Phyre 2 Results for Q9JMS4

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Email | l.a.kelley@imperial.ac.uk
Description | Q9JMS4
Date | Wed Jan 25 15:21:16 GMT 2012
Unique Job ID | 4f463024f7bf1dcf

Summary |

Top model
Image coloured by rainbow N → C terminus
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Model (left) based on template d1avwb_
Top template information
Fold:beta-Trefoil Superfamily:STI-like Family:Kunitz (STI) inhibitors
Confidence and coverage
Confidence: | 37.6% | Coverage: | 22%
20 residues ( 22% of your sequence) have been modelled with 37.6% confidence by the single highest scoring template.
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3D viewing
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Sequence analysis |

Secondary structure and disorder prediction |

|  | 1 | . | . | . | . | . | . | . | . | 10 | . | . | . | . | . | . | . | . | . | 20 | . | . | . | . | . | . | . | . | . | 30 | . | . | . | . | . | . | . | . | . | 40 | . | . | . | . | . | . | . | . | . | 50 | . | . | . | . | . | . | . | . | . | 60
Sequence |  | M | Y | F | M | T | K | K | M | L | T | F | V | Q | T | P | K | E | G | L | S | F | A | M | T | T | Y | L | N | L | F | V | K | L | L | I | F | L | Y | I | Q | N | T | K | A | C | L | S | I | N | N | V | N | N | N | S | K | N | K | L | R
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  | ? | ? | ? |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | .
Sequence |  | S | G | V | S | Y | Y | I | I | N | L | K | M | S | M | L | F | T | E | Q | I | V | T | I | Y | N | K | L | I | F
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 |
| d1avwb_ |

### PDB 1avw chain B

Region: 49 - 68
Aligned: 20
Modelled: 20
Confidence: 37.6%
Identity: 40%
Fold: beta-Trefoil
Superfamily: STI-like
Family: Kunitz (STI) inhibitors

Phyre2
2 |
| d1eyla_ |

### PDB 1eyl chain A

Region: 49 - 68
Aligned: 20
Modelled: 20
Confidence: 34.2%
Identity: 20%
Fold: beta-Trefoil
Superfamily: STI-like
Family: Kunitz (STI) inhibitors

Phyre2
3 |
| d3bx1c1 |

### PDB 3bx1 chain C domain 1

Region: 51 - 68
Aligned: 18
Modelled: 18
Confidence: 32.4%
Identity: 28%
Fold: beta-Trefoil
Superfamily: STI-like
Family: Kunitz (STI) inhibitors

Phyre2
4 |
| c3s8jB_ |

### PDB 3s8j chain B

Region: 51 - 68
Aligned: 18
Modelled: 18
Confidence: 31.6%
Identity: 17%
PDB header:hydrolase inhibitor
Chain: B: PDB Molecule:latex serine proteinase inhibitor;
PDBTitle: crystal structure of a papaya latex serine protease inhibitor (ppi) at2 2.6a resolution

Phyre2
5 |
| c2qn4B_ |

### PDB 2qn4 chain B

Region: 47 - 68
Aligned: 22
Modelled: 22
Confidence: 27.4%
Identity: 23%
PDB header:hydrolase inhibitor
Chain: B: PDB Molecule:alpha-amylase/subtilisin inhibitor;
PDBTitle: structure and function study of rice bifunctional alpha-2 amylase/subtilisin inhibitor from oryza sativa

Phyre2
6 |
| c2dreA_ |

### PDB 2dre chain A

Region: 51 - 68
Aligned: 18
Modelled: 18
Confidence: 27.3%
Identity: 28%
PDB header:plant protein
Chain: A: PDB Molecule:water-soluble chlorophyll protein;
PDBTitle: crystal structure of water-soluble chlorophyll protein from2 lepidium virginicum at 2.00 angstrom resolution

Phyre2
7 |
| d1tiea_ |

### PDB 1tie chain A

Region: 51 - 68
Aligned: 18
Modelled: 18
Confidence: 26.6%
Identity: 17%
Fold: beta-Trefoil
Superfamily: STI-like
Family: Kunitz (STI) inhibitors

Phyre2
8 |
| d1wbaa_ |

### PDB 1wba chain A

Region: 49 - 68
Aligned: 20
Modelled: 20
Confidence: 25.7%
Identity: 30%
Fold: beta-Trefoil
Superfamily: STI-like
Family: Kunitz (STI) inhibitors

Phyre2
9 |
| d1r8na_ |

### PDB 1r8n chain A

Region: 51 - 68
Aligned: 18
Modelled: 18
Confidence: 24.9%
Identity: 28%
Fold: beta-Trefoil
Superfamily: STI-like
Family: Kunitz (STI) inhibitors

Phyre2
10 |
| c3iirA_ |

### PDB 3iir chain A

Region: 49 - 68
Aligned: 20
Modelled: 20
Confidence: 23.9%
Identity: 15%
PDB header:hydrolase inhibitor
Chain: A: PDB Molecule:trypsin inhibitor;
PDBTitle: crystal structure of miraculin like protein from seeds of murraya2 koenigii

Phyre2
11 |
| c1r8oA_ |

### PDB 1r8o chain A

Region: 51 - 68
Aligned: 18
Modelled: 18
Confidence: 14.1%
Identity: 22%
PDB header:hydrolase inhibitor
Chain: A: PDB Molecule:kunitz trypsin inhibitor;
PDBTitle: crystal structure of an unusual kunitz-type trypsin inhibitor from2 copaifera langsdorffii seeds

Phyre2
12 |
| c2go2A_ |

### PDB 2go2 chain A

Region: 51 - 68
Aligned: 18
Modelled: 18
Confidence: 13.5%
Identity: 22%
PDB header:protein binding
Chain: A: PDB Molecule:kunitz-type serine protease inhibitor bbki;
PDBTitle: crystal structure of bbki, a kunitz-type kallikrein inhibitor

Phyre2
13 |
| d1sdoa_ |

### PDB 1sdo chain A

Region: 24 - 66
Aligned: 42
Modelled: 43
Confidence: 10.6%
Identity: 31%
Fold: Restriction endonuclease-like
Superfamily: Restriction endonuclease-like
Family: Restriction endonuclease BstyI

Phyre2
14 |
| c3rnvA_ |

### PDB 3rnv chain A

Region: 15 - 43
Aligned: 24
Modelled: 29
Confidence: 8.8%
Identity: 33%
PDB header:hydrolase
Chain: A: PDB Molecule:helper component proteinase;
PDBTitle: structure of the autocatalytic cysteine protease domain of potyvirus2 helper-component proteinase

Phyre2
15 |
| d1agga_ |

### PDB 1agg chain A

Region: 17 - 22
Aligned: 6
Modelled: 6
Confidence: 7.0%
Identity: 100%
Fold: Knottins (small inhibitors, toxins, lectins)
Superfamily: omega toxin-like
Family: Spider toxins

Phyre2
16 |
| d1e88a3 |

### PDB 1e88 chain A domain 3

Region: 61 - 66
Aligned: 6
Modelled: 6
Confidence: 5.7%
Identity: 67%
Fold: FnI-like domain
Superfamily: FnI-like domain
Family: Fibronectin type I module

Phyre2

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1avwb_ |
|  | 37.6 | 40 | Fold:beta-Trefoil Superfamily:STI-like Family:Kunitz (STI) inhibitors
2 | d1eyla_ |
|  | 34.2 | 20 | Fold:beta-Trefoil Superfamily:STI-like Family:Kunitz (STI) inhibitors
3 | d3bx1c1 |
|  | 32.4 | 28 | Fold:beta-Trefoil Superfamily:STI-like Family:Kunitz (STI) inhibitors
4 | c3s8jB_ |
|  | 31.6 | 17 | PDB header:hydrolase inhibitor Chain: B: PDB Molecule:latex serine proteinase inhibitor; PDBTitle: crystal structure of a papaya latex serine protease inhibitor (ppi) at2 2.6a resolution
5 | c2qn4B_ |
|  | 27.4 | 23 | PDB header:hydrolase inhibitor Chain: B: PDB Molecule:alpha-amylase/subtilisin inhibitor; PDBTitle: structure and function study of rice bifunctional alpha-2 amylase/subtilisin inhibitor from oryza sativa
6 | c2dreA_ |
|  | 27.3 | 28 | PDB header:plant protein Chain: A: PDB Molecule:water-soluble chlorophyll protein; PDBTitle: crystal structure of water-soluble chlorophyll protein from2 lepidium virginicum at 2.00 angstrom resolution
7 | d1tiea_ |
|  | 26.6 | 17 | Fold:beta-Trefoil Superfamily:STI-like Family:Kunitz (STI) inhibitors
8 | d1wbaa_ |
|  | 25.7 | 30 | Fold:beta-Trefoil Superfamily:STI-like Family:Kunitz (STI) inhibitors
9 | d1r8na_ |
|  | 24.9 | 28 | Fold:beta-Trefoil Superfamily:STI-like Family:Kunitz (STI) inhibitors
10 | c3iirA_ |
|  | 23.9 | 15 | PDB header:hydrolase inhibitor Chain: A: PDB Molecule:trypsin inhibitor; PDBTitle: crystal structure of miraculin like protein from seeds of murraya2 koenigii
11 | c1r8oA_ |
|  | 14.1 | 22 | PDB header:hydrolase inhibitor Chain: A: PDB Molecule:kunitz trypsin inhibitor; PDBTitle: crystal structure of an unusual kunitz-type trypsin inhibitor from2 copaifera langsdorffii seeds
12 | c2go2A_ |
|  | 13.5 | 22 | PDB header:protein binding Chain: A: PDB Molecule:kunitz-type serine protease inhibitor bbki; PDBTitle: crystal structure of bbki, a kunitz-type kallikrein inhibitor
13 | d1sdoa_ |
|  | 10.6 | 31 | Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Restriction endonuclease BstyI
14 | c3rnvA_ |
|  | 8.8 | 33 | PDB header:hydrolase Chain: A: PDB Molecule:helper component proteinase; PDBTitle: structure of the autocatalytic cysteine protease domain of potyvirus2 helper-component proteinase
15 | d1agga_ |
|  | 7.0 | 100 | Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:omega toxin-like Family:Spider toxins
16 | d1e88a3 |
|  | 5.7 | 67 | Fold:FnI-like domain Superfamily:FnI-like domain Family:Fibronectin type I module

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