Phyre 2 Results for P65870

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Email | l.a.kelley@imperial.ac.uk
Description | P65870
Date | Thu Jan 5 12:10:19 GMT 2012
Unique Job ID | 1481464c81729bfc

Summary |

Top model
Image coloured by rainbow N → C terminus
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Model (left) based on template c2obaE_
Top template information
PDB header:lyase Chain: E: PDB Molecule:probable 6-pyruvoyl tetrahydrobiopterin synthase; PDBTitle: pseudomonas aeruginosa 6-pyruvoyl tetrahydrobiopterin synthase
Confidence and coverage
Confidence: | 100.0% | Coverage: | 98%
119 residues ( 98% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
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Sequence analysis |

Secondary structure and disorder prediction |

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Sequence |  | M | M | S | T | T | L | F | K | D | F | T | F | E | A | A | H | R | L | P | H | V | P | E | G | H | K | C | G | R | L | H | G | H | S | F | M | V | R | L | E | I | T | G | E | V | D | P | H | T | G | W | I | I | D | F | A | E | L | K | A
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SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | A | F | K | P | T | Y | E | R | L | D | H | H | Y | L | N | D | I | P | G | L | E | N | P | T | S | E | V | L | A | K | W | I | W | D | Q | V | K | P | V | V | P | L | L | S | A | V | M | V | K | E | T | C | T | A | G | C | I | Y | R | G
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | .
Sequence |  | E
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 |
| c2obaE_ |

### PDB 2oba chain E

Region: 3 - 121
Aligned: 119
Modelled: 117
Confidence: 100.0%
Identity: 75%
PDB header:lyase
Chain: E: PDB Molecule:probable 6-pyruvoyl tetrahydrobiopterin synthase;
PDBTitle: pseudomonas aeruginosa 6-pyruvoyl tetrahydrobiopterin synthase

Phyre2
2 |
| d2g64a1 |

### PDB 2g64 chain A domain 1

Region: 1 - 120
Aligned: 120
Modelled: 120
Confidence: 100.0%
Identity: 32%
Fold: T-fold
Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like
Family: 6-pyruvoyl tetrahydropterin synthase

Phyre2
3 |
| d1b66a_ |

### PDB 1b66 chain A

Region: 3 - 121
Aligned: 119
Modelled: 119
Confidence: 100.0%
Identity: 33%
Fold: T-fold
Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like
Family: 6-pyruvoyl tetrahydropterin synthase

Phyre2
4 |
| c3jygB_ |

### PDB 3jyg chain B

Region: 2 - 121
Aligned: 119
Modelled: 120
Confidence: 100.0%
Identity: 34%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of uncharacterized protein ws1659 from2 wolinella succinogenes

Phyre2
5 |
| c3d7jD_ |

### PDB 3d7j chain D

Region: 2 - 120
Aligned: 118
Modelled: 117
Confidence: 100.0%
Identity: 21%
PDB header:unknown function
Chain: D: PDB Molecule:uncharacterized protein sco6650;
PDBTitle: sco6650, a 6-pyruvoyltetrahydropterin synthase homolog from2 streptomyces coelicolor

Phyre2
6 |
| c2dj6B_ |

### PDB 2dj6 chain B

Region: 2 - 120
Aligned: 112
Modelled: 117
Confidence: 100.0%
Identity: 34%
PDB header:lyase
Chain: B: PDB Molecule:hypothetical protein ph0634;
PDBTitle: crystal structure of 6-pyruvoyl tetrahydrobiopterin synthase from2 pyrococcus horikoshii ot3

Phyre2
7 |
| d2a0sa1 |

### PDB 2a0s chain A domain 1

Region: 1 - 121
Aligned: 117
Modelled: 121
Confidence: 100.0%
Identity: 28%
Fold: T-fold
Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like
Family: 6-pyruvoyl tetrahydropterin synthase

Phyre2
8 |
| d1y13a_ |

### PDB 1y13 chain A

Region: 2 - 120
Aligned: 115
Modelled: 119
Confidence: 100.0%
Identity: 28%
Fold: T-fold
Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like
Family: 6-pyruvoyl tetrahydropterin synthase

Phyre2
9 |
| c2l7eA_ |

### PDB 2l7e chain A

Region: 2 - 49
Aligned: 46
Modelled: 48
Confidence: 58.6%
Identity: 4%
PDB header:transcription
Chain: A: PDB Molecule:transcription initiation factor tfiid subunit 14;
PDBTitle: the structure of a domain from yeast

Phyre2
10 |
| c2o90A_ |

### PDB 2o90 chain A

Region: 2 - 109
Aligned: 90
Modelled: 108
Confidence: 48.8%
Identity: 9%
PDB header:lyase
Chain: A: PDB Molecule:dihydroneopterin aldolase;
PDBTitle: atomic resolution crystal structure of e.coli2 dihydroneopterin aldolase in complex with neopterin

Phyre2
11 |
| d1dhna_ |

### PDB 1dhn chain A

Region: 1 - 109
Aligned: 92
Modelled: 103
Confidence: 48.1%
Identity: 18%
Fold: T-fold
Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like
Family: DHN aldolase/epimerase

Phyre2
12 |
| c2cg8B_ |

### PDB 2cg8 chain B

Region: 2 - 109
Aligned: 91
Modelled: 102
Confidence: 45.9%
Identity: 20%
PDB header:lyase/transferase
Chain: B: PDB Molecule:dihydroneopterin aldolase 6-hydroxymethyl-7,8-
PDBTitle: the bifunctional dihydroneopterin aldolase 6-hydroxymethyl-2 7,8-dihydropterin synthase from streptococcus pneumoniae

Phyre2
13 |
| d1oaoc_ |

### PDB 1oao chain C

Region: 39 - 108
Aligned: 70
Modelled: 70
Confidence: 31.3%
Identity: 24%
Fold: Prismane protein-like
Superfamily: Prismane protein-like
Family: Acetyl-CoA synthase

Phyre2
14 |
| d1yaga1 |

### PDB 1yag chain A domain 1

Region: 48 - 96
Aligned: 49
Modelled: 49
Confidence: 29.4%
Identity: 12%
Fold: Ribonuclease H-like motif
Superfamily: Actin-like ATPase domain
Family: Actin/HSP70

Phyre2
15 |
| d1k8ka1 |

### PDB 1k8k chain A domain 1

Region: 48 - 96
Aligned: 49
Modelled: 49
Confidence: 21.1%
Identity: 22%
Fold: Ribonuclease H-like motif
Superfamily: Actin-like ATPase domain
Family: Actin/HSP70

Phyre2
16 |
| d2hf3a1 |

### PDB 2hf3 chain A domain 1

Region: 48 - 97
Aligned: 50
Modelled: 50
Confidence: 20.8%
Identity: 14%
Fold: Ribonuclease H-like motif
Superfamily: Actin-like ATPase domain
Family: Actin/HSP70

Phyre2
17 |
| d2fxua1 |

### PDB 2fxu chain A domain 1

Region: 48 - 97
Aligned: 50
Modelled: 50
Confidence: 20.1%
Identity: 16%
Fold: Ribonuclease H-like motif
Superfamily: Actin-like ATPase domain
Family: Actin/HSP70

Phyre2
18 |
| c3rhfB_ |

### PDB 3rhf chain B

Region: 31 - 109
Aligned: 69
Modelled: 79
Confidence: 19.4%
Identity: 16%
PDB header:transferase
Chain: B: PDB Molecule:putative polyphosphate kinase 2 family protein;
PDBTitle: crystal structure of polyphosphate kinase 2 from arthrobacter2 aurescens tc1

Phyre2
19 |
| c2ju2A_ |

### PDB 2ju2 chain A

Region: 80 - 96
Aligned: 17
Modelled: 17
Confidence: 19.1%
Identity: 12%
PDB header:transferase
Chain: A: PDB Molecule:erythronolide synthase;
PDBTitle: minimized mean solution structure of the acyl carrier2 protein domain from module 2 of 6-deoxyerythronolide b3 synthase (debs)

Phyre2
20 |
| c3gitA_ |

### PDB 3git chain A

Region: 39 - 109
Aligned: 71
Modelled: 71
Confidence: 18.3%
Identity: 24%
PDB header:transferase
Chain: A: PDB Molecule:carbon monoxide dehydrogenase/acetyl-coa synthase subunit
PDBTitle: crystal structure of a truncated acetyl-coa synthase

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c2obaE_ |
|  | 100.0 | 75 | PDB header:lyase Chain: E: PDB Molecule:probable 6-pyruvoyl tetrahydrobiopterin synthase; PDBTitle: pseudomonas aeruginosa 6-pyruvoyl tetrahydrobiopterin synthase
2 | d2g64a1 |
|  | 100.0 | 32 | Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:6-pyruvoyl tetrahydropterin synthase
3 | d1b66a_ |
|  | 100.0 | 33 | Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:6-pyruvoyl tetrahydropterin synthase
4 | c3jygB_ |
|  | 100.0 | 34 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of uncharacterized protein ws1659 from2 wolinella succinogenes
5 | c3d7jD_ |
|  | 100.0 | 21 | PDB header:unknown function Chain: D: PDB Molecule:uncharacterized protein sco6650; PDBTitle: sco6650, a 6-pyruvoyltetrahydropterin synthase homolog from2 streptomyces coelicolor
6 | c2dj6B_ |
|  | 100.0 | 34 | PDB header:lyase Chain: B: PDB Molecule:hypothetical protein ph0634; PDBTitle: crystal structure of 6-pyruvoyl tetrahydrobiopterin synthase from2 pyrococcus horikoshii ot3
7 | d2a0sa1 |
|  | 100.0 | 28 | Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:6-pyruvoyl tetrahydropterin synthase
8 | d1y13a_ |
|  | 100.0 | 28 | Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:6-pyruvoyl tetrahydropterin synthase
9 | c2l7eA_ |
|  | 58.6 | 4 | PDB header:transcription Chain: A: PDB Molecule:transcription initiation factor tfiid subunit 14; PDBTitle: the structure of a domain from yeast
10 | c2o90A_ |
|  | 48.8 | 9 | PDB header:lyase Chain: A: PDB Molecule:dihydroneopterin aldolase; PDBTitle: atomic resolution crystal structure of e.coli2 dihydroneopterin aldolase in complex with neopterin
11 | d1dhna_ |
|  | 48.1 | 18 | Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:DHN aldolase/epimerase
12 | c2cg8B_ |
|  | 45.9 | 20 | PDB header:lyase/transferase Chain: B: PDB Molecule:dihydroneopterin aldolase 6-hydroxymethyl-7,8- PDBTitle: the bifunctional dihydroneopterin aldolase 6-hydroxymethyl-2 7,8-dihydropterin synthase from streptococcus pneumoniae
13 | d1oaoc_ |
|  | 31.3 | 24 | Fold:Prismane protein-like Superfamily:Prismane protein-like Family:Acetyl-CoA synthase
14 | d1yaga1 |
|  | 29.4 | 12 | Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70
15 | d1k8ka1 |
|  | 21.1 | 22 | Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70
16 | d2hf3a1 |
|  | 20.8 | 14 | Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70
17 | d2fxua1 |
|  | 20.1 | 16 | Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70
18 | c3rhfB_ |
|  | 19.4 | 16 | PDB header:transferase Chain: B: PDB Molecule:putative polyphosphate kinase 2 family protein; PDBTitle: crystal structure of polyphosphate kinase 2 from arthrobacter2 aurescens tc1
19 | c2ju2A_ |
|  | 19.1 | 12 | PDB header:transferase Chain: A: PDB Molecule:erythronolide synthase; PDBTitle: minimized mean solution structure of the acyl carrier2 protein domain from module 2 of 6-deoxyerythronolide b3 synthase (debs)
20 | c3gitA_ |
|  | 18.3 | 24 | PDB header:transferase Chain: A: PDB Molecule:carbon monoxide dehydrogenase/acetyl-coa synthase subunit PDBTitle: crystal structure of a truncated acetyl-coa synthase
21 | c3czpA_ |
| not modelled | 15.5 | 18 | PDB header:transferase Chain: A: PDB Molecule:putative polyphosphate kinase 2; PDBTitle: crystal structure of putative polyphosphate kinase 2 from pseudomonas2 aeruginosa pa01
22 | d1c0fa1 |
| not modelled | 14.6 | 16 | Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Actin/HSP70
23 | c2fvgA_ |
| not modelled | 14.6 | 13 | PDB header:hydrolase Chain: A: PDB Molecule:endoglucanase; PDBTitle: crystal structure of endoglucanase (tm1049) from thermotoga maritima2 at 2.01 a resolution
24 | d1aoza3 |
| not modelled | 13.7 | 67 | Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins
25 | d1kyaa3 |
| not modelled | 13.5 | 67 | Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins
26 | c1sqlN_ |
| not modelled | 12.6 | 20 | PDB header:lyase Chain: N: PDB Molecule:dihydroneopterin aldolase; PDBTitle: crystal structure of 7,8-dihydroneopterin aldolase in2 complex with guanine
27 | d2q9oa3 |
| not modelled | 11.1 | 67 | Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins
28 | d1b9la_ |
| not modelled | 10.8 | 9 | Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:DHN aldolase/epimerase
29 | d1ru3a_ |
| not modelled | 10.3 | 25 | Fold:Prismane protein-like Superfamily:Prismane protein-like Family:Acetyl-CoA synthase
30 | d1hfua3 |
| not modelled | 9.7 | 67 | Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins
31 | c3qb0C_ |
| not modelled | 9.4 | 10 | PDB header:structural protein Chain: C: PDB Molecule:actin-related protein 4; PDBTitle: crystal structure of actin-related protein arp4 from s. cerevisiae2 complexed with atp
32 | d1jjca_ |
| not modelled | 9.2 | 22 | Fold:Class II aaRS and biotin synthetases Superfamily:Class II aaRS and biotin synthetases Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
33 | c2pe3A_ |
| not modelled | 9.1 | 18 | PDB header:hydrolase Chain: A: PDB Molecule:354aa long hypothetical operon protein frv; PDBTitle: crystal structure of frv operon protein frvx (ph1821)from pyrococcus2 horikoshii ot3
34 | d1td6a_ |
| not modelled | 9.0 | 19 | Fold:Hypothetical protein MPN330 Superfamily:Hypothetical protein MPN330 Family:Hypothetical protein MPN330
35 | d2h1ta1 |
| not modelled | 9.0 | 33 | Fold:Spiral beta-roll Superfamily:PA1994-like Family:PA1994-like
36 | d1sqla_ |
| not modelled | 8.6 | 20 | Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:DHN aldolase/epimerase
37 | d1gyca3 |
| not modelled | 8.1 | 67 | Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins
38 | c3czqA_ |
| not modelled | 7.5 | 14 | PDB header:transferase Chain: A: PDB Molecule:putative polyphosphate kinase 2; PDBTitle: crystal structure of putative polyphosphate kinase 2 from2 sinorhizobium meliloti
39 | c3sqgF_ |
| not modelled | 7.5 | 33 | PDB header:transferase Chain: F: PDB Molecule:methyl-coenzyme m reductase, gamma subunit; PDBTitle: crystal structure of a methyl-coenzyme m reductase purified from black2 sea mats
40 | c2afdA_ |
| not modelled | 7.4 | 31 | PDB header:ligand binding protein Chain: A: PDB Molecule:protein asl1650; PDBTitle: solution structure of asl1650, an acyl carrier protein from anabaena2 sp. pcc 7120 with a variant phosphopantetheinylation-site sequence
41 | d1nbua_ |
| not modelled | 6.9 | 18 | Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:DHN aldolase/epimerase
42 | d1hbnc_ |
| not modelled | 6.9 | 39 | Fold:Ferredoxin-like Superfamily:Methyl-coenzyme M reductase subunits Family:Methyl-coenzyme M reductase gamma chain
43 | d2gdwa1 |
| not modelled | 6.5 | 31 | Fold:Acyl carrier protein-like Superfamily:ACP-like Family:Peptidyl carrier domain
44 | c1zpuE_ |
| not modelled | 6.5 | 56 | PDB header:oxidoreductase Chain: E: PDB Molecule:iron transport multicopper oxidase fet3; PDBTitle: crystal structure of fet3p, a multicopper oxidase that functions in2 iron import
45 | c1zvbC_ |
| not modelled | 6.2 | 24 | PDB header:viral protein Chain: C: PDB Molecule:e2 glycoprotein; PDBTitle: a structure-based mechanism of sars virus membrane fusion
46 | d1e6yc_ |
| not modelled | 6.0 | 39 | Fold:Ferredoxin-like Superfamily:Methyl-coenzyme M reductase subunits Family:Methyl-coenzyme M reductase gamma chain
47 | c2gejA_ |
| not modelled | 5.7 | 14 | PDB header:transferase Chain: A: PDB Molecule:phosphatidylinositol mannosyltransferase (pima); PDBTitle: crystal structure of phosphatidylinositol mannosyltransferase (pima)2 from mycobacterium smegmatis in complex with gdp-man
48 | c1b70A_ |
| not modelled | 5.6 | 22 | PDB header:ligase Chain: A: PDB Molecule:phenylalanyl-trna synthetase; PDBTitle: phenylalanyl trna synthetase complexed with phenylalanine
49 | c2ihr1_ |
| not modelled | 5.5 | 29 | PDB header:translation Chain: 1: PDB Molecule:peptide chain release factor 2; PDBTitle: rf2 of thermus thermophilus
50 | d1v10a3 |
| not modelled | 5.3 | 67 | Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins
51 | d1e6vc_ |
| not modelled | 5.3 | 28 | Fold:Ferredoxin-like Superfamily:Methyl-coenzyme M reductase subunits Family:Methyl-coenzyme M reductase gamma chain
52 | c3abgA_ |
| not modelled | 5.2 | 33 | PDB header:oxidoreductase Chain: A: PDB Molecule:bilirubin oxidase; PDBTitle: x-ray crystal analysis of bilirubin oxidase from myrothecium2 verrucaria at 2.3 angstrom resolution using a twin crystal

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