Phyre 2 Results for P64592

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Email | l.a.kelley@imperial.ac.uk
Description | P64592
Date | Thu Jan 5 12:09:46 GMT 2012
Unique Job ID | d9a5d550fcf3705b

Summary |

Top model
Image coloured by rainbow N → C terminus
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Model (left) based on template c4a1oB_
Top template information
PDB header:transferase-hydrolase Chain: B: PDB Molecule:bifunctional purine biosynthesis protein purh; PDBTitle: crystal structure of mycobacterium tuberculosis purh complexed with2 aicar and a novel nucleotide cfair, at 2.48 a resolution.
Confidence and coverage
Confidence: | 20.7% | Coverage: | 8%
10 residues ( 8% of your sequence) have been modelled with 20.7% 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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Sequence analysis |

Secondary structure and disorder prediction |

|  | 1 | . | . | . | . | . | . | . | . | 10 | . | . | . | . | . | . | . | . | . | 20 | . | . | . | . | . | . | . | . | . | 30 | . | . | . | . | . | . | . | . | . | 40 | . | . | . | . | . | . | . | . | . | 50 | . | . | . | . | . | . | . | . | . | 60
Sequence |  | M | Q | W | Y | L | S | V | L | K | N | Y | V | G | F | S | G | R | A | R | R | K | E | Y | W | M | F | T | L | I | N | A | I | V | G | A | I | I | N | V | I | Q | L | I | L | G | L | E | L | P | Y | L | S | M | L | Y | L | L | A | T | F
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | .
Sequence |  | L | P | V | L | A | L | A | I | R | R | L | H | D | T | D | R | S | G | A | W | A | L | L | F | F | V | P | F | I | G | W | L | V | L | L | V | F | F | C | T | E | G | T | S | G | S | N | R | Y | G | N | D | P | K | F | G | S | N
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 |
| c4a1oB_ |

### PDB 4a1o chain B

Region: 108 - 117
Aligned: 10
Modelled: 10
Confidence: 20.7%
Identity: 40%
PDB header:transferase-hydrolase
Chain: B: PDB Molecule:bifunctional purine biosynthesis protein purh;
PDBTitle: crystal structure of mycobacterium tuberculosis purh complexed with2 aicar and a novel nucleotide cfair, at 2.48 a resolution.

Phyre2
2 |
| c1zczA_ |

### PDB 1zcz chain A

Region: 100 - 117
Aligned: 18
Modelled: 18
Confidence: 18.9%
Identity: 22%
PDB header:transferase/hydrolase
Chain: A: PDB Molecule:bifunctional purine biosynthesis protein purh;
PDBTitle: crystal structure of phosphoribosylaminoimidazolecarboxamide2 formyltransferase / imp cyclohydrolase (tm1249) from thermotoga3 maritima at 1.88 a resolution

Phyre2
3 |
| c1thzA_ |

### PDB 1thz chain A

Region: 108 - 117
Aligned: 10
Modelled: 10
Confidence: 18.5%
Identity: 40%
PDB header:transferase, hydrolase
Chain: A: PDB Molecule:bifunctional purine biosynthesis protein purh;
PDBTitle: crystal structure of avian aicar transformylase in complex2 with a novel inhibitor identified by virtual ligand3 screening

Phyre2
4 |
| c2dyoB_ |

### PDB 2dyo chain B

Region: 66 - 75
Aligned: 10
Modelled: 10
Confidence: 11.0%
Identity: 60%
PDB header:protein turnover/protein turnover
Chain: B: PDB Molecule:autophagy protein 16;
PDBTitle: the crystal structure of saccharomyces cerevisiae atg5-2 atg16(1-57) complex

Phyre2
5 |
| c3rf1B_ |

### PDB 3rf1 chain B

Region: 103 - 115
Aligned: 13
Modelled: 13
Confidence: 9.1%
Identity: 31%
PDB header:ligase
Chain: B: PDB Molecule:glycyl-trna synthetase alpha subunit;
PDBTitle: the crystal structure of glycyl-trna synthetase subunit alpha from2 campylobacter jejuni subsp. jejuni nctc 11168

Phyre2
6 |
| d1lira_ |

### PDB 1lir chain A

Region: 67 - 76
Aligned: 10
Modelled: 10
Confidence: 8.1%
Identity: 50%
Fold: Knottins (small inhibitors, toxins, lectins)
Superfamily: Scorpion toxin-like
Family: Short-chain scorpion toxins

Phyre2
7 |
| c1bzgA_ |

### PDB 1bzg chain A

Region: 71 - 77
Aligned: 7
Modelled: 7
Confidence: 8.0%
Identity: 57%
PDB header:hormone
Chain: A: PDB Molecule:parathyroid hormone-related protein;
PDBTitle: the solution structure of human parathyroid hormone-related2 protein (1-34) in near-physiological solution, nmr, 303 structures

Phyre2
8 |
| d2axti1 |

### PDB 2axt chain I domain 1

Region: 82 - 107
Aligned: 26
Modelled: 26
Confidence: 7.9%
Identity: 19%
Fold: Single transmembrane helix
Superfamily: Photosystem II reaction center protein I, PsbI
Family: PsbI-like

Phyre2
9 |
| c2l2tA_ |

### PDB 2l2t chain A

Region: 47 - 70
Aligned: 24
Modelled: 24
Confidence: 7.5%
Identity: 21%
PDB header:membrane protein
Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-4;
PDBTitle: solution nmr structure of the erbb4 dimeric membrane domain

Phyre2
10 |
| c1gngX_ |

### PDB 1gng chain X

Region: 67 - 72
Aligned: 6
Modelled: 6
Confidence: 7.0%
Identity: 83%
PDB header:transferase
Chain: X: PDB Molecule:frattide;
PDBTitle: glycogen synthase kinase-3 beta (gsk3) complex with frattide2 peptide

Phyre2
11 |
| c3skdA_ |

### PDB 3skd chain A

Region: 71 - 76
Aligned: 6
Modelled: 6
Confidence: 6.5%
Identity: 50%
PDB header:hydrolase
Chain: A: PDB Molecule:putative uncharacterized protein tthb187;
PDBTitle: crystal structure of the thermus thermophilus cas3 hd domain in the2 presence of ni2+

Phyre2
12 |
| d1y5ic1 |

### PDB 1y5i chain C domain 1

Region: 4 - 73
Aligned: 70
Modelled: 70
Confidence: 5.7%
Identity: 14%
Fold: Heme-binding four-helical bundle
Superfamily: Respiratory nitrate reductase 1 gamma chain
Family: Respiratory nitrate reductase 1 gamma chain

Phyre2
13 |
| c2ogiA_ |

### PDB 2ogi chain A

Region: 71 - 76
Aligned: 6
Modelled: 6
Confidence: 5.2%
Identity: 50%
PDB header:hydrolase
Chain: A: PDB Molecule:hypothetical protein sag1661;
PDBTitle: crystal structure of a putative metal dependent phosphohydrolase2 (sag1661) from streptococcus agalactiae serogroup v at 1.85 a3 resolution

Phyre2
14 |
| c2rddB_ |

### PDB 2rdd chain B

Region: 82 - 104
Aligned: 23
Modelled: 23
Confidence: 5.1%
Identity: 4%
PDB header:membrane protein/transport protein
Chain: B: PDB Molecule:upf0092 membrane protein yajc;
PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix.

Phyre2

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c4a1oB_ |
|  | 20.7 | 40 | PDB header:transferase-hydrolase Chain: B: PDB Molecule:bifunctional purine biosynthesis protein purh; PDBTitle: crystal structure of mycobacterium tuberculosis purh complexed with2 aicar and a novel nucleotide cfair, at 2.48 a resolution.
2 | c1zczA_ |
|  | 18.9 | 22 | PDB header:transferase/hydrolase Chain: A: PDB Molecule:bifunctional purine biosynthesis protein purh; PDBTitle: crystal structure of phosphoribosylaminoimidazolecarboxamide2 formyltransferase / imp cyclohydrolase (tm1249) from thermotoga3 maritima at 1.88 a resolution
3 | c1thzA_ |
|  | 18.5 | 40 | PDB header:transferase, hydrolase Chain: A: PDB Molecule:bifunctional purine biosynthesis protein purh; PDBTitle: crystal structure of avian aicar transformylase in complex2 with a novel inhibitor identified by virtual ligand3 screening
4 | c2dyoB_ |
|  | 11.0 | 60 | PDB header:protein turnover/protein turnover Chain: B: PDB Molecule:autophagy protein 16; PDBTitle: the crystal structure of saccharomyces cerevisiae atg5-2 atg16(1-57) complex
5 | c3rf1B_ |
|  | 9.1 | 31 | PDB header:ligase Chain: B: PDB Molecule:glycyl-trna synthetase alpha subunit; PDBTitle: the crystal structure of glycyl-trna synthetase subunit alpha from2 campylobacter jejuni subsp. jejuni nctc 11168
6 | d1lira_ |
|  | 8.1 | 50 | Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Scorpion toxin-like Family:Short-chain scorpion toxins
7 | c1bzgA_ |
|  | 8.0 | 57 | PDB header:hormone Chain: A: PDB Molecule:parathyroid hormone-related protein; PDBTitle: the solution structure of human parathyroid hormone-related2 protein (1-34) in near-physiological solution, nmr, 303 structures
8 | d2axti1 |
|  | 7.9 | 19 | Fold:Single transmembrane helix Superfamily:Photosystem II reaction center protein I, PsbI Family:PsbI-like
9 | c2l2tA_ |
|  | 7.5 | 21 | PDB header:membrane protein Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-4; PDBTitle: solution nmr structure of the erbb4 dimeric membrane domain
10 | c1gngX_ |
|  | 7.0 | 83 | PDB header:transferase Chain: X: PDB Molecule:frattide; PDBTitle: glycogen synthase kinase-3 beta (gsk3) complex with frattide2 peptide
11 | c3skdA_ |
|  | 6.5 | 50 | PDB header:hydrolase Chain: A: PDB Molecule:putative uncharacterized protein tthb187; PDBTitle: crystal structure of the thermus thermophilus cas3 hd domain in the2 presence of ni2+
12 | d1y5ic1 |
|  | 5.7 | 14 | Fold:Heme-binding four-helical bundle Superfamily:Respiratory nitrate reductase 1 gamma chain Family:Respiratory nitrate reductase 1 gamma chain
13 | c2ogiA_ |
|  | 5.2 | 50 | PDB header:hydrolase Chain: A: PDB Molecule:hypothetical protein sag1661; PDBTitle: crystal structure of a putative metal dependent phosphohydrolase2 (sag1661) from streptococcus agalactiae serogroup v at 1.85 a3 resolution
14 | c2rddB_ |
|  | 5.1 | 4 | PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix.

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