Phyre 2 Results for Q2EET2

Phyre Home | Retrieve Phyre Job Id

Email | l.a.kelley@imperial.ac.uk
Description | Q2EET2
Date | Thu Jan 5 12:33:53 GMT 2012
Unique Job ID | 054ed03010cbb2ce

Summary |

Top model
Image coloured by rainbow N → C terminus
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Model (left) based on template c2kncA_
Top template information
PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex
Confidence and coverage
Confidence: | 23.9% | Coverage: | 56%
37 residues ( 56% of your sequence) have been modelled with 23.9% confidence by the single highest scoring template.
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Sequence analysis |

Secondary structure and disorder prediction |

|  | 1 | . | . | . | . | . | . | . | . | 10 | . | . | . | . | . | . | . | . | . | 20 | . | . | . | . | . | . | . | . | . | 30 | . | . | . | . | . | . | . | . | . | 40 | . | . | . | . | . | . | . | . | . | 50 | . | . | . | . | . | . | . | . | . | 60
Sequence |  | M | D | W | L | A | K | Y | W | W | I | L | V | I | V | F | L | V | G | V | L | L | N | V | I | K | D | L | K | R | V | D | H | K | K | F | L | A | N | K | P | E | L | P | P | H | R | D | F | N | D | K | W | D | D | D | D | D | W | P | K
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? |  | ? |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | .
Sequence |  | K | D | Q | P | K | 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 |
| c2kncA_ |

### PDB 2knc chain A

Region: 8 - 44
Aligned: 37
Modelled: 37
Confidence: 23.9%
Identity: 30%
PDB header:cell adhesion
Chain: A: PDB Molecule:integrin alpha-iib;
PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex

Phyre2
2 |
| d2axtl1 |

### PDB 2axt chain L domain 1

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
Fold: Single transmembrane helix
Superfamily: Photosystem II reaction center protein L, PsbL
Family: PsbL-like

Phyre2
3 |
| c3a0bl_ |

### PDB 3a0b chain L

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
PDB header:electron transport
Chain: L: PDB Molecule:photosystem ii reaction center protein l;
PDBTitle: crystal structure of br-substituted photosystem ii complex

Phyre2
4 |
| c3prrL_ |

### PDB 3prr chain L

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
PDB header:photosynthesis
Chain: L: PDB Molecule:photosystem ii reaction center protein l;
PDBTitle: crystal structure of cyanobacterial photosystem ii in complex with2 terbutryn (part 2 of 2). this file contains second monomer of psii3 dimer

Phyre2
5 |
| c1s5lL_ |

### PDB 1s5l chain L

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
PDB header:photosynthesis
Chain: L: PDB Molecule:photosystem ii reaction center l protein;
PDBTitle: architecture of the photosynthetic oxygen evolving center

Phyre2
6 |
| c3a0bL_ |

### PDB 3a0b chain L

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
PDB header:electron transport
Chain: L: PDB Molecule:photosystem ii reaction center protein l;
PDBTitle: crystal structure of br-substituted photosystem ii complex

Phyre2
7 |
| c2axtL_ |

### PDB 2axt chain L

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
PDB header:electron transport
Chain: L: PDB Molecule:photosystem ii reaction center l protein;
PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus

Phyre2
8 |
| c3bz2L_ |

### PDB 3bz2 chain L

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
PDB header:electron transport
Chain: L: PDB Molecule:photosystem ii reaction center protein l;
PDBTitle: crystal structure of cyanobacterial photosystem ii (part 22 of 2). this file contains second monomer of psii dimer

Phyre2
9 |
| c1s5ll_ |

### PDB 1s5l chain L

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
PDB header:photosynthesis
Chain: L: PDB Molecule:photosystem ii reaction center l protein;
PDBTitle: architecture of the photosynthetic oxygen evolving center

Phyre2
10 |
| c3a0hl_ |

### PDB 3a0h chain L

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
PDB header:electron transport
Chain: L: PDB Molecule:photosystem ii reaction center protein l;
PDBTitle: crystal structure of i-substituted photosystem ii complex

Phyre2
11 |
| c3kziL_ |

### PDB 3kzi chain L

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
PDB header:electron transport
Chain: L: PDB Molecule:photosystem ii reaction center protein l;
PDBTitle: crystal structure of monomeric form of cyanobacterial photosystem ii

Phyre2
12 |
| c3prqL_ |

### PDB 3prq chain L

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
PDB header:photosynthesis
Chain: L: PDB Molecule:photosystem ii reaction center protein l;
PDBTitle: crystal structure of cyanobacterial photosystem ii in complex with2 terbutryn (part 1 of 2). this file contains first monomer of psii3 dimer

Phyre2
13 |
| c3bz1L_ |

### PDB 3bz1 chain L

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
PDB header:electron transport
Chain: L: PDB Molecule:photosystem ii reaction center protein l;
PDBTitle: crystal structure of cyanobacterial photosystem ii (part 12 of 2). this file contains first monomer of psii dimer

Phyre2
14 |
| c3a0hL_ |

### PDB 3a0h chain L

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
PDB header:electron transport
Chain: L: PDB Molecule:photosystem ii reaction center protein l;
PDBTitle: crystal structure of i-substituted photosystem ii complex

Phyre2
15 |
| c3arcL_ |

### PDB 3arc chain L

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
PDB header:electron transport, photosynthesis
Chain: L: PDB Molecule:photosystem ii reaction center protein l;
PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution

Phyre2
16 |
| c2axtl_ |

### PDB 2axt chain L

Region: 8 - 21
Aligned: 14
Modelled: 14
Confidence: 18.6%
Identity: 14%
PDB header:electron transport
Chain: L: PDB Molecule:photosystem ii reaction center l protein;
PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus

Phyre2
17 |
| c3aa6C_ |

### PDB 3aa6 chain C

Region: 34 - 46
Aligned: 13
Modelled: 13
Confidence: 10.1%
Identity: 38%
PDB header:protein binding
Chain: C: PDB Molecule:23mer peptide from cd2-associated protein;
PDBTitle: crystal structure of actin capping protein in complex with the cp-2 binding motif derived from cd2ap

Phyre2
18 |
| c2k1aA_ |

### PDB 2k1a chain A

Region: 8 - 24
Aligned: 17
Modelled: 17
Confidence: 8.9%
Identity: 35%
PDB header:cell adhesion
Chain: A: PDB Molecule:integrin alpha-iib;
PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment

Phyre2
19 |
| d1fftb2 |

### PDB 1fft chain B domain 2

Region: 3 - 32
Aligned: 30
Modelled: 30
Confidence: 8.3%
Identity: 10%
Fold: Transmembrane helix hairpin
Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region
Family: Cytochrome c oxidase subunit II-like, transmembrane region

Phyre2
20 |
| d2j0sc1 |

### PDB 2j0s chain C domain 1

Region: 53 - 64
Aligned: 12
Modelled: 12
Confidence: 8.2%
Identity: 42%
Fold: Mago nashi protein
Superfamily: Mago nashi protein
Family: Mago nashi protein

Phyre2
21 |
22 |
23 |
24 |
25 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c2kncA_ |
|  | 23.9 | 30 | PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex
2 | d2axtl1 |
|  | 18.6 | 14 | Fold:Single transmembrane helix Superfamily:Photosystem II reaction center protein L, PsbL Family:PsbL-like
3 | c3a0bl_ |
|  | 18.6 | 14 | PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of br-substituted photosystem ii complex
4 | c3prrL_ |
|  | 18.6 | 14 | PDB header:photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of cyanobacterial photosystem ii in complex with2 terbutryn (part 2 of 2). this file contains second monomer of psii3 dimer
5 | c1s5lL_ |
|  | 18.6 | 14 | PDB header:photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: architecture of the photosynthetic oxygen evolving center
6 | c3a0bL_ |
|  | 18.6 | 14 | PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of br-substituted photosystem ii complex
7 | c2axtL_ |
|  | 18.6 | 14 | PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus
8 | c3bz2L_ |
|  | 18.6 | 14 | PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of cyanobacterial photosystem ii (part 22 of 2). this file contains second monomer of psii dimer
9 | c1s5ll_ |
|  | 18.6 | 14 | PDB header:photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: architecture of the photosynthetic oxygen evolving center
10 | c3a0hl_ |
|  | 18.6 | 14 | PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of i-substituted photosystem ii complex
11 | c3kziL_ |
|  | 18.6 | 14 | PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of monomeric form of cyanobacterial photosystem ii
12 | c3prqL_ |
|  | 18.6 | 14 | PDB header:photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of cyanobacterial photosystem ii in complex with2 terbutryn (part 1 of 2). this file contains first monomer of psii3 dimer
13 | c3bz1L_ |
|  | 18.6 | 14 | PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of cyanobacterial photosystem ii (part 12 of 2). this file contains first monomer of psii dimer
14 | c3a0hL_ |
|  | 18.6 | 14 | PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of i-substituted photosystem ii complex
15 | c3arcL_ |
|  | 18.6 | 14 | PDB header:electron transport, photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution
16 | c2axtl_ |
|  | 18.6 | 14 | PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus
17 | c3aa6C_ |
|  | 10.1 | 38 | PDB header:protein binding Chain: C: PDB Molecule:23mer peptide from cd2-associated protein; PDBTitle: crystal structure of actin capping protein in complex with the cp-2 binding motif derived from cd2ap
18 | c2k1aA_ |
|  | 8.9 | 35 | PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment
19 | d1fftb2 |
|  | 8.3 | 10 | Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region
20 | d2j0sc1 |
|  | 8.2 | 42 | Fold:Mago nashi protein Superfamily:Mago nashi protein Family:Mago nashi protein
21 | d1rk8b_ |
| not modelled | 7.2 | 36 | Fold:Mago nashi protein Superfamily:Mago nashi protein Family:Mago nashi protein
22 | c2fd4A_ |
| not modelled | 7.0 | 57 | PDB header:ligase Chain: A: PDB Molecule:avirulence protein avrptob; PDBTitle: crystal structure of avrptob (436-553)
23 | d2b9va2 |
| not modelled | 7.0 | 32 | Fold:alpha/beta-Hydrolases Superfamily:alpha/beta-Hydrolases Family:PepX catalytic domain-like
24 | c2gidP_ |
| not modelled | 6.4 | 42 | PDB header:translation Chain: P: PDB Molecule:mitochondrial rna-binding protein 2; PDBTitle: crystal structures of trypanosoma bruciei mrp1/mrp2
25 | c1z65A_ |
| not modelled | 6.2 | 26 | PDB header:unknown function Chain: A: PDB Molecule:prion-like protein doppel; PDBTitle: mouse doppel 1-30 peptide

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