Phyre 2 Results for P31064

Phyre Home | Retrieve Phyre Job Id

Email | l.a.kelley@imperial.ac.uk
Description | P31064
Date | Thu Jan 5 11:47:02 GMT 2012
Unique Job ID | e440350e65995fb1

Summary |

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

Model (left) based on template d1jb0l_
Top template information
Fold:Photosystem I reaction center subunit XI, PsaL Superfamily:Photosystem I reaction center subunit XI, PsaL Family:Photosystem I reaction center subunit XI, PsaL
Confidence and coverage
Confidence: | 31.8% | Coverage: | 20%
81 residues ( 20% of your sequence) have been modelled with 31.8% confidence by the single highest scoring template.
You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.
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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 | S | W | Q | Q | F | K | H | A | W | L | I | K | F | W | A | P | I | P | A | V | I | A | A | G | I | L | S | T | Y | Y | F | G | I | T | G | T | F | W | A | V | T | G | E | F | T | R | W | G | G | Q | L | L | Q | L | F | G | V | H | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | E | E | W | G | Y | F | K | I | I | H | L | E | G | S | P | L | T | R | I | D | G | M | M | I | L | G | M | F | G | G | C | F | A | A | A | L | W | A | N | N | V | K | L | R | M | P | R | S | R | I | R | I | M | Q | A | I | I | G | G | I
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  | ? |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | I | A | G | F | G | A | R | L | A | M | G | C | N | L | A | A | F | F | T | G | I | P | Q | F | S | L | H | A | W | F | F | A | I | A | T | A | I | G | S | W | F | G | A | R | F | T | L | L | P | I | F | R | I | P | V | K | M | Q | K | V
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | S | A | A | S | P | L | T | Q | K | P | D | Q | A | R | R | R | F | R | L | G | M | L | V | F | F | G | M | L | G | W | A | L | L | T | A | M | N | Q | P | K | L | G | L | A | M | L | F | G | V | G | F | G | L | L | I | E | R | A | Q | I
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | . | . | . | . | . | . | . | . | 290 | . | . | . | . | . | . | . | . | . | 300
Sequence |  | C | F | T | S | A | F | R | D | M | W | I | T | G | R | T | H | M | A | K | A | I | I | I | G | M | A | V | S | A | I | G | I | F | S | Y | V | Q | L | G | V | E | P | K | I | M | W | A | G | P | N | A | V | I | G | G | L | L | F | G | F
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 310 | . | . | . | . | . | . | . | . | . | 320 | . | . | . | . | . | . | . | . | . | 330 | . | . | . | . | . | . | . | . | . | 340 | . | . | . | . | . | . | . | . | . | 350 | . | . | . | . | . | . | . | . | . | 360
Sequence |  | G | I | V | L | A | G | G | C | E | T | G | W | M | Y | R | A | V | E | G | Q | V | H | Y | W | W | V | G | L | G | N | V | I | G | S | T | I | L | A | Y | Y | W | D | D | F | A | P | A | L | A | T | D | W | D | K | I | N | L | L | K | T
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 370 | . | . | . | . | . | . | . | . | . | 380 | . | . | . | . | . | . | . | . | . | 390 | . | . | . | . | . | . | . | . | . | 400 | .
Sequence |  | F | G | P | M | G | G | L | L | V | T | Y | L | L | L | F | A | A | L | M | L | I | I | G | W | E | K | R | F | F | R | R | A | A | P | Q | T | A | K | E | I | A
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 |
| d1jb0l_ |

### PDB 1jb0 chain L

Region: 214 - 299
Aligned: 81
Modelled: 86
Confidence: 31.8%
Identity: 14%
Fold: Photosystem I reaction center subunit XI, PsaL
Superfamily: Photosystem I reaction center subunit XI, PsaL
Family: Photosystem I reaction center subunit XI, PsaL

Phyre2
2 |
| c2wvmA_ |

### PDB 2wvm chain A

Region: 86 - 122
Aligned: 37
Modelled: 37
Confidence: 11.5%
Identity: 24%
PDB header:transferase
Chain: A: PDB Molecule:mannosyl-3-phosphoglycerate synthase;
PDBTitle: h309a mutant of mannosyl-3-phosphoglycerate synthase from2 thermus thermophilus hb27 in complex with3 gdp-alpha-d-mannose and mg(ii)

Phyre2
3 |
| c2zu8A_ |

### PDB 2zu8 chain A

Region: 86 - 122
Aligned: 37
Modelled: 34
Confidence: 9.1%
Identity: 19%
PDB header:transferase
Chain: A: PDB Molecule:mannosyl-3-phosphoglycerate synthase;
PDBTitle: crystal structure of mannosyl-3-phosphoglycerate synthase2 from pyrococcus horikoshii

Phyre2
4 |
| c3hfxA_ |

### PDB 3hfx chain A

Region: 356 - 398
Aligned: 43
Modelled: 43
Confidence: 8.6%
Identity: 9%
PDB header:transport protein
Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter;
PDBTitle: crystal structure of carnitine transporter

Phyre2
5 |
| c2y69Q_ |

### PDB 2y69 chain Q

Region: 234 - 288
Aligned: 55
Modelled: 55
Confidence: 8.1%
Identity: 9%
PDB header:electron transport
Chain: Q: PDB Molecule:cytochrome c oxidase subunit 4 isoform 1;
PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen

Phyre2
6 |
| d2vv5a3 |

### PDB 2vv5 chain A domain 3

Region: 149 - 236
Aligned: 82
Modelled: 88
Confidence: 7.3%
Identity: 16%
Fold: Mechanosensitive channel protein MscS (YggB), transmembrane region
Superfamily: Mechanosensitive channel protein MscS (YggB), transmembrane region
Family: Mechanosensitive channel protein MscS (YggB), transmembrane region

Phyre2
7 |
| c2b5kA_ |

### PDB 2b5k chain A

Region: 236 - 242
Aligned: 7
Modelled: 7
Confidence: 7.0%
Identity: 29%
PDB header:antimicrobial protein
Chain: A: PDB Molecule:polyphemusin-1;
PDBTitle: pv5 nmr solution structure in dpc micelles

Phyre2
8 |
| d1v54d_ |

### PDB 1v54 chain D

Region: 234 - 288
Aligned: 55
Modelled: 55
Confidence: 6.7%
Identity: 9%
Fold: Single transmembrane helix
Superfamily: Mitochondrial cytochrome c oxidase subunit IV
Family: Mitochondrial cytochrome c oxidase subunit IV

Phyre2
9 |
| c3pm7A_ |

### PDB 3pm7 chain A

Region: 2 - 17
Aligned: 16
Modelled: 16
Confidence: 6.0%
Identity: 31%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of ef_3132 protein from enterococcus faecalis at the2 resolution 2a, northeast structural genomics consortium target efr184

Phyre2
10 |
| c2w2eA_ |

### PDB 2w2e chain A

Region: 221 - 347
Aligned: 122
Modelled: 127
Confidence: 5.4%
Identity: 17%
PDB header:membrane protein
Chain: A: PDB Molecule:aquaporin;
PDBTitle: 1.15 angstrom crystal structure of p.pastoris aquaporin,2 aqy1, in a closed conformation at ph 3.5

Phyre2

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1jb0l_ |
|  | 31.8 | 14 | Fold:Photosystem I reaction center subunit XI, PsaL Superfamily:Photosystem I reaction center subunit XI, PsaL Family:Photosystem I reaction center subunit XI, PsaL
2 | c2wvmA_ |
|  | 11.5 | 24 | PDB header:transferase Chain: A: PDB Molecule:mannosyl-3-phosphoglycerate synthase; PDBTitle: h309a mutant of mannosyl-3-phosphoglycerate synthase from2 thermus thermophilus hb27 in complex with3 gdp-alpha-d-mannose and mg(ii)
3 | c2zu8A_ |
|  | 9.1 | 19 | PDB header:transferase Chain: A: PDB Molecule:mannosyl-3-phosphoglycerate synthase; PDBTitle: crystal structure of mannosyl-3-phosphoglycerate synthase2 from pyrococcus horikoshii
4 | c3hfxA_ |
|  | 8.6 | 9 | PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter
5 | c2y69Q_ |
|  | 8.1 | 9 | PDB header:electron transport Chain: Q: PDB Molecule:cytochrome c oxidase subunit 4 isoform 1; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen
6 | d2vv5a3 |
|  | 7.3 | 16 | Fold:Mechanosensitive channel protein MscS (YggB), transmembrane region Superfamily:Mechanosensitive channel protein MscS (YggB), transmembrane region Family:Mechanosensitive channel protein MscS (YggB), transmembrane region
7 | c2b5kA_ |
|  | 7.0 | 29 | PDB header:antimicrobial protein Chain: A: PDB Molecule:polyphemusin-1; PDBTitle: pv5 nmr solution structure in dpc micelles
8 | d1v54d_ |
|  | 6.7 | 9 | Fold:Single transmembrane helix Superfamily:Mitochondrial cytochrome c oxidase subunit IV Family:Mitochondrial cytochrome c oxidase subunit IV
9 | c3pm7A_ |
|  | 6.0 | 31 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of ef_3132 protein from enterococcus faecalis at the2 resolution 2a, northeast structural genomics consortium target efr184
10 | c2w2eA_ |
|  | 5.4 | 17 | PDB header:membrane protein Chain: A: PDB Molecule:aquaporin; PDBTitle: 1.15 angstrom crystal structure of p.pastoris aquaporin,2 aqy1, in a closed conformation at ph 3.5

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