Phyre 2 Results for P76422

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Email | l.a.kelley@imperial.ac.uk
Description | P76422
Date | Thu Jan 5 12:22:56 GMT 2012
Unique Job ID | 1d59ec61e7df1579

Summary |

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

Model (left) based on template d1jxha_
Top template information
Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Thiamin biosynthesis kinases
Confidence and coverage
Confidence: | 100.0% | Coverage: | 93%
248 residues ( 93% 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 | K | R | I | N | A | L | T | I | A | G | T | D | P | S | G | G | A | G | I | Q | A | D | L | K | T | F | S | A | L | G | A | Y | G | C | S | V | I | T | A | L | V | A | Q | N | T | R | G | V | Q | S | V | Y | R | I | E | P | D | F | V
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | A | A | Q | L | D | S | V | F | S | D | V | R | I | D | T | T | K | I | G | M | L | A | E | T | D | I | V | E | A | V | A | E | R | L | Q | R | Y | Q | I | Q | N | V | V | L | D | T | V | M | L | A | K | S | G | D | P | L | L | S | P | S
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | A | V | A | T | L | R | S | R | L | L | P | Q | V | S | L | I | T | P | N | L | P | E | A | A | A | L | L | D | A | P | H | A | R | T | E | Q | E | M | L | E | Q | G | R | S | L | L | A | M | G | C | G | A | V | L | M | K | G | G | H | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | D | D | E | Q | S | P | D | W | L | F | T | R | E | G | E | Q | R | F | T | A | P | R | I | M | T | K | N | T | H | G | T | G | C | T | L | S | A | A | L | A | A | L | R | P | R | H | T | N | W | A | D | T | V | Q | E | A | K | S | W | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | .
Sequence |  | S | S | A | L | A | Q | A | D | T | L | E | V | G | H | G | I | G | P | V | H | H | F | H | A | W | W
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 |
| d1jxha_ |

### PDB 1jxh chain A

Region: 1 - 266
Aligned: 248
Modelled: 262
Confidence: 100.0%
Identity: 86%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Thiamin biosynthesis kinases

Phyre2
2 |
| c3rm5B_ |

### PDB 3rm5 chain B

Region: 2 - 265
Aligned: 253
Modelled: 264
Confidence: 100.0%
Identity: 32%
PDB header:transferase
Chain: B: PDB Molecule:hydroxymethylpyrimidine/phosphomethylpyrimidine kinase
PDBTitle: structure of trifunctional thi20 from yeast

Phyre2
3 |
| c2i5bC_ |

### PDB 2i5b chain C

Region: 1 - 261
Aligned: 257
Modelled: 261
Confidence: 100.0%
Identity: 36%
PDB header:transferase
Chain: C: PDB Molecule:phosphomethylpyrimidine kinase;
PDBTitle: the crystal structure of an adp complex of bacillus2 subtilis pyridoxal kinase provides evidence for the3 parralel emergence of enzyme activity during evolution

Phyre2
4 |
| d1ub0a_ |

### PDB 1ub0 chain A

Region: 4 - 262
Aligned: 244
Modelled: 259
Confidence: 100.0%
Identity: 52%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Thiamin biosynthesis kinases

Phyre2
5 |
| c3mbjA_ |

### PDB 3mbj chain A

Region: 2 - 257
Aligned: 256
Modelled: 256
Confidence: 100.0%
Identity: 16%
PDB header:transferase
Chain: A: PDB Molecule:putative phosphomethylpyrimidine kinase;
PDBTitle: crystal structure of a putative phosphomethylpyrimidine kinase2 (bt_4458) from bacteroides thetaiotaomicron vpi-5482 at 2.10 a3 resolution (rhombohedral form)

Phyre2
6 |
| c3ibqA_ |

### PDB 3ibq chain A

Region: 5 - 256
Aligned: 252
Modelled: 250
Confidence: 100.0%
Identity: 19%
PDB header:transferase
Chain: A: PDB Molecule:pyridoxal kinase;
PDBTitle: crystal structure of pyridoxal kinase from lactobacillus2 plantarum in complex with atp

Phyre2
7 |
| d1vi9a_ |

### PDB 1vi9 chain A

Region: 1 - 253
Aligned: 251
Modelled: 249
Confidence: 100.0%
Identity: 16%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: PfkB-like kinase

Phyre2
8 |
| d1lhpa_ |

### PDB 1lhp chain A

Region: 5 - 249
Aligned: 244
Modelled: 245
Confidence: 100.0%
Identity: 20%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: PfkB-like kinase

Phyre2
9 |
| c2ddmA_ |

### PDB 2ddm chain A

Region: 5 - 258
Aligned: 247
Modelled: 254
Confidence: 100.0%
Identity: 17%
PDB header:transferase
Chain: A: PDB Molecule:pyridoxine kinase;
PDBTitle: crystal structure of pyridoxal kinase from the escherichia2 coli pdxk gene at 2.1 a resolution

Phyre2
10 |
| d1kyha_ |

### PDB 1kyh chain A

Region: 2 - 260
Aligned: 233
Modelled: 245
Confidence: 100.0%
Identity: 16%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: YjeF C-terminal domain-like

Phyre2
11 |
| c2r3bA_ |

### PDB 2r3b chain A

Region: 2 - 260
Aligned: 234
Modelled: 259
Confidence: 100.0%
Identity: 19%
PDB header:transferase
Chain: A: PDB Molecule:yjef-related protein;
PDBTitle: crystal structure of a ribokinase-like superfamily protein (ef1790)2 from enterococcus faecalis v583 at 1.80 a resolution

Phyre2
12 |
| d2ax3a1 |

### PDB 2ax3 chain A domain 1

Region: 2 - 253
Aligned: 225
Modelled: 230
Confidence: 100.0%
Identity: 17%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: YjeF C-terminal domain-like

Phyre2
13 |
| c2ax3A_ |

### PDB 2ax3 chain A

Region: 2 - 243
Aligned: 214
Modelled: 228
Confidence: 100.0%
Identity: 17%
PDB header:transferase
Chain: A: PDB Molecule:hypothetical protein tm0922;
PDBTitle: crystal structure of a putative carbohydrate kinase (tm0922) from2 thermotoga maritima msb8 at 2.25 a resolution

Phyre2
14 |
| c3bgkA_ |

### PDB 3bgk chain A

Region: 2 - 253
Aligned: 227
Modelled: 239
Confidence: 100.0%
Identity: 16%
PDB header:unknown function
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: the crystal structure of hypothetic protein smu.573 from2 streptococcus mutans

Phyre2
15 |
| c3k5wA_ |

### PDB 3k5w chain A

Region: 2 - 260
Aligned: 219
Modelled: 244
Confidence: 100.0%
Identity: 17%
PDB header:transferase
Chain: A: PDB Molecule:carbohydrate kinase;
PDBTitle: crystal structure of a carbohydrate kinase (yjef family)from2 helicobacter pylori

Phyre2
16 |
| c3dzvB_ |

### PDB 3dzv chain B

Region: 62 - 255
Aligned: 181
Modelled: 194
Confidence: 99.8%
Identity: 17%
PDB header:transferase
Chain: B: PDB Molecule:4-methyl-5-(beta-hydroxyethyl)thiazole kinase;
PDBTitle: crystal structure of 4-methyl-5-(beta-hydroxyethyl)thiazole2 kinase (np_816404.1) from enterococcus faecalis v583 at3 2.57 a resolution

Phyre2
17 |
| d1v8aa_ |

### PDB 1v8a chain A

Region: 62 - 255
Aligned: 177
Modelled: 192
Confidence: 99.8%
Identity: 18%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Thiamin biosynthesis kinases

Phyre2
18 |
| d1ekqa_ |

### PDB 1ekq chain A

Region: 62 - 257
Aligned: 175
Modelled: 196
Confidence: 99.8%
Identity: 15%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Thiamin biosynthesis kinases

Phyre2
19 |
| c2jg1C_ |

### PDB 2jg1 chain C

Region: 1 - 246
Aligned: 227
Modelled: 233
Confidence: 99.8%
Identity: 21%
PDB header:transferase
Chain: C: PDB Molecule:tagatose-6-phosphate kinase;
PDBTitle: structure of staphylococcus aureus d-tagatose-6-phosphate2 kinase with cofactor and substrate

Phyre2
20 |
| d2abqa1 |

### PDB 2abq chain A domain 1

Region: 16 - 246
Aligned: 212
Modelled: 219
Confidence: 99.8%
Identity: 20%
Fold: Ribokinase-like
Superfamily: Ribokinase-like
Family: Ribokinase-like

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1jxha_ |
|  | 100.0 | 86 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Thiamin biosynthesis kinases
2 | c3rm5B_ |
|  | 100.0 | 32 | PDB header:transferase Chain: B: PDB Molecule:hydroxymethylpyrimidine/phosphomethylpyrimidine kinase PDBTitle: structure of trifunctional thi20 from yeast
3 | c2i5bC_ |
|  | 100.0 | 36 | PDB header:transferase Chain: C: PDB Molecule:phosphomethylpyrimidine kinase; PDBTitle: the crystal structure of an adp complex of bacillus2 subtilis pyridoxal kinase provides evidence for the3 parralel emergence of enzyme activity during evolution
4 | d1ub0a_ |
|  | 100.0 | 52 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Thiamin biosynthesis kinases
5 | c3mbjA_ |
|  | 100.0 | 16 | PDB header:transferase Chain: A: PDB Molecule:putative phosphomethylpyrimidine kinase; PDBTitle: crystal structure of a putative phosphomethylpyrimidine kinase2 (bt_4458) from bacteroides thetaiotaomicron vpi-5482 at 2.10 a3 resolution (rhombohedral form)
6 | c3ibqA_ |
|  | 100.0 | 19 | PDB header:transferase Chain: A: PDB Molecule:pyridoxal kinase; PDBTitle: crystal structure of pyridoxal kinase from lactobacillus2 plantarum in complex with atp
7 | d1vi9a_ |
|  | 100.0 | 16 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:PfkB-like kinase
8 | d1lhpa_ |
|  | 100.0 | 20 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:PfkB-like kinase
9 | c2ddmA_ |
|  | 100.0 | 17 | PDB header:transferase Chain: A: PDB Molecule:pyridoxine kinase; PDBTitle: crystal structure of pyridoxal kinase from the escherichia2 coli pdxk gene at 2.1 a resolution
10 | d1kyha_ |
|  | 100.0 | 16 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:YjeF C-terminal domain-like
11 | c2r3bA_ |
|  | 100.0 | 19 | PDB header:transferase Chain: A: PDB Molecule:yjef-related protein; PDBTitle: crystal structure of a ribokinase-like superfamily protein (ef1790)2 from enterococcus faecalis v583 at 1.80 a resolution
12 | d2ax3a1 |
|  | 100.0 | 17 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:YjeF C-terminal domain-like
13 | c2ax3A_ |
|  | 100.0 | 17 | PDB header:transferase Chain: A: PDB Molecule:hypothetical protein tm0922; PDBTitle: crystal structure of a putative carbohydrate kinase (tm0922) from2 thermotoga maritima msb8 at 2.25 a resolution
14 | c3bgkA_ |
|  | 100.0 | 16 | PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: the crystal structure of hypothetic protein smu.573 from2 streptococcus mutans
15 | c3k5wA_ |
|  | 100.0 | 17 | PDB header:transferase Chain: A: PDB Molecule:carbohydrate kinase; PDBTitle: crystal structure of a carbohydrate kinase (yjef family)from2 helicobacter pylori
16 | c3dzvB_ |
|  | 99.8 | 17 | PDB header:transferase Chain: B: PDB Molecule:4-methyl-5-(beta-hydroxyethyl)thiazole kinase; PDBTitle: crystal structure of 4-methyl-5-(beta-hydroxyethyl)thiazole2 kinase (np_816404.1) from enterococcus faecalis v583 at3 2.57 a resolution
17 | d1v8aa_ |
|  | 99.8 | 18 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Thiamin biosynthesis kinases
18 | d1ekqa_ |
|  | 99.8 | 15 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Thiamin biosynthesis kinases
19 | c2jg1C_ |
|  | 99.8 | 21 | PDB header:transferase Chain: C: PDB Molecule:tagatose-6-phosphate kinase; PDBTitle: structure of staphylococcus aureus d-tagatose-6-phosphate2 kinase with cofactor and substrate
20 | d2abqa1 |
|  | 99.8 | 20 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like
21 | c3kzhA_ |
| not modelled | 99.7 | 20 | PDB header:transferase Chain: A: PDB Molecule:probable sugar kinase; PDBTitle: crystal structure of a putative sugar kinase from2 clostridium perfringens
22 | c2jg5B_ |
| not modelled | 99.7 | 20 | PDB header:transferase Chain: B: PDB Molecule:fructose 1-phosphate kinase; PDBTitle: crystal structure of a putative phosphofructokinase from2 staphylococcus aureus
23 | c3cqdB_ |
| not modelled | 99.7 | 19 | PDB header:transferase Chain: B: PDB Molecule:6-phosphofructokinase isozyme 2; PDBTitle: structure of the tetrameric inhibited form of2 phosphofructokinase-2 from escherichia coli
24 | c3nm3D_ |
| not modelled | 99.7 | 13 | PDB header:transferase Chain: D: PDB Molecule:thiamine biosynthetic bifunctional enzyme; PDBTitle: the crystal structure of candida glabrata thi6, a bifunctional enzyme2 involved in thiamin biosyhthesis of eukaryotes
25 | c2nwhA_ |
| not modelled | 99.7 | 21 | PDB header:signaling protein,transferase Chain: A: PDB Molecule:carbohydrate kinase; PDBTitle: carbohydrate kinase from agrobacterium tumefaciens
26 | d2f02a1 |
| not modelled | 99.6 | 19 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like
27 | c3looC_ |
| not modelled | 99.6 | 15 | PDB header:transferase Chain: C: PDB Molecule:anopheles gambiae adenosine kinase; PDBTitle: crystal structure of anopheles gambiae adenosine kinase in complex2 with p1,p4-di(adenosine-5) tetraphosphate
28 | c2qhpA_ |
| not modelled | 99.6 | 13 | PDB header:transferase Chain: A: PDB Molecule:fructokinase; PDBTitle: crystal structure of fructokinase (np_810670.1) from bacteroides2 thetaiotaomicron vpi-5482 at 1.80 a resolution
29 | d1rkda_ |
| not modelled | 99.6 | 23 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like
30 | d1bx4a_ |
| not modelled | 99.6 | 13 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like
31 | c2xtbA_ |
| not modelled | 99.6 | 11 | PDB header:transferase Chain: A: PDB Molecule:adenosine kinase; PDBTitle: crystal structure of trypanosoma brucei rhodesiense2 adenosine kinase complexed with activator
32 | c2qcvA_ |
| not modelled | 99.6 | 16 | PDB header:transferase Chain: A: PDB Molecule:putative 5-dehydro-2-deoxygluconokinase; PDBTitle: crystal structure of a putative 5-dehydro-2-deoxygluconokinase (iolc)2 from bacillus halodurans c-125 at 1.90 a resolution
33 | c3pl2D_ |
| not modelled | 99.6 | 15 | PDB header:transferase Chain: D: PDB Molecule:sugar kinase, ribokinase family; PDBTitle: crystal structure of a 5-keto-2-deoxygluconokinase (ncgl0155, cgl0158)2 from corynebacterium glutamicum atcc 13032 kitasato at 1.89 a3 resolution
34 | d1vm7a_ |
| not modelled | 99.5 | 17 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like
35 | d1v19a_ |
| not modelled | 99.5 | 23 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like
36 | c3i3yB_ |
| not modelled | 99.5 | 21 | PDB header:transferase Chain: B: PDB Molecule:carbohydrate kinase; PDBTitle: crystal structure of ribokinase in complex with d-ribose from2 klebsiella pneumoniae
37 | c3julA_ |
| not modelled | 99.5 | 19 | PDB header:transferase Chain: A: PDB Molecule:lin2199 protein; PDBTitle: crystal structure of listeria innocua d-tagatose-6-phosphate2 kinase bound with substrate
38 | d2afba1 |
| not modelled | 99.5 | 10 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like
39 | c3go6B_ |
| not modelled | 99.5 | 18 | PDB header:transferase Chain: B: PDB Molecule:ribokinase rbsk; PDBTitle: crystal structure of m. tuberculosis ribokinase (rv2436) in2 complex with ribose and amp-pnp
40 | c2c49A_ |
| not modelled | 99.5 | 12 | PDB header:transferase Chain: A: PDB Molecule:sugar kinase mj0406; PDBTitle: crystal structure of methanocaldococcus jannaschii2 nucleoside kinase - an archaeal member of the ribokinase3 family
41 | c3iq0B_ |
| not modelled | 99.5 | 16 | PDB header:transferase Chain: B: PDB Molecule:putative ribokinase ii; PDBTitle: crystal structure of a putative ribokinase ii in complex2 with atp and mg+2 from e.coli
42 | d2absa1 |
| not modelled | 99.5 | 14 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like
43 | c2absA_ |
| not modelled | 99.5 | 14 | PDB header:signaling protein,transferase Chain: A: PDB Molecule:adenosine kinase; PDBTitle: crystal structure of t. gondii adenosine kinase complexed2 with amp-pcp
44 | c3ktnA_ |
| not modelled | 99.5 | 15 | PDB header:transferase Chain: A: PDB Molecule:carbohydrate kinase, pfkb family; PDBTitle: crystal structure of a putative 2-keto-3-deoxygluconate2 kinase from enterococcus faecalis
45 | c2pkkA_ |
| not modelled | 99.5 | 14 | PDB header:transferase Chain: A: PDB Molecule:adenosine kinase; PDBTitle: crystal structure of m tuberculosis adenosine kinase complexed with 2-2 fluro adenosine
46 | c3b1qD_ |
| not modelled | 99.5 | 20 | PDB header:transferase Chain: D: PDB Molecule:ribokinase, putative; PDBTitle: structure of burkholderia thailandensis nucleoside kinase (bthnk) in2 complex with inosine
47 | c2varB_ |
| not modelled | 99.4 | 13 | PDB header:transferase Chain: B: PDB Molecule:fructokinase; PDBTitle: crystal structure of sulfolobus solfataricus 2-keto-3-2 deoxygluconate kinase complexed with 2-keto-3-3 deoxygluconate
48 | c3in1A_ |
| not modelled | 99.4 | 18 | PDB header:transferase Chain: A: PDB Molecule:uncharacterized sugar kinase ydjh; PDBTitle: crystal structure of a putative ribokinase in complex with2 adp from e.coli
49 | d1tyya_ |
| not modelled | 99.4 | 21 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like
50 | d2ajra1 |
| not modelled | 99.4 | 11 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like
51 | c2rbcA_ |
| not modelled | 99.4 | 12 | PDB header:transferase Chain: A: PDB Molecule:sugar kinase; PDBTitle: crystal structure of a putative ribokinase from agrobacterium2 tumefaciens
52 | d1vk4a_ |
| not modelled | 99.4 | 18 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like
53 | d2fv7a1 |
| not modelled | 99.4 | 18 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like
54 | d2dcna1 |
| not modelled | 99.3 | 9 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:Ribokinase-like
55 | c3lhxA_ |
| not modelled | 99.3 | 14 | PDB header:transferase Chain: A: PDB Molecule:ketodeoxygluconokinase; PDBTitle: crystal structure of a ketodeoxygluconokinase (kdgk) from2 shigella flexneri
56 | c3bf5A_ |
| not modelled | 99.2 | 13 | PDB header:transferase Chain: A: PDB Molecule:ribokinase related protein; PDBTitle: crystal structure of putative ribokinase (10640157) from thermoplasma2 acidophilum at 1.91 a resolution
57 | c1tz6B_ |
| not modelled | 99.2 | 22 | PDB header:transferase Chain: B: PDB Molecule:putative sugar kinase; PDBTitle: crystal structure of aminoimidazole riboside kinase from2 salmonella enterica complexed with aminoimidazole riboside3 and atp analog
58 | c3gbuD_ |
| not modelled | 99.2 | 8 | PDB header:transferase Chain: D: PDB Molecule:uncharacterized sugar kinase ph1459; PDBTitle: crystal structure of an uncharacterized sugar kinase ph1459 from2 pyrococcus horikoshii in complex with atp
59 | c3hj6B_ |
| not modelled | 99.2 | 13 | PDB header:transferase Chain: B: PDB Molecule:fructokinase; PDBTitle: structure of halothermothrix orenii fructokinase (frk)
60 | c3kd6B_ |
| not modelled | 99.2 | 21 | PDB header:transferase Chain: B: PDB Molecule:carbohydrate kinase, pfkb family; PDBTitle: crystal structure of nucleoside kinase from chlorobium tepidum in2 complex with amp
61 | c3b3lC_ |
| not modelled | 99.2 | 14 | PDB header:transferase Chain: C: PDB Molecule:ketohexokinase; PDBTitle: crystal structures of alternatively-spliced isoforms of human2 ketohexokinase
62 | c3lkiA_ |
| not modelled | 99.1 | 20 | PDB header:transferase Chain: A: PDB Molecule:fructokinase; PDBTitle: crystal structure of fructokinase with bound atp from2 xylella fastidiosa
63 | d2nu7b1 |
| not modelled | 71.3 | 14 | Fold:Flavodoxin-like Superfamily:Succinyl-CoA synthetase domains Family:Succinyl-CoA synthetase domains
64 | d1a9xa4 |
| not modelled | 67.2 | 13 | Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:BC N-terminal domain-like
65 | d1a9xa3 |
| not modelled | 40.3 | 18 | Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:BC N-terminal domain-like
66 | c2hunB_ |
| not modelled | 36.5 | 17 | PDB header:lyase Chain: B: PDB Molecule:336aa long hypothetical dtdp-glucose 4,6-dehydratase; PDBTitle: crystal structure of hypothetical protein ph0414 from pyrococcus2 horikoshii ot3
67 | d1a2za_ |
| not modelled | 32.3 | 15 | Fold:Phosphorylase/hydrolase-like Superfamily:Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase) Family:Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)
68 | c1zxxA_ |
| not modelled | 28.0 | 32 | PDB header:transferase Chain: A: PDB Molecule:6-phosphofructokinase; PDBTitle: the crystal structure of phosphofructokinase from lactobacillus2 delbrueckii
69 | c3i3lA_ |
| not modelled | 26.6 | 34 | PDB header:hydrolase Chain: A: PDB Molecule:alkylhalidase cmls; PDBTitle: crystal structure of cmls, a flavin-dependent halogenase
70 | d1su0b_ |
| not modelled | 25.3 | 19 | Fold:SufE/NifU Superfamily:SufE/NifU Family:NifU/IscU domain
71 | d4pfka_ |
| not modelled | 25.0 | 32 | Fold:Phosphofructokinase Superfamily:Phosphofructokinase Family:Phosphofructokinase
72 | c3lwbA_ |
| not modelled | 24.4 | 17 | PDB header:ligase Chain: A: PDB Molecule:d-alanine--d-alanine ligase; PDBTitle: crystal structure of apo d-alanine:d-alanine ligase (ddl) from2 mycobacterium tuberculosis
73 | d1iu8a_ |
| not modelled | 23.8 | 24 | Fold:Phosphorylase/hydrolase-like Superfamily:Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase) Family:Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)
74 | c3d3kD_ |
| not modelled | 22.4 | 14 | PDB header:protein binding Chain: D: PDB Molecule:enhancer of mrna-decapping protein 3; PDBTitle: crystal structure of human edc3p
75 | c2ys6A_ |
| not modelled | 20.5 | 16 | PDB header:ligase Chain: A: PDB Molecule:phosphoribosylglycinamide synthetase; PDBTitle: crystal structure of gar synthetase from geobacillus kaustophilus
76 | d1eucb1 |
| not modelled | 19.7 | 14 | Fold:Flavodoxin-like Superfamily:Succinyl-CoA synthetase domains Family:Succinyl-CoA synthetase domains
77 | c2gacD_ |
| not modelled | 18.9 | 12 | PDB header:hydrolase Chain: D: PDB Molecule:glycosylasparaginase; PDBTitle: t152c mutant glycosylasparaginase from flavobacterium2 meningosepticum
78 | c3d3jA_ |
| not modelled | 18.6 | 16 | PDB header:protein binding Chain: A: PDB Molecule:enhancer of mrna-decapping protein 3; PDBTitle: crystal structure of human edc3p
79 | d1pfka_ |
| not modelled | 18.6 | 24 | Fold:Phosphofructokinase Superfamily:Phosphofructokinase Family:Phosphofructokinase
80 | c2nu9E_ |
| not modelled | 17.6 | 16 | PDB header:ligase Chain: E: PDB Molecule:succinyl-coa synthetase beta chain; PDBTitle: c123at mutant of e. coli succinyl-coa synthetase2 orthorhombic crystal form
81 | d2gtaa1 |
| not modelled | 16.9 | 7 | Fold:all-alpha NTP pyrophosphatases Superfamily:all-alpha NTP pyrophosphatases Family:MazG-like
82 | d2gtad1 |
| not modelled | 15.2 | 7 | Fold:all-alpha NTP pyrophosphatases Superfamily:all-alpha NTP pyrophosphatases Family:MazG-like
83 | d3adka_ |
| not modelled | 14.4 | 16 | Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nucleotide and nucleoside kinases
84 | d1gc5a_ |
| not modelled | 13.5 | 24 | Fold:Ribokinase-like Superfamily:Ribokinase-like Family:ADP-specific Phosphofructokinase/Glucokinase
85 | c3lp8A_ |
| not modelled | 12.8 | 15 | PDB header:ligase Chain: A: PDB Molecule:phosphoribosylamine-glycine ligase; PDBTitle: crystal structure of phosphoribosylamine-glycine ligase from2 ehrlichia chaffeensis
86 | d1xjsa_ |
| not modelled | 12.2 | 15 | Fold:SufE/NifU Superfamily:SufE/NifU Family:NifU/IscU domain
87 | c3crcB_ |
| not modelled | 12.0 | 20 | PDB header:hydrolase Chain: B: PDB Molecule:protein mazg; PDBTitle: crystal structure of escherichia coli mazg, the regulator2 of nutritional stress response
88 | c3kljA_ |
| not modelled | 11.9 | 23 | PDB header:oxidoreductase Chain: A: PDB Molecule:nad(fad)-dependent dehydrogenase, nirb-family (n-terminal PDBTitle: crystal structure of nadh:rubredoxin oxidoreductase from clostridium2 acetobutylicum
89 | c3e18A_ |
| not modelled | 11.8 | 12 | PDB header:oxidoreductase Chain: A: PDB Molecule:oxidoreductase; PDBTitle: crystal structure of nad-binding protein from listeria innocua
90 | c1qr6A_ |
| not modelled | 11.2 | 10 | PDB header:oxidoreductase Chain: A: PDB Molecule:malic enzyme 2; PDBTitle: human mitochondrial nad(p)-dependent malic enzyme
91 | c1apzB_ |
| not modelled | 11.1 | 14 | PDB header:complex (hydrolase/peptide) Chain: B: PDB Molecule:aspartylglucosaminidase; PDBTitle: human aspartylglucosaminidase complex with reaction product
92 | c3atrA_ |
| not modelled | 11.0 | 38 | PDB header:oxidoreductase Chain: A: PDB Molecule:conserved archaeal protein; PDBTitle: geranylgeranyl reductase (ggr) from sulfolobus acidocaldarius co-2 crystallized with its ligand
93 | d1auga_ |
| not modelled | 11.0 | 16 | Fold:Phosphorylase/hydrolase-like Superfamily:Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase) Family:Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)
94 | c3tqtB_ |
| not modelled | 10.5 | 13 | PDB header:ligase Chain: B: PDB Molecule:d-alanine--d-alanine ligase; PDBTitle: structure of the d-alanine-d-alanine ligase from coxiella burnetii
95 | d1krwa_ |
| not modelled | 10.0 | 22 | Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related
96 | c3e5nA_ |
| not modelled | 10.0 | 14 | PDB header:ligase Chain: A: PDB Molecule:d-alanine-d-alanine ligase a; PDBTitle: crystal strucutre of d-alanine-d-alanine ligase from2 xanthomonas oryzae pv. oryzae kacc10331
97 | c2xdoC_ |
| not modelled | 10.0 | 22 | PDB header:oxidoreductase Chain: C: PDB Molecule:tetx2 protein; PDBTitle: structure of the tetracycline degrading monooxygenase tetx2 from2 bacteroides thetaiotaomicron
98 | c1txlA_ |
| not modelled | 9.8 | 46 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:metal-binding protein yoda; PDBTitle: crystal structure of metal-binding protein yoda from e.2 coli, pfam duf149
99 | d1txla_ |
| not modelled | 9.8 | 46 | Fold:Lipocalins Superfamily:Lipocalins Family:Hypothetical protein YodA

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