Phyre 2 Results for P39343

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Email | l.a.kelley@imperial.ac.uk
Description | P39343
Date | Thu Jan 5 11:59:33 GMT 2012
Unique Job ID | e2013053e895f794

Summary |

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

Model (left) based on template c3kjxD_
Top template information
PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator, laci family; PDBTitle: crystal structure of a transcriptional regulator, lacl2 family protein from silicibacter pomeroyi
Confidence and coverage
Confidence: | 100.0% | Coverage: | 99%
330 residues ( 99% 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 | R | N | H | R | I | S | L | Q | D | I | A | T | L | A | G | V | T | K | M | T | V | S | R | Y | I | R | S | P | K | K | V | A | K | E | T | G | E | R | I | A | K | I | M | E | E | I | N | Y | I | P | N | R | A | P | G | M | L | L | N
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | A | Q | S | Y | T | L | G | I | L | I | P | S | F | Q | N | Q | L | F | A | D | I | L | A | G | I | E | S | V | T | S | E | H | N | Y | Q | T | L | I | A | N | Y | N | Y | D | R | D | S | E | E | E | S | V | I | N | L | L | S | Y | N | I
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | D | G | I | I | L | S | E | K | Y | H | T | I | R | T | V | K | F | L | R | S | A | T | I | P | V | V | E | L | M | D | V | Q | G | E | R | L | D | M | E | V | G | F | D | N | R | Q | A | A | F | D | M | V | C | T | M | L | E | K | R | V
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | R | H | K | I | L | Y | L | G | S | K | D | D | T | R | D | E | Q | R | Y | Q | G | Y | C | D | A | M | M | L | H | N | L | S | P | L | R | M | N | P | R | A | I | S | S | I | H | L | G | M | Q | L | M | R | D | A | L | S | A | N | P | D
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  | ? | ? | ? |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | . | . | . | . | . | . | . | . | 290 | . | . | . | . | . | . | . | . | . | 300
Sequence |  | L | D | G | V | F | C | T | N | D | D | I | A | M | G | A | L | L | L | C | R | E | R | N | L | A | V | P | E | Q | I | S | I | A | G | F | H | G | L | E | I | G | R | Q | M | I | P | S | L | A | S | V | I | T | P | R | F | D | I | G | R
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 310 | . | . | . | . | . | . | . | . | . | 320 | . | . | . | . | . | . | . | . | . | 330 | . | .
Sequence |  | M | A | A | Q | M | L | L | S | K | I | K | N | N | D | H | N | H | N | T | V | D | L | G | Y | Q | I | Y | H | G | N | T | L
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 |
| c3kjxD_ |

### PDB 3kjx chain D

Region: 3 - 332
Aligned: 330
Modelled: 329
Confidence: 100.0%
Identity: 28%
PDB header:transcription regulator
Chain: D: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of a transcriptional regulator, lacl2 family protein from silicibacter pomeroyi

Phyre2
2 |
| c1zvvA_ |

### PDB 1zvv chain A

Region: 1 - 332
Aligned: 329
Modelled: 332
Confidence: 100.0%
Identity: 25%
PDB header:transcription/dna
Chain: A: PDB Molecule:glucose-resistance amylase regulator;
PDBTitle: crystal structure of a ccpa-crh-dna complex

Phyre2
3 |
| c1bdhA_ |

### PDB 1bdh chain A

Region: 7 - 332
Aligned: 326
Modelled: 326
Confidence: 100.0%
Identity: 22%
PDB header:transcription/dna
Chain: A: PDB Molecule:protein (purine repressor);
PDBTitle: purine repressor mutant-hypoxanthine-palindromic operator2 complex

Phyre2
4 |
| c3h5tA_ |

### PDB 3h5t chain A

Region: 3 - 332
Aligned: 318
Modelled: 325
Confidence: 100.0%
Identity: 20%
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of a transcriptional regulator, lacl2 family protein from corynebacterium glutamicum

Phyre2
5 |
| d2nzug1 |

### PDB 2nzu chain G domain 1

Region: 61 - 332
Aligned: 272
Modelled: 272
Confidence: 100.0%
Identity: 24%
Fold: Periplasmic binding protein-like I
Superfamily: Periplasmic binding protein-like I
Family: L-arabinose binding protein-like

Phyre2
6 |
| c3c3kA_ |

### PDB 3c3k chain A

Region: 62 - 331
Aligned: 265
Modelled: 270
Confidence: 100.0%
Identity: 20%
PDB header:isomerase
Chain: A: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of an uncharacterized protein from actinobacillus2 succinogenes

Phyre2
7 |
| c2iksA_ |

### PDB 2iks chain A

Region: 61 - 332
Aligned: 271
Modelled: 272
Confidence: 100.0%
Identity: 17%
PDB header:transcription
Chain: A: PDB Molecule:dna-binding transcriptional dual regulator;
PDBTitle: crystal structure of n-terminal truncated dna-binding transcriptional2 dual regulator from escherichia coli k12

Phyre2
8 |
| c3k4hA_ |

### PDB 3k4h chain A

Region: 63 - 332
Aligned: 270
Modelled: 270
Confidence: 100.0%
Identity: 22%
PDB header:transcription regulator
Chain: A: PDB Molecule:putative transcriptional regulator;
PDBTitle: crystal structure of putative transcriptional regulator laci from2 bacillus cereus subsp. cytotoxis nvh 391-98

Phyre2
9 |
| c3h5oB_ |

### PDB 3h5o chain B

Region: 64 - 331
Aligned: 266
Modelled: 263
Confidence: 100.0%
Identity: 32%
PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator gntr;
PDBTitle: the crystal structure of transcription regulator gntr from2 chromobacterium violaceum

Phyre2
10 |
| c3e3mA_ |

### PDB 3e3m chain A

Region: 64 - 332
Aligned: 264
Modelled: 269
Confidence: 100.0%
Identity: 28%
PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, laci family;
PDBTitle: crystal structure of a laci family transcriptional2 regulator from silicibacter pomeroyi

Phyre2
11 |
| c2o20H_ |

### PDB 2o20 chain H

Region: 61 - 332
Aligned: 271
Modelled: 272
Confidence: 100.0%
Identity: 22%
PDB header:transcription
Chain: H: PDB Molecule:catabolite control protein a;
PDBTitle: crystal structure of transcription regulator ccpa of lactococcus2 lactis

Phyre2
12 |
| c3qk7C_ |

### PDB 3qk7 chain C

Region: 62 - 331
Aligned: 269
Modelled: 270
Confidence: 100.0%
Identity: 16%
PDB header:transcription regulator
Chain: C: PDB Molecule:transcriptional regulators;
PDBTitle: crystal structure of putative transcriptional regulator from yersinia2 pestis biovar microtus str. 91001

Phyre2
13 |
| c3hcwB_ |

### PDB 3hcw chain B

Region: 60 - 332
Aligned: 271
Modelled: 273
Confidence: 100.0%
Identity: 17%
PDB header:rna binding protein
Chain: B: PDB Molecule:maltose operon transcriptional repressor;
PDBTitle: crystal structure of probable maltose operon transcriptional repressor2 malr from staphylococcus areus

Phyre2
14 |
| c3d8uA_ |

### PDB 3d8u chain A

Region: 64 - 331
Aligned: 261
Modelled: 268
Confidence: 100.0%
Identity: 23%
PDB header:transcription regulator
Chain: A: PDB Molecule:purr transcriptional regulator;
PDBTitle: the crystal structure of a purr family transcriptional regulator from2 vibrio parahaemolyticus rimd 2210633

Phyre2
15 |
| c3mizB_ |

### PDB 3miz chain B

Region: 63 - 332
Aligned: 270
Modelled: 269
Confidence: 100.0%
Identity: 19%
PDB header:transcription regulator
Chain: B: PDB Molecule:putative transcriptional regulator protein, laci
PDBTitle: crystal structure of a putative transcriptional regulator2 protein, lacl family from rhizobium etli

Phyre2
16 |
| c3cs3A_ |

### PDB 3cs3 chain A

Region: 59 - 332
Aligned: 264
Modelled: 274
Confidence: 100.0%
Identity: 16%
PDB header:transcription regulator
Chain: A: PDB Molecule:sugar-binding transcriptional regulator, laci family;
PDBTitle: crystal structure of sugar-binding transcriptional regulator (laci2 family) from enterococcus faecalis

Phyre2
17 |
| c3egcF_ |

### PDB 3egc chain F

Region: 62 - 328
Aligned: 261
Modelled: 267
Confidence: 100.0%
Identity: 21%
PDB header:structural genomics, unknown function
Chain: F: PDB Molecule:putative ribose operon repressor;
PDBTitle: crystal structure of a putative ribose operon repressor from2 burkholderia thailandensis

Phyre2
18 |
| c3dbiA_ |

### PDB 3dbi chain A

Region: 63 - 332
Aligned: 269
Modelled: 270
Confidence: 100.0%
Identity: 22%
PDB header:transcription regulator
Chain: A: PDB Molecule:sugar-binding transcriptional regulator, laci family;
PDBTitle: crystal structure of sugar-binding transcriptional regulator (laci2 family) from escherichia coli complexed with phosphate

Phyre2
19 |
| c3kkeA_ |

### PDB 3kke chain A

Region: 65 - 332
Aligned: 267
Modelled: 268
Confidence: 100.0%
Identity: 18%
PDB header:transcription regulator
Chain: A: PDB Molecule:laci family transcriptional regulator;
PDBTitle: crystal structure of a laci family transcriptional regulator2 from mycobacterium smegmatis

Phyre2
20 |
| c3bblA_ |

### PDB 3bbl chain A

Region: 63 - 331
Aligned: 269
Modelled: 266
Confidence: 100.0%
Identity: 21%
PDB header:regulatory protein
Chain: A: PDB Molecule:regulatory protein of laci family;
PDBTitle: crystal structure of a regulatory protein of laci family from2 chloroflexus aggregans

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c3kjxD_ |
|  | 100.0 | 28 | PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator, laci family; PDBTitle: crystal structure of a transcriptional regulator, lacl2 family protein from silicibacter pomeroyi
2 | c1zvvA_ |
|  | 100.0 | 25 | PDB header:transcription/dna Chain: A: PDB Molecule:glucose-resistance amylase regulator; PDBTitle: crystal structure of a ccpa-crh-dna complex
3 | c1bdhA_ |
|  | 100.0 | 22 | PDB header:transcription/dna Chain: A: PDB Molecule:protein (purine repressor); PDBTitle: purine repressor mutant-hypoxanthine-palindromic operator2 complex
4 | c3h5tA_ |
|  | 100.0 | 20 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, laci family; PDBTitle: crystal structure of a transcriptional regulator, lacl2 family protein from corynebacterium glutamicum
5 | d2nzug1 |
|  | 100.0 | 24 | Fold:Periplasmic binding protein-like I Superfamily:Periplasmic binding protein-like I Family:L-arabinose binding protein-like
6 | c3c3kA_ |
|  | 100.0 | 20 | PDB header:isomerase Chain: A: PDB Molecule:alanine racemase; PDBTitle: crystal structure of an uncharacterized protein from actinobacillus2 succinogenes
7 | c2iksA_ |
|  | 100.0 | 17 | PDB header:transcription Chain: A: PDB Molecule:dna-binding transcriptional dual regulator; PDBTitle: crystal structure of n-terminal truncated dna-binding transcriptional2 dual regulator from escherichia coli k12
8 | c3k4hA_ |
|  | 100.0 | 22 | PDB header:transcription regulator Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator laci from2 bacillus cereus subsp. cytotoxis nvh 391-98
9 | c3h5oB_ |
|  | 100.0 | 32 | PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator gntr; PDBTitle: the crystal structure of transcription regulator gntr from2 chromobacterium violaceum
10 | c3e3mA_ |
|  | 100.0 | 28 | PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator, laci family; PDBTitle: crystal structure of a laci family transcriptional2 regulator from silicibacter pomeroyi
11 | c2o20H_ |
|  | 100.0 | 22 | PDB header:transcription Chain: H: PDB Molecule:catabolite control protein a; PDBTitle: crystal structure of transcription regulator ccpa of lactococcus2 lactis
12 | c3qk7C_ |
|  | 100.0 | 16 | PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulators; PDBTitle: crystal structure of putative transcriptional regulator from yersinia2 pestis biovar microtus str. 91001
13 | c3hcwB_ |
|  | 100.0 | 17 | PDB header:rna binding protein Chain: B: PDB Molecule:maltose operon transcriptional repressor; PDBTitle: crystal structure of probable maltose operon transcriptional repressor2 malr from staphylococcus areus
14 | c3d8uA_ |
|  | 100.0 | 23 | PDB header:transcription regulator Chain: A: PDB Molecule:purr transcriptional regulator; PDBTitle: the crystal structure of a purr family transcriptional regulator from2 vibrio parahaemolyticus rimd 2210633
15 | c3mizB_ |
|  | 100.0 | 19 | PDB header:transcription regulator Chain: B: PDB Molecule:putative transcriptional regulator protein, laci PDBTitle: crystal structure of a putative transcriptional regulator2 protein, lacl family from rhizobium etli
16 | c3cs3A_ |
|  | 100.0 | 16 | PDB header:transcription regulator Chain: A: PDB Molecule:sugar-binding transcriptional regulator, laci family; PDBTitle: crystal structure of sugar-binding transcriptional regulator (laci2 family) from enterococcus faecalis
17 | c3egcF_ |
|  | 100.0 | 21 | PDB header:structural genomics, unknown function Chain: F: PDB Molecule:putative ribose operon repressor; PDBTitle: crystal structure of a putative ribose operon repressor from2 burkholderia thailandensis
18 | c3dbiA_ |
|  | 100.0 | 22 | PDB header:transcription regulator Chain: A: PDB Molecule:sugar-binding transcriptional regulator, laci family; PDBTitle: crystal structure of sugar-binding transcriptional regulator (laci2 family) from escherichia coli complexed with phosphate
19 | c3kkeA_ |
|  | 100.0 | 18 | PDB header:transcription regulator Chain: A: PDB Molecule:laci family transcriptional regulator; PDBTitle: crystal structure of a laci family transcriptional regulator2 from mycobacterium smegmatis
20 | c3bblA_ |
|  | 100.0 | 21 | PDB header:regulatory protein Chain: A: PDB Molecule:regulatory protein of laci family; PDBTitle: crystal structure of a regulatory protein of laci family from2 chloroflexus aggregans
21 | c3gv0A_ |
| not modelled | 100.0 | 14 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, laci family; PDBTitle: crystal structure of laci family transcription regulator from2 agrobacterium tumefaciens
22 | c2rgyA_ |
| not modelled | 100.0 | 18 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, laci family; PDBTitle: crystal structure of transcriptional regulator of laci family from2 burkhoderia phymatum
23 | c3brqA_ |
| not modelled | 100.0 | 21 | PDB header:transcription regulator Chain: A: PDB Molecule:hth-type transcriptional regulator ascg; PDBTitle: crystal structure of the escherichia coli transcriptional repressor2 ascg
24 | c3ctpB_ |
| not modelled | 100.0 | 19 | PDB header:transcription regulator Chain: B: PDB Molecule:periplasmic binding protein/laci transcriptional regulator; PDBTitle: crystal structure of periplasmic binding protein/laci transcriptional2 regulator from alkaliphilus metalliredigens qymf complexed with d-3 xylulofuranose
25 | d1tlfa_ |
| not modelled | 100.0 | 17 | Fold:Periplasmic binding protein-like I Superfamily:Periplasmic binding protein-like I Family:L-arabinose binding protein-like
26 | c3o74A_ |
| not modelled | 100.0 | 16 | PDB header:transcription Chain: A: PDB Molecule:fructose transport system repressor frur; PDBTitle: crystal structure of cra transcriptional dual regulator from2 pseudomonas putida
27 | c3k9cA_ |
| not modelled | 100.0 | 18 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, laci family protein; PDBTitle: crystal structure of laci transcriptional regulator from rhodococcus2 species.
28 | d1jyea_ |
| not modelled | 100.0 | 17 | Fold:Periplasmic binding protein-like I Superfamily:Periplasmic binding protein-like I Family:L-arabinose binding protein-like
29 | c1jyeA_ |
| not modelled | 100.0 | 17 | PDB header:transcription Chain: A: PDB Molecule:lactose operon repressor; PDBTitle: structure of a dimeric lac repressor with c-terminal deletion and k84l2 substitution
30 | c3huuC_ |
| not modelled | 100.0 | 20 | PDB header:transcription regulator Chain: C: PDB Molecule:transcription regulator like protein; PDBTitle: crystal structure of transcription regulator like protein from2 staphylococcus haemolyticus
31 | c3clkB_ |
| not modelled | 100.0 | 17 | PDB header:transcription regulator Chain: B: PDB Molecule:transcription regulator; PDBTitle: crystal structure of a transcription regulator from lactobacillus2 plantarum
32 | c3g85A_ |
| not modelled | 100.0 | 16 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator (laci family); PDBTitle: crystal structure of laci family transcription regulator from2 clostridium acetobutylicum
33 | d1dbqa_ |
| not modelled | 100.0 | 19 | Fold:Periplasmic binding protein-like I Superfamily:Periplasmic binding protein-like I Family:L-arabinose binding protein-like
34 | c2qu7B_ |
| not modelled | 100.0 | 20 | PDB header:transcription Chain: B: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of a putative transcription regulator2 from staphylococcus saprophyticus subsp. saprophyticus
35 | c2ioyB_ |
| not modelled | 100.0 | 17 | PDB header:sugar binding protein Chain: B: PDB Molecule:periplasmic sugar-binding protein; PDBTitle: crystal structure of thermoanaerobacter tengcongensis2 ribose binding protein
36 | c3hs3A_ |
| not modelled | 100.0 | 19 | PDB header:transcription regulator Chain: A: PDB Molecule:ribose operon repressor; PDBTitle: crystal structure of periplasmic binding ribose operon2 repressor protein from lactobacillus acidophilus
37 | c3jy6B_ |
| not modelled | 100.0 | 14 | PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, laci family; PDBTitle: crystal structure of laci transcriptional regulator from lactobacillus2 brevis
38 | d1jx6a_ |
| not modelled | 100.0 | 16 | Fold:Periplasmic binding protein-like I Superfamily:Periplasmic binding protein-like I Family:L-arabinose binding protein-like
39 | c3bilA_ |
| not modelled | 100.0 | 17 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:probable laci-family transcriptional regulator; PDBTitle: crystal structure of a probable laci family transcriptional2 regulator from corynebacterium glutamicum
40 | c3gybB_ |
| not modelled | 100.0 | 21 | PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulators (laci-family PDBTitle: crystal structure of a laci-family transcriptional2 regulatory protein from corynebacterium glutamicum
41 | c2fn9A_ |
| not modelled | 100.0 | 16 | PDB header:sugar binding protein Chain: A: PDB Molecule:ribose abc transporter, periplasmic ribose-binding protein; PDBTitle: thermotoga maritima ribose binding protein unliganded form
42 | c3l6uA_ |
| not modelled | 100.0 | 15 | PDB header:transport protein Chain: A: PDB Molecule:abc-type sugar transport system periplasmic PDBTitle: crystal structure of abc-type sugar transport system,2 periplasmic component from exiguobacterium sibiricum
43 | c3jvdA_ |
| not modelled | 100.0 | 19 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulators; PDBTitle: crystal structure of putative transcription regulation repressor (laci2 family) from corynebacterium glutamicum
44 | c2h0aA_ |
| not modelled | 100.0 | 20 | PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of probable transcription regulator from2 thermus thermophilus
45 | d2dria_ |
| not modelled | 100.0 | 17 | Fold:Periplasmic binding protein-like I Superfamily:Periplasmic binding protein-like I Family:L-arabinose binding protein-like
46 | d1guda_ |
| not modelled | 100.0 | 18 | Fold:Periplasmic binding protein-like I Superfamily:Periplasmic binding protein-like I Family:L-arabinose binding protein-like
47 | d1byka_ |
| not modelled | 99.9 | 16 | Fold:Periplasmic binding protein-like I Superfamily:Periplasmic binding protein-like I Family:L-arabinose binding protein-like
48 | c2vk2A_ |
| not modelled | 99.9 | 16 | PDB header:transport protein Chain: A: PDB Molecule:abc transporter periplasmic-binding protein ytfq; PDBTitle: crystal structure of a galactofuranose binding protein
49 | d8abpa_ |
| not modelled | 99.9 | 12 | Fold:Periplasmic binding protein-like I Superfamily:Periplasmic binding protein-like I Family:L-arabinose binding protein-like
50 | c3ma0A_ |
| not modelled | 99.9 | 12 | PDB header:sugar binding protein Chain: A: PDB Molecule:d-xylose-binding periplasmic protein; PDBTitle: closed liganded crystal structure of xylose binding protein from2 escherichia coli
51 | c3ksmA_ |
| not modelled | 99.9 | 21 | PDB header:transport protein Chain: A: PDB Molecule:abc-type sugar transport system, periplasmic component; PDBTitle: crystal structure of abc-type sugar transport system, periplasmic2 component from hahella chejuensis
52 | c3e61A_ |
| not modelled | 99.9 | 19 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative transcriptional repressor of ribose operon; PDBTitle: crystal structure of a putative transcriptional repressor of ribose2 operon from staphylococcus saprophyticus subsp. saprophyticus
53 | c3l49D_ |
| not modelled | 99.9 | 11 | PDB header:transport protein Chain: D: PDB Molecule:abc sugar (ribose) transporter, periplasmic PDBTitle: crystal structure of abc sugar transporter subunit from2 rhodobacter sphaeroides 2.4.1
54 | c3g1wB_ |
| not modelled | 99.9 | 14 | PDB header:transport protein Chain: B: PDB Molecule:sugar abc transporter; PDBTitle: crystal structure of sugar abc transporter (sugar-binding protein)2 from bacillus halodurans
55 | c3brsA_ |
| not modelled | 99.9 | 15 | PDB header:transport protein Chain: A: PDB Molecule:periplasmic binding protein/laci transcriptional regulator; PDBTitle: crystal structure of sugar transporter from clostridium2 phytofermentans
56 | c3h75A_ |
| not modelled | 99.9 | 15 | PDB header:sugar binding protein Chain: A: PDB Molecule:periplasmic sugar-binding domain protein; PDBTitle: crystal structure of a periplasmic sugar-binding protein from the2 pseudomonas fluorescens
57 | c2rjoA_ |
| not modelled | 99.9 | 16 | PDB header:signaling protein Chain: A: PDB Molecule:twin-arginine translocation pathway signal protein; PDBTitle: crystal structure of twin-arginine translocation pathway signal2 protein from burkholderia phytofirmans
58 | c3gbvB_ |
| not modelled | 99.9 | 13 | PDB header:transcription regulator Chain: B: PDB Molecule:putative laci-family transcriptional regulator; PDBTitle: crystal structure of a putative laci transcriptional regulator from2 bacteroides fragilis
59 | c2x7xA_ |
| not modelled | 99.9 | 15 | PDB header:transferase Chain: A: PDB Molecule:sensor protein; PDBTitle: fructose binding periplasmic domain of hybrid two component2 system bt1754
60 | c2qvcC_ |
| not modelled | 99.9 | 18 | PDB header:transport protein Chain: C: PDB Molecule:sugar abc transporter, periplasmic sugar-binding PDBTitle: crystal structure of a periplasmic sugar abc transporter2 from thermotoga maritima
61 | d1gcaa_ |
| not modelled | 99.9 | 12 | Fold:Periplasmic binding protein-like I Superfamily:Periplasmic binding protein-like I Family:L-arabinose binding protein-like
62 | d2fvya1 |
| not modelled | 99.9 | 14 | Fold:Periplasmic binding protein-like I Superfamily:Periplasmic binding protein-like I Family:L-arabinose binding protein-like
63 | c3rotA_ |
| not modelled | 99.9 | 12 | PDB header:transport protein Chain: A: PDB Molecule:abc sugar transporter, periplasmic sugar binding protein; PDBTitle: crystal structure of abc sugar transporter (periplasmic sugar binding2 protein) from legionella pneumophila
64 | c3d02A_ |
| not modelled | 99.9 | 13 | PDB header:sugar binding protein Chain: A: PDB Molecule:putative laci-type transcriptional regulator; PDBTitle: crystal structure of periplasmic sugar-binding protein2 (yp_001338366.1) from klebsiella pneumoniae subsp. pneumoniae mgh3 78578 at 1.30 a resolution
65 | c3o1hB_ |
| not modelled | 99.9 | 11 | PDB header:signaling protein Chain: B: PDB Molecule:periplasmic protein tort; PDBTitle: crystal structure of the tors sensor domain - tort complex in the2 presence of tmao
66 | d1tjya_ |
| not modelled | 99.9 | 11 | Fold:Periplasmic binding protein-like I Superfamily:Periplasmic binding protein-like I Family:L-arabinose binding protein-like
67 | d2bjca1 |
| not modelled | 99.7 | 40 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator
68 | d1efaa1 |
| not modelled | 99.7 | 39 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator
69 | c2hqbA_ |
| not modelled | 99.7 | 10 | PDB header:transcription Chain: A: PDB Molecule:transcriptional activator of comk gene; PDBTitle: crystal structure of a transcriptional activator of comk2 gene from bacillus halodurans
70 | d2hsga1 |
| not modelled | 99.7 | 27 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator
71 | c2qh8A_ |
| not modelled | 99.7 | 9 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of conserved domain protein from vibrio2 cholerae o1 biovar eltor str. n16961
72 | d1qpza1 |
| not modelled | 99.6 | 29 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator
73 | c3lftA_ |
| not modelled | 99.6 | 12 | PDB header:structure genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: the crystal structure of the abc domain in complex with l-trp from2 streptococcus pneumonia to 1.35a
74 | c2fqxA_ |
| not modelled | 99.6 | 12 | PDB header:transport protein Chain: A: PDB Molecule:membrane lipoprotein tmpc; PDBTitle: pnra from treponema pallidum complexed with guanosine
75 | d1lcda_ |
| not modelled | 99.6 | 42 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator
76 | d1uxda_ |
| not modelled | 99.6 | 36 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator
77 | d1uxca_ |
| not modelled | 99.5 | 40 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator
78 | c2lcvA_ |
| not modelled | 99.5 | 37 | PDB header:transcription regulator Chain: A: PDB Molecule:hth-type transcriptional repressor cytr; PDBTitle: structure of the cytidine repressor dna-binding domain; an alternate2 calculation
79 | c2l8nA_ |
| not modelled | 99.5 | 37 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional repressor cytr; PDBTitle: nmr structure of the cytidine repressor dna binding domain in presence2 of operator half-site dna
80 | c3s99A_ |
| not modelled | 99.0 | 11 | PDB header:lipid binding protein Chain: A: PDB Molecule:basic membrane lipoprotein; PDBTitle: crystal structure of a basic membrane lipoprotein from brucella2 melitensis, iodide soak
81 | c2ebyA_ |
| not modelled | 97.1 | 26 | PDB header:transcription Chain: A: PDB Molecule:putative hth-type transcriptional regulator ybaq; PDBTitle: crystal structure of a hypothetical protein from e. coli
82 | c3trbA_ |
| not modelled | 97.1 | 16 | PDB header:dna binding protein Chain: A: PDB Molecule:virulence-associated protein i; PDBTitle: structure of an addiction module antidote protein of a higa (higa)2 family from coxiella burnetii
83 | c2w48D_ |
| not modelled | 96.9 | 16 | PDB header:transcription Chain: D: PDB Molecule:sorbitol operon regulator; PDBTitle: crystal structure of the full-length sorbitol operon2 regulator sorc from klebsiella pneumoniae
84 | c3qi7A_ |
| not modelled | 96.7 | 12 | PDB header:transcription Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of a putative transcriptional regulator2 (yp_001089212.1) from clostridium difficile 630 at 1.86 a resolution
85 | c3t76A_ |
| not modelled | 96.7 | 14 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator vanug; PDBTitle: crystal structure of transcriptional regulator vanug, form ii
86 | c3cecA_ |
| not modelled | 96.6 | 19 | PDB header:transcription Chain: A: PDB Molecule:putative antidote protein of plasmid maintenance system; PDBTitle: crystal structure of a putative antidote protein of plasmid2 maintenance system (npun_f2943) from nostoc punctiforme pcc 73102 at3 1.60 a resolution
87 | c3b7hA_ |
| not modelled | 96.4 | 20 | PDB header:structural protein Chain: A: PDB Molecule:prophage lp1 protein 11; PDBTitle: crystal structure of the prophage lp1 protein 11
88 | c3eusB_ |
| not modelled | 96.4 | 7 | PDB header:dna binding protein Chain: B: PDB Molecule:dna-binding protein; PDBTitle: the crystal structure of the dna binding protein from silicibacter2 pomeroyi
89 | c1y9qA_ |
| not modelled | 96.4 | 26 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, hth_3 family; PDBTitle: crystal structure of hth_3 family transcriptional regulator2 from vibrio cholerae
90 | d2icta1 |
| not modelled | 96.4 | 16 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like
91 | c2kpjA_ |
| not modelled | 96.4 | 14 | PDB header:transcription regulator Chain: A: PDB Molecule:sos-response transcriptional repressor, lexa; PDBTitle: solution structure of protein sos-response transcriptional2 repressor, lexa from eubacterium rectale. northeast3 structural genomics consortium target err9a
92 | d2o38a1 |
| not modelled | 96.4 | 16 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE1354
93 | c2o38A_ |
| not modelled | 96.4 | 16 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: putative xre family transcriptional regulator
94 | c3clcC_ |
| not modelled | 96.4 | 16 | PDB header:transcription regulator/dna Chain: C: PDB Molecule:regulatory protein; PDBTitle: crystal structure of the restriction-modification controller protein2 c.esp1396i tetramer in complex with its natural 35 base-pair operator
95 | c2bnoA_ |
| not modelled | 96.3 | 23 | PDB header:oxidoreductase Chain: A: PDB Molecule:epoxidase; PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis.
96 | c3bs3A_ |
| not modelled | 96.3 | 14 | PDB header:dna binding protein Chain: A: PDB Molecule:putative dna-binding protein; PDBTitle: crystal structure of a putative dna-binding protein from bacteroides2 fragilis
97 | d2a6ca1 |
| not modelled | 96.3 | 26 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE1354
98 | d2b5aa1 |
| not modelled | 96.3 | 19 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like
99 | d1utxa_ |
| not modelled | 96.2 | 20 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like
100 | d1y7ya1 |
| not modelled | 96.1 | 19 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like
101 | d1y9qa1 |
| not modelled | 96.1 | 26 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Probable transcriptional regulator VC1968, N-terminal domain
102 | c3omtA_ |
| not modelled | 96.1 | 19 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: putative antitoxin component, chu_2935 protein, from xre family from2 prevotella buccae.
103 | c3iwfA_ |
| not modelled | 96.1 | 15 | PDB header:transcription regulator Chain: A: PDB Molecule:transcription regulator rpir family; PDBTitle: the crystal structure of the n-terminal domain of a rpir2 transcriptional regulator from staphylococcus epidermidis to 1.4a
104 | c1b0nA_ |
| not modelled | 96.0 | 23 | PDB header:transcription regulator Chain: A: PDB Molecule:protein (sinr protein); PDBTitle: sinr protein/sini protein complex
105 | c2ef8A_ |
| not modelled | 96.0 | 9 | PDB header:transcription regulator Chain: A: PDB Molecule:putative transcription factor; PDBTitle: crystal structure of c.ecot38is
106 | d2r1jl1 |
| not modelled | 96.0 | 19 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors
107 | d1adra_ |
| not modelled | 96.0 | 19 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors
108 | c3op9A_ |
| not modelled | 96.0 | 28 | PDB header:transcription regulator Chain: A: PDB Molecule:pli0006 protein; PDBTitle: crystal structure of transcriptional regulator from listeria innocua
109 | d2ofya1 |
| not modelled | 96.0 | 20 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like
110 | d1b0na2 |
| not modelled | 95.9 | 23 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like
111 | d1x57a1 |
| not modelled | 95.9 | 12 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:EDF1-like
112 | d1rioa_ |
| not modelled | 95.8 | 18 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors
113 | d1nera_ |
| not modelled | 95.8 | 16 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors
114 | c3f52A_ |
| not modelled | 95.8 | 19 | PDB header:transcription activator Chain: A: PDB Molecule:clp gene regulator (clgr); PDBTitle: crystal structure of the clp gene regulator clgr from c. glutamicum
115 | c1u78A_ |
| not modelled | 95.8 | 11 | PDB header:dna binding protein/dna Chain: A: PDB Molecule:transposable element tc3 transposase; PDBTitle: structure of the bipartite dna-binding domain of tc32 transposase bound to transposon dna
116 | c2xcjB_ |
| not modelled | 95.7 | 25 | PDB header:viral protein Chain: B: PDB Molecule:c protein; PDBTitle: crystal structure of p2 c, the immunity repressor of2 temperate e. coli phage p2
117 | d1lmb3_ |
| not modelled | 95.7 | 18 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors
118 | d1r69a_ |
| not modelled | 95.5 | 6 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors
119 | c3kxaD_ |
| not modelled | 95.5 | 23 | PDB header:structural genomics, unknown function Chain: D: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of ngo0477 from neisseria gonorrhoeae
120 | d2croa_ |
| not modelled | 95.4 | 15 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors

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