Phyre 2 Results for P0A8W2

Phyre Home | Retrieve Phyre Job Id

Email | l.a.kelley@imperial.ac.uk
Description | P0A8W2
Date | Thu Jan 5 11:08:50 GMT 2012
Unique Job ID | fb28d6b9c9afedb0

Summary |

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

Model (left) based on template d2fbha1
Top template information
Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
Confidence and coverage
Confidence: | 99.9% | Coverage: | 94%
135 residues ( 94% of your sequence) have been modelled with 99.9% 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 | S | P | L | G | S | D | L | A | R | L | V | R | I | W | R | A | L | I | D | H | R | L | K | P | L | E | L | T | Q | T | H | W | V | T | L | H | N | I | H | Q | L | P | P | D | Q | S | Q | I | Q | L | A | K | A | I | G | I | E | Q
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | P | S | L | V | R | T | L | D | Q | L | E | E | K | G | L | I | S | R | Q | T | C | A | S | D | R | R | A | K | R | I | K | L | T | E | K | A | E | P | L | I | S | E | M | E | A | V | I | N | K | T | R | A | E | I | L | H | G | I | S | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | .
Sequence |  | E | E | L | E | Q | L | I | T | L | I | A | K | L | E | H | N | I | I | E | L | Q | A | K | G
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 |
| d2fbha1 |

### PDB 2fbh chain A domain 1

Region: 5 - 139
Aligned: 135
Modelled: 135
Confidence: 99.9%
Identity: 38%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: MarR-like transcriptional regulators

Phyre2
2 |
| c3k0lA_ |

### PDB 3k0l chain A

Region: 2 - 137
Aligned: 135
Modelled: 136
Confidence: 99.9%
Identity: 20%
PDB header:transcription regulator
Chain: A: PDB Molecule:repressor protein;
PDBTitle: crystal structure of putative marr family transcriptional2 regulator from acinetobacter sp. adp

Phyre2
3 |
| c3bpxB_ |

### PDB 3bpx chain B

Region: 2 - 140
Aligned: 138
Modelled: 139
Confidence: 99.9%
Identity: 25%
PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of marr

Phyre2
4 |
| c3e6mD_ |

### PDB 3e6m chain D

Region: 1 - 139
Aligned: 138
Modelled: 139
Confidence: 99.9%
Identity: 25%
PDB header:transcription regulator
Chain: D: PDB Molecule:marr family transcriptional regulator;
PDBTitle: the crystal structure of a marr family transcriptional2 regulator from silicibacter pomeroyi dss.

Phyre2
5 |
| c3nrvC_ |

### PDB 3nrv chain C

Region: 1 - 139
Aligned: 138
Modelled: 139
Confidence: 99.9%
Identity: 20%
PDB header:transcription regulator
Chain: C: PDB Molecule:putative transcriptional regulator (marr/emrr family);
PDBTitle: crystal structure of marr/emrr family transcriptional regulator from2 acinetobacter sp. adp1

Phyre2
6 |
| d3broa1 |

### PDB 3bro chain A domain 1

Region: 3 - 136
Aligned: 134
Modelled: 134
Confidence: 99.9%
Identity: 22%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: MarR-like transcriptional regulators

Phyre2
7 |
| c3bj6B_ |

### PDB 3bj6 chain B

Region: 4 - 143
Aligned: 139
Modelled: 140
Confidence: 99.9%
Identity: 22%
PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of marr family transcription regulator sp03579

Phyre2
8 |
| c3bjaA_ |

### PDB 3bja chain A

Region: 2 - 138
Aligned: 136
Modelled: 137
Confidence: 99.9%
Identity: 13%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, marr family, putative;
PDBTitle: crystal structure of putative marr-like transcription regulator2 (np_978771.1) from bacillus cereus atcc 10987 at 2.38 a resolution

Phyre2
9 |
| d2a61a1 |

### PDB 2a61 chain A domain 1

Region: 2 - 139
Aligned: 137
Modelled: 138
Confidence: 99.9%
Identity: 17%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: MarR-like transcriptional regulators

Phyre2
10 |
| d1s3ja_ |

### PDB 1s3j chain A

Region: 1 - 138
Aligned: 137
Modelled: 136
Confidence: 99.9%
Identity: 20%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: MarR-like transcriptional regulators

Phyre2
11 |
| d1lj9a_ |

### PDB 1lj9 chain A

Region: 3 - 142
Aligned: 139
Modelled: 140
Confidence: 99.9%
Identity: 24%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: MarR-like transcriptional regulators

Phyre2
12 |
| c3fm5D_ |

### PDB 3fm5 chain D

Region: 1 - 134
Aligned: 132
Modelled: 134
Confidence: 99.9%
Identity: 22%
PDB header:transcription regulator
Chain: D: PDB Molecule:transcriptional regulator;
PDBTitle: x-ray crystal structure of transcriptional regulator (marr family)2 from rhodococcus sp. rha1

Phyre2
13 |
| c2nnnB_ |

### PDB 2nnn chain B

Region: 1 - 133
Aligned: 131
Modelled: 133
Confidence: 99.9%
Identity: 23%
PDB header:transcription
Chain: B: PDB Molecule:probable transcriptional regulator;
PDBTitle: crystal structure of probable transcriptional regulator from2 pseudomonas aeruginosa

Phyre2
14 |
| c2gxgA_ |

### PDB 2gxg chain A

Region: 4 - 141
Aligned: 136
Modelled: 138
Confidence: 99.9%
Identity: 24%
PDB header:transcription
Chain: A: PDB Molecule:146aa long hypothetical transcriptional regulator;
PDBTitle: crystal structure of emrr homolog from hyperthermophilic archaea2 sulfolobus tokodaii strain7

Phyre2
15 |
| d1z91a1 |

### PDB 1z91 chain A domain 1

Region: 1 - 138
Aligned: 135
Modelled: 138
Confidence: 99.9%
Identity: 21%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: MarR-like transcriptional regulators

Phyre2
16 |
| c3cjnA_ |

### PDB 3cjn chain A

Region: 1 - 137
Aligned: 134
Modelled: 137
Confidence: 99.9%
Identity: 21%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of transcriptional regulator, marr family, from2 silicibacter pomeroyi

Phyre2
17 |
| d1lnwa_ |

### PDB 1lnw chain A

Region: 1 - 135
Aligned: 134
Modelled: 135
Confidence: 99.9%
Identity: 20%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: MarR-like transcriptional regulators

Phyre2
18 |
| d2bv6a1 |

### PDB 2bv6 chain A domain 1

Region: 1 - 134
Aligned: 131
Modelled: 134
Confidence: 99.9%
Identity: 21%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: MarR-like transcriptional regulators

Phyre2
19 |
| c3g3zA_ |

### PDB 3g3z chain A

Region: 8 - 139
Aligned: 131
Modelled: 132
Confidence: 99.9%
Identity: 14%
PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: the structure of nmb1585, a marr family regulator from neisseria2 meningitidis

Phyre2
20 |
| d2etha1 |

### PDB 2eth chain A domain 1

Region: 5 - 138
Aligned: 133
Modelled: 134
Confidence: 99.9%
Identity: 18%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: MarR-like transcriptional regulators

Phyre2
21 |
| c3deuB_ |

### PDB 3deu chain B

Region: 1 - 140
Aligned: 130
Modelled: 130
Confidence: 99.9%
Identity: 92%
PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator slya;
PDBTitle: crystal structure of transcription regulatory protein slya2 from salmonella typhimurium in complex with salicylate3 ligands

Phyre2
22 |
23 |
24 |
| d3deua1 |

### PDB 3deu chain A domain 1

Region: 1 - 140
Aligned: 132
Modelled: 132
Confidence: 99.9%
Identity: 92%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: MarR-like transcriptional regulators

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d2fbha1 |
|  | 99.9 | 38 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
2 | c3k0lA_ |
|  | 99.9 | 20 | PDB header:transcription regulator Chain: A: PDB Molecule:repressor protein; PDBTitle: crystal structure of putative marr family transcriptional2 regulator from acinetobacter sp. adp
3 | c3bpxB_ |
|  | 99.9 | 25 | PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of marr
4 | c3e6mD_ |
|  | 99.9 | 25 | PDB header:transcription regulator Chain: D: PDB Molecule:marr family transcriptional regulator; PDBTitle: the crystal structure of a marr family transcriptional2 regulator from silicibacter pomeroyi dss.
5 | c3nrvC_ |
|  | 99.9 | 20 | PDB header:transcription regulator Chain: C: PDB Molecule:putative transcriptional regulator (marr/emrr family); PDBTitle: crystal structure of marr/emrr family transcriptional regulator from2 acinetobacter sp. adp1
6 | d3broa1 |
|  | 99.9 | 22 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
7 | c3bj6B_ |
|  | 99.9 | 22 | PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of marr family transcription regulator sp03579
8 | c3bjaA_ |
|  | 99.9 | 13 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, marr family, putative; PDBTitle: crystal structure of putative marr-like transcription regulator2 (np_978771.1) from bacillus cereus atcc 10987 at 2.38 a resolution
9 | d2a61a1 |
|  | 99.9 | 17 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
10 | d1s3ja_ |
|  | 99.9 | 20 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
11 | d1lj9a_ |
|  | 99.9 | 24 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
12 | c3fm5D_ |
|  | 99.9 | 22 | PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator; PDBTitle: x-ray crystal structure of transcriptional regulator (marr family)2 from rhodococcus sp. rha1
13 | c2nnnB_ |
|  | 99.9 | 23 | PDB header:transcription Chain: B: PDB Molecule:probable transcriptional regulator; PDBTitle: crystal structure of probable transcriptional regulator from2 pseudomonas aeruginosa
14 | c2gxgA_ |
|  | 99.9 | 24 | PDB header:transcription Chain: A: PDB Molecule:146aa long hypothetical transcriptional regulator; PDBTitle: crystal structure of emrr homolog from hyperthermophilic archaea2 sulfolobus tokodaii strain7
15 | d1z91a1 |
|  | 99.9 | 21 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
16 | c3cjnA_ |
|  | 99.9 | 21 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of transcriptional regulator, marr family, from2 silicibacter pomeroyi
17 | d1lnwa_ |
|  | 99.9 | 20 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
18 | d2bv6a1 |
|  | 99.9 | 21 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
19 | c3g3zA_ |
|  | 99.9 | 14 | PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator, marr family; PDBTitle: the structure of nmb1585, a marr family regulator from neisseria2 meningitidis
20 | d2etha1 |
|  | 99.9 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
21 | c3deuB_ |
|  | 99.9 | 92 | PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator slya; PDBTitle: crystal structure of transcription regulatory protein slya2 from salmonella typhimurium in complex with salicylate3 ligands
22 | d1jgsa_ |
| not modelled | 99.9 | 24 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
23 | d2fbia1 |
| not modelled | 99.9 | 25 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
24 | d3deua1 |
|  | 99.9 | 92 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
25 | c3nqoB_ |
| not modelled | 99.9 | 20 | PDB header:transcription Chain: B: PDB Molecule:marr-family transcriptional regulator; PDBTitle: crystal structure of a marr family transcriptional regulator (cd1569)2 from clostridium difficile 630 at 2.20 a resolution
26 | c3oopA_ |
| not modelled | 99.9 | 21 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin2960 protein; PDBTitle: the structure of a protein with unknown function from listeria innocua2 clip11262
27 | c2nyxB_ |
| not modelled | 99.9 | 19 | PDB header:transcription Chain: B: PDB Molecule:probable transcriptional regulatory protein, rv1404; PDBTitle: crystal structure of rv1404 from mycobacterium tuberculosis
28 | c2rdpA_ |
| not modelled | 99.9 | 22 | PDB header:transcription Chain: A: PDB Molecule:putative transcriptional regulator marr; PDBTitle: the structure of a marr family protein from bacillus2 stearothermophilus
29 | c3s2wB_ |
| not modelled | 99.9 | 17 | PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: the crystal structure of a marr transcriptional regulator from2 methanosarcina mazei go1
30 | c3cdhB_ |
| not modelled | 99.9 | 21 | PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of the marr family transcriptional regulator spo14532 from silicibacter pomeroyi dss-3
31 | c3jw4C_ |
| not modelled | 99.9 | 22 | PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator, marr/emrr family; PDBTitle: the structure of a putative marr family transcriptional regulator from2 clostridium acetobutylicum
32 | c2qwwB_ |
| not modelled | 99.9 | 25 | PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of multiple antibiotic-resistance repressor (marr)2 (yp_013417.1) from listeria monocytogenes 4b f2365 at 2.07 a3 resolution
33 | c2fa5B_ |
| not modelled | 99.9 | 20 | PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator marr/emrr family; PDBTitle: the crystal structure of an unliganded multiple antibiotic-2 resistance repressor (marr) from xanthomonas campestris
34 | c3f3xA_ |
| not modelled | 99.9 | 26 | PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator, marr family, putative; PDBTitle: crystal structure of the transcriptional regulator bldr2 from sulfolobus solfataricus
35 | c3ecoB_ |
| not modelled | 99.9 | 22 | PDB header:transcription Chain: B: PDB Molecule:mepr; PDBTitle: crystal structure of mepr, a transcription regulator of the2 staphylococcus aureus multidrug efflux pump mepa
36 | c3boqB_ |
| not modelled | 99.9 | 16 | PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of marr family transcriptional regulator from2 silicibacter pomeroyi
37 | c2pexA_ |
| not modelled | 99.9 | 24 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator ohrr; PDBTitle: structure of reduced c22s ohrr from xanthamonas campestris
38 | c3kp3B_ |
| not modelled | 99.8 | 16 | PDB header:transcription regulator/antibiotic Chain: B: PDB Molecule:transcriptional regulator tcar; PDBTitle: staphylococcus epidermidis in complex with ampicillin
39 | c3hrmA_ |
| not modelled | 99.8 | 21 | PDB header:transcription regulator Chain: A: PDB Molecule:hth-type transcriptional regulator sarz; PDBTitle: crystal structure of staphylococcus aureus protein sarz in sulfenic2 acid form
40 | c2fxaB_ |
| not modelled | 99.8 | 18 | PDB header:transcription Chain: B: PDB Molecule:protease production regulatory protein hpr; PDBTitle: structure of the protease production regulatory protein hpr from2 bacillus subtilis.
41 | d2fbka1 |
| not modelled | 99.8 | 25 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
42 | d2hr3a1 |
| not modelled | 99.8 | 19 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
43 | d1ku9a_ |
| not modelled | 99.8 | 12 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:DNA-binding protein Mj223
44 | c3bddD_ |
| not modelled | 99.8 | 25 | PDB header:transcription Chain: D: PDB Molecule:regulatory protein marr; PDBTitle: crystal structure of a putative multiple antibiotic-resistance2 repressor (ssu05_1136) from streptococcus suis 89/1591 at 2.20 a3 resolution
45 | d2fxaa1 |
| not modelled | 99.7 | 16 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
46 | c3tgnA_ |
| not modelled | 99.7 | 15 | PDB header:transcription Chain: A: PDB Molecule:adc operon repressor adcr; PDBTitle: crystal structure of the zinc-dependent marr family transcriptional2 regulator adcr in the zn(ii)-bound state
47 | d1p4xa1 |
| not modelled | 99.7 | 13 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
48 | d2frha1 |
| not modelled | 99.7 | 15 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
49 | d1p4xa2 |
| not modelled | 99.7 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
50 | d1hsja1 |
| not modelled | 99.7 | 17 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
51 | c1p4xA_ |
| not modelled | 99.7 | 14 | PDB header:transcription Chain: A: PDB Molecule:staphylococcal accessory regulator a homologue; PDBTitle: crystal structure of sars protein from staphylococcus aureus
52 | d1sfxa_ |
| not modelled | 99.6 | 14 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:TrmB-like
53 | d1ub9a_ |
| not modelled | 99.4 | 12 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
54 | c3r0aB_ |
| not modelled | 99.4 | 14 | PDB header:transcription regulator Chain: B: PDB Molecule:putative transcriptional regulator; PDBTitle: possible transcriptional regulator from methanosarcina mazei go1 (gi2 21227196)
55 | d1okra_ |
| not modelled | 99.3 | 16 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Penicillinase repressor
56 | c1hsjA_ |
| not modelled | 99.3 | 17 | PDB header:transcription/sugar binding protein Chain: A: PDB Molecule:fusion protein consisting of staphylococcus PDBTitle: sarr mbp fusion structure
57 | c2x4hA_ |
| not modelled | 99.3 | 16 | PDB header:transcription Chain: A: PDB Molecule:hypothetical protein sso2273; PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus
58 | c1f5tA_ |
| not modelled | 99.2 | 14 | PDB header:transcription/dna Chain: A: PDB Molecule:diphtheria toxin repressor; PDBTitle: diphtheria tox repressor (c102d mutant) complexed with2 nickel and dtxr consensus binding sequence
59 | c2it0A_ |
| not modelled | 99.2 | 19 | PDB header:transcription/dna Chain: A: PDB Molecule:iron-dependent repressor ider; PDBTitle: crystal structure of a two-domain ider-dna complex crystal2 form ii
60 | d3ctaa1 |
| not modelled | 99.1 | 21 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators
61 | c3ctaA_ |
| not modelled | 99.1 | 25 | PDB header:transferase Chain: A: PDB Molecule:riboflavin kinase; PDBTitle: crystal structure of riboflavin kinase from thermoplasma2 acidophilum
62 | c2wteB_ |
| not modelled | 99.0 | 15 | PDB header:antiviral protein Chain: B: PDB Molecule:csa3; PDBTitle: the structure of the crispr-associated protein, csa3, from2 sulfolobus solfataricus at 1.8 angstrom resolution.
63 | c1fx7C_ |
| not modelled | 99.0 | 19 | PDB header:signaling protein Chain: C: PDB Molecule:iron-dependent repressor ider; PDBTitle: crystal structure of the iron-dependent regulator (ider)2 from mycobacterium tuberculosis
64 | c2h09A_ |
| not modelled | 98.9 | 19 | PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator mntr; PDBTitle: crystal structure of diphtheria toxin repressor like protein2 from e. coli
65 | c1g3wA_ |
| not modelled | 98.9 | 12 | PDB header:gene regulation Chain: A: PDB Molecule:diphtheria toxin repressor; PDBTitle: cd-cys102ser dtxr
66 | c3hruA_ |
| not modelled | 98.8 | 17 | PDB header:transcription Chain: A: PDB Molecule:metalloregulator scar; PDBTitle: crystal structure of scar with bound zn2+
67 | c2ev5B_ |
| not modelled | 98.8 | 14 | PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator mntr; PDBTitle: bacillus subtilis manganese transport regulator (mntr)2 bound to calcium
68 | d2d1ha1 |
| not modelled | 98.8 | 15 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:TrmB-like
69 | d1xmaa_ |
| not modelled | 98.7 | 19 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PadR-like
70 | c1xmaA_ |
| not modelled | 98.7 | 19 | PDB header:transcription Chain: A: PDB Molecule:predicted transcriptional regulator; PDBTitle: structure of a transcriptional regulator from clostridium thermocellum2 cth-833
71 | c3f8fA_ |
| not modelled | 98.7 | 20 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, padr-like family; PDBTitle: crystal structure of multidrug binding transcriptional regulator lmrr2 complexed with daunomycin
72 | c3hhhA_ |
| not modelled | 98.6 | 14 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, padr family; PDBTitle: crystal structure of transcriptional regulator, a member of padr2 family, from enterococcus faecalis v583
73 | d1sd4a_ |
| not modelled | 98.6 | 14 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Penicillinase repressor
74 | c3l7wA_ |
| not modelled | 98.6 | 23 | PDB header:transcription Chain: A: PDB Molecule:putative uncharacterized protein smu.1704; PDBTitle: the crystal structure of smu.1704 from streptococcus mutans ua159
75 | c2oqgA_ |
| not modelled | 98.5 | 20 | PDB header:transcription Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein; PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1
76 | c3f6oB_ |
| not modelled | 98.4 | 17 | PDB header:transcription regulator Chain: B: PDB Molecule:probable transcriptional regulator, arsr family PDBTitle: crystal structure of arsr family transcriptional regulator,2 rha00566
77 | c3f6vA_ |
| not modelled | 98.3 | 15 | PDB header:transcription regulator Chain: A: PDB Molecule:possible transcriptional regulator, arsr family PDBTitle: crystal structure of possible transcriptional regulator for2 arsenical resistance
78 | d1ulya_ |
| not modelled | 98.3 | 15 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Hypothetical protein PH1932
79 | c3ri2B_ |
| not modelled | 98.3 | 20 | PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, padr-like family; PDBTitle: crystal structure of padr family transcriptional regulator from2 eggerthella lenta dsm 2243
80 | d2g9wa1 |
| not modelled | 98.2 | 21 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Penicillinase repressor
81 | d2esha1 |
| not modelled | 98.2 | 23 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PadR-like
82 | d1mkma1 |
| not modelled | 98.2 | 24 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Transcriptional regulator IclR, N-terminal domain
83 | c3cuoB_ |
| not modelled | 98.1 | 18 | PDB header:transcription regulator Chain: B: PDB Molecule:uncharacterized hth-type transcriptional regulator ygav; PDBTitle: crystal structure of the predicted dna-binding transcriptional2 regulator from e. coli
84 | c2qufB_ |
| not modelled | 98.1 | 13 | PDB header:transcription Chain: B: PDB Molecule:transcription factor pf0095; PDBTitle: crystal structure of transcription factor axxa-pf0095 from pyrococcus2 furiosus
85 | d1z7ua1 |
| not modelled | 98.1 | 21 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:HxlR-like
86 | d1r1ua_ |
| not modelled | 98.1 | 11 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:ArsR-like transcriptional regulators
87 | d2f2ea1 |
| not modelled | 98.0 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:HxlR-like
88 | c2kkoB_ |
| not modelled | 98.0 | 14 | PDB header:dna binding protein Chain: B: PDB Molecule:possible transcriptional regulatory protein PDBTitle: solution nmr structure of the homodimeric winged helix-turn-2 helix dna-binding domain (fragment 1-100) mb0332 from3 mycobacterium bovis, a possible arsr-family transcriptional4 regulator. northeast structural genomics consortium target5 mbr242e.
89 | c3df8A_ |
| not modelled | 97.9 | 20 | PDB header:transcription Chain: A: PDB Molecule:possible hxlr family transcriptional factor; PDBTitle: the crystal structure of a possible hxlr family transcriptional factor2 from thermoplasma volcanium gss1
90 | c3pqkD_ |
| not modelled | 97.9 | 23 | PDB header:transcription Chain: D: PDB Molecule:biofilm growth-associated repressor; PDBTitle: crystal structure of the transcriptional repressor bigr from xylella2 fastidiosa
91 | c1r22B_ |
| not modelled | 97.9 | 19 | PDB header:transcription repressor Chain: B: PDB Molecule:transcriptional repressor smtb; PDBTitle: crystal structure of the cyanobacterial metallothionein2 repressor smtb (c14s/c61s/c121s mutant) in the zn2alpha5-3 form
92 | c1mkmA_ |
| not modelled | 97.9 | 20 | PDB header:transcription Chain: A: PDB Molecule:iclr transcriptional regulator; PDBTitle: crystal structure of the thermotoga maritima iclr
93 | d1r1ta_ |
| not modelled | 97.9 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:ArsR-like transcriptional regulators
94 | c2v79B_ |
| not modelled | 97.9 | 19 | PDB header:dna-binding protein Chain: B: PDB Molecule:dna replication protein dnad; PDBTitle: crystal structure of the n-terminal domain of dnad from2 bacillus subtilis
95 | d1g3wa1 |
| not modelled | 97.8 | 16 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Iron-dependent repressor protein
96 | c2qvoA_ |
| not modelled | 97.8 | 17 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein af_1382; PDBTitle: crystal structure of af1382 from archaeoglobus fulgidus
97 | d2isya1 |
| not modelled | 97.8 | 14 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Iron-dependent repressor protein
98 | c3elkA_ |
| not modelled | 97.8 | 15 | PDB header:transcription regulator Chain: A: PDB Molecule:putative transcriptional regulator ta0346; PDBTitle: crystal structure of putative transcriptional regulator ta0346 from2 thermoplasma acidophilum
99 | d2fswa1 |
| not modelled | 97.8 | 23 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:HxlR-like
100 | d2p4wa1 |
| not modelled | 97.8 | 23 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PF1790-like
101 | c2xroE_ |
| not modelled | 97.8 | 19 | PDB header:dna-binding protein/dna Chain: E: PDB Molecule:hth-type transcriptional regulator ttgv; PDBTitle: crystal structure of ttgv in complex with its dna operator
102 | c2xigA_ |
| not modelled | 97.8 | 16 | PDB header:transcription Chain: A: PDB Molecule:ferric uptake regulation protein; PDBTitle: the structure of the helicobacter pylori ferric uptake2 regulator fur reveals three functional metal binding sites
103 | d1jhfa1 |
| not modelled | 97.8 | 24 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:LexA repressor, N-terminal DNA-binding domain
104 | c3jthA_ |
| not modelled | 97.8 | 14 | PDB header:transcription Chain: A: PDB Molecule:transcription activator hlyu; PDBTitle: crystal structure of a transcriptional regulator hlyu from2 vibrio vulnificus cmcp6
105 | c2zkzC_ |
| not modelled | 97.7 | 7 | PDB header:transcription Chain: C: PDB Molecule:transcriptional repressor pagr; PDBTitle: crystal structure of the transcriptional repressor pagr of bacillus2 anthracis
106 | c2dqlA_ |
| not modelled | 97.7 | 10 | PDB header:circadian clock protein Chain: A: PDB Molecule:pex protein; PDBTitle: crytal structure of the circadian clock associated protein2 pex from anabaena
107 | c2k4bA_ |
| not modelled | 97.7 | 13 | PDB header:dna binding protein Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: copr repressor structure
108 | d1p6ra_ |
| not modelled | 97.7 | 11 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Penicillinase repressor
109 | c2g7uB_ |
| not modelled | 97.7 | 23 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: 2.3 a structure of putative catechol degradative operon regulator from2 rhodococcus sp. rha1
110 | d1u2wa1 |
| not modelled | 97.7 | 13 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:ArsR-like transcriptional regulators
111 | c2jscB_ |
| not modelled | 97.6 | 21 | PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator rv1994c/mt2050; PDBTitle: nmr structure of the cadmium metal-sensor cmtr from mycobacterium2 tuberculosis
112 | d1z05a1 |
| not modelled | 97.6 | 23 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:ROK associated domain
113 | c2e1nA_ |
| not modelled | 97.6 | 18 | PDB header:circadian clock protein Chain: A: PDB Molecule:pex; PDBTitle: crystal structure of the cyanobacterium circadian clock modifier pex
114 | c3fzjC_ |
| not modelled | 97.5 | 25 | PDB header:transcription regulator Chain: C: PDB Molecule:lysr type regulator of tsambcd; PDBTitle: tsar low resolution crystal structure, tetragonal form
115 | d2ev0a1 |
| not modelled | 97.5 | 9 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Iron-dependent repressor protein
116 | c3l9fD_ |
| not modelled | 97.5 | 17 | PDB header:transcription regulator Chain: D: PDB Molecule:putative uncharacterized protein smu.1604c; PDBTitle: the crystal structure of smu.1604c from streptococcus mutans ua159
117 | c2fe3B_ |
| not modelled | 97.5 | 15 | PDB header:dna binding protein Chain: B: PDB Molecule:peroxide operon regulator; PDBTitle: the crystal structure of bacillus subtilis perr-zn reveals a novel2 zn(cys)4 structural redox switch
118 | d1z6ra1 |
| not modelled | 97.5 | 22 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:ROK associated domain
119 | d2esna1 |
| not modelled | 97.4 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:LysR-like transcriptional regulators
120 | d1stza1 |
| not modelled | 97.4 | 25 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Heat-inducible transcription repressor HrcA, N-terminal domain

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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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