Phyre 2 Results for P77307

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Email | l.a.kelley@imperial.ac.uk
Description | P77307
Date | Thu Jan 5 12:27:34 GMT 2012
Unique Job ID | 806ffb3b4e4c7347

Summary |

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

Model (left) based on template c3k07A_
Top template information
PDB header:transport protein Chain: A: PDB Molecule:cation efflux system protein cusa; PDBTitle: crystal structure of cusa
Confidence and coverage
Confidence: | 95.6% | Coverage: | 73%
189 residues ( 73% of your sequence) have been modelled with 95.6% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
249 residues ( 96%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis |

Secondary structure and disorder prediction |

|  | 1 | . | . | . | . | . | . | . | . | 10 | . | . | . | . | . | . | . | . | . | 20 | . | . | . | . | . | . | . | . | . | 30 | . | . | . | . | . | . | . | . | . | 40 | . | . | . | . | . | . | . | . | . | 50 | . | . | . | . | . | . | . | . | . | 60
Sequence |  | M | N | S | H | N | I | T | N | E | S | L | A | L | A | L | M | L | V | V | V | A | I | L | I | S | H | K | E | K | L | A | L | E | K | D | I | L | W | S | V | G | R | A | I | I | Q | L | I | I | V | G | Y | V | L | K | Y | I | F | S | V
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  | ? |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | D | D | A | S | L | T | L | L | M | V | L | F | I | C | F | N | A | A | W | N | A | Q | K | R | S | K | Y | I | A | K | A | F | I | S | S | F | I | A | I | T | V | G | A | G | I | T | L | A | V | L | I | L | S | G | S | I | E | F | I | P
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? |  | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | M | Q | V | I | P | I | A | G | M | I | A | G | N | A | M | V | A | V | G | L | C | Y | N | N | L | G | Q | R | V | I | S | E | Q | Q | Q | I | Q | E | K | L | S | L | G | A | T | P | K | Q | A | S | A | I | L | I | R | D | S | I | R | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | A | L | I | P | T | V | D | S | A | K | T | V | G | L | V | S | L | P | G | M | M | S | G | L | I | F | A | G | I | D | P | V | K | A | I | K | Y | Q | I | M | V | T | F | M | L | L | S | T | A | S | L | S | T | I | I | A | C | Y | L | T
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  | ? |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | .
Sequence |  | Y | R | K | F | Y | N | S | R | H | Q | L | V | V | T | Q | L | K | 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 |
| c3k07A_ |

### PDB 3k07 chain A

Region: 61 - 259
Aligned: 189
Modelled: 199
Confidence: 95.6%
Identity: 16%
PDB header:transport protein
Chain: A: PDB Molecule:cation efflux system protein cusa;
PDBTitle: crystal structure of cusa

Phyre2
2 |
| d3d31c1 |

### PDB 3d31 chain C domain 1

Region: 11 - 237
Aligned: 221
Modelled: 224
Confidence: 93.7%
Identity: 12%
Fold: MetI-like
Superfamily: MetI-like
Family: MetI-like

Phyre2
3 |
| c3d31D_ |

### PDB 3d31 chain D

Region: 11 - 237
Aligned: 221
Modelled: 224
Confidence: 93.7%
Identity: 12%
PDB header:transport protein
Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease
PDBTitle: modbc from methanosarcina acetivorans

Phyre2
4 |
| d3dhwa1 |

### PDB 3dhw chain A domain 1

Region: 36 - 234
Aligned: 185
Modelled: 185
Confidence: 92.9%
Identity: 12%
Fold: MetI-like
Superfamily: MetI-like
Family: MetI-like

Phyre2
5 |
| c2r6gF_ |

### PDB 2r6g chain F

Region: 63 - 186
Aligned: 124
Modelled: 124
Confidence: 88.0%
Identity: 13%
PDB header:hydrolase/transport protein
Chain: F: PDB Molecule:maltose transport system permease protein malf;
PDBTitle: the crystal structure of the e. coli maltose transporter

Phyre2
6 |
| d2r6gf2 |

### PDB 2r6g chain F domain 2

Region: 63 - 186
Aligned: 124
Modelled: 124
Confidence: 83.2%
Identity: 12%
Fold: MetI-like
Superfamily: MetI-like
Family: MetI-like

Phyre2
7 |
| c3fh6F_ |

### PDB 3fh6 chain F

Region: 63 - 186
Aligned: 124
Modelled: 124
Confidence: 80.5%
Identity: 12%
PDB header:transport protein
Chain: F: PDB Molecule:maltose transport system permease protein malf;
PDBTitle: crystal structure of the resting state maltose transporter from e.2 coli

Phyre2
8 |
| c2onkC_ |

### PDB 2onk chain C

Region: 11 - 240
Aligned: 215
Modelled: 218
Confidence: 69.7%
Identity: 12%
PDB header:membrane protein
Chain: C: PDB Molecule:molybdate/tungstate abc transporter, permease
PDBTitle: abc transporter modbc in complex with its binding protein2 moda

Phyre2
9 |
| d2onkc1 |

### PDB 2onk chain C domain 1

Region: 11 - 240
Aligned: 215
Modelled: 218
Confidence: 69.7%
Identity: 12%
Fold: MetI-like
Superfamily: MetI-like
Family: MetI-like

Phyre2
10 |
| c3aqpB_ |

### PDB 3aqp chain B

Region: 65 - 242
Aligned: 153
Modelled: 174
Confidence: 65.8%
Identity: 15%
PDB header:membrane protein
Chain: B: PDB Molecule:probable secdf protein-export membrane protein;
PDBTitle: crystal structure of secdf, a translocon-associated membrane protein,2 from thermus thrmophilus

Phyre2
11 |
| d2r6gg1 |

### PDB 2r6g chain G domain 1

Region: 55 - 186
Aligned: 132
Modelled: 132
Confidence: 59.3%
Identity: 11%
Fold: MetI-like
Superfamily: MetI-like
Family: MetI-like

Phyre2
12 |
| d1iwga8 |

### PDB 1iwg chain A domain 8

Region: 59 - 201
Aligned: 123
Modelled: 129
Confidence: 39.5%
Identity: 19%
Fold: Multidrug efflux transporter AcrB transmembrane domain
Superfamily: Multidrug efflux transporter AcrB transmembrane domain
Family: Multidrug efflux transporter AcrB transmembrane domain

Phyre2
13 |
| c2jobA_ |

### PDB 2job chain A

Region: 167 - 183
Aligned: 17
Modelled: 17
Confidence: 35.0%
Identity: 18%
PDB header:lipid binding protein
Chain: A: PDB Molecule:antilipopolysaccharide factor;
PDBTitle: solution structure of an antilipopolysaccharide factor from2 shrimp and its possible lipid a binding site

Phyre2
14 |
| d2gy9p1 |

### PDB 2gy9 chain P domain 1

Region: 152 - 176
Aligned: 25
Modelled: 25
Confidence: 34.5%
Identity: 28%
Fold: Ribosomal protein S16
Superfamily: Ribosomal protein S16
Family: Ribosomal protein S16

Phyre2
15 |
| d2uubp1 |

### PDB 2uub chain P domain 1

Region: 152 - 177
Aligned: 26
Modelled: 26
Confidence: 32.7%
Identity: 27%
Fold: Ribosomal protein S16
Superfamily: Ribosomal protein S16
Family: Ribosomal protein S16

Phyre2
16 |
| d1cuka1 |

### PDB 1cuk chain A domain 1

Region: 150 - 175
Aligned: 26
Modelled: 26
Confidence: 31.5%
Identity: 27%
Fold: RuvA C-terminal domain-like
Superfamily: DNA helicase RuvA subunit, C-terminal domain
Family: DNA helicase RuvA subunit, C-terminal domain

Phyre2
17 |
| d3bn0a1 |

### PDB 3bn0 chain A domain 1

Region: 152 - 177
Aligned: 26
Modelled: 26
Confidence: 27.1%
Identity: 8%
Fold: Ribosomal protein S16
Superfamily: Ribosomal protein S16
Family: Ribosomal protein S16

Phyre2
18 |
| c2akcC_ |

### PDB 2akc chain C

Region: 126 - 162
Aligned: 37
Modelled: 37
Confidence: 24.2%
Identity: 16%
PDB header:hydrolase
Chain: C: PDB Molecule:class a nonspecific acid phosphatase phon;
PDBTitle: crystal structure of tungstate complex of the phon protein2 from s. typhimurium

Phyre2
19 |
| c3i5dC_ |

### PDB 3i5d chain C

Region: 44 - 62
Aligned: 19
Modelled: 19
Confidence: 22.1%
Identity: 21%
PDB header:transport protein
Chain: C: PDB Molecule:p2x purinoceptor;
PDBTitle: crystal structure of the atp-gated p2x4 ion channel in the closed, apo2 state at 3.5 angstroms (r3)

Phyre2
20 |
| c2amwA_ |

### PDB 2amw chain A

Region: 181 - 196
Aligned: 16
Modelled: 16
Confidence: 21.5%
Identity: 31%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein ne2163;
PDBTitle: solution nmr structure of protein ne2163 from nitrosomonas europaea.2 northeast structural genomics consortium target net1.

Phyre2
21 |
22 |
23 |
24 |
25 |
26 |
27 |
28 |
29 |
30 |
31 |
32 |
33 |
34 |
35 |
36 |
37 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c3k07A_ |
|  | 95.6 | 16 | PDB header:transport protein Chain: A: PDB Molecule:cation efflux system protein cusa; PDBTitle: crystal structure of cusa
2 | d3d31c1 |
|  | 93.7 | 12 | Fold:MetI-like Superfamily:MetI-like Family:MetI-like
3 | c3d31D_ |
|  | 93.7 | 12 | PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans
4 | d3dhwa1 |
|  | 92.9 | 12 | Fold:MetI-like Superfamily:MetI-like Family:MetI-like
5 | c2r6gF_ |
|  | 88.0 | 13 | PDB header:hydrolase/transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: the crystal structure of the e. coli maltose transporter
6 | d2r6gf2 |
|  | 83.2 | 12 | Fold:MetI-like Superfamily:MetI-like Family:MetI-like
7 | c3fh6F_ |
|  | 80.5 | 12 | PDB header:transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: crystal structure of the resting state maltose transporter from e.2 coli
8 | c2onkC_ |
|  | 69.7 | 12 | PDB header:membrane protein Chain: C: PDB Molecule:molybdate/tungstate abc transporter, permease PDBTitle: abc transporter modbc in complex with its binding protein2 moda
9 | d2onkc1 |
|  | 69.7 | 12 | Fold:MetI-like Superfamily:MetI-like Family:MetI-like
10 | c3aqpB_ |
|  | 65.8 | 15 | PDB header:membrane protein Chain: B: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: crystal structure of secdf, a translocon-associated membrane protein,2 from thermus thrmophilus
11 | d2r6gg1 |
|  | 59.3 | 11 | Fold:MetI-like Superfamily:MetI-like Family:MetI-like
12 | d1iwga8 |
|  | 39.5 | 19 | Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain
13 | c2jobA_ |
|  | 35.0 | 18 | PDB header:lipid binding protein Chain: A: PDB Molecule:antilipopolysaccharide factor; PDBTitle: solution structure of an antilipopolysaccharide factor from2 shrimp and its possible lipid a binding site
14 | d2gy9p1 |
|  | 34.5 | 28 | Fold:Ribosomal protein S16 Superfamily:Ribosomal protein S16 Family:Ribosomal protein S16
15 | d2uubp1 |
|  | 32.7 | 27 | Fold:Ribosomal protein S16 Superfamily:Ribosomal protein S16 Family:Ribosomal protein S16
16 | d1cuka1 |
|  | 31.5 | 27 | Fold:RuvA C-terminal domain-like Superfamily:DNA helicase RuvA subunit, C-terminal domain Family:DNA helicase RuvA subunit, C-terminal domain
17 | d3bn0a1 |
|  | 27.1 | 8 | Fold:Ribosomal protein S16 Superfamily:Ribosomal protein S16 Family:Ribosomal protein S16
18 | c2akcC_ |
|  | 24.2 | 16 | PDB header:hydrolase Chain: C: PDB Molecule:class a nonspecific acid phosphatase phon; PDBTitle: crystal structure of tungstate complex of the phon protein2 from s. typhimurium
19 | c3i5dC_ |
|  | 22.1 | 21 | PDB header:transport protein Chain: C: PDB Molecule:p2x purinoceptor; PDBTitle: crystal structure of the atp-gated p2x4 ion channel in the closed, apo2 state at 3.5 angstroms (r3)
20 | c2amwA_ |
|  | 21.5 | 31 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ne2163; PDBTitle: solution nmr structure of protein ne2163 from nitrosomonas europaea.2 northeast structural genomics consortium target net1.
21 | c3idwA_ |
| not modelled | 19.7 | 21 | PDB header:endocytosis Chain: A: PDB Molecule:actin cytoskeleton-regulatory complex protein sla1; PDBTitle: crystal structure of sla1 homology domain 2
22 | c2lkiA_ |
| not modelled | 19.5 | 31 | PDB header:lipid transport Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: solution nmr structure of holo acyl carrier protein ne2163 from2 nitrosomonas europaea. northeast structural genomics consortium3 target net1.
23 | c3h4cA_ |
| not modelled | 19.5 | 13 | PDB header:transcription Chain: A: PDB Molecule:transcription factor tfiib-like; PDBTitle: structure of the c-terminal domain of transcription factor iib from2 trypanosoma brucei
24 | d1njra_ |
| not modelled | 15.4 | 16 | Fold:Macro domain-like Superfamily:Macro domain-like Family:Macro domain
25 | d1pn2a1 |
| not modelled | 10.7 | 39 | Fold:Thioesterase/thiol ester dehydrase-isomerase Superfamily:Thioesterase/thiol ester dehydrase-isomerase Family:MaoC-like
26 | d1iwga7 |
| not modelled | 8.6 | 23 | Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain
27 | c3mlgB_ |
| not modelled | 7.5 | 23 | PDB header:unknown function Chain: B: PDB Molecule:putative uncharacterized protein, linker, putative PDBTitle: 2ouf-2x, a designed knotted protein
28 | c3beyC_ |
| not modelled | 7.5 | 11 | PDB header:structural genomics, unknown function Chain: C: PDB Molecule:conserved protein o27018; PDBTitle: crystal structure of the protein o27018 from methanobacterium2 thermoautotrophicum. northeast structural genomics consortium target3 tt217
29 | d1u14a_ |
| not modelled | 7.5 | 17 | Fold:Anticodon-binding domain-like Superfamily:ITPase-like Family:YjjX-like
30 | d1oqya2 |
| not modelled | 6.8 | 17 | Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain
31 | d1ijwc_ |
| not modelled | 6.6 | 33 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Recombinase DNA-binding domain
32 | c2k29A_ |
| not modelled | 6.1 | 14 | PDB header:transcription Chain: A: PDB Molecule:antitoxin relb; PDBTitle: structure of the dbd domain of e. coli antitoxin relb
33 | c3rxyA_ |
| not modelled | 5.8 | 13 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:nif3 protein; PDBTitle: crystal structure of nif3 superfamily protein from sphaerobacter2 thermophilus
34 | d1hcra_ |
| not modelled | 5.8 | 33 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Recombinase DNA-binding domain
35 | d2c4va1 |
| not modelled | 5.7 | 7 | Fold:Flavodoxin-like Superfamily:Type II 3-dehydroquinate dehydratase Family:Type II 3-dehydroquinate dehydratase
36 | d1oqya1 |
| not modelled | 5.3 | 19 | Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain
37 | c1pn2D_ |
| not modelled | 5.3 | 39 | PDB header:lyase Chain: D: PDB Molecule:peroxisomal hydratase-dehydrogenase-epimerase; PDBTitle: crystal structure analysis of the selenomethionine labelled2 2-enoyl-coa hydratase 2 domain of candida tropicalis3 multifunctional enzyme type 2

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