Phyre 2 Results for P76128

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Email | l.a.kelley@imperial.ac.uk
Description | P76128
Date | Thu Jan 5 12:19:19 GMT 2012
Unique Job ID | 63ca54b846e75063

Summary |

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

Model (left) based on template c3tpaA_
Top template information
PDB header:heme binding protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: structure of hbpa2 from haemophilus parasuis
Confidence and coverage
Confidence: | 100.0% | Coverage: | 93%
481 residues ( 93% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis |

Secondary structure and disorder prediction |

|  | 1 | . | . | . | . | . | . | . | . | 10 | . | . | . | . | . | . | . | . | . | 20 | . | . | . | . | . | . | . | . | . | 30 | . | . | . | . | . | . | . | . | . | 40 | . | . | . | . | . | . | . | . | . | 50 | . | . | . | . | . | . | . | . | . | 60
Sequence |  | M | K | R | S | I | S | F | R | P | T | L | L | A | L | V | L | A | T | N | F | P | V | A | H | A | A | V | P | K | D | M | L | V | I | G | K | A | A | D | P | Q | T | L | D | P | A | V | T | I | D | N | N | D | W | T | V | T | Y | P | S
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | Y | Q | R | L | V | Q | Y | K | T | D | G | D | K | G | S | T | D | V | E | G | D | L | A | S | S | W | K | A | S | D | D | Q | K | E | W | T | F | T | L | K | D | N | A | K | F | A | D | G | T | P | V | T | A | E | A | V | K | L | S | F
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | E | R | L | L | K | I | G | Q | G | P | A | E | A | F | P | K | D | L | K | I | D | A | P | D | E | H | T | V | K | F | T | L | S | Q | P | F | A | P | F | L | Y | T | L | A | N | D | G | A | S | I | I | N | P | A | V | L | K | E | H | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | A | D | D | A | R | G | F | L | A | Q | N | T | A | G | S | G | P | F | M | L | K | S | W | Q | K | G | Q | Q | L | V | L | V | P | N | P | H | Y | P | G | N | K | P | N | F | K | R | V | S | V | K | I | I | G | E | S | A | S | R | R | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | . | . | . | . | . | . | . | . | 290 | . | . | . | . | . | . | . | . | . | 300
Sequence |  | Q | L | S | R | G | D | I | D | I | A | D | A | L | P | V | D | Q | L | N | A | L | K | Q | E | N | K | V | N | V | A | E | Y | P | S | L | R | V | T | Y | L | Y | L | N | N | S | K | A | P | L | N | Q | A | D | L | R | R | A | I | S | W
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 310 | . | . | . | . | . | . | . | . | . | 320 | . | . | . | . | . | . | . | . | . | 330 | . | . | . | . | . | . | . | . | . | 340 | . | . | . | . | . | . | . | . | . | 350 | . | . | . | . | . | . | . | . | . | 360
Sequence |  | S | T | D | Y | Q | G | M | V | N | G | I | L | S | G | N | G | K | Q | M | R | G | P | I | P | E | G | M | W | G | Y | D | A | T | A | M | Q | Y | N | H | D | E | T | K | A | K | A | E | W | D | K | V | T | S | K | P | T | S | L | T | F
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 370 | . | . | . | . | . | . | . | . | . | 380 | . | . | . | . | . | . | . | . | . | 390 | . | . | . | . | . | . | . | . | . | 400 | . | . | . | . | . | . | . | . | . | 410 | . | . | . | . | . | . | . | . | . | 420
Sequence |  | L | Y | S | D | N | D | P | N | W | E | P | I | A | L | A | T | Q | S | S | L | N | K | L | G | I | I | V | K | L | E | K | L | A | N | A | T | M | R | D | R | V | G | K | G | D | Y | D | I | A | I | G | N | W | S | P | D | F | A | D | P
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 430 | . | . | . | . | . | . | . | . | . | 440 | . | . | . | . | . | . | . | . | . | 450 | . | . | . | . | . | . | . | . | . | 460 | . | . | . | . | . | . | . | . | . | 470 | . | . | . | . | . | . | . | . | . | 480
Sequence |  | Y | M | F | M | N | Y | W | F | E | S | D | K | K | G | L | P | G | N | R | S | F | Y | E | N | S | E | V | D | K | L | L | R | N | A | L | A | T | T | D | Q | T | Q | R | T | R | D | Y | Q | Q | A | Q | K | I | V | I | D | D | A | A | Y
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 490 | . | . | . | . | . | . | . | . | . | 500 | . | . | . | . | . | . | . | . | . | 510 | . | . | . | . | . | .
Sequence |  | V | Y | L | F | Q | K | N | Y | Q | L | A | M | N | K | E | V | K | G | F | V | F | N | P | M | L | E | Q | V | F | N | I | N | T | M | S | K
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 |
| c3tpaA_ |

### PDB 3tpa chain A

Region: 30 - 515
Aligned: 481
Modelled: 482
Confidence: 100.0%
Identity: 28%
PDB header:heme binding protein
Chain: A: PDB Molecule:heme-binding protein a;
PDBTitle: structure of hbpa2 from haemophilus parasuis

Phyre2
2 |
| d1dpea_ |

### PDB 1dpe chain A

Region: 30 - 515
Aligned: 482
Modelled: 482
Confidence: 100.0%
Identity: 27%
Fold: Periplasmic binding protein-like II
Superfamily: Periplasmic binding protein-like II
Family: Phosphate binding protein-like

Phyre2
3 |
| c3m8uA_ |

### PDB 3m8u chain A

Region: 29 - 515
Aligned: 482
Modelled: 483
Confidence: 100.0%
Identity: 26%
PDB header:transport protein
Chain: A: PDB Molecule:heme-binding protein a;
PDBTitle: crystal structure of glutathione-binding protein a (gbpa) from2 haemophilus parasuis sh0165 in complex with glutathione disulfide3 (gssg)

Phyre2
4 |
| d1zlqa1 |

### PDB 1zlq chain A domain 1

Region: 30 - 516
Aligned: 478
Modelled: 484
Confidence: 100.0%
Identity: 24%
Fold: Periplasmic binding protein-like II
Superfamily: Periplasmic binding protein-like II
Family: Phosphate binding protein-like

Phyre2
5 |
| c2wokA_ |

### PDB 2wok chain A

Region: 18 - 515
Aligned: 489
Modelled: 498
Confidence: 100.0%
Identity: 22%
PDB header:peptide binding protein/peptide
Chain: A: PDB Molecule:clavulanic acid biosynthesis oligopeptide
PDBTitle: clavulanic acid biosynthesis oligopeptide2 binding protein 2 complexed with bradykinin

Phyre2
6 |
| d1jeta_ |

### PDB 1jet chain A

Region: 20 - 516
Aligned: 484
Modelled: 493
Confidence: 100.0%
Identity: 26%
Fold: Periplasmic binding protein-like II
Superfamily: Periplasmic binding protein-like II
Family: Phosphate binding protein-like

Phyre2
7 |
| c3o9pA_ |

### PDB 3o9p chain A

Region: 27 - 516
Aligned: 476
Modelled: 486
Confidence: 100.0%
Identity: 28%
PDB header:peptide binding protein/peptide
Chain: A: PDB Molecule:periplasmic murein peptide-binding protein;
PDBTitle: the structure of the escherichia coli murein tripeptide binding2 protein mppa

Phyre2
8 |
| d1xoca1 |

### PDB 1xoc chain A domain 1

Region: 25 - 516
Aligned: 481
Modelled: 491
Confidence: 100.0%
Identity: 23%
Fold: Periplasmic binding protein-like II
Superfamily: Periplasmic binding protein-like II
Family: Phosphate binding protein-like

Phyre2
9 |
| d1uqwa_ |

### PDB 1uqw chain A

Region: 28 - 515
Aligned: 477
Modelled: 481
Confidence: 100.0%
Identity: 24%
Fold: Periplasmic binding protein-like II
Superfamily: Periplasmic binding protein-like II
Family: Phosphate binding protein-like

Phyre2
10 |
| c3t66A_ |

### PDB 3t66 chain A

Region: 29 - 512
Aligned: 461
Modelled: 484
Confidence: 100.0%
Identity: 23%
PDB header:transport protein
Chain: A: PDB Molecule:nickel abc transporter (nickel-binding protein);
PDBTitle: crystal structure of nickel abc transporter from bacillus halodurans

Phyre2
11 |
| c1ztyA_ |

### PDB 1zty chain A

Region: 29 - 513
Aligned: 475
Modelled: 484
Confidence: 100.0%
Identity: 21%
PDB header:sugar binding protein, signaling protein
Chain: A: PDB Molecule:chitin oligosaccharide binding protein;
PDBTitle: crystal structure of the chitin oligasaccharide binding2 protein

Phyre2
12 |
| c2grvC_ |

### PDB 2grv chain C

Region: 28 - 516
Aligned: 482
Modelled: 485
Confidence: 100.0%
Identity: 15%
PDB header:biosynthetic protein
Chain: C: PDB Molecule:lpqw;
PDBTitle: crystal structure of lpqw

Phyre2
13 |
| c3rqtA_ |

### PDB 3rqt chain A

Region: 29 - 516
Aligned: 462
Modelled: 481
Confidence: 100.0%
Identity: 21%
PDB header:unknown function
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: 1.5 angstrom crystal structure of the complex of ligand binding2 component of abc-type import system from staphylococcus aureus with3 nickel and two histidines

Phyre2
14 |
| c2o7jA_ |

### PDB 2o7j chain A

Region: 28 - 512
Aligned: 474
Modelled: 480
Confidence: 100.0%
Identity: 22%
PDB header:sugar binding protein
Chain: A: PDB Molecule:oligopeptide abc transporter, periplasmic
PDBTitle: the x-ray crystal structure of a thermophilic cellobiose2 binding protein bound with cellopentaose

Phyre2
15 |
| d1vr5a1 |

### PDB 1vr5 chain A domain 1

Region: 27 - 515
Aligned: 481
Modelled: 484
Confidence: 100.0%
Identity: 20%
Fold: Periplasmic binding protein-like II
Superfamily: Periplasmic binding protein-like II
Family: Phosphate binding protein-like

Phyre2
16 |
| c3ftoA_ |

### PDB 3fto chain A

Region: 19 - 516
Aligned: 486
Modelled: 486
Confidence: 100.0%
Identity: 22%
PDB header:peptide binding protein
Chain: A: PDB Molecule:oligopeptide-binding protein oppa;
PDBTitle: crystal structure of oppa in a open conformation

Phyre2
17 |
| c3ry3B_ |

### PDB 3ry3 chain B

Region: 31 - 516
Aligned: 458
Modelled: 475
Confidence: 100.0%
Identity: 23%
PDB header:transport protein
Chain: B: PDB Molecule:putative solute-binding protein;
PDBTitle: putative solute-binding protein from yersinia pestis.

Phyre2
18 |
| c2d5wA_ |

### PDB 2d5w chain A

Region: 29 - 515
Aligned: 479
Modelled: 487
Confidence: 100.0%
Identity: 19%
PDB header:peptide binding protein
Chain: A: PDB Molecule:peptide abc transporter, peptide-binding protein;
PDBTitle: the crystal structure of oligopeptide binding protein from thermus2 thermophilus hb8 complexed with pentapeptide

Phyre2
19 |
| c3lvuB_ |

### PDB 3lvu chain B

Region: 274 - 485
Aligned: 212
Modelled: 212
Confidence: 100.0%
Identity: 17%
PDB header:transport protein
Chain: B: PDB Molecule:abc transporter, periplasmic substrate-binding protein;
PDBTitle: crystal structure of abc transporter, periplasmic substrate-binding2 protein spo2066 from silicibacter pomeroyi

Phyre2
20 |
| c3pamB_ |

### PDB 3pam chain B

Region: 277 - 485
Aligned: 209
Modelled: 207
Confidence: 100.0%
Identity: 18%
PDB header:transport protein
Chain: B: PDB Molecule:transmembrane protein;
PDBTitle: crystal structure of a domain of transmembrane protein of abc-type2 oligopeptide transport system from bartonella henselae str. houston-1

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c3tpaA_ |
|  | 100.0 | 28 | PDB header:heme binding protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: structure of hbpa2 from haemophilus parasuis
2 | d1dpea_ |
|  | 100.0 | 27 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
3 | c3m8uA_ |
|  | 100.0 | 26 | PDB header:transport protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: crystal structure of glutathione-binding protein a (gbpa) from2 haemophilus parasuis sh0165 in complex with glutathione disulfide3 (gssg)
4 | d1zlqa1 |
|  | 100.0 | 24 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
5 | c2wokA_ |
|  | 100.0 | 22 | PDB header:peptide binding protein/peptide Chain: A: PDB Molecule:clavulanic acid biosynthesis oligopeptide PDBTitle: clavulanic acid biosynthesis oligopeptide2 binding protein 2 complexed with bradykinin
6 | d1jeta_ |
|  | 100.0 | 26 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
7 | c3o9pA_ |
|  | 100.0 | 28 | PDB header:peptide binding protein/peptide Chain: A: PDB Molecule:periplasmic murein peptide-binding protein; PDBTitle: the structure of the escherichia coli murein tripeptide binding2 protein mppa
8 | d1xoca1 |
|  | 100.0 | 23 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
9 | d1uqwa_ |
|  | 100.0 | 24 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
10 | c3t66A_ |
|  | 100.0 | 23 | PDB header:transport protein Chain: A: PDB Molecule:nickel abc transporter (nickel-binding protein); PDBTitle: crystal structure of nickel abc transporter from bacillus halodurans
11 | c1ztyA_ |
|  | 100.0 | 21 | PDB header:sugar binding protein, signaling protein Chain: A: PDB Molecule:chitin oligosaccharide binding protein; PDBTitle: crystal structure of the chitin oligasaccharide binding2 protein
12 | c2grvC_ |
|  | 100.0 | 15 | PDB header:biosynthetic protein Chain: C: PDB Molecule:lpqw; PDBTitle: crystal structure of lpqw
13 | c3rqtA_ |
|  | 100.0 | 21 | PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: 1.5 angstrom crystal structure of the complex of ligand binding2 component of abc-type import system from staphylococcus aureus with3 nickel and two histidines
14 | c2o7jA_ |
|  | 100.0 | 22 | PDB header:sugar binding protein Chain: A: PDB Molecule:oligopeptide abc transporter, periplasmic PDBTitle: the x-ray crystal structure of a thermophilic cellobiose2 binding protein bound with cellopentaose
15 | d1vr5a1 |
|  | 100.0 | 20 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
16 | c3ftoA_ |
|  | 100.0 | 22 | PDB header:peptide binding protein Chain: A: PDB Molecule:oligopeptide-binding protein oppa; PDBTitle: crystal structure of oppa in a open conformation
17 | c3ry3B_ |
|  | 100.0 | 23 | PDB header:transport protein Chain: B: PDB Molecule:putative solute-binding protein; PDBTitle: putative solute-binding protein from yersinia pestis.
18 | c2d5wA_ |
|  | 100.0 | 19 | PDB header:peptide binding protein Chain: A: PDB Molecule:peptide abc transporter, peptide-binding protein; PDBTitle: the crystal structure of oligopeptide binding protein from thermus2 thermophilus hb8 complexed with pentapeptide
19 | c3lvuB_ |
|  | 100.0 | 17 | PDB header:transport protein Chain: B: PDB Molecule:abc transporter, periplasmic substrate-binding protein; PDBTitle: crystal structure of abc transporter, periplasmic substrate-binding2 protein spo2066 from silicibacter pomeroyi
20 | c3pamB_ |
|  | 100.0 | 18 | PDB header:transport protein Chain: B: PDB Molecule:transmembrane protein; PDBTitle: crystal structure of a domain of transmembrane protein of abc-type2 oligopeptide transport system from bartonella henselae str. houston-1
21 | c3o6pA_ |
| not modelled | 100.0 | 33 | PDB header:protein binding Chain: A: PDB Molecule:peptide abc transporter, peptide-binding protein; PDBTitle: crystal structure of peptide abc transporter, peptide-binding protein
22 | c3chgB_ |
| not modelled | 96.2 | 21 | PDB header:ligand binding protein Chain: B: PDB Molecule:glycine betaine-binding protein; PDBTitle: the compatible solute-binding protein opuac from bacillus2 subtilis in complex with dmsa
23 | c3l6gA_ |
| not modelled | 96.0 | 22 | PDB header:glycine betaine-binding protein Chain: A: PDB Molecule:betaine abc transporter permease and substrate binding PDBTitle: crystal structure of lactococcal opuac in its open conformation
24 | c3tmgA_ |
| not modelled | 95.5 | 17 | PDB header:transport protein Chain: A: PDB Molecule:glycine betaine, l-proline abc transporter, PDBTitle: crystal structure of glycine betaine, l-proline abc transporter,2 glycine/betaine/l-proline-binding protein (prox) from borrelia3 burgdorferi
25 | c2rejA_ |
| not modelled | 94.5 | 17 | PDB header:choline-binding protein Chain: A: PDB Molecule:putative glycine betaine abc transporter protein; PDBTitle: abc-transporter choline binding protein in unliganded semi-2 closed conformation
26 | d1r9la_ |
| not modelled | 94.4 | 22 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
27 | c3nohA_ |
| not modelled | 93.6 | 20 | PDB header:peptide binding protein Chain: A: PDB Molecule:putative peptide binding protein; PDBTitle: crystal structure of a putative peptide binding protein (rumgna_00914)2 from ruminococcus gnavus atcc 29149 at 1.60 a resolution
28 | c3r6uA_ |
| not modelled | 90.9 | 20 | PDB header:transport protein Chain: A: PDB Molecule:choline-binding protein; PDBTitle: crystal structure of choline binding protein opubc from bacillus2 subtilis
29 | c3f6sI_ |
| not modelled | 88.6 | 18 | PDB header:electron transport Chain: I: PDB Molecule:flavodoxin; PDBTitle: desulfovibrio desulfuricans (atcc 29577) oxidized flavodoxin2 alternate conformers
30 | d1sw5a_ |
| not modelled | 87.6 | 11 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
31 | c3pppA_ |
| not modelled | 82.3 | 16 | PDB header:transport protein Chain: A: PDB Molecule:glycine betaine/carnitine/choline-binding protein; PDBTitle: structures of the substrate-binding protein provide insights into the2 multiple compatible solutes binding specificities of bacillus3 subtilis abc transporter opuc
32 | d1e5da1 |
| not modelled | 80.9 | 14 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related
33 | d1ycga1 |
| not modelled | 80.1 | 19 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related
34 | c3hlyA_ |
| not modelled | 79.9 | 14 | PDB header:flavoprotein Chain: A: PDB Molecule:flavodoxin-like domain; PDBTitle: crystal structure of the flavodoxin-like domain from2 synechococcus sp q5mzp6_synp6 protein. northeast structural3 genomics consortium target snr135d.
35 | d1f4pa_ |
| not modelled | 77.1 | 16 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related
36 | d2fz5a1 |
| not modelled | 72.3 | 11 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related
37 | d1ykga1 |
| not modelled | 63.3 | 12 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Cytochrome p450 reductase N-terminal domain-like
38 | d1tlla2 |
| not modelled | 63.1 | 8 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Cytochrome p450 reductase N-terminal domain-like
39 | d5nula_ |
| not modelled | 62.7 | 10 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related
40 | d1ja1a2 |
| not modelled | 61.8 | 11 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Cytochrome p450 reductase N-terminal domain-like
41 | c3ir1F_ |
| not modelled | 59.8 | 19 | PDB header:protein binding Chain: F: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of lipoprotein gna1946 from neisseria2 meningitidis
42 | c3un6A_ |
| not modelled | 56.9 | 10 | PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein saouhsc_00137; PDBTitle: 2.0 angstrom crystal structure of ligand binding component of abc-type2 import system from staphylococcus aureus with zinc bound
43 | c1bvyF_ |
| not modelled | 54.6 | 22 | PDB header:oxidoreductase Chain: F: PDB Molecule:protein (cytochrome p450 bm-3); PDBTitle: complex of the heme and fmn-binding domains of the2 cytochrome p450(bm-3)
44 | d1bvyf_ |
| not modelled | 54.6 | 22 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related
45 | c2ek8A_ |
| not modelled | 54.0 | 10 | PDB header:hydrolase Chain: A: PDB Molecule:aminopeptidase; PDBTitle: aminopeptidase from aneurinibacillus sp. strain am-1
46 | c3kzgB_ |
| not modelled | 53.3 | 11 | PDB header:transport protein Chain: B: PDB Molecule:arginine 3rd transport system periplasmic binding PDBTitle: crystal structure of an arginine 3rd transport system2 periplasmic binding protein from legionella pneumophila
47 | c3kn3C_ |
| not modelled | 52.8 | 11 | PDB header:transcription Chain: C: PDB Molecule:putative periplasmic protein; PDBTitle: crystal structure of lysr substrate binding domain (25-263) of2 putative periplasmic protein from wolinella succinogenes
48 | c3lr1A_ |
| not modelled | 51.3 | 11 | PDB header:transport protein Chain: A: PDB Molecule:tungstate abc transporter, periplasmic tungstate- PDBTitle: the crystal structure of the tungstate abc transporter from2 geobacter sulfurreducens
49 | c2o1mB_ |
| not modelled | 50.1 | 18 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:probable amino-acid abc transporter PDBTitle: crystal structure of the probable amino-acid abc2 transporter extracellular-binding protein ytmk from3 bacillus subtilis. northeast structural genomics4 consortium target sr572
50 | c2hnbA_ |
| not modelled | 49.6 | 14 | PDB header:electron transport Chain: A: PDB Molecule:protein mioc; PDBTitle: solution structure of a bacterial holo-flavodoxin
51 | c3gxaA_ |
| not modelled | 47.2 | 19 | PDB header:protein binding Chain: A: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of gna1946
52 | c3fniA_ |
| not modelled | 45.0 | 17 | PDB header:oxidoreductase Chain: A: PDB Molecule:putative diflavin flavoprotein a 3; PDBTitle: crystal structure of a diflavin flavoprotein a3 (all3895) from nostoc2 sp., northeast structural genomics consortium target nsr431a
53 | c3tqwA_ |
| not modelled | 44.2 | 15 | PDB header:transport protein Chain: A: PDB Molecule:methionine-binding protein; PDBTitle: structure of a abc transporter, periplasmic substrate-binding protein2 from coxiella burnetii
54 | c3hr4C_ |
| not modelled | 44.1 | 9 | PDB header:oxidoreductase/metal binding protein Chain: C: PDB Molecule:nitric oxide synthase, inducible; PDBTitle: human inos reductase and calmodulin complex
55 | d1ydga_ |
| not modelled | 41.7 | 18 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:WrbA-like
56 | d2arka1 |
| not modelled | 39.2 | 17 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:WrbA-like
57 | d1vmea1 |
| not modelled | 38.0 | 20 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related
58 | d1s8na_ |
| not modelled | 37.5 | 12 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
59 | c2rc9A_ |
| not modelled | 35.6 | 12 | PDB header:membrane protein Chain: A: PDB Molecule:glutamate [nmda] receptor subunit 3a; PDBTitle: crystal structure of the nr3a ligand binding core complex with acpc at2 1.96 angstrom resolution
60 | c2ra9A_ |
| not modelled | 35.6 | 13 | PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein duf1285; PDBTitle: crystal structure of a duf1285 family protein (sbal_2486) from2 shewanella baltica os155 at 1.40 a resolution
61 | d1xs5a_ |
| not modelled | 34.9 | 12 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
62 | c3ix1B_ |
| not modelled | 33.7 | 10 | PDB header:biosynthetic protein Chain: B: PDB Molecule:n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding PDBTitle: periplasmic n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding2 protein from bacillus halodurans
63 | c3ix1A_ |
| not modelled | 33.7 | 10 | PDB header:biosynthetic protein Chain: A: PDB Molecule:n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding PDBTitle: periplasmic n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding2 protein from bacillus halodurans
64 | c3hn0A_ |
| not modelled | 33.6 | 23 | PDB header:transport protein Chain: A: PDB Molecule:nitrate transport protein; PDBTitle: crystal structure of an abc transporter (bdi_1369) from2 parabacteroides distasonis at 1.75 a resolution
65 | c2x26A_ |
| not modelled | 32.4 | 13 | PDB header:transport protein Chain: A: PDB Molecule:periplasmic aliphatic sulphonates-binding protein; PDBTitle: crystal structure of the periplasmic aliphatic sulphonate2 binding protein ssua from escherichia coli
66 | c3k2dA_ |
| not modelled | 31.7 | 14 | PDB header:immune system Chain: A: PDB Molecule:abc-type metal ion transport system, periplasmic component; PDBTitle: crystal structure of immunogenic lipoprotein a from vibrio vulnificus
67 | c1vmeB_ |
| not modelled | 31.5 | 18 | PDB header:electron transport Chain: B: PDB Molecule:flavoprotein; PDBTitle: crystal structure of flavoprotein (tm0755) from thermotoga maritima at2 1.80 a resolution
68 | c2q9uB_ |
| not modelled | 31.0 | 9 | PDB header:oxidoreductase Chain: B: PDB Molecule:a-type flavoprotein; PDBTitle: crystal structure of the flavodiiron protein from giardia2 intestinalis
69 | d1b1ca_ |
| not modelled | 30.5 | 10 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Cytochrome p450 reductase N-terminal domain-like
70 | c1xt8B_ |
| not modelled | 28.1 | 10 | PDB header:transport protein Chain: B: PDB Molecule:putative amino-acid transporter periplasmic solute-binding PDBTitle: crystal structure of cysteine-binding protein from campylobacter2 jejuni at 2.0 a resolution
71 | d1twya_ |
| not modelled | 27.8 | 15 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
72 | c1twyG_ |
| not modelled | 27.8 | 15 | PDB header:structural genomics, unknown function Chain: G: PDB Molecule:abc transporter, periplasmic substrate-binding protein; PDBTitle: crystal structure of an abc-type phosphate transport receptor from2 vibrio cholerae
73 | c3o66A_ |
| not modelled | 27.1 | 9 | PDB header:transport protein Chain: A: PDB Molecule:glycine betaine/carnitine/choline abc transporter; PDBTitle: crystal structure of glycine betaine/carnitine/choline abc transporter
74 | c2wc1A_ |
| not modelled | 26.0 | 8 | PDB header:electron transport Chain: A: PDB Molecule:flavodoxin; PDBTitle: three-dimensional structure of the nitrogen fixation2 flavodoxin (niff) from rhodobacter capsulatus at 2.2 a
75 | d2a5la1 |
| not modelled | 25.9 | 11 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:WrbA-like
76 | c3iibA_ |
| not modelled | 25.8 | 17 | PDB header:hydrolase Chain: A: PDB Molecule:peptidase m28; PDBTitle: crystal structure of peptidase m28 precursor (yp_926796.1) from2 shewanella amazonensis sb2b at 1.70 a resolution
77 | c2y7iB_ |
| not modelled | 25.2 | 4 | PDB header:arginine-binding protein Chain: B: PDB Molecule:stm4351; PDBTitle: structural basis for high arginine specificity in salmonella2 typhimurium periplasmic binding protein stm4351.
78 | c3e4rA_ |
| not modelled | 25.0 | 14 | PDB header:transport protein Chain: A: PDB Molecule:nitrate transport protein; PDBTitle: crystal structure of the alkanesulfonate binding protein2 (ssua) from the phytopathogenic bacteria xanthomonas3 axonopodis pv. citri bound to hepes
79 | c2zykA_ |
| not modelled | 24.5 | 20 | PDB header:sugar binding protein Chain: A: PDB Molecule:solute-binding protein; PDBTitle: crystal structure of cyclo/maltodextrin-binding protein2 complexed with gamma-cyclodextrin
80 | c2ylnA_ |
| not modelled | 24.1 | 18 | PDB header:transport protein Chain: A: PDB Molecule:putative abc transporter, periplasmic binding protein, PDBTitle: crystal structure of the l-cystine solute receptor of2 neisseria gonorrhoeae in the closed conformation
81 | d1mb3a_ |
| not modelled | 23.8 | 9 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
82 | c3r39A_ |
| not modelled | 23.3 | 18 | PDB header:transport protein Chain: A: PDB Molecule:putative periplasmic binding protein; PDBTitle: crystal structure of periplasmic d-alanine abc transporter from2 salmonella enterica
83 | c3kbrA_ |
| not modelled | 22.4 | 7 | PDB header:lyase Chain: A: PDB Molecule:cyclohexadienyl dehydratase; PDBTitle: the crystal structure of cyclohexadienyl dehydratase precursor from2 pseudomonas aeruginosa pa01
84 | c3c97A_ |
| not modelled | 22.3 | 10 | PDB header:signaling protein, transferase Chain: A: PDB Molecule:signal transduction histidine kinase; PDBTitle: crystal structure of the response regulator receiver domain2 of a signal transduction histidine kinase from aspergillus3 oryzae
85 | c2bpoA_ |
| not modelled | 21.9 | 18 | PDB header:reductase Chain: A: PDB Molecule:nadph-cytochrom p450 reductase; PDBTitle: crystal structure of the yeast cpr triple mutant: d74g,2 y75f, k78a.
86 | d1wdna_ |
| not modelled | 21.7 | 9 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
87 | c1ychD_ |
| not modelled | 21.5 | 17 | PDB header:oxidoreductase Chain: D: PDB Molecule:nitric oxide reductase; PDBTitle: x-ray crystal structures of moorella thermoacetica fpra.2 novel diiron site structure and mechanistic insights into3 a scavenging nitric oxide reductase
88 | d1xhfa1 |
| not modelled | 21.5 | 12 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
89 | c2q2aD_ |
| not modelled | 21.3 | 9 | PDB header:transport protein Chain: D: PDB Molecule:artj; PDBTitle: crystal structures of the arginine-, lysine-, histidine-2 binding protein artj from the thermophilic bacterium3 geobacillus stearothermophilus
90 | c1p99A_ |
| not modelled | 21.2 | 14 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein pg110; PDBTitle: 1.7a crystal structure of protein pg110 from staphylococcus2 aureus
91 | d1p99a_ |
| not modelled | 21.2 | 14 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
92 | d1us5a_ |
| not modelled | 21.0 | 14 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
93 | d2a9pa1 |
| not modelled | 20.9 | 15 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
94 | c2j48A_ |
| not modelled | 20.8 | 14 | PDB header:transferase Chain: A: PDB Molecule:two-component sensor kinase; PDBTitle: nmr structure of the pseudo-receiver domain of the cika2 protein.
95 | d1zgza1 |
| not modelled | 20.5 | 12 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
96 | c3muqB_ |
| not modelled | 20.4 | 9 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized conserved protein; PDBTitle: the crystal structure of a conserved functionally unknown protein from2 vibrio parahaemolyticus rimd 2210633
97 | c3d7nA_ |
| not modelled | 20.2 | 9 | PDB header:electron transport Chain: A: PDB Molecule:flavodoxin, wrba-like protein; PDBTitle: the crystal structure of the flavodoxin, wrba-like protein from2 agrobacterium tumefaciens
98 | d2a5sa1 |
| not modelled | 20.1 | 12 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
99 | c3f6cB_ |
| not modelled | 19.9 | 22 | PDB header:dna binding protein Chain: B: PDB Molecule:positive transcription regulator evga; PDBTitle: crystal structure of n-terminal domain of positive transcription2 regulator evga from escherichia coli

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
Disclaimer
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