Phyre 2 Results for P39365

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Email | l.a.kelley@imperial.ac.uk
Description | P39365
Date | Thu Jan 5 11:59:56 GMT 2012
Unique Job ID | 7b2c078e2a315500

Summary |

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

Model (left) based on template c2nscA_
Top template information
PDB header:chaperone Chain: A: PDB Molecule:trigger factor; PDBTitle: structures of and interactions between domains of trigger factor from2 themotoga maritima
Confidence and coverage
Confidence: | 41.6% | Coverage: | 5%
20 residues ( 5% of your sequence) have been modelled with 41.6% confidence by the single highest scoring template.
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3D viewing
Interactive 3D view in Jmol

Sequence analysis |

Secondary structure and disorder prediction |

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

Confidence Key
High(9) |  |  |  |  |  |  |  |  |  |  | Low (0)

? | Disordered
| Alpha helix
| Beta strand

Domain analysis |

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

Rank | Aligned region
--- | ---
1 |
| c2nscA_ |

### PDB 2nsc chain A

Region: 196 - 215
Aligned: 20
Modelled: 20
Confidence: 41.6%
Identity: 20%
PDB header:chaperone
Chain: A: PDB Molecule:trigger factor;
PDBTitle: structures of and interactions between domains of trigger factor from2 themotoga maritima

Phyre2
2 |
| c3k3gA_ |

### PDB 3k3g chain A

Region: 82 - 216
Aligned: 131
Modelled: 135
Confidence: 40.5%
Identity: 10%
PDB header:transport protein
Chain: A: PDB Molecule:urea transporter;
PDBTitle: crystal structure of the urea transporter from desulfovibrio vulgaris2 bound to 1,3-dimethylurea

Phyre2
3 |
| d1w26a2 |

### PDB 1w26 chain A domain 2

Region: 196 - 215
Aligned: 20
Modelled: 20
Confidence: 36.2%
Identity: 20%
Fold: Ribosome binding domain-like
Superfamily: Trigger factor ribosome-binding domain
Family: Trigger factor ribosome-binding domain

Phyre2
4 |
| d1p9ya_ |

### PDB 1p9y chain A

Region: 196 - 215
Aligned: 20
Modelled: 20
Confidence: 35.0%
Identity: 20%
Fold: Ribosome binding domain-like
Superfamily: Trigger factor ribosome-binding domain
Family: Trigger factor ribosome-binding domain

Phyre2
5 |
| d1t11a2 |

### PDB 1t11 chain A domain 2

Region: 196 - 215
Aligned: 20
Modelled: 20
Confidence: 34.6%
Identity: 15%
Fold: Ribosome binding domain-like
Superfamily: Trigger factor ribosome-binding domain
Family: Trigger factor ribosome-binding domain

Phyre2
6 |
| c2d3o1_ |

### PDB 2d3o chain 1

Region: 196 - 215
Aligned: 20
Modelled: 20
Confidence: 31.1%
Identity: 20%
PDB header:ribosome
Chain: 1: PDB Molecule:trigger factor;
PDBTitle: structure of ribosome binding domain of the trigger factor2 on the 50s ribosomal subunit from d. radiodurans

Phyre2
7 |
| c1t11A_ |

### PDB 1t11 chain A

Region: 196 - 215
Aligned: 20
Modelled: 20
Confidence: 28.2%
Identity: 15%
PDB header:chaperone
Chain: A: PDB Molecule:trigger factor;
PDBTitle: trigger factor

Phyre2
8 |
| d1cpza_ |

### PDB 1cpz chain A

Region: 168 - 209
Aligned: 34
Modelled: 42
Confidence: 27.7%
Identity: 12%
Fold: Ferredoxin-like
Superfamily: HMA, heavy metal-associated domain
Family: HMA, heavy metal-associated domain

Phyre2
9 |
| d1osda_ |

### PDB 1osd chain A

Region: 168 - 209
Aligned: 34
Modelled: 42
Confidence: 27.6%
Identity: 6%
Fold: Ferredoxin-like
Superfamily: HMA, heavy metal-associated domain
Family: HMA, heavy metal-associated domain

Phyre2
10 |
| c2qgoA_ |

### PDB 2qgo chain A

Region: 270 - 293
Aligned: 24
Modelled: 24
Confidence: 25.8%
Identity: 13%
PDB header:biosynthetic protein
Chain: A: PDB Molecule:putative fe-s biosynthesis protein;
PDBTitle: crystal structure of a putative fe-s biosynthesis protein from2 lactobacillus acidophilus

Phyre2
11 |
| c1yg0A_ |

### PDB 1yg0 chain A

Region: 168 - 209
Aligned: 34
Modelled: 42
Confidence: 25.5%
Identity: 6%
PDB header:metal transport
Chain: A: PDB Molecule:cop associated protein;
PDBTitle: solution structure of apo-copp from helicobacter pylori

Phyre2
12 |
| d1p6ta2 |

### PDB 1p6t chain A domain 2

Region: 168 - 209
Aligned: 34
Modelled: 42
Confidence: 24.5%
Identity: 12%
Fold: Ferredoxin-like
Superfamily: HMA, heavy metal-associated domain
Family: HMA, heavy metal-associated domain

Phyre2
13 |
| c1y3kA_ |

### PDB 1y3k chain A

Region: 168 - 209
Aligned: 34
Modelled: 42
Confidence: 24.5%
Identity: 12%
PDB header:hydrolase
Chain: A: PDB Molecule:copper-transporting atpase 1;
PDBTitle: solution structure of the apo form of the fifth domain of2 menkes protein

Phyre2
14 |
| d1mwza_ |

### PDB 1mwz chain A

Region: 168 - 209
Aligned: 34
Modelled: 42
Confidence: 24.4%
Identity: 3%
Fold: Ferredoxin-like
Superfamily: HMA, heavy metal-associated domain
Family: HMA, heavy metal-associated domain

Phyre2
15 |
| c2yvxD_ |

### PDB 2yvx chain D

Region: 221 - 320
Aligned: 83
Modelled: 100
Confidence: 24.1%
Identity: 18%
PDB header:transport protein
Chain: D: PDB Molecule:mg2+ transporter mgte;
PDBTitle: crystal structure of magnesium transporter mgte

Phyre2
16 |
| c2k2pA_ |

### PDB 2k2p chain A

Region: 168 - 209
Aligned: 34
Modelled: 42
Confidence: 21.6%
Identity: 12%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein atu1203;
PDBTitle: solution nmr structure of protein atu1203 from agrobacterium2 tumefaciens. northeast structural genomics consortium (nesg) target3 att10, ontario center for structural proteomics target atc1183

Phyre2
17 |
| c2ga7A_ |

### PDB 2ga7 chain A

Region: 168 - 209
Aligned: 34
Modelled: 42
Confidence: 21.3%
Identity: 12%
PDB header:hydrolase
Chain: A: PDB Molecule:copper-transporting atpase 1;
PDBTitle: solution structure of the copper(i) form of the third metal-2 binding domain of atp7a protein (menkes disease protein)

Phyre2
18 |
| c2ofhX_ |

### PDB 2ofh chain X

Region: 168 - 209
Aligned: 34
Modelled: 42
Confidence: 18.7%
Identity: 15%
PDB header:hydrolase, membrane protein
Chain: X: PDB Molecule:zinc-transporting atpase;
PDBTitle: solution structure of the n-terminal domain of the zinc(ii) atpase2 ziaa in its apo form

Phyre2
19 |
| d2qifa1 |

### PDB 2qif chain A domain 1

Region: 168 - 209
Aligned: 34
Modelled: 42
Confidence: 18.5%
Identity: 9%
Fold: Ferredoxin-like
Superfamily: HMA, heavy metal-associated domain
Family: HMA, heavy metal-associated domain

Phyre2
20 |
| d2p2ea1 |

### PDB 2p2e chain A domain 1

Region: 270 - 296
Aligned: 27
Modelled: 27
Confidence: 18.1%
Identity: 26%
Fold: HesB-like domain
Superfamily: HesB-like domain
Family: HesB-like domain

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c2nscA_ |
|  | 41.6 | 20 | PDB header:chaperone Chain: A: PDB Molecule:trigger factor; PDBTitle: structures of and interactions between domains of trigger factor from2 themotoga maritima
2 | c3k3gA_ |
|  | 40.5 | 10 | PDB header:transport protein Chain: A: PDB Molecule:urea transporter; PDBTitle: crystal structure of the urea transporter from desulfovibrio vulgaris2 bound to 1,3-dimethylurea
3 | d1w26a2 |
|  | 36.2 | 20 | Fold:Ribosome binding domain-like Superfamily:Trigger factor ribosome-binding domain Family:Trigger factor ribosome-binding domain
4 | d1p9ya_ |
|  | 35.0 | 20 | Fold:Ribosome binding domain-like Superfamily:Trigger factor ribosome-binding domain Family:Trigger factor ribosome-binding domain
5 | d1t11a2 |
|  | 34.6 | 15 | Fold:Ribosome binding domain-like Superfamily:Trigger factor ribosome-binding domain Family:Trigger factor ribosome-binding domain
6 | c2d3o1_ |
|  | 31.1 | 20 | PDB header:ribosome Chain: 1: PDB Molecule:trigger factor; PDBTitle: structure of ribosome binding domain of the trigger factor2 on the 50s ribosomal subunit from d. radiodurans
7 | c1t11A_ |
|  | 28.2 | 15 | PDB header:chaperone Chain: A: PDB Molecule:trigger factor; PDBTitle: trigger factor
8 | d1cpza_ |
|  | 27.7 | 12 | Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain
9 | d1osda_ |
|  | 27.6 | 6 | Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain
10 | c2qgoA_ |
|  | 25.8 | 13 | PDB header:biosynthetic protein Chain: A: PDB Molecule:putative fe-s biosynthesis protein; PDBTitle: crystal structure of a putative fe-s biosynthesis protein from2 lactobacillus acidophilus
11 | c1yg0A_ |
|  | 25.5 | 6 | PDB header:metal transport Chain: A: PDB Molecule:cop associated protein; PDBTitle: solution structure of apo-copp from helicobacter pylori
12 | d1p6ta2 |
|  | 24.5 | 12 | Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain
13 | c1y3kA_ |
|  | 24.5 | 12 | PDB header:hydrolase Chain: A: PDB Molecule:copper-transporting atpase 1; PDBTitle: solution structure of the apo form of the fifth domain of2 menkes protein
14 | d1mwza_ |
|  | 24.4 | 3 | Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain
15 | c2yvxD_ |
|  | 24.1 | 18 | PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte
16 | c2k2pA_ |
|  | 21.6 | 12 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein atu1203; PDBTitle: solution nmr structure of protein atu1203 from agrobacterium2 tumefaciens. northeast structural genomics consortium (nesg) target3 att10, ontario center for structural proteomics target atc1183
17 | c2ga7A_ |
|  | 21.3 | 12 | PDB header:hydrolase Chain: A: PDB Molecule:copper-transporting atpase 1; PDBTitle: solution structure of the copper(i) form of the third metal-2 binding domain of atp7a protein (menkes disease protein)
18 | c2ofhX_ |
|  | 18.7 | 15 | PDB header:hydrolase, membrane protein Chain: X: PDB Molecule:zinc-transporting atpase; PDBTitle: solution structure of the n-terminal domain of the zinc(ii) atpase2 ziaa in its apo form
19 | d2qifa1 |
|  | 18.5 | 9 | Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain
20 | d2p2ea1 |
|  | 18.1 | 26 | Fold:HesB-like domain Superfamily:HesB-like domain Family:HesB-like domain
21 | c2aj1A_ |
| not modelled | 18.0 | 9 | PDB header:hydrolase Chain: A: PDB Molecule:probable cadmium-transporting atpase; PDBTitle: solution structure of apocada
22 | d2aw0a_ |
| not modelled | 17.2 | 21 | Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain
23 | d1afia_ |
| not modelled | 16.4 | 6 | Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain
24 | d1p6ta1 |
| not modelled | 15.9 | 9 | Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain
25 | d1qb2a_ |
| not modelled | 15.8 | 17 | Fold:Signal peptide-binding domain Superfamily:Signal peptide-binding domain Family:Signal peptide-binding domain
26 | c3dxsX_ |
| not modelled | 15.8 | 12 | PDB header:hydrolase Chain: X: PDB Molecule:copper-transporting atpase ran1; PDBTitle: crystal structure of a copper binding domain from hma7, a p-2 type atpase
27 | c2kt2A_ |
| not modelled | 15.1 | 21 | PDB header:oxidoreductase Chain: A: PDB Molecule:mercuric reductase; PDBTitle: structure of nmera, the n-terminal hma domain of tn501 mercuric2 reductase
28 | d1vyva2 |
| not modelled | 14.2 | 29 | Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nucleotide and nucleoside kinases
29 | d1w4ha1 |
| not modelled | 14.2 | 29 | Fold:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Superfamily:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Family:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex
30 | c3bdlA_ |
| not modelled | 14.2 | 33 | PDB header:hydrolase Chain: A: PDB Molecule:staphylococcal nuclease domain-containing PDBTitle: crystal structure of a truncated human tudor-sn
31 | d1kvja_ |
| not modelled | 13.9 | 21 | Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain
32 | d1qzxa2 |
| not modelled | 13.8 | 21 | Fold:Signal peptide-binding domain Superfamily:Signal peptide-binding domain Family:Signal peptide-binding domain
33 | c2kkhA_ |
| not modelled | 13.8 | 21 | PDB header:metal transport Chain: A: PDB Molecule:putative heavy metal transporter; PDBTitle: structure of the zinc binding domain of the atpase hma4
34 | d1jw2a_ |
| not modelled | 13.8 | 36 | Fold:Open three-helical up-and-down bundle Superfamily:Hemolysin expression modulating protein HHA Family:Hemolysin expression modulating protein HHA
35 | c2e75E_ |
| not modelled | 13.7 | 29 | PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with 2-nonyl-4-2 hydroxyquinoline n-oxide (nqno) from m.laminosus
36 | c2e74E_ |
| not modelled | 13.7 | 29 | PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex from m.laminosus
37 | c2e76E_ |
| not modelled | 13.7 | 29 | PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus
38 | d2e74e1 |
| not modelled | 13.7 | 29 | Fold:Single transmembrane helix Superfamily:PetL subunit of the cytochrome b6f complex Family:PetL subunit of the cytochrome b6f complex
39 | c1vf5R_ |
| not modelled | 13.7 | 29 | PDB header:photosynthesis Chain: R: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus
40 | d2aq0a1 |
| not modelled | 13.6 | 10 | Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like
41 | d1uwda_ |
| not modelled | 13.0 | 11 | Fold:Alpha-lytic protease prodomain-like Superfamily:Fe-S cluster assembly (FSCA) domain-like Family:PaaD-like
42 | d1s6ua_ |
| not modelled | 12.3 | 18 | Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain
43 | d2cyua1 |
| not modelled | 12.1 | 29 | Fold:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Superfamily:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Family:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex
44 | c2rogA_ |
| not modelled | 10.5 | 12 | PDB header:metal binding protein Chain: A: PDB Molecule:heavy metal binding protein; PDBTitle: solution structure of thermus thermophilus hb8 ttha17182 protein in living e. coli cells
45 | d2ffha2 |
| not modelled | 10.2 | 17 | Fold:Signal peptide-binding domain Superfamily:Signal peptide-binding domain Family:Signal peptide-binding domain
46 | c1yjrA_ |
| not modelled | 10.1 | 15 | PDB header:hydrolase Chain: A: PDB Molecule:copper-transporting atpase 1; PDBTitle: solution structure of the apo form of the sixth soluble2 domain a69p mutant of menkes protein
47 | c1w26B_ |
| not modelled | 10.0 | 20 | PDB header:chaperone Chain: B: PDB Molecule:trigger factor; PDBTitle: trigger factor in complex with the ribosome forms a2 molecular cradle for nascent proteins
48 | c2iy3A_ |
| not modelled | 9.9 | 21 | PDB header:rna-binding Chain: A: PDB Molecule:signal recognition particle protein ffh; PDBTitle: structure of the e. coli signal recognition particle2 bound to a translating ribosome
49 | d1sb6a_ |
| not modelled | 9.5 | 6 | Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain
50 | c2l3mA_ |
| not modelled | 9.4 | 12 | PDB header:metal binding protein Chain: A: PDB Molecule:copper-ion-binding protein; PDBTitle: solution structure of the putative copper-ion-binding protein from2 bacillus anthracis str. ames
51 | d1vs6z1 |
| not modelled | 9.2 | 25 | Fold:L28p-like Superfamily:L28p-like Family:Ribosomal protein L31p
52 | d3elga1 |
| not modelled | 8.8 | 31 | Fold:BLIP-like Superfamily:BT0923-like Family:BT0923-like
53 | d1x2ia1 |
| not modelled | 8.7 | 29 | Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like
54 | d1ftra1 |
| not modelled | 8.6 | 16 | Fold:Ferredoxin-like Superfamily:Formylmethanofuran:tetrahydromethanopterin formyltransferase Family:Formylmethanofuran:tetrahydromethanopterin formyltransferase
55 | c2vzkD_ |
| not modelled | 8.0 | 32 | PDB header:transferase Chain: D: PDB Molecule:glutamate n-acetyltransferase 2 beta chain; PDBTitle: structure of the acyl-enzyme complex of an n-terminal2 nucleophile (ntn) hydrolase, oat2
56 | c1qzwC_ |
| not modelled | 7.5 | 21 | PDB header:signaling protein/rna Chain: C: PDB Molecule:signal recognition 54 kda protein; PDBTitle: crystal structure of the complete core of archaeal srp and2 implications for inter-domain communication
57 | d1q8la_ |
| not modelled | 7.5 | 18 | Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain
58 | d2ggpb1 |
| not modelled | 7.4 | 6 | Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain
59 | d2a1jb1 |
| not modelled | 7.3 | 14 | Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like
60 | c3j09A_ |
| not modelled | 7.1 | 6 | PDB header:hydrolase, metal transport Chain: A: PDB Molecule:copper-exporting p-type atpase a; PDBTitle: high resolution helical reconstruction of the bacterial p-type atpase2 copper transporter copa
61 | c2ksdA_ |
| not modelled | 6.8 | 14 | PDB header:transferase Chain: A: PDB Molecule:aerobic respiration control sensor protein arcb; PDBTitle: backbone structure of the membrane domain of e. coli2 histidine kinase receptor arcb, center for structures of3 membrane proteins (csmp) target 4310c
62 | c2dbcA_ |
| not modelled | 6.7 | 16 | PDB header:signaling protein Chain: A: PDB Molecule:unnamed protein product; PDBTitle: solution structure of the thioredoxin-like domain of2 phosducin-like protein 2(pdcl2)
63 | c1vf5E_ |
| not modelled | 6.7 | 27 | PDB header:photosynthesis Chain: E: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus
64 | c1xbsA_ |
| not modelled | 6.6 | 8 | PDB header:transcription, cell cycle Chain: A: PDB Molecule:dim1-like protein; PDBTitle: crystal structure of human dim2: a dim1-like protein
65 | c2kncA_ |
| not modelled | 6.5 | 23 | PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex
66 | c3dv0I_ |
| not modelled | 6.4 | 11 | PDB header:oxidoreductase/transferase Chain: I: PDB Molecule:dihydrolipoyllysine-residue acetyltransferase PDBTitle: snapshots of catalysis in the e1 subunit of the pyruvate2 dehydrogenase multi-enzyme complex
67 | c2ldiA_ |
| not modelled | 6.4 | 6 | PDB header:hydrolase Chain: A: PDB Molecule:zinc-transporting atpase; PDBTitle: nmr solution structure of ziaan sub mutant
68 | c3bvsA_ |
| not modelled | 6.4 | 12 | PDB header:hydrolase Chain: A: PDB Molecule:alkylpurine dna glycosylase alkd; PDBTitle: crystal structure of bacillus cereus alkylpurine dna glycosylase alkd
69 | d3duea1 |
| not modelled | 6.3 | 25 | Fold:BLIP-like Superfamily:BT0923-like Family:BT0923-like
70 | c2kelB_ |
| not modelled | 6.1 | 21 | PDB header:transcription repressor Chain: B: PDB Molecule:uncharacterized protein 56b; PDBTitle: structure of the transcription regulator svtr from the2 hyperthermophilic archaeal virus sirv1
71 | c2q9rA_ |
| not modelled | 6.1 | 7 | PDB header:unknown function Chain: A: PDB Molecule:protein of unknown function; PDBTitle: crystal structure of a duf416 family protein (sbal_3149) from2 shewanella baltica os155 at 1.91 a resolution
72 | d1nyta2 |
| not modelled | 6.0 | 33 | Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Shikimate dehydrogenase-like
73 | d1w85i_ |
| not modelled | 5.8 | 13 | Fold:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Superfamily:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Family:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex
74 | c3b1qD_ |
| not modelled | 5.6 | 22 | PDB header:transferase Chain: D: PDB Molecule:ribokinase, putative; PDBTitle: structure of burkholderia thailandensis nucleoside kinase (bthnk) in2 complex with inosine
75 | c2eq9C_ |
| not modelled | 5.6 | 11 | PDB header:oxidoreductase Chain: C: PDB Molecule:pyruvate dehydrogenase complex, dihydrolipoamide PDBTitle: crystal structure of lipoamide dehydrogenase from thermus thermophilus2 hb8 with psbdb
76 | c2wwaJ_ |
| not modelled | 5.6 | 14 | PDB header:ribosome Chain: J: PDB Molecule:60s ribosomal protein l19; PDBTitle: cryo-em structure of idle yeast ssh1 complex bound to the2 yeast 80s ribosome
77 | d2c4ka1 |
| not modelled | 5.6 | 27 | Fold:PRTase-like Superfamily:PRTase-like Family:Phosphoribosylpyrophosphate synthetase-like
78 | d1vyua2 |
| not modelled | 5.5 | 29 | Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nucleotide and nucleoside kinases
79 | d1xs5a_ |
| not modelled | 5.5 | 18 | Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like
80 | c2eq7C_ |
| not modelled | 5.5 | 13 | PDB header:oxidoreductase Chain: C: PDB Molecule:2-oxoglutarate dehydrogenase e2 component; PDBTitle: crystal structure of lipoamide dehydrogenase from thermus thermophilus2 hb8 with psbdo
81 | c2gcfA_ |
| not modelled | 5.5 | 15 | PDB header:hydrolase Chain: A: PDB Molecule:cation-transporting atpase pacs; PDBTitle: solution structure of the n-terminal domain of the coppper(i) atpase2 pacs in its apo form
82 | c3tqwA_ |
| not modelled | 5.4 | 17 | PDB header:transport protein Chain: A: PDB Molecule:methionine-binding protein; PDBTitle: structure of a abc transporter, periplasmic substrate-binding protein2 from coxiella burnetii
83 | c1w3dA_ |
| not modelled | 5.4 | 11 | PDB header:transferase Chain: A: PDB Molecule:dihydrolipoyllysine-residue acetyltransferase PDBTitle: nmr structure of the peripheral-subunit binding domain of2 bacillus stearothermophilus e2p
84 | d1bala_ |
| not modelled | 5.4 | 26 | Fold:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Superfamily:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex Family:Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex
85 | d1vkpa_ |
| not modelled | 5.3 | 15 | Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase
86 | d2axoa1 |
| not modelled | 5.2 | 44 | Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Atu2684-like
87 | c3pwzA_ |
| not modelled | 5.2 | 44 | PDB header:oxidoreductase Chain: A: PDB Molecule:shikimate dehydrogenase 3; PDBTitle: crystal structure of an ael1 enzyme from pseudomonas putida
88 | d2brja1 |
| not modelled | 5.2 | 25 | Fold:AOC barrel-like Superfamily:Allene oxide cyclase-like Family:Allene oxide cyclase-like

Binding site prediction |

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite

Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
© Structural Bioinformatics Group
Imperial College London
Lawrence Kelley, Benjamin Jefferys
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Component software
Template detection: HHpred 1.51
Secondary structure prediction: Psi-pred 2.5
Disorder prediction: Disopred 2.4
Transmembrane prediction: Memsat_SVM
Multi-template modelling and ab initio: Poing 1.0