Phyre 2 Results for P39314

Phyre Home | Retrieve Phyre Job Id

Email | l.a.kelley@imperial.ac.uk
Description | P39314
Date | Thu Jan 5 11:59:17 GMT 2012
Unique Job ID | e5e8f766df541325

Summary |

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

Model (left) based on template d1s7ba_
Top template information
Fold:Multidrug resistance efflux transporter EmrE Superfamily:Multidrug resistance efflux transporter EmrE Family:Multidrug resistance efflux transporter EmrE
Confidence and coverage
Confidence: | 97.8% | Coverage: | 23%
75 residues ( 23% of your sequence) have been modelled with 97.8% 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.
3D viewing
Interactive 3D view in Jmol

Sequence analysis |

Secondary structure and disorder prediction |

|  | 1 | . | . | . | . | . | . | . | . | 10 | . | . | . | . | . | . | . | . | . | 20 | . | . | . | . | . | . | . | . | . | 30 | . | . | . | . | . | . | . | . | . | 40 | . | . | . | . | . | . | . | . | . | 50 | . | . | . | . | . | . | . | . | . | 60
Sequence |  | M | I | S | G | V | L | Y | A | L | L | A | G | L | M | W | G | L | I | F | V | G | P | L | I | V | P | E | Y | P | A | M | L | Q | S | M | G | R | Y | L | A | L | G | L | I | A | L | P | I | A | W | L | G | R | V | R | L | R | Q | L | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | R | R | D | W | L | T | A | L | M | L | T | M | M | G | N | L | I | Y | Y | F | C | L | A | S | A | I | Q | R | T | G | A | P | V | S | T | M | I | I | G | T | L | P | V | V | I | P | V | F | A | N | L | L | Y | S | Q | R | D | G | K | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | A | W | G | K | L | A | P | A | L | I | C | I | G | I | G | L | A | C | V | N | I | A | E | L | N | H | G | L | P | D | F | D | W | A | R | Y | T | S | G | I | V | L | A | L | V | S | V | V | C | W | A | W | Y | A | L | R | N | A | R | W
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | L | R | E | N | P | D | K | H | P | M | M | W | A | T | A | Q | A | L | V | T | L | P | V | S | L | I | G | Y | L | V | A | C | Y | W | L | N | T | Q | T | P | D | F | S | L | P | F | G | P | R | P | L | V | F | I | S | L | M | V | A | I
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  | ? |  |  |  |  | ? |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  | ? |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | . | . | . | . | . | . | . | . | 290 | . | . | . | . | . | . | . | . | . | 300
Sequence |  | A | V | L | C | S | W | V | G | A | L | C | W | N | V | A | S | Q | L | L | P | T | V | I | L | G | P | L | I | V | F | E | T | L | A | G | L | L | Y | T | F | L | L | R | Q | Q | M | P | P | L | M | T | L | S | G | I | A | L | L | V | I
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 310 | . | . | . | . | . | . | . | . | . | 320 | .
Sequence |  | G | V | V | I | A | V | R | A | K | P | E | K | P | L | T | E | S | V | S | E | S
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 |
| d1s7ba_ |

### PDB 1s7b chain A

Region: 240 - 314
Aligned: 75
Modelled: 75
Confidence: 97.8%
Identity: 17%
Fold: Multidrug resistance efflux transporter EmrE
Superfamily: Multidrug resistance efflux transporter EmrE
Family: Multidrug resistance efflux transporter EmrE

Phyre2
2 |
| c2i68B_ |

### PDB 2i68 chain B

Region: 244 - 307
Aligned: 58
Modelled: 64
Confidence: 87.1%
Identity: 10%
PDB header:transport protein
Chain: B: PDB Molecule:protein emre;
PDBTitle: cryo-em based theoretical model structure of transmembrane2 domain of the multidrug-resistance antiporter from e. coli3 emre

Phyre2
3 |
| c3rkoF_ |

### PDB 3rko chain F

Region: 195 - 315
Aligned: 117
Modelled: 121
Confidence: 47.0%
Identity: 9%
PDB header:oxidoreductase
Chain: F: PDB Molecule:nadh-quinone oxidoreductase subunit j;
PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution

Phyre2
4 |
| c3aqpB_ |

### PDB 3aqp chain B

Region: 238 - 320
Aligned: 83
Modelled: 83
Confidence: 46.7%
Identity: 17%
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
5 |
| c2kncA_ |

### PDB 2knc chain A

Region: 289 - 320
Aligned: 32
Modelled: 32
Confidence: 45.0%
Identity: 34%
PDB header:cell adhesion
Chain: A: PDB Molecule:integrin alpha-iib;
PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex

Phyre2
6 |
| c2b2hA_ |

### PDB 2b2h chain A

Region: 2 - 206
Aligned: 194
Modelled: 194
Confidence: 44.2%
Identity: 11%
PDB header:transport protein
Chain: A: PDB Molecule:ammonium transporter;
PDBTitle: ammonium transporter amt-1 from a. fulgidus (as)

Phyre2
7 |
| c2jp3A_ |

### PDB 2jp3 chain A

Region: 292 - 321
Aligned: 30
Modelled: 30
Confidence: 22.9%
Identity: 20%
PDB header:transcription
Chain: A: PDB Molecule:fxyd domain-containing ion transport regulator 4;
PDBTitle: solution structure of the human fxyd4 (chif) protein in sds2 micelles

Phyre2
8 |
| d1pw4a_ |

### PDB 1pw4 chain A

Region: 1 - 320
Aligned: 304
Modelled: 304
Confidence: 19.5%
Identity: 14%
Fold: MFS general substrate transporter
Superfamily: MFS general substrate transporter
Family: Glycerol-3-phosphate transporter

Phyre2
9 |
| d1u7ga_ |

### PDB 1u7g chain A

Region: 2 - 207
Aligned: 195
Modelled: 195
Confidence: 17.3%
Identity: 12%
Fold: Ammonium transporter
Superfamily: Ammonium transporter
Family: Ammonium transporter

Phyre2
10 |
| d1iwga7 |

### PDB 1iwg chain A domain 7

Region: 237 - 320
Aligned: 84
Modelled: 84
Confidence: 7.4%
Identity: 13%
Fold: Multidrug efflux transporter AcrB transmembrane domain
Superfamily: Multidrug efflux transporter AcrB transmembrane domain
Family: Multidrug efflux transporter AcrB transmembrane domain

Phyre2
11 |
| d1iwga8 |

### PDB 1iwg chain A domain 8

Region: 237 - 321
Aligned: 85
Modelled: 85
Confidence: 7.4%
Identity: 16%
Fold: Multidrug efflux transporter AcrB transmembrane domain
Superfamily: Multidrug efflux transporter AcrB transmembrane domain
Family: Multidrug efflux transporter AcrB transmembrane domain

Phyre2
12 |
| c2jwaA_ |

### PDB 2jwa chain A

Region: 296 - 317
Aligned: 22
Modelled: 22
Confidence: 6.7%
Identity: 23%
PDB header:transferase
Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2;
PDBTitle: erbb2 transmembrane segment dimer spatial structure

Phyre2
13 |
| c2k1aA_ |

### PDB 2k1a chain A

Region: 289 - 313
Aligned: 25
Modelled: 25
Confidence: 6.6%
Identity: 36%
PDB header:cell adhesion
Chain: A: PDB Molecule:integrin alpha-iib;
PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment

Phyre2
14 |
| d2oara1 |

### PDB 2oar chain A domain 1

Region: 292 - 320
Aligned: 29
Modelled: 29
Confidence: 6.3%
Identity: 10%
Fold: Gated mechanosensitive channel
Superfamily: Gated mechanosensitive channel
Family: Gated mechanosensitive channel

Phyre2
15 |
| c2jo1A_ |

### PDB 2jo1 chain A

Region: 289 - 320
Aligned: 32
Modelled: 32
Confidence: 6.1%
Identity: 9%
PDB header:hydrolase regulator
Chain: A: PDB Molecule:phospholemman;
PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles

Phyre2
16 |
| c3rkoN_ |

### PDB 3rko chain N

Region: 28 - 312
Aligned: 269
Modelled: 269
Confidence: 5.8%
Identity: 11%
PDB header:oxidoreductase
Chain: N: PDB Molecule:nadh-quinone oxidoreductase subunit n;
PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution

Phyre2
17 |
| c3b9yA_ |

### PDB 3b9y chain A

Region: 39 - 207
Aligned: 162
Modelled: 169
Confidence: 5.6%
Identity: 12%
PDB header:transport protein
Chain: A: PDB Molecule:ammonium transporter family rh-like protein;
PDBTitle: crystal structure of the nitrosomonas europaea rh protein

Phyre2

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1s7ba_ |
|  | 97.8 | 17 | Fold:Multidrug resistance efflux transporter EmrE Superfamily:Multidrug resistance efflux transporter EmrE Family:Multidrug resistance efflux transporter EmrE
2 | c2i68B_ |
|  | 87.1 | 10 | PDB header:transport protein Chain: B: PDB Molecule:protein emre; PDBTitle: cryo-em based theoretical model structure of transmembrane2 domain of the multidrug-resistance antiporter from e. coli3 emre
3 | c3rkoF_ |
|  | 47.0 | 9 | PDB header:oxidoreductase Chain: F: PDB Molecule:nadh-quinone oxidoreductase subunit j; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution
4 | c3aqpB_ |
|  | 46.7 | 17 | 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
5 | c2kncA_ |
|  | 45.0 | 34 | PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex
6 | c2b2hA_ |
|  | 44.2 | 11 | PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter; PDBTitle: ammonium transporter amt-1 from a. fulgidus (as)
7 | c2jp3A_ |
|  | 22.9 | 20 | PDB header:transcription Chain: A: PDB Molecule:fxyd domain-containing ion transport regulator 4; PDBTitle: solution structure of the human fxyd4 (chif) protein in sds2 micelles
8 | d1pw4a_ |
|  | 19.5 | 14 | Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter
9 | d1u7ga_ |
|  | 17.3 | 12 | Fold:Ammonium transporter Superfamily:Ammonium transporter Family:Ammonium transporter
10 | d1iwga7 |
|  | 7.4 | 13 | Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain
11 | d1iwga8 |
|  | 7.4 | 16 | Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain
12 | c2jwaA_ |
|  | 6.7 | 23 | PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure
13 | c2k1aA_ |
|  | 6.6 | 36 | PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment
14 | d2oara1 |
|  | 6.3 | 10 | Fold:Gated mechanosensitive channel Superfamily:Gated mechanosensitive channel Family:Gated mechanosensitive channel
15 | c2jo1A_ |
|  | 6.1 | 9 | PDB header:hydrolase regulator Chain: A: PDB Molecule:phospholemman; PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles
16 | c3rkoN_ |
|  | 5.8 | 11 | PDB header:oxidoreductase Chain: N: PDB Molecule:nadh-quinone oxidoreductase subunit n; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution
17 | c3b9yA_ |
|  | 5.6 | 12 | PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein

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

Transmembrane helix prediction |

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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