecule:acetyl-coa synthase subunit alpha; PDBTitle: structure of acetyl-coenzyme a synthase alpha subunit c-terminal2 domain
34 | d2ia9a1 |
| not modelled | 8.5 | 7 | Fold:SpoVG-like Superfamily:SpoVG-like Family:SpoVG-like
35 | d1ab4a_ |
| not modelled | 8.4 | 13 | Fold:Type II DNA topoisomerase Superfamily:Type II DNA topoisomerase Family:Type II DNA topoisomerase
36 | c2l5gA_ |
| not modelled | 8.3 | 9 | PDB header:transcription regulator Chain: A: PDB Molecule:g protein pathway suppressor 2; PDBTitle: co-ordinates and 1h, 13c and 15n chemical shift assignments for the2 complex of gps2 53-90 and smrt 167-207
37 | c1ji6A_ |
| not modelled | 8.1 | 14 | PDB header:toxin Chain: A: PDB Molecule:pesticidial crystal protein cry3bb; PDBTitle: crystal structure of the insecticidal bacterial del2 endotoxin cry3bb1 bacillus thuringiensis
38 | d2oara1 |
| not modelled | 8.1 | 18 | Fold:Gated mechanosensitive channel Superfamily:Gated mechanosensitive channel Family:Gated mechanosensitive channel
39 | c3sokB_ |
| not modelled | 7.9 | 17 | PDB header:cell adhesion Chain: B: PDB Molecule:fimbrial protein; PDBTitle: dichelobacter nodosus pilin fima
40 | d1ez4a2 |
| not modelled | 7.6 | 23 | Fold:LDH C-terminal domain-like Superfamily:LDH C-terminal domain-like Family:Lactate & malate dehydrogenases, C-terminal domain
41 | d1ykhb1 |
| not modelled | 7.4 | 8 | Fold:Mediator hinge subcomplex-like Superfamily:Mediator hinge subcomplex-like Family:CSE2-like
42 | c2novD_ |
| not modelled | 7.4 | 21 | PDB header:isomerase Chain: D: PDB Molecule:dna topoisomerase 4 subunit a; PDBTitle: breakage-reunion domain of s.pneumoniae topo iv: crystal2 structure of a gram-positive quinolone target
43 | c2kluA_ |
| not modelled | 7.3 | 10 | PDB header:immune system, membrane protein Chain: A: PDB Molecule:t-cell surface glycoprotein cd4; PDBTitle: nmr structure of the transmembrane and cytoplasmic domains2 of human cd4
44 | c1tjlD_ |
| not modelled | 7.2 | 0 | PDB header:transcription Chain: D: PDB Molecule:dnak suppressor protein; PDBTitle: crystal structure of transcription factor dksa from e. coli
45 | c2rdcA_ |
| not modelled | 7.1 | 10 | PDB header:lipid binding protein Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a putative lipid binding protein (gsu0061) from2 geobacter sulfurreducens pca at 1.80 a resolution
46 | c2kwyA_ |
| not modelled | 7.1 | 19 | PDB header:proton transport Chain: A: PDB Molecule:v-type proton atpase subunit g; PDBTitle: structure of g61-101
47 | c3iz5K_ |
| not modelled | 7.1 | 11 | PDB header:ribosome Chain: K: PDB Molecule:60s ribosomal protein l13a (l13p); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
48 | c3onoA_ |
| not modelled | 7.1 | 14 | PDB header:isomerase Chain: A: PDB Molecule:ribose/galactose isomerase; PDBTitle: crystal structure of ribose-5-phosphate isomerase lacab_rpib from2 vibrio parahaemolyticus
49 | c2kmfA_ |
| not modelled | 7.1 | 16 | PDB header:photosynthesis Chain: A: PDB Molecule:photosystem ii 11 kda protein; PDBTitle: solution structure of psb27 from cyanobacterial photosystem2 ii
50 | c2y6xA_ |
| not modelled | 7.0 | 20 | PDB header:photosynthesis Chain: A: PDB Molecule:photosystem ii 11 kd protein; PDBTitle: structure of psb27 from thermosynechococcus elongatus
51 | d1otsa_ |
| not modelled | 6.9 | 13 | Fold:Clc chloride channel Superfamily:Clc chloride channel Family:Clc chloride channel
52 | c2w8aC_ |
| not modelled | 6.7 | 8 | PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate
53 | d2cqea1 |
| not modelled | 6.7 | 10 | Fold:CCCH zinc finger Superfamily:CCCH zinc finger Family:CCCH zinc finger
54 | c2jo8B_ |
| not modelled | 6.6 | 25 | PDB header:transferase Chain: B: PDB Molecule:serine/threonine-protein kinase 4; PDBTitle: solution structure of c-terminal domain of human mammalian2 sterile 20-like kinase 1 (mst1)
55 | d2ba0d2 |
| not modelled | 6.6 | 15 | Fold:Ribonuclease PH domain 2-like Superfamily:Ribonuclease PH domain 2-like Family:Ribonuclease PH domain 2-like
56 | c2zxrA_ |
| not modelled | 6.5 | 12 | 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
57 | d1fx0a1 |
| not modelled | 6.4 | 11 | Fold:Left-handed superhelix Superfamily:C-terminal domain of alpha and beta subunits of F1 ATP synthase Family:C-terminal domain of alpha and beta subunits of F1 ATP synthase
58 | d2jf2a1 |
| not modelled | 6.4 | 13 | Fold:Single-stranded left-handed beta-helix Superfamily:Trimeric LpxA-like enzymes Family:UDP N-acetylglucosamine acyltransferase
59 | c1onvB_ |
| not modelled | 6.1 | 22 | PDB header:transcription Chain: B: PDB Molecule:serine phosphatase fcp1a; PDBTitle: nmr structure of a complex containing the tfiif subunit2 rap74 and the rnap ii ctd phosphatase fcp1
60 | d2b5ua2 |
| not modelled | 6.1 | 17 | Fold:Cloacin translocation domain Superfamily:Cloacin translocation domain Family:Cloacin translocation domain
61 | d1h41a2 |
| not modelled | 6.0 | 20 | Fold:Zincin-like Superfamily:beta-N-acetylhexosaminidase-like domain Family:alpha-D-glucuronidase, N-terminal domain
62 | d1hyha2 |
| not modelled | 5.9 | 10 | Fold:LDH C-terminal domain-like Superfamily:LDH C-terminal domain-like Family:Lactate & malate dehydrogenases, C-terminal domain
63 | c2q9qC_ |
| not modelled | 5.8 | 7 | PDB header:replication Chain: C: PDB Molecule:dna replication complex gins protein psf1; PDBTitle: the crystal structure of full length human gins complex
64 | c2l16A_ |
| not modelled | 5.8 | 15 | PDB header:protein transport Chain: A: PDB Molecule:sec-independent protein translocase protein tatad; PDBTitle: solution structure of bacillus subtilits tatad protein in dpc micelles
65 | c2rpaA_ |
| not modelled | 5.8 | 24 | PDB header:hydrolase Chain: A: PDB Molecule:katanin p60 atpase-containing subunit a1; PDBTitle: the solution structure of n-terminal domain of microtubule severing2 enzyme
66 | c2xzrA_ |
| not modelled | 5.7 | 21 | PDB header:cell adhesion Chain: A: PDB Molecule:immunoglobulin-binding protein eibd; PDBTitle: escherichia coli immunoglobulin-binding protein eibd 391-438 fused2 to gcn4 adaptors
67 | c2inrA_ |
| not modelled | 5.7 | 24 | PDB header:isomerase Chain: A: PDB Molecule:dna topoisomerase 4 subunit a; PDBTitle: crystal structure of a 59 kda fragment of topoisomerase iv subunit a2 (grla) from staphylococcus aureus
68 | c2k6iA_ |
| not modelled | 5.7 | 18 | PDB header:structural protein Chain: A: PDB Molecule:uncharacterized protein mj0223; PDBTitle: the domain features of the peripheral stalk subunit h of the2 methanogenic a1ao atp synthase and the nmr solution3 structure of h1-47
69 | c1zvuA_ |
| not modelled | 5.6 | 18 | PDB header:isomerase Chain: A: PDB Molecule:topoisomerase iv subunit a; PDBTitle: structure of the full-length e. coli parc subunit
70 | c1unyA_ |
| not modelled | 5.6 | 9 | PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles
71 | c2c5qE_ |
| not modelled | 5.4 | 23 | PDB header:structural genomics,unknown function Chain: E: PDB Molecule:rraa-like protein yer010c; PDBTitle: crystal structure of yeast yer010cp
72 | c3izcK_ |
| not modelled | 5.4 | 21 | PDB header:ribosome Chain: K: PDB Molecule:60s ribosomal protein rpl16 (l13p); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome
73 | c2hw2A_ |
| not modelled | 5.4 | 7 | PDB header:transferase Chain: A: PDB Molecule:rifampin adp-ribosyl transferase; PDBTitle: crystal structure of rifampin adp-ribosyl transferase in2 complex with rifampin
74 | c2rddB_ |
| not modelled | 5.3 | 15 | PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix.
75 | d2e9xa1 |
| not modelled | 5.3 | 7 | Fold:GINS helical bundle-like Superfamily:GINS helical bundle-like Family:PSF1 N-terminal domain-like
76 | c3gb8B_ |
| not modelled | 5.3 | 4 | PDB header:transport protein Chain: B: PDB Molecule:snurportin-1; PDBTitle: crystal structure of crm1/snurportin-1 complex
77 | c1nohB_ |
| not modelled | 5.3 | 14 | PDB header:viral protein Chain: B: PDB Molecule:head morphogenesis protein; PDBTitle: the structure of bacteriophage phi29 scaffolding protein2 gp7 after prohead assembly
78 | c3ei1A_ |
| not modelled | 5.3 | 17 | PDB header:dna binding protein/dna Chain: A: PDB Molecule:dna damage-binding protein 1; PDBTitle: structure of hsddb1-drddb2 bound to a 14 bp 6-42 photoproduct containing dna-duplex
79 | c1ij3B_ |
| not modelled | 5.3 | 8 | PDB header:transcription Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-pvsl coiled-coil trimer with serine at the a(16)2 position
80 | c1ij3C_ |
| not modelled | 5.3 | 8 | PDB header:transcription Chain: C: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-pvsl coiled-coil trimer with serine at the a(16)2 position
81 | c3ilwA_ |
| not modelled | 5.3 | 11 | PDB header:isomerase Chain: A: PDB Molecule:dna gyrase subunit a; PDBTitle: structure of dna gyrase subunit a n-terminal domain
82 | d1i9za_ |
| not modelled | 5.3 | 22 | Fold:DNase I-like Superfamily:DNase I-like Family:Inositol polyphosphate 5-phosphatase (IPP5)
83 | d2fgea3 |
| not modelled | 5.3 | 15 | Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:MPP-like
84 | c3eb7B_ |
| not modelled | 5.2 | 18 | PDB header:toxin Chain: B: PDB Molecule:insecticidal delta-endotoxin cry8ea1; PDBTitle: crystal structure of insecticidal delta-endotoxin cry8ea1 from2 bacillus thuringiensis at 2.2 angstroms resolution
85 | d1gega_ |
| not modelled | 5.2 | 17 | Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Tyrosine-dependent oxidoreductases
86 | d1k1xa1 |
| not modelled | 5.2 | 11 | Fold:immunoglobulin/albumin-binding domain-like Superfamily:Families 57/38 glycoside transferase middle domain Family:4-alpha-glucanotransferase, domain 2
87 | c3jywM_ |
| not modelled | 5.2 | 5 | PDB header:ribosome Chain: M: PDB Molecule:60s ribosomal protein l16(a); PDBTitle: structure of the 60s proteins for eukaryotic ribosome based on cryo-em2 map of thermomyces lanuginosus ribosome at 8.9a resolution
88 | c1zi7C_ |
| not modelled | 5.1 | 10 | PDB header:lipid binding protein Chain: C: PDB Molecule:kes1 protein; PDBTitle: structure of truncated yeast oxysterol binding protein osh4
89 | c3ifzA_ |
| not modelled | 5.1 | 11 | PDB header:isomerase Chain: A: PDB Molecule:dna gyrase subunit a; PDBTitle: crystal structure of the first part of the mycobacterium tuberculosis2 dna gyrase reaction core: the breakage and reunion domain at 2.7 a3 resolution
90 | d1tsja_ |
| not modelled | 5.1 | 18 | Fold:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Superfamily:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Family:3-demethylubiquinone-9 3-methyltransferase
91 | c2yggA_ |
| not modelled | 5.0 | 25 | PDB header:metal binding protein/transport protein Chain: A: PDB Molecule:sodium/hydrogen exchanger 1; PDBTitle: complex of cambr and cam

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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Terms and Conditions
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