Phyre 2 Results for P23173

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Email | l.a.kelley@imperial.ac.uk
Description | P23173
Date | Thu Jan 5 11:39:16 GMT 2012
Unique Job ID | eea07ff7af1f1a9e

Summary |

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

Model (left) based on template c3giaA_
Top template information
PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter
Confidence and coverage
Confidence: | 100.0% | Coverage: | 96%
399 residues ( 96% 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 | T | D | Q | A | E | K | K | H | S | A | F | W | G | V | M | V | I | A | G | T | V | I | G | G | G | M | F | A | L | P | V | D | L | A | G | A | W | F | F | W | G | A | F | I | L | I | I | A | W | F | S | M | L | H | S | G | L | L | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | L | E | A | N | L | N | Y | P | V | G | S | S | F | N | T | I | T | K | D | L | I | G | N | T | W | N | I | I | S | G | I | T | V | A | F | V | L | Y | I | L | T | Y | A | Y | I | S | A | N | G | A | I | I | S | E | T | I | S | M | N | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  | ? | ? |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | G | Y | H | A | N | P | R | I | V | G | I | C | T | A | I | F | V | A | S | V | L | W | L | S | S | L | A | A | S | R | I | T | S | L | F | L | G | L | K | I | I | S | F | V | I | V | F | G | S | F | F | F | Q | V | D | Y | S | I | L | R
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | D | A | T | S | S | T | A | G | T | S | Y | F | P | Y | I | F | M | A | L | P | V | C | L | A | S | F | G | F | H | G | N | I | P | S | L | I | I | C | Y | G | K | R | K | D | K | L | I | K | S | V | V | F | G | S | L | L | A | L | V | I
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | . | . | . | . | . | . | . | . | 290 | . | . | . | . | . | . | . | . | . | 300
Sequence |  | Y | L | F | W | L | Y | C | T | M | G | N | I | P | R | E | S | F | K | A | I | I | S | S | G | G | N | V | D | S | L | V | K | S | F | L | G | T | K | Q | H | G | I | I | E | F | C | L | L | V | F | S | N | L | A | V | A | S | S | F | F
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? |  |  | ? | ? |  |  |  |  |  |  |  |  |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 310 | . | . | . | . | . | . | . | . | . | 320 | . | . | . | . | . | . | . | . | . | 330 | . | . | . | . | . | . | . | . | . | 340 | . | . | . | . | . | . | . | . | . | 350 | . | . | . | . | . | . | . | . | . | 360
Sequence |  | G | V | T | L | G | L | F | D | Y | L | A | D | L | F | K | I | D | N | S | H | G | G | R | F | K | T | V | L | L | T | F | L | P | P | A | L | L | Y | L | I | F | P | N | G | F | I | Y | G | I | G | G | A | G | L | C | A | T | I | W | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 370 | . | . | . | . | . | . | . | . | . | 380 | . | . | . | . | . | . | . | . | . | 390 | . | . | . | . | . | . | . | . | . | 400 | . | . | . | . | . | . | . | . | . | 410 | . | . | . | . | .
Sequence |  | V | I | I | P | A | V | L | A | I | K | A | R | K | K | F | P | N | Q | M | F | T | V | W | G | G | N | L | I | P | A | I | V | I | L | F | G | I | T | V | I | L | C | W | F | G | N | V | F | N | V | L | P | K | F | G
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 |
| c3giaA_ |

### PDB 3gia chain A

Region: 5 - 411
Aligned: 399
Modelled: 407
Confidence: 100.0%
Identity: 13%
PDB header:transport protein
Chain: A: PDB Molecule:uncharacterized protein mj0609;
PDBTitle: crystal structure of apct transporter

Phyre2
2 |
| c3lrcC_ |

### PDB 3lrc chain C

Region: 5 - 401
Aligned: 374
Modelled: 374
Confidence: 100.0%
Identity: 14%
PDB header:transport protein
Chain: C: PDB Molecule:arginine/agmatine antiporter;
PDBTitle: structure of e. coli adic (p1)

Phyre2
3 |
| c2jlnA_ |

### PDB 2jln chain A

Region: 2 - 413
Aligned: 406
Modelled: 410
Confidence: 99.9%
Identity: 8%
PDB header:membrane protein
Chain: A: PDB Molecule:mhp1;
PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter

Phyre2
4 |
| c2xq2A_ |

### PDB 2xq2 chain A

Region: 7 - 405
Aligned: 383
Modelled: 383
Confidence: 98.8%
Identity: 11%
PDB header:transport protein
Chain: A: PDB Molecule:sodium/glucose cotransporter;
PDBTitle: structure of the k294a mutant of vsglt

Phyre2
5 |
| c3dh4A_ |

### PDB 3dh4 chain A

Region: 3 - 405
Aligned: 388
Modelled: 401
Confidence: 98.7%
Identity: 11%
PDB header:transport protein
Chain: A: PDB Molecule:sodium/glucose cotransporter;
PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus

Phyre2
6 |
| d2a65a1 |

### PDB 2a65 chain A domain 1

Region: 10 - 413
Aligned: 401
Modelled: 404
Confidence: 98.0%
Identity: 15%
Fold: SNF-like
Superfamily: SNF-like
Family: SNF-like

Phyre2
7 |
| c2w8aC_ |

### PDB 2w8a chain C

Region: 2 - 381
Aligned: 375
Modelled: 380
Confidence: 96.9%
Identity: 11%
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

Phyre2
8 |
| c3hfxA_ |

### PDB 3hfx chain A

Region: 4 - 378
Aligned: 370
Modelled: 370
Confidence: 62.0%
Identity: 10%
PDB header:transport protein
Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter;
PDBTitle: crystal structure of carnitine transporter

Phyre2
9 |
| d1llca1 |

### PDB 1llc chain A domain 1

Region: 1 - 35
Aligned: 24
Modelled: 35
Confidence: 10.7%
Identity: 25%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: LDH N-terminal domain-like

Phyre2
10 |
| d1s0ya_ |

### PDB 1s0y chain A

Region: 2 - 24
Aligned: 21
Modelled: 23
Confidence: 9.7%
Identity: 29%
Fold: Tautomerase/MIF
Superfamily: Tautomerase/MIF
Family: 4-oxalocrotonate tautomerase-like

Phyre2
11 |
| c1byyA_ |

### PDB 1byy chain A

Region: 1 - 7
Aligned: 7
Modelled: 7
Confidence: 7.7%
Identity: 43%
PDB header:membrane protein
Chain: A: PDB Molecule:protein (sodium channel alpha-subunit);
PDBTitle: sodium channel iia inactivation gate

Phyre2
12 |
| c3qe7A_ |

### PDB 3qe7 chain A

Region: 84 - 367
Aligned: 284
Modelled: 284
Confidence: 7.5%
Identity: 11%
PDB header:transport protein
Chain: A: PDB Molecule:uracil permease;
PDBTitle: crystal structure of uracil transporter--uraa

Phyre2
13 |
| d1v92a_ |

### PDB 1v92 chain A

Region: 1 - 15
Aligned: 15
Modelled: 15
Confidence: 5.7%
Identity: 20%
Fold: RuvA C-terminal domain-like
Superfamily: UBA-like
Family: TAP-C domain-like

Phyre2

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c3giaA_ |
|  | 100.0 | 13 | PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter
2 | c3lrcC_ |
|  | 100.0 | 14 | PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1)
3 | c2jlnA_ |
|  | 99.9 | 8 | PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter
4 | c2xq2A_ |
|  | 98.8 | 11 | PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt
5 | c3dh4A_ |
|  | 98.7 | 11 | PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus
6 | d2a65a1 |
|  | 98.0 | 15 | Fold:SNF-like Superfamily:SNF-like Family:SNF-like
7 | c2w8aC_ |
|  | 96.9 | 11 | 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
8 | c3hfxA_ |
|  | 62.0 | 10 | PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter
9 | d1llca1 |
|  | 10.7 | 25 | Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:LDH N-terminal domain-like
10 | d1s0ya_ |
|  | 9.7 | 29 | Fold:Tautomerase/MIF Superfamily:Tautomerase/MIF Family:4-oxalocrotonate tautomerase-like
11 | c1byyA_ |
|  | 7.7 | 43 | PDB header:membrane protein Chain: A: PDB Molecule:protein (sodium channel alpha-subunit); PDBTitle: sodium channel iia inactivation gate
12 | c3qe7A_ |
|  | 7.5 | 11 | PDB header:transport protein Chain: A: PDB Molecule:uracil permease; PDBTitle: crystal structure of uracil transporter--uraa
13 | d1v92a_ |
|  | 5.7 | 20 | Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:TAP-C domain-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
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