Phyre 2 Results for P27838

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Email | l.a.kelley@imperial.ac.uk
Description | P27838
Date | Thu Jan 5 11:44:15 GMT 2012
Unique Job ID | 3c422c0c60364a98

Summary |

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

Model (left) based on template d1ew4a_
Top template information
Fold:N domain of copper amine oxidase-like Superfamily:Frataxin/Nqo15-like Family:Frataxin-like
Confidence and coverage
Confidence: | 100.0% | Coverage: | 100%
106 residues (100% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis |

Secondary structure and disorder prediction |

|  | 1 | . | . | . | . | . | . | . | . | 10 | . | . | . | . | . | . | . | . | . | 20 | . | . | . | . | . | . | . | . | . | 30 | . | . | . | . | . | . | . | . | . | 40 | . | . | . | . | . | . | . | . | . | 50 | . | . | . | . | . | . | . | . | . | 60
Sequence |  | M | N | D | S | E | F | H | R | L | A | D | Q | L | W | L | T | I | E | E | R | L | D | D | W | D | G | D | S | D | I | D | C | E | I | N | G | G | V | L | T | I | T | F | E | N | G | S | K | I | I | I | N | R | Q | E | P | L | H | Q | V
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | .
Sequence |  | W | L | A | T | K | Q | G | G | Y | H | F | D | L | K | G | D | E | W | I | C | D | R | S | G | E | T | F | W | D | L | L | E | Q | A | A | T | Q | Q | A | G | E | T | V | S | F | R
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 |
| d1ew4a_ |

### PDB 1ew4 chain A

Region: 1 - 106
Aligned: 106
Modelled: 106
Confidence: 100.0%
Identity: 100%
Fold: N domain of copper amine oxidase-like
Superfamily: Frataxin/Nqo15-like
Family: Frataxin-like

Phyre2
2 |
| d1ekga_ |

### PDB 1ekg chain A

Region: 1 - 106
Aligned: 106
Modelled: 106
Confidence: 100.0%
Identity: 25%
Fold: N domain of copper amine oxidase-like
Superfamily: Frataxin/Nqo15-like
Family: Frataxin-like

Phyre2
3 |
| d2ga5a1 |

### PDB 2ga5 chain A domain 1

Region: 1 - 102
Aligned: 102
Modelled: 102
Confidence: 100.0%
Identity: 27%
Fold: N domain of copper amine oxidase-like
Superfamily: Frataxin/Nqo15-like
Family: Frataxin-like

Phyre2
4 |
| d2fqla1 |

### PDB 2fql chain A domain 1

Region: 1 - 101
Aligned: 101
Modelled: 101
Confidence: 100.0%
Identity: 28%
Fold: N domain of copper amine oxidase-like
Superfamily: Frataxin/Nqo15-like
Family: Frataxin-like

Phyre2
5 |
| d1xkpb1 |

### PDB 1xkp chain B domain 1

Region: 17 - 70
Aligned: 54
Modelled: 54
Confidence: 61.4%
Identity: 11%
Fold: Secretion chaperone-like
Superfamily: Type III secretory system chaperone-like
Family: Type III secretory system chaperone

Phyre2
6 |
| c1q40C_ |

### PDB 1q40 chain C

Region: 43 - 65
Aligned: 23
Modelled: 23
Confidence: 32.2%
Identity: 43%
PDB header:translation
Chain: C: PDB Molecule:mrna transport regulator mtr2;
PDBTitle: crystal structure of the c. albicans mtr2-mex67 m domain complex

Phyre2
7 |
| d1mbya_ |

### PDB 1mby chain A

Region: 29 - 75
Aligned: 45
Modelled: 47
Confidence: 29.1%
Identity: 13%
Fold: Polo-box domain
Superfamily: Polo-box domain
Family: Swapped Polo-box domain

Phyre2
8 |
| d2ebsa1 |

### PDB 2ebs chain A domain 1

Region: 49 - 83
Aligned: 34
Modelled: 35
Confidence: 23.9%
Identity: 24%
Fold: 7-bladed beta-propeller
Superfamily: Oligoxyloglucan reducing end-specific cellobiohydrolase
Family: Oligoxyloglucan reducing end-specific cellobiohydrolase

Phyre2
9 |
| d2ogqa2 |

### PDB 2ogq chain A domain 2

Region: 32 - 54
Aligned: 23
Modelled: 23
Confidence: 22.1%
Identity: 26%
Fold: Polo-box domain
Superfamily: Polo-box domain
Family: Polo-box duplicated region

Phyre2
10 |
| d3e11a1 |

### PDB 3e11 chain A domain 1

Region: 1 - 33
Aligned: 33
Modelled: 33
Confidence: 21.0%
Identity: 15%
Fold: Zincin-like
Superfamily: Metalloproteases ("zincins"), catalytic domain
Family: TTHA0227-like

Phyre2
11 |
| d1q42a_ |

### PDB 1q42 chain A

Region: 43 - 65
Aligned: 23
Modelled: 23
Confidence: 20.4%
Identity: 43%
Fold: Cystatin-like
Superfamily: NTF2-like
Family: NTF2-like

Phyre2
12 |
| c1umwB_ |

### PDB 1umw chain B

Region: 32 - 54
Aligned: 23
Modelled: 23
Confidence: 19.5%
Identity: 22%
PDB header:kinase
Chain: B: PDB Molecule:serine/threonine-protein kinase plk;
PDBTitle: structure of a human plk1 polo-box domain/phosphopeptide2 complex

Phyre2
13 |
| c2bsgA_ |

### PDB 2bsg chain A

Region: 64 - 83
Aligned: 20
Modelled: 20
Confidence: 18.8%
Identity: 20%
PDB header:viral protein
Chain: A: PDB Molecule:fibritin;
PDBTitle: the modeled structure of fibritin (gpwac) of bacteriophage2 t4 based on cryo-em reconstruction of the extended tail of3 bacteriophage t4

Phyre2
14 |
| c2v5iA_ |

### PDB 2v5i chain A

Region: 13 - 79
Aligned: 67
Modelled: 67
Confidence: 18.1%
Identity: 24%
PDB header:viral protein
Chain: A: PDB Molecule:salmonella typhimurium db7155 bacteriophage det7
PDBTitle: structure of the receptor-binding protein of bacteriophage2 det7: a podoviral tailspike in a myovirus

Phyre2
15 |
| d2azeb1 |

### PDB 2aze chain B domain 1

Region: 38 - 68
Aligned: 31
Modelled: 31
Confidence: 14.4%
Identity: 23%
Fold: E2F-DP heterodimerization region
Superfamily: E2F-DP heterodimerization region
Family: E2F dimerization segment

Phyre2
16 |
| c3aabA_ |

### PDB 3aab chain A

Region: 23 - 44
Aligned: 22
Modelled: 22
Confidence: 12.9%
Identity: 32%
PDB header:chaperone
Chain: A: PDB Molecule:putative uncharacterized protein st1653;
PDBTitle: small heat shock protein hsp14.0 with the mutations of i120f and i122f2 in the form i crystal

Phyre2
17 |
| d2h50a1 |

### PDB 2h50 chain A domain 1

Region: 26 - 44
Aligned: 19
Modelled: 19
Confidence: 12.7%
Identity: 26%
Fold: HSP20-like chaperones
Superfamily: HSP20-like chaperones
Family: HSP20

Phyre2
18 |
| c2v1lA_ |

### PDB 2v1l chain A

Region: 9 - 70
Aligned: 37
Modelled: 48
Confidence: 12.4%
Identity: 19%
PDB header:unknown function
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: structure of the conserved hypothetical protein vc1805 from2 pathogenicity island vpi-2 of vibrio cholerae o1 biovar3 eltor str. n16961 shares structural homology with the4 human p32 protein

Phyre2
19 |
| d1gmea_ |

### PDB 1gme chain A

Region: 26 - 44
Aligned: 19
Modelled: 19
Confidence: 11.6%
Identity: 26%
Fold: HSP20-like chaperones
Superfamily: HSP20-like chaperones
Family: HSP20

Phyre2
20 |
| c3nrlB_ |

### PDB 3nrl chain B

Region: 67 - 82
Aligned: 16
Modelled: 16
Confidence: 11.6%
Identity: 50%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein rumgna_01417;
PDBTitle: crystal structure of protein rumgna_01417 from ruminococcus gnavus,2 northeast structural genomics consortium target ugr76

Phyre2
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53 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1ew4a_ |
|  | 100.0 | 100 | Fold:N domain of copper amine oxidase-like Superfamily:Frataxin/Nqo15-like Family:Frataxin-like
2 | d1ekga_ |
|  | 100.0 | 25 | Fold:N domain of copper amine oxidase-like Superfamily:Frataxin/Nqo15-like Family:Frataxin-like
3 | d2ga5a1 |
|  | 100.0 | 27 | Fold:N domain of copper amine oxidase-like Superfamily:Frataxin/Nqo15-like Family:Frataxin-like
4 | d2fqla1 |
|  | 100.0 | 28 | Fold:N domain of copper amine oxidase-like Superfamily:Frataxin/Nqo15-like Family:Frataxin-like
5 | d1xkpb1 |
|  | 61.4 | 11 | Fold:Secretion chaperone-like Superfamily:Type III secretory system chaperone-like Family:Type III secretory system chaperone
6 | c1q40C_ |
|  | 32.2 | 43 | PDB header:translation Chain: C: PDB Molecule:mrna transport regulator mtr2; PDBTitle: crystal structure of the c. albicans mtr2-mex67 m domain complex
7 | d1mbya_ |
|  | 29.1 | 13 | Fold:Polo-box domain Superfamily:Polo-box domain Family:Swapped Polo-box domain
8 | d2ebsa1 |
|  | 23.9 | 24 | Fold:7-bladed beta-propeller Superfamily:Oligoxyloglucan reducing end-specific cellobiohydrolase Family:Oligoxyloglucan reducing end-specific cellobiohydrolase
9 | d2ogqa2 |
|  | 22.1 | 26 | Fold:Polo-box domain Superfamily:Polo-box domain Family:Polo-box duplicated region
10 | d3e11a1 |
|  | 21.0 | 15 | Fold:Zincin-like Superfamily:Metalloproteases ("zincins"), catalytic domain Family:TTHA0227-like
11 | d1q42a_ |
|  | 20.4 | 43 | Fold:Cystatin-like Superfamily:NTF2-like Family:NTF2-like
12 | c1umwB_ |
|  | 19.5 | 22 | PDB header:kinase Chain: B: PDB Molecule:serine/threonine-protein kinase plk; PDBTitle: structure of a human plk1 polo-box domain/phosphopeptide2 complex
13 | c2bsgA_ |
|  | 18.8 | 20 | PDB header:viral protein Chain: A: PDB Molecule:fibritin; PDBTitle: the modeled structure of fibritin (gpwac) of bacteriophage2 t4 based on cryo-em reconstruction of the extended tail of3 bacteriophage t4
14 | c2v5iA_ |
|  | 18.1 | 24 | PDB header:viral protein Chain: A: PDB Molecule:salmonella typhimurium db7155 bacteriophage det7 PDBTitle: structure of the receptor-binding protein of bacteriophage2 det7: a podoviral tailspike in a myovirus
15 | d2azeb1 |
|  | 14.4 | 23 | Fold:E2F-DP heterodimerization region Superfamily:E2F-DP heterodimerization region Family:E2F dimerization segment
16 | c3aabA_ |
|  | 12.9 | 32 | PDB header:chaperone Chain: A: PDB Molecule:putative uncharacterized protein st1653; PDBTitle: small heat shock protein hsp14.0 with the mutations of i120f and i122f2 in the form i crystal
17 | d2h50a1 |
|  | 12.7 | 26 | Fold:HSP20-like chaperones Superfamily:HSP20-like chaperones Family:HSP20
18 | c2v1lA_ |
|  | 12.4 | 19 | PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: structure of the conserved hypothetical protein vc1805 from2 pathogenicity island vpi-2 of vibrio cholerae o1 biovar3 eltor str. n16961 shares structural homology with the4 human p32 protein
19 | d1gmea_ |
|  | 11.6 | 26 | Fold:HSP20-like chaperones Superfamily:HSP20-like chaperones Family:HSP20
20 | c3nrlB_ |
|  | 11.6 | 50 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein rumgna_01417; PDBTitle: crystal structure of protein rumgna_01417 from ruminococcus gnavus,2 northeast structural genomics consortium target ugr76
21 | c2qlvB_ |
| not modelled | 11.3 | 16 | PDB header:transferase/protein binding Chain: B: PDB Molecule:protein sip2; PDBTitle: crystal structure of the heterotrimer core of the s.2 cerevisiae ampk homolog snf1
22 | c3nmeA_ |
| not modelled | 11.3 | 16 | PDB header:hydrolase Chain: A: PDB Molecule:sex4 glucan phosphatase; PDBTitle: structure of a plant phosphatase
23 | c3btpA_ |
| not modelled | 11.1 | 33 | PDB header:dna binding protein, chaperone Chain: A: PDB Molecule:single-strand dna-binding protein; PDBTitle: crystal structure of agrobacterium tumefaciens vire2 in complex with2 its chaperone vire1: a novel fold and implications for dna binding
24 | d2qlvb1 |
| not modelled | 11.0 | 16 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:AMPK-beta glycogen binding domain-like
25 | c3igmA_ |
| not modelled | 11.0 | 10 | PDB header:transcription/dna Chain: A: PDB Molecule:pf14_0633 protein; PDBTitle: a 2.2a crystal structure of the ap2 domain of pf14_0633 from p.2 falciparum, bound as a domain-swapped dimer to its cognate dna
26 | d1gmeb_ |
| not modelled | 10.6 | 26 | Fold:HSP20-like chaperones Superfamily:HSP20-like chaperones Family:HSP20
27 | d2f15a1 |
| not modelled | 10.2 | 18 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:AMPK-beta glycogen binding domain-like
28 | d2je8a2 |
| not modelled | 9.5 | 6 | Fold:Immunoglobulin-like beta-sandwich Superfamily:beta-Galactosidase/glucuronidase domain Family:beta-Galactosidase/glucuronidase domain
29 | d1yuaa2 |
| not modelled | 8.9 | 18 | Fold:Rubredoxin-like Superfamily:Zinc beta-ribbon Family:Prokaryotic DNA topoisomerase I, a C-terminal fragment
30 | d1z0mb1 |
| not modelled | 8.7 | 21 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:AMPK-beta glycogen binding domain-like
31 | c2euzA_ |
| not modelled | 8.6 | 33 | PDB header:cell cycle/dna Chain: A: PDB Molecule:ndt80 protein; PDBTitle: structure of a ndt80-dna complex (mse mutant mc5t)
32 | d1mnna_ |
| not modelled | 8.6 | 33 | Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:p53-like transcription factors Family:DNA-binding domain from NDT80
33 | c3glaA_ |
| not modelled | 8.3 | 26 | PDB header:chaperone Chain: A: PDB Molecule:low molecular weight heat shock protein; PDBTitle: crystal structure of the hspa from xanthomonas axonopodis
34 | c1yuaA_ |
| not modelled | 7.8 | 18 | PDB header:dna binding protein Chain: A: PDB Molecule:topoisomerase i; PDBTitle: c-terminal domain of escherichia coli topoisomerase i
35 | d1z0na1 |
| not modelled | 7.6 | 18 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:AMPK-beta glycogen binding domain-like
36 | c2yz0A_ |
| not modelled | 7.5 | 10 | PDB header:transferase Chain: A: PDB Molecule:serine/threonine-protein kinase gcn2; PDBTitle: solution structure of rwd/gi domain of saccharomyces2 cerevisiae gcn2
37 | c2vecA_ |
| not modelled | 7.4 | 19 | PDB header:cytosolic protein Chain: A: PDB Molecule:pirin-like protein yhak; PDBTitle: the crystal structure of the protein yhak from escherichia2 coli
38 | d1veha_ |
| not modelled | 6.8 | 18 | Fold:Alpha-lytic protease prodomain-like Superfamily:Fe-S cluster assembly (FSCA) domain-like Family:NifU C-terminal domain-like
39 | d1xhja_ |
| not modelled | 6.7 | 8 | Fold:Alpha-lytic protease prodomain-like Superfamily:Fe-S cluster assembly (FSCA) domain-like Family:NifU C-terminal domain-like
40 | c2pmzQ_ |
| not modelled | 6.1 | 28 | PDB header:translation, transferase Chain: Q: PDB Molecule:dna-directed rna polymerase subunit a; PDBTitle: archaeal rna polymerase from sulfolobus solfataricus
41 | d2p3ya1 |
| not modelled | 6.1 | 19 | Fold:VPA0735-like Superfamily:VPA0735-like Family:VPA0735-like
42 | c2p3yA_ |
| not modelled | 6.1 | 19 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein vpa0735; PDBTitle: crystal structure of vpa0735 from vibrio parahaemolyticus. northeast2 structural genomics target vpr109
43 | c3q9qB_ |
| not modelled | 6.0 | 16 | PDB header:chaperone Chain: B: PDB Molecule:heat shock protein beta-1; PDBTitle: hspb1 fragment second crystal form
44 | d1shsa_ |
| not modelled | 6.0 | 16 | Fold:HSP20-like chaperones Superfamily:HSP20-like chaperones Family:HSP20
45 | c1shsD_ |
| not modelled | 6.0 | 16 | PDB header:heat shock protein Chain: D: PDB Molecule:small heat shock protein; PDBTitle: small heat shock protein from methanococcus jannaschii
46 | c3n23E_ |
| not modelled | 5.6 | 17 | PDB header:hydrolase Chain: E: PDB Molecule:na+/k+ atpase gamma subunit transcript variant a; PDBTitle: crystal structure of the high affinity complex between ouabain and the2 e2p form of the sodium-potassium pump
47 | c2wj5A_ |
| not modelled | 5.5 | 21 | PDB header:chaperone Chain: A: PDB Molecule:heat shock protein beta-6; PDBTitle: rat alpha crystallin domain
48 | c2k38A_ |
| not modelled | 5.5 | 40 | PDB header:antimicrobial protein Chain: A: PDB Molecule:cupiennin-1a; PDBTitle: cupiennin 1a, nmr, minimized average structure
49 | d1j1la_ |
| not modelled | 5.4 | 20 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Pirin-like
50 | c3k6qB_ |
| not modelled | 5.4 | 7 | PDB header:ligand binding protein Chain: B: PDB Molecule:putative ligand binding protein; PDBTitle: crystal structure of an antitoxin part of a putative toxin/antitoxin2 system (swol_0700) from syntrophomonas wolfei subsp. wolfei at 1.80 a3 resolution
51 | d1ro0a_ |
| not modelled | 5.3 | 36 | Fold:Prim-pol domain Superfamily:Prim-pol domain Family:Bifunctional DNA primase/polymerase N-terminal domain
52 | c2x6vB_ |
| not modelled | 5.2 | 7 | PDB header:transcription/dna Chain: B: PDB Molecule:t-box transcription factor tbx5; PDBTitle: crystal structure of human tbx5 in the dna-bound and dna-2 free form
53 | d1p5ta_ |
| not modelled | 5.1 | 21 | Fold:PH domain-like barrel Superfamily:PH domain-like Family:Phosphotyrosine-binding domain (PTB)

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