Phyre 2 Results for P0AD19

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Email | l.a.kelley@imperial.ac.uk
Description | P0AD19
Date | Thu Jan 5 11:19:42 GMT 2012
Unique Job ID | 878d0acd139a2537

Summary |

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

Model (left) based on template c2yvxD_
Top template information
PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte
Confidence and coverage
Confidence: | 89.6% | Coverage: | 62%
143 residues ( 62% of your sequence) have been modelled with 89.6% 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 |

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Sequence |  | M | M | A | N | I | W | W | S | L | P | L | T | L | I | V | F | F | A | A | R | K | L | A | A | R | Y | K | F | P | L | L | N | P | L | L | V | A | M | V | V | I | I | P | F | L | M | L | T | G | I | S | Y | D | S | Y | F | K | G | S | E
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | V | L | N | D | L | L | Q | P | A | V | V | A | L | A | Y | P | L | Y | E | Q | L | H | Q | I | R | A | R | W | K | S | I | I | T | I | C | F | I | G | S | V | V | A | M | V | T | G | T | S | V | A | L | L | M | G | A | S | P | E | I | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | A | S | I | L | P | K | S | V | T | T | P | I | A | M | A | V | G | G | S | I | G | G | I | P | A | I | S | A | V | C | V | I | F | V | G | I | L | G | A | V | F | G | H | T | L | L | N | A | M | R | I | R | T | K | A | A | R | G | L | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | .
Sequence |  | M | G | T | A | S | H | A | L | G | T | A | R | C | A | E | L | D | Y | Q | E | G | A | F | S | S | L | A | L | V | L | C | G | I | I | T | S | L | I | A | P | F | L | F | P | I | I | L | A | V | M | 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 |
| c2yvxD_ |

### PDB 2yvx chain D

Region: 25 - 190
Aligned: 143
Modelled: 144
Confidence: 89.6%
Identity: 17%
PDB header:transport protein
Chain: D: PDB Molecule:mg2+ transporter mgte;
PDBTitle: crystal structure of magnesium transporter mgte

Phyre2
2 |
| d2yvxa3 |

### PDB 2yvx chain A domain 3

Region: 25 - 190
Aligned: 143
Modelled: 144
Confidence: 44.9%
Identity: 17%
Fold: MgtE membrane domain-like
Superfamily: MgtE membrane domain-like
Family: MgtE membrane domain-like

Phyre2
3 |
| d1l7va_ |

### PDB 1l7v chain A

Region: 20 - 200
Aligned: 162
Modelled: 162
Confidence: 16.2%
Identity: 16%
Fold: ABC transporter involved in vitamin B12 uptake, BtuC
Superfamily: ABC transporter involved in vitamin B12 uptake, BtuC
Family: ABC transporter involved in vitamin B12 uptake, BtuC

Phyre2
4 |
| d1z0kb1 |

### PDB 1z0k chain B domain 1

Region: 76 - 89
Aligned: 14
Modelled: 14
Confidence: 13.7%
Identity: 36%
Fold: Long alpha-hairpin
Superfamily: Rabenosyn-5 Rab-binding domain-like
Family: Rabenosyn-5 Rab-binding domain-like

Phyre2
5 |
| c3zv0A_ |

### PDB 3zv0 chain A

Region: 72 - 113
Aligned: 42
Modelled: 42
Confidence: 13.3%
Identity: 19%
PDB header:cell cycle
Chain: A: PDB Molecule:protein shq1;
PDBTitle: structure of the shq1p-cbf5p complex

Phyre2
6 |
| c3rfuC_ |

### PDB 3rfu chain C

Region: 23 - 108
Aligned: 86
Modelled: 86
Confidence: 13.1%
Identity: 17%
PDB header:hydrolase, membrane protein
Chain: C: PDB Molecule:copper efflux atpase;
PDBTitle: crystal structure of a copper-transporting pib-type atpase

Phyre2
7 |
| d1yzma1 |

### PDB 1yzm chain A domain 1

Region: 76 - 89
Aligned: 14
Modelled: 14
Confidence: 12.8%
Identity: 36%
Fold: Long alpha-hairpin
Superfamily: Rabenosyn-5 Rab-binding domain-like
Family: Rabenosyn-5 Rab-binding domain-like

Phyre2
8 |
| c1ckxA_ |

### PDB 1ckx chain A

Region: 46 - 56
Aligned: 11
Modelled: 11
Confidence: 11.8%
Identity: 45%
PDB header:metal transport
Chain: A: PDB Molecule:cystic fibrosis transmembrane conductance
PDBTitle: cystic fibrosis transmembrane conductance regulator:2 solution structures of peptides based on the phe508 region,3 the most common site of disease-causing delta-f508 mutation

Phyre2
9 |
| c1ciiA_ |

### PDB 1cii chain A

Region: 122 - 167
Aligned: 46
Modelled: 46
Confidence: 9.6%
Identity: 15%
PDB header:transmembrane protein
Chain: A: PDB Molecule:colicin ia;
PDBTitle: colicin ia

Phyre2
10 |
| c2ks1B_ |

### PDB 2ks1 chain B

Region: 58 - 84
Aligned: 27
Modelled: 27
Confidence: 8.6%
Identity: 30%
PDB header:transferase
Chain: B: PDB Molecule:epidermal growth factor receptor;
PDBTitle: heterodimeric association of transmembrane domains of erbb1 and erbb22 receptors enabling kinase activation

Phyre2
11 |
| c3p5nA_ |

### PDB 3p5n chain A

Region: 5 - 87
Aligned: 83
Modelled: 83
Confidence: 8.1%
Identity: 14%
PDB header:transport protein
Chain: A: PDB Molecule:riboflavin uptake protein;
PDBTitle: structure and mechanism of the s component of a bacterial ecf2 transporter

Phyre2
12 |
| d2akza2 |

### PDB 2akz chain A domain 2

Region: 72 - 87
Aligned: 16
Modelled: 16
Confidence: 8.0%
Identity: 25%
Fold: Enolase N-terminal domain-like
Superfamily: Enolase N-terminal domain-like
Family: Enolase N-terminal domain-like

Phyre2
13 |
| c1ckwA_ |

### PDB 1ckw chain A

Region: 47 - 56
Aligned: 10
Modelled: 10
Confidence: 7.2%
Identity: 50%
PDB header:metal transport
Chain: A: PDB Molecule:protein (cystic fibrosis transmembrane
PDBTitle: cystic fibrosis transmembrane conductance regulator:2 solution structures of peptides based on the phe508 region,3 the most common site of disease-causing delta-f508 mutation

Phyre2
14 |
| c1unyA_ |

### PDB 1uny chain A

Region: 161 - 178
Aligned: 18
Modelled: 18
Confidence: 6.6%
Identity: 28%
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

Phyre2
15 |
| c2ju0B_ |

### PDB 2ju0 chain B

Region: 15 - 33
Aligned: 19
Modelled: 19
Confidence: 5.3%
Identity: 26%
PDB header:metal binding protein/signaling protein
Chain: B: PDB Molecule:phosphatidylinositol 4-kinase pik1;
PDBTitle: structure of yeast frequenin bound to pdtins 4-kinase

Phyre2

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c2yvxD_ |
|  | 89.6 | 17 | PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte
2 | d2yvxa3 |
|  | 44.9 | 17 | Fold:MgtE membrane domain-like Superfamily:MgtE membrane domain-like Family:MgtE membrane domain-like
3 | d1l7va_ |
|  | 16.2 | 16 | Fold:ABC transporter involved in vitamin B12 uptake, BtuC Superfamily:ABC transporter involved in vitamin B12 uptake, BtuC Family:ABC transporter involved in vitamin B12 uptake, BtuC
4 | d1z0kb1 |
|  | 13.7 | 36 | Fold:Long alpha-hairpin Superfamily:Rabenosyn-5 Rab-binding domain-like Family:Rabenosyn-5 Rab-binding domain-like
5 | c3zv0A_ |
|  | 13.3 | 19 | PDB header:cell cycle Chain: A: PDB Molecule:protein shq1; PDBTitle: structure of the shq1p-cbf5p complex
6 | c3rfuC_ |
|  | 13.1 | 17 | PDB header:hydrolase, membrane protein Chain: C: PDB Molecule:copper efflux atpase; PDBTitle: crystal structure of a copper-transporting pib-type atpase
7 | d1yzma1 |
|  | 12.8 | 36 | Fold:Long alpha-hairpin Superfamily:Rabenosyn-5 Rab-binding domain-like Family:Rabenosyn-5 Rab-binding domain-like
8 | c1ckxA_ |
|  | 11.8 | 45 | PDB header:metal transport Chain: A: PDB Molecule:cystic fibrosis transmembrane conductance PDBTitle: cystic fibrosis transmembrane conductance regulator:2 solution structures of peptides based on the phe508 region,3 the most common site of disease-causing delta-f508 mutation
9 | c1ciiA_ |
|  | 9.6 | 15 | PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia
10 | c2ks1B_ |
|  | 8.6 | 30 | PDB header:transferase Chain: B: PDB Molecule:epidermal growth factor receptor; PDBTitle: heterodimeric association of transmembrane domains of erbb1 and erbb22 receptors enabling kinase activation
11 | c3p5nA_ |
|  | 8.1 | 14 | PDB header:transport protein Chain: A: PDB Molecule:riboflavin uptake protein; PDBTitle: structure and mechanism of the s component of a bacterial ecf2 transporter
12 | d2akza2 |
|  | 8.0 | 25 | Fold:Enolase N-terminal domain-like Superfamily:Enolase N-terminal domain-like Family:Enolase N-terminal domain-like
13 | c1ckwA_ |
|  | 7.2 | 50 | PDB header:metal transport Chain: A: PDB Molecule:protein (cystic fibrosis transmembrane PDBTitle: cystic fibrosis transmembrane conductance regulator:2 solution structures of peptides based on the phe508 region,3 the most common site of disease-causing delta-f508 mutation
14 | c1unyA_ |
|  | 6.6 | 28 | 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
15 | c2ju0B_ |
|  | 5.3 | 26 | PDB header:metal binding protein/signaling protein Chain: B: PDB Molecule:phosphatidylinositol 4-kinase pik1; PDBTitle: structure of yeast frequenin bound to pdtins 4-kinase

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