Phyre 2 Results for P39404

Phyre Home | Retrieve Phyre Job Id

Email | l.a.kelley@imperial.ac.uk
Description | P39404
Date | Thu Jan 5 12:00:37 GMT 2012
Unique Job ID | 531791b0bc118dee

Summary |

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

Model (left) based on template c1zn2A_
Top template information
PDB header:transcription regulator Chain: A: PDB Molecule:response regulatory protein; PDBTitle: low resolution structure of response regulator styr
Confidence and coverage
Confidence: | 100.0% | Coverage: | 88%
198 residues ( 88% 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 | E | H | S | R | I | K | K | R | N | V | A | L | I | E | K | C | V | M | S | S | I | G | I | E | S | L | F | R | K | F | A | G | N | P | Y | K | L | H | T | Y | T | S | Q | E | S | F | Q | D | A | M | S | R | I | S | F | A | A | V | I
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | F | S | F | S | A | M | R | S | E | R | R | E | G | L | S | C | L | T | E | L | A | I | K | F | P | R | T | R | R | L | V | I | A | D | D | D | I | E | A | R | L | I | G | S | L | S | P | S | P | L | D | G | V | L | S | K | A | S | T | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | E | I | F | H | Q | E | L | F | L | S | L | N | G | V | R | Q | A | T | D | R | L | N | N | Q | W | Y | I | N | Q | S | R | T | L | S | P | T | E | R | E | I | L | R | F | M | S | R | G | Y | S | M | T | Q | I | A | E | Q | L | K | R | N
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  | ? |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | .
Sequence |  | I | K | T | I | R | A | H | K | F | N | V | M | S | K | L | G | V | S | S | D | A | G | L | L | E | A | A | D | I | L | L | C | M | R | H | C | E | T | S | N | V | L | H | P | Y
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 |
| c1zn2A_ |

### PDB 1zn2 chain A

Region: 7 - 215
Aligned: 198
Modelled: 206
Confidence: 100.0%
Identity: 17%
PDB header:transcription regulator
Chain: A: PDB Molecule:response regulatory protein;
PDBTitle: low resolution structure of response regulator styr

Phyre2
2 |
| c3c3wB_ |

### PDB 3c3w chain B

Region: 8 - 210
Aligned: 199
Modelled: 203
Confidence: 100.0%
Identity: 16%
PDB header:transcription
Chain: B: PDB Molecule:two component transcriptional regulatory protein devr;
PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic response2 regulator dosr

Phyre2
3 |
| c1rnlA_ |

### PDB 1rnl chain A

Region: 10 - 216
Aligned: 195
Modelled: 203
Confidence: 100.0%
Identity: 16%
PDB header:signal transduction protein
Chain: A: PDB Molecule:nitrate/nitrite response regulator protein narl;
PDBTitle: the nitrate/nitrite response regulator protein narl from narl

Phyre2
4 |
| c3klnC_ |

### PDB 3kln chain C

Region: 7 - 207
Aligned: 198
Modelled: 201
Confidence: 99.9%
Identity: 14%
PDB header:transcription
Chain: C: PDB Molecule:transcriptional regulator, luxr family;
PDBTitle: vibrio cholerae vpst

Phyre2
5 |
| c1kgsA_ |

### PDB 1kgs chain A

Region: 10 - 204
Aligned: 189
Modelled: 185
Confidence: 99.9%
Identity: 15%
PDB header:dna binding protein
Chain: A: PDB Molecule:dna binding response regulator d;
PDBTitle: crystal structure at 1.50 a of an ompr/phob homolog from thermotoga2 maritima

Phyre2
6 |
| c1ys7B_ |

### PDB 1ys7 chain B

Region: 8 - 199
Aligned: 186
Modelled: 189
Confidence: 99.8%
Identity: 14%
PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulatory protein prra;
PDBTitle: crystal structure of the response regulator protein prra comlexed with2 mg2+

Phyre2
7 |
| c2gwrA_ |

### PDB 2gwr chain A

Region: 7 - 199
Aligned: 186
Modelled: 183
Confidence: 99.8%
Identity: 10%
PDB header:signaling protein
Chain: A: PDB Molecule:dna-binding response regulator mtra;
PDBTitle: crystal structure of the response regulator protein mtra from2 mycobacterium tuberculosis

Phyre2
8 |
| c3r0jA_ |

### PDB 3r0j chain A

Region: 7 - 200
Aligned: 187
Modelled: 191
Confidence: 99.7%
Identity: 18%
PDB header:dna binding protein
Chain: A: PDB Molecule:possible two component system response transcriptional
PDBTitle: structure of phop from mycobacterium tuberculosis

Phyre2
9 |
| c2oqrA_ |

### PDB 2oqr chain A

Region: 10 - 199
Aligned: 183
Modelled: 187
Confidence: 99.7%
Identity: 17%
PDB header:transcription,signaling protein
Chain: A: PDB Molecule:sensory transduction protein regx3;
PDBTitle: the structure of the response regulator regx3 from mycobacterium2 tuberculosis

Phyre2
10 |
| c2hqrA_ |

### PDB 2hqr chain A

Region: 10 - 199
Aligned: 180
Modelled: 187
Confidence: 99.7%
Identity: 16%
PDB header:signaling protein
Chain: A: PDB Molecule:putative transcriptional regulator;
PDBTitle: structure of a atypical orphan response regulator protein revealed a2 new phosphorylation-independent regulatory mechanism

Phyre2
11 |
| c3sztB_ |

### PDB 3szt chain B

Region: 119 - 219
Aligned: 96
Modelled: 101
Confidence: 99.7%
Identity: 22%
PDB header:transcription
Chain: B: PDB Molecule:quorum-sensing control repressor;
PDBTitle: quorum sensing control repressor, qscr, bound to n-3-oxo-dodecanoyl-l-2 homoserine lactone

Phyre2
12 |
| c2q0oA_ |

### PDB 2q0o chain A

Region: 141 - 214
Aligned: 71
Modelled: 74
Confidence: 99.7%
Identity: 23%
PDB header:transcription
Chain: A: PDB Molecule:probable transcriptional activator protein trar;
PDBTitle: crystal structure of an anti-activation complex in bacterial quorum2 sensing

Phyre2
13 |
| c1p2fA_ |

### PDB 1p2f chain A

Region: 8 - 200
Aligned: 184
Modelled: 192
Confidence: 99.7%
Identity: 10%
PDB header:transcription
Chain: A: PDB Molecule:response regulator;
PDBTitle: crystal structure analysis of response regulator drrb, a2 thermotoga maritima ompr/phob homolog

Phyre2
14 |
| c1h0mD_ |

### PDB 1h0m chain D

Region: 147 - 216
Aligned: 65
Modelled: 70
Confidence: 99.7%
Identity: 23%
PDB header:transcription/dna
Chain: D: PDB Molecule:transcriptional activator protein trar;
PDBTitle: three-dimensional structure of the quorum sensing protein2 trar bound to its autoinducer and to its target dna

Phyre2
15 |
| c3qp5C_ |

### PDB 3qp5 chain C

Region: 144 - 210
Aligned: 67
Modelled: 67
Confidence: 99.7%
Identity: 30%
PDB header:transcription
Chain: C: PDB Molecule:cvir transcriptional regulator;
PDBTitle: crystal structure of cvir bound to antagonist chlorolactone (cl)

Phyre2
16 |
| d1s8na_ |

### PDB 1s8n chain A

Region: 9 - 196
Aligned: 182
Modelled: 188
Confidence: 99.6%
Identity: 12%
Fold: Flavodoxin-like
Superfamily: CheY-like
Family: CheY-related

Phyre2
17 |
| d1p4wa_ |

### PDB 1p4w chain A

Region: 141 - 216
Aligned: 71
Modelled: 71
Confidence: 99.6%
Identity: 39%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: C-terminal effector domain of the bipartite response regulators
Family: GerE-like (LuxR/UhpA family of transcriptional regulators)

Phyre2
18 |
| c1zljE_ |

### PDB 1zlj chain E

Region: 148 - 210
Aligned: 63
Modelled: 63
Confidence: 99.6%
Identity: 25%
PDB header:transcription
Chain: E: PDB Molecule:dormancy survival regulator;
PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic2 response regulator dosr c-terminal domain

Phyre2
19 |
| c2krfB_ |

### PDB 2krf chain B

Region: 147 - 216
Aligned: 67
Modelled: 70
Confidence: 99.6%
Identity: 22%
PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulatory protein coma;
PDBTitle: nmr solution structure of the dna binding domain of competence protein2 a

Phyre2
20 |
| c3cloC_ |

### PDB 3clo chain C

Region: 153 - 207
Aligned: 55
Modelled: 55
Confidence: 99.6%
Identity: 36%
PDB header:transcription regulator
Chain: C: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of putative transcriptional regulator containing a2 luxr dna binding domain (np_811094.1) from bacteroides3 thetaiotaomicron vpi-5482 at 2.04 a resolution

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c1zn2A_ |
|  | 100.0 | 17 | PDB header:transcription regulator Chain: A: PDB Molecule:response regulatory protein; PDBTitle: low resolution structure of response regulator styr
2 | c3c3wB_ |
|  | 100.0 | 16 | PDB header:transcription Chain: B: PDB Molecule:two component transcriptional regulatory protein devr; PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic response2 regulator dosr
3 | c1rnlA_ |
|  | 100.0 | 16 | PDB header:signal transduction protein Chain: A: PDB Molecule:nitrate/nitrite response regulator protein narl; PDBTitle: the nitrate/nitrite response regulator protein narl from narl
4 | c3klnC_ |
|  | 99.9 | 14 | PDB header:transcription Chain: C: PDB Molecule:transcriptional regulator, luxr family; PDBTitle: vibrio cholerae vpst
5 | c1kgsA_ |
|  | 99.9 | 15 | PDB header:dna binding protein Chain: A: PDB Molecule:dna binding response regulator d; PDBTitle: crystal structure at 1.50 a of an ompr/phob homolog from thermotoga2 maritima
6 | c1ys7B_ |
|  | 99.8 | 14 | PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulatory protein prra; PDBTitle: crystal structure of the response regulator protein prra comlexed with2 mg2+
7 | c2gwrA_ |
|  | 99.8 | 10 | PDB header:signaling protein Chain: A: PDB Molecule:dna-binding response regulator mtra; PDBTitle: crystal structure of the response regulator protein mtra from2 mycobacterium tuberculosis
8 | c3r0jA_ |
|  | 99.7 | 18 | PDB header:dna binding protein Chain: A: PDB Molecule:possible two component system response transcriptional PDBTitle: structure of phop from mycobacterium tuberculosis
9 | c2oqrA_ |
|  | 99.7 | 17 | PDB header:transcription,signaling protein Chain: A: PDB Molecule:sensory transduction protein regx3; PDBTitle: the structure of the response regulator regx3 from mycobacterium2 tuberculosis
10 | c2hqrA_ |
|  | 99.7 | 16 | PDB header:signaling protein Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: structure of a atypical orphan response regulator protein revealed a2 new phosphorylation-independent regulatory mechanism
11 | c3sztB_ |
|  | 99.7 | 22 | PDB header:transcription Chain: B: PDB Molecule:quorum-sensing control repressor; PDBTitle: quorum sensing control repressor, qscr, bound to n-3-oxo-dodecanoyl-l-2 homoserine lactone
12 | c2q0oA_ |
|  | 99.7 | 23 | PDB header:transcription Chain: A: PDB Molecule:probable transcriptional activator protein trar; PDBTitle: crystal structure of an anti-activation complex in bacterial quorum2 sensing
13 | c1p2fA_ |
|  | 99.7 | 10 | PDB header:transcription Chain: A: PDB Molecule:response regulator; PDBTitle: crystal structure analysis of response regulator drrb, a2 thermotoga maritima ompr/phob homolog
14 | c1h0mD_ |
|  | 99.7 | 23 | PDB header:transcription/dna Chain: D: PDB Molecule:transcriptional activator protein trar; PDBTitle: three-dimensional structure of the quorum sensing protein2 trar bound to its autoinducer and to its target dna
15 | c3qp5C_ |
|  | 99.7 | 30 | PDB header:transcription Chain: C: PDB Molecule:cvir transcriptional regulator; PDBTitle: crystal structure of cvir bound to antagonist chlorolactone (cl)
16 | d1s8na_ |
|  | 99.6 | 12 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
17 | d1p4wa_ |
|  | 99.6 | 39 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
18 | c1zljE_ |
|  | 99.6 | 25 | PDB header:transcription Chain: E: PDB Molecule:dormancy survival regulator; PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic2 response regulator dosr c-terminal domain
19 | c2krfB_ |
|  | 99.6 | 22 | PDB header:transcription Chain: B: PDB Molecule:transcriptional regulatory protein coma; PDBTitle: nmr solution structure of the dna binding domain of competence protein2 a
20 | c3cloC_ |
|  | 99.6 | 36 | PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator containing a2 luxr dna binding domain (np_811094.1) from bacteroides3 thetaiotaomicron vpi-5482 at 2.04 a resolution
21 | d1a04a1 |
| not modelled | 99.6 | 22 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
22 | d1l3la1 |
| not modelled | 99.6 | 25 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
23 | d1yioa1 |
| not modelled | 99.6 | 28 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
24 | d1fsea_ |
| not modelled | 99.6 | 34 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
25 | c1x3uA_ |
| not modelled | 99.5 | 30 | PDB header:transcription Chain: A: PDB Molecule:transcriptional regulatory protein fixj; PDBTitle: solution structure of the c-terminal transcriptional2 activator domain of fixj from sinorhizobium melilot
26 | c2rnjA_ |
| not modelled | 99.5 | 31 | PDB header:transcription Chain: A: PDB Molecule:response regulator protein vrar; PDBTitle: nmr structure of the s. aureus vrar dna binding domain
27 | c2jpcA_ |
| not modelled | 99.5 | 39 | PDB header:dna binding protein Chain: A: PDB Molecule:ssrb; PDBTitle: ssrb dna binding protein
28 | c3cz5B_ |
| not modelled | 99.5 | 9 | PDB header:transcription regulator Chain: B: PDB Molecule:two-component response regulator, luxr family; PDBTitle: crystal structure of two-component response regulator, luxr family,2 from aurantimonas sp. si85-9a1
29 | c3eulB_ |
| not modelled | 99.5 | 14 | PDB header:transcription Chain: B: PDB Molecule:possible nitrate/nitrite response transcriptional PDBTitle: structure of the signal receiver domain of the putative2 response regulator narl from mycobacterium tuberculosis
30 | c3rqiA_ |
| not modelled | 99.5 | 13 | PDB header:transcription Chain: A: PDB Molecule:response regulator protein; PDBTitle: crystal structure of a response regulator protein from burkholderia2 pseudomallei with a phosphorylated aspartic acid, calcium ion and3 citrate
31 | d1a04a2 |
| not modelled | 99.4 | 13 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
32 | c3b2nA_ |
| not modelled | 99.4 | 11 | PDB header:transcription Chain: A: PDB Molecule:uncharacterized protein q99uf4; PDBTitle: crystal structure of dna-binding response regulator, luxr family, from2 staphylococcus aureus
33 | d1dbwa_ |
| not modelled | 99.4 | 12 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
34 | d1krwa_ |
| not modelled | 99.4 | 12 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
35 | c3eq2A_ |
| not modelled | 99.4 | 12 | PDB header:signaling protein Chain: A: PDB Molecule:probable two-component response regulator; PDBTitle: structure of hexagonal crystal form of pseudomonas2 aeruginosa rssb
36 | c2rjnA_ |
| not modelled | 99.4 | 22 | PDB header:hydrolase Chain: A: PDB Molecule:response regulator receiver:metal-dependent PDBTitle: crystal structure of an uncharacterized protein q2bku2 from2 neptuniibacter caesariensis
37 | c1a2oB_ |
| not modelled | 99.4 | 10 | PDB header:bacterial chemotaxis Chain: B: PDB Molecule:cheb methylesterase; PDBTitle: structural basis for methylesterase cheb regulation by a2 phosphorylation-activated domain
38 | c2ayxA_ |
| not modelled | 99.3 | 9 | PDB header:transferase Chain: A: PDB Molecule:sensor kinase protein rcsc; PDBTitle: solution structure of the e.coli rcsc c-terminus (residues2 700-949) containing linker region and phosphoreceiver3 domain
39 | c1ny5A_ |
| not modelled | 99.3 | 17 | PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigm54 activator (aaa+ atpase) in the inactive2 state
40 | d1jbea_ |
| not modelled | 99.3 | 10 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
41 | d1mvoa_ |
| not modelled | 99.3 | 12 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
42 | c3cu5B_ |
| not modelled | 99.3 | 8 | PDB header:transcription regulator Chain: B: PDB Molecule:two component transcriptional regulator, arac family; PDBTitle: crystal structure of a two component transcriptional regulator arac2 from clostridium phytofermentans isdg
43 | d1peya_ |
| not modelled | 99.3 | 13 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
44 | d2ayxa1 |
| not modelled | 99.3 | 9 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
45 | d1ny5a1 |
| not modelled | 99.3 | 17 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
46 | c1w25B_ |
| not modelled | 99.3 | 11 | PDB header:signaling protein Chain: B: PDB Molecule:stalked-cell differentiation controlling protein; PDBTitle: response regulator pled in complex with c-digmp
47 | d2a9pa1 |
| not modelled | 99.3 | 15 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
48 | c3hv2B_ |
| not modelled | 99.3 | 15 | PDB header:signaling protein Chain: B: PDB Molecule:response regulator/hd domain protein; PDBTitle: crystal structure of signal receiver domain of hd domain-2 containing protein from pseudomonas fluorescens pf-5
49 | d1u0sy_ |
| not modelled | 99.3 | 9 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
50 | c3dzdA_ |
| not modelled | 99.3 | 9 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4 in the inactive2 state
51 | c2jrlA_ |
| not modelled | 99.3 | 8 | PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: solution structure of the beryllofluoride-activated ntrc4 receiver2 domain dimer
52 | c3snkA_ |
| not modelled | 99.3 | 12 | PDB header:signaling protein Chain: A: PDB Molecule:response regulator chey-like protein; PDBTitle: crystal structure of a response regulator chey-like protein (mll6475)2 from mesorhizobium loti at 2.02 a resolution
53 | c3breA_ |
| not modelled | 99.3 | 12 | PDB header:signaling protein Chain: A: PDB Molecule:probable two-component response regulator; PDBTitle: crystal structure of p.aeruginosa pa3702
54 | d1qkka_ |
| not modelled | 99.3 | 13 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
55 | d1kgsa2 |
| not modelled | 99.3 | 14 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
56 | c2zwmA_ |
| not modelled | 99.3 | 14 | PDB header:transcription Chain: A: PDB Molecule:transcriptional regulatory protein yycf; PDBTitle: crystal structure of yycf receiver domain from bacillus2 subtilis
57 | c3i5aA_ |
| not modelled | 99.3 | 9 | PDB header:signaling protein Chain: A: PDB Molecule:response regulator/ggdef domain protein; PDBTitle: crystal structure of full-length wpsr from pseudomonas syringae
58 | c2qr3A_ |
| not modelled | 99.3 | 13 | PDB header:transcription Chain: A: PDB Molecule:two-component system response regulator; PDBTitle: crystal structure of the n-terminal signal receiver domain of two-2 component system response regulator from bacteroides fragilis
59 | d1ys7a2 |
| not modelled | 99.2 | 13 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
60 | c3cfyA_ |
| not modelled | 99.2 | 10 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative luxo repressor protein; PDBTitle: crystal structure of signal receiver domain of putative luxo2 repressor protein from vibrio parahaemolyticus
61 | d1a2oa1 |
| not modelled | 99.2 | 10 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
62 | d1p6qa_ |
| not modelled | 99.2 | 12 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
63 | c3crnA_ |
| not modelled | 99.2 | 8 | PDB header:signaling protein Chain: A: PDB Molecule:response regulator receiver domain protein, chey-like; PDBTitle: crystal structure of response regulator receiver domain protein (chey-2 like) from methanospirillum hungatei jf-1
64 | d1yioa2 |
| not modelled | 99.2 | 11 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
65 | d2pl1a1 |
| not modelled | 99.2 | 13 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
66 | c3nhzA_ |
| not modelled | 99.2 | 8 | PDB header:dna binding protein Chain: A: PDB Molecule:two component system transcriptional regulator mtra; PDBTitle: structure of n-terminal domain of mtra
67 | c3t6kB_ |
| not modelled | 99.2 | 12 | PDB header:signaling protein Chain: B: PDB Molecule:response regulator receiver; PDBTitle: crystal structure of a hypothetical response regulator (caur_3799)2 from chloroflexus aurantiacus j-10-fl at 1.86 a resolution
68 | d1dz3a_ |
| not modelled | 99.2 | 9 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
69 | c2qv0A_ |
| not modelled | 99.2 | 10 | PDB header:transcription Chain: A: PDB Molecule:protein mrke; PDBTitle: crystal structure of the response regulatory domain of2 protein mrke from klebsiella pneumoniae
70 | c3h1gA_ |
| not modelled | 99.2 | 9 | PDB header:signaling protein Chain: A: PDB Molecule:chemotaxis protein chey homolog; PDBTitle: crystal structure of chey mutant t84a of helicobacter pylori
71 | c3hdgE_ |
| not modelled | 99.2 | 9 | PDB header:structural genomics, unknown function Chain: E: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the n-terminal domain of an2 uncharacterized protein (ws1339) from wolinella3 succinogenes
72 | c3kcnA_ |
| not modelled | 99.2 | 8 | PDB header:lyase Chain: A: PDB Molecule:adenylate cyclase homolog; PDBTitle: the crystal structure of adenylate cyclase from2 rhodopirellula baltica
73 | c3lteH_ |
| not modelled | 99.2 | 11 | PDB header:transcription Chain: H: PDB Molecule:response regulator; PDBTitle: crystal structure of response regulator (signal receiver domain) from2 bermanella marisrubri
74 | d1zh2a1 |
| not modelled | 99.2 | 11 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
75 | c3jteA_ |
| not modelled | 99.2 | 12 | PDB header:protein binding Chain: A: PDB Molecule:response regulator receiver protein; PDBTitle: crystal structure of response regulator receiver domain2 protein from clostridium thermocellum
76 | d1xhfa1 |
| not modelled | 99.1 | 17 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
77 | c3hzhA_ |
| not modelled | 99.1 | 10 | PDB header:signaling protein Chain: A: PDB Molecule:chemotaxis response regulator (chey-3); PDBTitle: crystal structure of the chex-chey-bef3-mg+2 complex from2 borrelia burgdorferi
78 | c3hdvB_ |
| not modelled | 99.1 | 8 | PDB header:transcription regulator Chain: B: PDB Molecule:response regulator; PDBTitle: crystal structure of response regulator receiver protein from2 pseudomonas putida
79 | d1zesa1 |
| not modelled | 99.1 | 9 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
80 | c3f6cB_ |
| not modelled | 99.1 | 10 | PDB header:dna binding protein Chain: B: PDB Molecule:positive transcription regulator evga; PDBTitle: crystal structure of n-terminal domain of positive transcription2 regulator evga from escherichia coli
81 | d1w25a1 |
| not modelled | 99.1 | 11 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
82 | c3gt7A_ |
| not modelled | 99.1 | 11 | PDB header:hydrolase Chain: A: PDB Molecule:sensor protein; PDBTitle: crystal structure of signal receiver domain of signal2 transduction histidine kinase from syntrophus3 aciditrophicus
83 | d1k66a_ |
| not modelled | 99.1 | 8 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
84 | c2qzjC_ |
| not modelled | 99.1 | 5 | PDB header:transcription Chain: C: PDB Molecule:two-component response regulator; PDBTitle: crystal structure of a two-component response regulator from2 clostridium difficile
85 | c3khtA_ |
| not modelled | 99.1 | 9 | PDB header:signaling protein Chain: A: PDB Molecule:response regulator; PDBTitle: crystal structure of response regulator from hahella chejuensis
86 | c3t8yA_ |
| not modelled | 99.1 | 11 | PDB header:hydrolase Chain: A: PDB Molecule:chemotaxis response regulator protein-glutamate PDBTitle: crystal structure of the response regulator domain of thermotoga2 maritima cheb
87 | d1zgza1 |
| not modelled | 99.1 | 14 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
88 | d1heya_ |
| not modelled | 99.1 | 11 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
89 | c2zayA_ |
| not modelled | 99.1 | 7 | PDB header:signaling protein Chain: A: PDB Molecule:response regulator receiver protein; PDBTitle: crystal structure of response regulator from desulfuromonas2 acetoxidans
90 | c2qvgA_ |
| not modelled | 99.1 | 12 | PDB header:transferase Chain: A: PDB Molecule:two component response regulator; PDBTitle: the crystal structure of a two-component response regulator2 from legionella pneumophila
91 | c3cnbC_ |
| not modelled | 99.1 | 5 | PDB header:dna binding protein Chain: C: PDB Molecule:dna-binding response regulator, merr family; PDBTitle: crystal structure of signal receiver domain of dna binding response2 regulator protein (merr) from colwellia psychrerythraea 34h
92 | c3gl9B_ |
| not modelled | 99.1 | 14 | PDB header:signaling protein Chain: B: PDB Molecule:response regulator; PDBTitle: the structure of a histidine kinase-response regulator2 complex sheds light into two-component signaling and3 reveals a novel cis autophosphorylation mechanism
93 | c3cg0A_ |
| not modelled | 99.1 | 8 | PDB header:lyase Chain: A: PDB Molecule:response regulator receiver modulated diguanylate cyclase PDBTitle: crystal structure of signal receiver domain of modulated diguanylate2 cyclase from desulfovibrio desulfuricans g20, an example of alternate3 folding
94 | c2qsjB_ |
| not modelled | 99.0 | 10 | PDB header:transcription Chain: B: PDB Molecule:dna-binding response regulator, luxr family; PDBTitle: crystal structure of a luxr family dna-binding response2 regulator from silicibacter pomeroyi
95 | c2qxyB_ |
| not modelled | 99.0 | 14 | PDB header:transcription Chain: B: PDB Molecule:response regulator; PDBTitle: crystal structure of a response regulator from thermotoga2 maritima
96 | c2jk1A_ |
| not modelled | 99.0 | 14 | PDB header:dna-binding Chain: A: PDB Molecule:hydrogenase transcriptional regulatory protein hupr1; PDBTitle: crystal structure of the wild-type hupr receiver domain
97 | c3hebB_ |
| not modelled | 99.0 | 12 | PDB header:transcription regulator Chain: B: PDB Molecule:response regulator receiver domain protein (chey); PDBTitle: crystal structure of response regulator receiver domain from2 rhodospirillum rubrum
98 | c3eodA_ |
| not modelled | 99.0 | 16 | PDB header:signaling protein Chain: A: PDB Molecule:protein hnr; PDBTitle: crystal structure of n-terminal domain of e. coli rssb
99 | c3ilhA_ |
| not modelled | 99.0 | 9 | PDB header:transcription regulator Chain: A: PDB Molecule:two component response regulator; PDBTitle: crystal structure of two component response regulator from cytophaga2 hutchinsonii
100 | d1i3ca_ |
| not modelled | 99.0 | 10 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
101 | c3cg4A_ |
| not modelled | 99.0 | 9 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:response regulator receiver domain protein (chey-like); PDBTitle: crystal structure of response regulator receiver domain protein (chey-2 like) from methanospirillum hungatei jf-1
102 | c3a0rB_ |
| not modelled | 99.0 | 12 | PDB header:transferase Chain: B: PDB Molecule:response regulator; PDBTitle: crystal structure of histidine kinase thka (tm1359) in complex with2 response regulator protein trra (tm1360)
103 | c3grcD_ |
| not modelled | 99.0 | 13 | PDB header:transferase Chain: D: PDB Molecule:sensor protein, kinase; PDBTitle: crystal structure of a sensor protein from polaromonas sp.2 js666
104 | d1k68a_ |
| not modelled | 99.0 | 12 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
105 | c3c3mA_ |
| not modelled | 99.0 | 11 | PDB header:signaling protein Chain: A: PDB Molecule:response regulator receiver protein; PDBTitle: crystal structure of the n-terminal domain of response regulator2 receiver protein from methanoculleus marisnigri jr1
106 | d1p2fa2 |
| not modelled | 99.0 | 9 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
107 | c3m6mF_ |
| not modelled | 99.0 | 17 | PDB header:lyase/transferase Chain: F: PDB Molecule:sensory/regulatory protein rpfc; PDBTitle: crystal structure of rpff complexed with rec domain of rpfc
108 | c3ktoA_ |
| not modelled | 99.0 | 13 | PDB header:transcription regulator Chain: A: PDB Molecule:response regulator receiver protein; PDBTitle: crystal structure of response regulator receiver protein2 from pseudoalteromonas atlantica
109 | c3i42A_ |
| not modelled | 98.9 | 12 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:response regulator receiver domain protein (chey- PDBTitle: structure of response regulator receiver domain (chey-like)2 from methylobacillus flagellatus
110 | c3mmnA_ |
| not modelled | 98.9 | 9 | PDB header:transferase Chain: A: PDB Molecule:histidine kinase homolog; PDBTitle: crystal structure of the receiver domain of the histidine kinase cki12 from arabidopsis thaliana complexed with mg2+
111 | d1w25a2 |
| not modelled | 98.9 | 11 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
112 | d2r25b1 |
| not modelled | 98.9 | 9 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
113 | c3kyiB_ |
| not modelled | 98.9 | 14 | PDB header:transferase Chain: B: PDB Molecule:chey6 protein; PDBTitle: crystal structure of the phosphorylated p1 domain of chea3 in complex2 with chey6 from r. sphaeroides
114 | c2hqoA_ |
| not modelled | 98.9 | 18 | PDB header:signaling protein Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: structure of a atypical orphan response regulator protein revealed a2 new phosphorylation-independent regulatory mechanism
115 | c3luaA_ |
| not modelled | 98.9 | 13 | PDB header:transcription regulator Chain: A: PDB Molecule:response regulator receiver protein; PDBTitle: crystal structure of a signal receiver domain of two component signal2 transduction (histidine kinase) from clostridium thermocellum
116 | c3eqzB_ |
| not modelled | 98.9 | 10 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:response regulator; PDBTitle: crystal structure of a response regulator from colwellia2 psychrerythraea
117 | d1mb3a_ |
| not modelled | 98.9 | 13 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
118 | c2rdmB_ |
| not modelled | 98.9 | 9 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:response regulator receiver protein; PDBTitle: crystal structure of response regulator receiver protein from2 sinorhizobium medicae wsm419
119 | d1dcfa_ |
| not modelled | 98.9 | 13 | Fold:Flavodoxin-like Superfamily:CheY-like Family:Receiver domain of the ethylene receptor
120 | d2b4aa1 |
| not modelled | 98.9 | 11 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related

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