Phyre 2 Results for Q46938

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Email | l.a.kelley@imperial.ac.uk
Description | Q46938
Date | Thu Jan 5 12:35:57 GMT 2012
Unique Job ID | 4aad2dc4166e23c8

Summary |

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

Model (left) based on template d1xrua1
Top template information
Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:KduI-like
Confidence and coverage
Confidence: | 100.0% | Coverage: | 100%
277 residues (100% 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 | D | V | R | Q | S | I | H | S | A | H | A | K | T | L | D | T | Q | G | L | R | N | E | F | L | V | E | K | V | F | V | A | D | E | Y | T | M | V | Y | S | H | I | D | R | I | I | V | G | G | I | M | P | I | T | K | T | V | S | V | G
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? |  | ? | ? | ? |  |  |  |  |  |  | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? |  | ? | ? |  |  | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | G | E | V | G | K | Q | L | G | V | S | Y | F | L | E | R | R | E | L | G | V | I | N | I | G | G | A | G | T | I | T | V | D | G | Q | C | Y | E | I | G | H | R | D | A | L | Y | V | G | K | G | A | K | E | V | V | F | A | S | I | D | T
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | G | T | P | A | K | F | Y | Y | N | C | A | P | A | H | T | T | Y | P | T | K | K | V | T | P | D | E | V | S | P | V | T | L | G | D | N | L | T | S | N | R | R | T | I | N | K | Y | F | V | P | D | V | L | E | T | C | Q | L | S | M | G
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? |  |  | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | L | T | E | L | A | P | G | N | L | W | N | T | M | P | C | H | T | H | E | R | R | M | E | V | Y | F | Y | F | N | M | D | D | D | A | C | V | F | H | M | M | G | Q | P | Q | E | T | R | H | I | V | M | H | N | E | Q | A | V | I | S | P
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | .
Sequence |  | S | W | S | I | H | S | G | V | G | T | K | A | Y | T | F | I | W | G | M | V | G | E | N | Q | V | F | D | D | M | D | H | V | A | V | K | D | L | R
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 |
| d1xrua1 |

### PDB 1xru chain A domain 1

Region: 1 - 277
Aligned: 277
Modelled: 275
Confidence: 100.0%
Identity: 95%
Fold: Double-stranded beta-helix
Superfamily: RmlC-like cupins
Family: KduI-like

Phyre2
2 |
| d1ywka1 |

### PDB 1ywk chain A domain 1

Region: 1 - 262
Aligned: 252
Modelled: 262
Confidence: 100.0%
Identity: 54%
Fold: Double-stranded beta-helix
Superfamily: RmlC-like cupins
Family: KduI-like

Phyre2
3 |
| c1ywkE_ |

### PDB 1ywk chain E

Region: 1 - 262
Aligned: 251
Modelled: 262
Confidence: 100.0%
Identity: 54%
PDB header:isomerase
Chain: E: PDB Molecule:4-deoxy-l-threo-5-hexosulose-uronate ketol-
PDBTitle: crystal structure of 4-deoxy-1-threo-5-hexosulose-uronate2 ketol-isomerase from enterococcus faecalis

Phyre2
4 |
| c2qjvB_ |

### PDB 2qjv chain B

Region: 68 - 272
Aligned: 195
Modelled: 205
Confidence: 100.0%
Identity: 17%
PDB header:isomerase
Chain: B: PDB Molecule:uncharacterized iolb-like protein;
PDBTitle: crystal structure of an iolb-like protein (stm4420) from salmonella2 typhimurium lt2 at 1.90 a resolution

Phyre2
5 |
| d1sq4a_ |

### PDB 1sq4 chain A

Region: 50 - 259
Aligned: 192
Modelled: 210
Confidence: 98.9%
Identity: 13%
Fold: Double-stranded beta-helix
Superfamily: RmlC-like cupins
Family: YlbA-like

Phyre2
6 |
| d1rc6a_ |

### PDB 1rc6 chain A

Region: 57 - 256
Aligned: 172
Modelled: 190
Confidence: 98.9%
Identity: 17%
Fold: Double-stranded beta-helix
Superfamily: RmlC-like cupins
Family: YlbA-like

Phyre2
7 |
| c1sefA_ |

### PDB 1sef chain A

Region: 57 - 259
Aligned: 184
Modelled: 201
Confidence: 98.8%
Identity: 9%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved hypothetical protein;
PDBTitle: crystal structure of cupin domain protein ef2996 from enterococcus2 faecalis

Phyre2
8 |
| d1sefa_ |

### PDB 1sef chain A

Region: 57 - 259
Aligned: 184
Modelled: 201
Confidence: 98.8%
Identity: 9%
Fold: Double-stranded beta-helix
Superfamily: RmlC-like cupins
Family: YlbA-like

Phyre2
9 |
| d1sfna_ |

### PDB 1sfn chain A

Region: 77 - 256
Aligned: 162
Modelled: 172
Confidence: 98.6%
Identity: 11%
Fold: Double-stranded beta-helix
Superfamily: RmlC-like cupins
Family: YlbA-like

Phyre2
10 |
| d1y3ta1 |

### PDB 1y3t chain A domain 1

Region: 33 - 259
Aligned: 206
Modelled: 224
Confidence: 98.4%
Identity: 17%
Fold: Double-stranded beta-helix
Superfamily: RmlC-like cupins
Family: Quercetin 2,3-dioxygenase-like

Phyre2
11 |
| c3rnsA_ |

### PDB 3rns chain A

Region: 77 - 259
Aligned: 150
Modelled: 144
Confidence: 98.3%
Identity: 13%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:cupin 2 conserved barrel domain protein;
PDBTitle: cupin 2 conserved barrel domain protein from leptotrichia buccalis

Phyre2
12 |
| c2d40C_ |

### PDB 2d40 chain C

Region: 77 - 258
Aligned: 166
Modelled: 169
Confidence: 98.1%
Identity: 13%
PDB header:oxidoreductase
Chain: C: PDB Molecule:putative gentisate 1,2-dioxygenase;
PDBTitle: crystal structure of z3393 from escherichia coli o157:h7

Phyre2
13 |
| d2phda1 |

### PDB 2phd chain A domain 1

Region: 81 - 258
Aligned: 166
Modelled: 175
Confidence: 98.1%
Identity: 13%
Fold: Double-stranded beta-helix
Superfamily: RmlC-like cupins
Family: Gentisate 1,2-dioxygenase-like

Phyre2
14 |
| d2d40a1 |

### PDB 2d40 chain A domain 1

Region: 80 - 245
Aligned: 153
Modelled: 166
Confidence: 98.0%
Identity: 14%
Fold: Double-stranded beta-helix
Superfamily: RmlC-like cupins
Family: Gentisate 1,2-dioxygenase-like

Phyre2
15 |
| c3h7yA_ |

### PDB 3h7y chain A

Region: 77 - 259
Aligned: 159
Modelled: 170
Confidence: 98.0%
Identity: 13%
PDB header:biosynthetic protein
Chain: A: PDB Molecule:bacilysin biosynthesis protein bacb;
PDBTitle: crystal structure of bacb, an enzyme involved in bacilysin synthesis,2 in tetragonal form

Phyre2
16 |
| c3myxA_ |

### PDB 3myx chain A

Region: 80 - 243
Aligned: 146
Modelled: 156
Confidence: 97.8%
Identity: 13%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein pspto_0244;
PDBTitle: crystal structure of a pspto_0244 (protein with unknown function which2 belongs to pfam duf861 family) from pseudomonas syringae pv. tomato3 str. dc3000 at 1.30 a resolution

Phyre2
17 |
| c2vqaC_ |

### PDB 2vqa chain C

Region: 80 - 263
Aligned: 176
Modelled: 184
Confidence: 97.5%
Identity: 15%
PDB header:metal-binding protein
Chain: C: PDB Molecule:sll1358 protein;
PDBTitle: protein-folding location can regulate mn versus cu- or zn-2 binding. crystal structure of mnca.

Phyre2
18 |
| c2vpvA_ |

### PDB 2vpv chain A

Region: 22 - 131
Aligned: 91
Modelled: 102
Confidence: 97.4%
Identity: 14%
PDB header:cell cycle
Chain: A: PDB Molecule:protein mif2;
PDBTitle: dimerization domain of mif2p

Phyre2
19 |
| c3bu7A_ |

### PDB 3bu7 chain A

Region: 81 - 259
Aligned: 168
Modelled: 179
Confidence: 97.4%
Identity: 20%
PDB header:oxidoreductase
Chain: A: PDB Molecule:gentisate 1,2-dioxygenase;
PDBTitle: crystal structure and biochemical characterization of gdosp,2 a gentisate 1,2-dioxygenase from silicibacter pomeroyi

Phyre2
20 |
| d3bu7a1 |

### PDB 3bu7 chain A domain 1

Region: 81 - 259
Aligned: 168
Modelled: 179
Confidence: 97.4%
Identity: 20%
Fold: Double-stranded beta-helix
Superfamily: RmlC-like cupins
Family: Gentisate 1,2-dioxygenase-like

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1xrua1 |
|  | 100.0 | 95 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:KduI-like
2 | d1ywka1 |
|  | 100.0 | 54 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:KduI-like
3 | c1ywkE_ |
|  | 100.0 | 54 | PDB header:isomerase Chain: E: PDB Molecule:4-deoxy-l-threo-5-hexosulose-uronate ketol- PDBTitle: crystal structure of 4-deoxy-1-threo-5-hexosulose-uronate2 ketol-isomerase from enterococcus faecalis
4 | c2qjvB_ |
|  | 100.0 | 17 | PDB header:isomerase Chain: B: PDB Molecule:uncharacterized iolb-like protein; PDBTitle: crystal structure of an iolb-like protein (stm4420) from salmonella2 typhimurium lt2 at 1.90 a resolution
5 | d1sq4a_ |
|  | 98.9 | 13 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:YlbA-like
6 | d1rc6a_ |
|  | 98.9 | 17 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:YlbA-like
7 | c1sefA_ |
|  | 98.8 | 9 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved hypothetical protein; PDBTitle: crystal structure of cupin domain protein ef2996 from enterococcus2 faecalis
8 | d1sefa_ |
|  | 98.8 | 9 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:YlbA-like
9 | d1sfna_ |
|  | 98.6 | 11 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:YlbA-like
10 | d1y3ta1 |
|  | 98.4 | 17 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Quercetin 2,3-dioxygenase-like
11 | c3rnsA_ |
|  | 98.3 | 13 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:cupin 2 conserved barrel domain protein; PDBTitle: cupin 2 conserved barrel domain protein from leptotrichia buccalis
12 | c2d40C_ |
|  | 98.1 | 13 | PDB header:oxidoreductase Chain: C: PDB Molecule:putative gentisate 1,2-dioxygenase; PDBTitle: crystal structure of z3393 from escherichia coli o157:h7
13 | d2phda1 |
|  | 98.1 | 13 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Gentisate 1,2-dioxygenase-like
14 | d2d40a1 |
|  | 98.0 | 14 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Gentisate 1,2-dioxygenase-like
15 | c3h7yA_ |
|  | 98.0 | 13 | PDB header:biosynthetic protein Chain: A: PDB Molecule:bacilysin biosynthesis protein bacb; PDBTitle: crystal structure of bacb, an enzyme involved in bacilysin synthesis,2 in tetragonal form
16 | c3myxA_ |
|  | 97.8 | 13 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein pspto_0244; PDBTitle: crystal structure of a pspto_0244 (protein with unknown function which2 belongs to pfam duf861 family) from pseudomonas syringae pv. tomato3 str. dc3000 at 1.30 a resolution
17 | c2vqaC_ |
|  | 97.5 | 15 | PDB header:metal-binding protein Chain: C: PDB Molecule:sll1358 protein; PDBTitle: protein-folding location can regulate mn versus cu- or zn-2 binding. crystal structure of mnca.
18 | c2vpvA_ |
|  | 97.4 | 14 | PDB header:cell cycle Chain: A: PDB Molecule:protein mif2; PDBTitle: dimerization domain of mif2p
19 | c3bu7A_ |
|  | 97.4 | 20 | PDB header:oxidoreductase Chain: A: PDB Molecule:gentisate 1,2-dioxygenase; PDBTitle: crystal structure and biochemical characterization of gdosp,2 a gentisate 1,2-dioxygenase from silicibacter pomeroyi
20 | d3bu7a1 |
|  | 97.4 | 20 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Gentisate 1,2-dioxygenase-like
21 | c2gu9B_ |
| not modelled | 97.4 | 15 | PDB header:immune system Chain: B: PDB Molecule:tetracenomycin polyketide synthesis protein; PDBTitle: crystal structure of xc5357 from xanthomonas campestris: a2 putative tetracenomycin polyketide synthesis protein3 adopting a novel cupin subfamily structure
22 | d1j58a_ |
| not modelled | 97.3 | 15 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein
23 | c3cewA_ |
| not modelled | 97.1 | 22 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized cupin protein; PDBTitle: crystal structure of a cupin protein (bf4112) from bacteroides2 fragilis. northeast structural genomics consortium target bfr205
24 | c2cauA_ |
| not modelled | 97.0 | 13 | PDB header:plant protein Chain: A: PDB Molecule:protein (canavalin); PDBTitle: canavalin from jack bean
25 | c3ht2A_ |
| not modelled | 96.9 | 19 | PDB header:lyase Chain: A: PDB Molecule:remf protein; PDBTitle: zink containing polyketide cyclase remf from streptomyces2 resistomycificus
26 | c3jzvA_ |
| not modelled | 96.9 | 16 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein rru_a2000; PDBTitle: crystal structure of rru_a2000 from rhodospirillum rubrum: a cupin-22 domain.
27 | c3i7dB_ |
| not modelled | 96.9 | 18 | PDB header:isomerase Chain: B: PDB Molecule:sugar phosphate isomerase; PDBTitle: crystal structure of sugar phosphate isomerase from a cupin2 superfamily spo2919 from silicibacter pomeroyi (yp_168127.1) from3 silicibacter pomeroyi dss-3 at 2.30 a resolution
28 | d2pyta1 |
| not modelled | 96.9 | 18 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:EutQ-like
29 | c3lwcA_ |
| not modelled | 96.8 | 28 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of structural genomics, unknown function2 (yp_766765.1) from rhizobium leguminosarum bv. viciae 3841 at 1.40 a3 resolution
30 | d1y9qa2 |
| not modelled | 96.8 | 12 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Probable transcriptional regulator VC1968, C-terminal domain
31 | d2arca_ |
| not modelled | 96.7 | 20 | Fold:Double-stranded beta-helix Superfamily:Regulatory protein AraC Family:Regulatory protein AraC
32 | c2oa2A_ |
| not modelled | 96.7 | 18 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:bh2720 protein; PDBTitle: crystal structure of bh2720 (10175341) from bacillus halodurans at2 1.41 a resolution
33 | d1v70a_ |
| not modelled | 96.6 | 19 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:TM1287-like
34 | d1lr5a_ |
| not modelled | 96.6 | 15 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein
35 | c3kgzA_ |
| not modelled | 96.5 | 16 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:cupin 2 conserved barrel domain protein; PDBTitle: crystal structure of a cupin 2 conserved barrel domain protein from2 rhodopseudomonas palustris
36 | c3ibmB_ |
| not modelled | 96.5 | 14 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:cupin 2, conserved barrel domain protein; PDBTitle: crystal structure of cupin 2 domain-containing protein hhal_0468 from2 halorhodospira halophila
37 | c3h8uA_ |
| not modelled | 96.4 | 16 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized conserved protein with double-stranded PDBTitle: crystal structure of uncharacterized conserved protein with double-2 stranded beta-helix domain (yp_001338853.1) from klebsiella3 pneumoniae subsp. pneumoniae mgh 78578 at 1.80 a resolution
38 | c3l2hD_ |
| not modelled | 96.3 | 19 | PDB header:isomerase Chain: D: PDB Molecule:putative sugar phosphate isomerase; PDBTitle: crystal structure of putative sugar phosphate isomerase (afe_0303)2 from acidithiobacillus ferrooxidans atcc 23270 at 1.85 a resolution
39 | c2pfwB_ |
| not modelled | 96.2 | 16 | PDB header:unknown function Chain: B: PDB Molecule:cupin 2, conserved barrel domain protein; PDBTitle: crystal structure of a rmlc-like cupin (sfri_3105) from shewanella2 frigidimarina ncimb 400 at 1.90 a resolution
40 | c3fjsC_ |
| not modelled | 96.1 | 24 | PDB header:biosynthetic protein Chain: C: PDB Molecule:uncharacterized protein with rmlc-like cupin fold; PDBTitle: crystal structure of a putative biosynthetic protein with rmlc-like2 cupin fold (reut_b4087) from ralstonia eutropha jmp134 at 1.90 a3 resolution
41 | d1o4ta_ |
| not modelled | 96.1 | 17 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:TM1287-like
42 | d2b8ma1 |
| not modelled | 95.7 | 20 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:MJ0764-like
43 | c3d82A_ |
| not modelled | 95.5 | 15 | PDB header:metal binding protein Chain: A: PDB Molecule:cupin 2, conserved barrel domain protein; PDBTitle: crystal structure of a cupin-2 domain containing protein (sfri_3543)2 from shewanella frigidimarina ncimb 400 at 2.05 a resolution
44 | c2o8qA_ |
| not modelled | 95.4 | 10 | PDB header:metal binding protein Chain: A: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of a protein with a cupin-like fold and unknown2 function (bxe_c0505) from burkholderia xenovorans lb400 at 1.55 a3 resolution
45 | d1yhfa1 |
| not modelled | 94.9 | 13 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:TM1287-like
46 | d2f4pa1 |
| not modelled | 94.6 | 12 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:TM1287-like
47 | c2eaaB_ |
| not modelled | 94.5 | 12 | PDB header:plant protein Chain: B: PDB Molecule:7s globulin-3; PDBTitle: crystal structure of adzuki bean 7s globulin-3
48 | c2q30C_ |
| not modelled | 94.2 | 17 | PDB header:unknown function Chain: C: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a rmlc-like cupin protein (dde_2303) from2 desulfovibrio desulfuricans subsp. at 1.94 a resolution
49 | c3bcwB_ |
| not modelled | 94.0 | 18 | PDB header:unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a duf861 family protein with a rmlc-like cupin2 fold (bb1179) from bordetella bronchiseptica rb50 at 1.60 a3 resolution
50 | c2i45C_ |
| not modelled | 94.0 | 11 | PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of protein nmb1881 from neisseria meningitidis
51 | d1uika1 |
| not modelled | 93.8 | 20 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein
52 | c2ozjB_ |
| not modelled | 93.6 | 18 | PDB header:unknown function Chain: B: PDB Molecule:cupin 2, conserved barrel; PDBTitle: crystal structure of a cupin superfamily protein (dsy2733) from2 desulfitobacterium hafniense dcb-2 at 1.60 a resolution
53 | d1o5ua_ |
| not modelled | 93.5 | 23 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Hypothetical protein TM1112
54 | d1dgwa_ |
| not modelled | 93.4 | 15 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein
55 | d1vj2a_ |
| not modelled | 93.1 | 15 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:TM1459-like
56 | d1uija1 |
| not modelled | 92.6 | 19 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein
57 | c1ey2A_ |
| not modelled | 92.5 | 20 | PDB header:oxidoreductase Chain: A: PDB Molecule:homogentisate 1,2-dioxygenase; PDBTitle: human homogentisate dioxygenase with fe(ii)
58 | d1eyba_ |
| not modelled | 92.4 | 20 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Homogentisate dioxygenase
59 | d1pmia_ |
| not modelled | 92.1 | 26 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Type I phosphomannose isomerase
60 | c2oziA_ |
| not modelled | 91.9 | 16 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein rpa4178; PDBTitle: structural genomics, the crystal structure of a putative2 protein rpa4178 from rhodopseudomonas palustris cga009
61 | d1j3pa_ |
| not modelled | 91.3 | 23 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Glucose-6-phosphate isomerase, GPI
62 | c2fqpD_ |
| not modelled | 90.7 | 11 | PDB header:metal binding protein Chain: D: PDB Molecule:hypothetical protein bp2299; PDBTitle: crystal structure of a cupin domain (bp2299) from bordetella pertussis2 tohama i at 1.80 a resolution
63 | c3s7eB_ |
| not modelled | 88.1 | 14 | PDB header:allergen Chain: B: PDB Molecule:allergen ara h 1, clone p41b; PDBTitle: crystal structure of ara h 1
64 | c1uijA_ |
| not modelled | 87.6 | 15 | PDB header:sugar binding protein Chain: A: PDB Molecule:beta subunit of beta conglycinin; PDBTitle: crystal structure of soybean beta-conglycinin beta2 homotrimer (i122m/k124w)
65 | c3h1yA_ |
| not modelled | 87.4 | 16 | PDB header:isomerase Chain: A: PDB Molecule:mannose-6-phosphate isomerase; PDBTitle: crystal structure of mannose 6-phosphate isomerase from2 salmonella typhimurium bound to substrate (f6p)and metal3 atom (zn)
66 | d1juha_ |
| not modelled | 86.5 | 11 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Quercetin 2,3-dioxygenase-like
67 | d1zx5a1 |
| not modelled | 86.2 | 11 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Type I phosphomannose isomerase
68 | d1x82a_ |
| not modelled | 86.1 | 18 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Glucose-6-phosphate isomerase, GPI
69 | c2opkC_ |
| not modelled | 85.3 | 20 | PDB header:isomerase Chain: C: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of a putative mannose-6-phosphate isomerase2 (reut_a1446) from ralstonia eutropha jmp134 at 2.10 a resolution
70 | d1qwra_ |
| not modelled | 85.1 | 11 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Type I phosphomannose isomerase
71 | c3kglB_ |
| not modelled | 83.8 | 21 | PDB header:plant protein Chain: B: PDB Molecule:cruciferin; PDBTitle: crystal structure of procruciferin, 11s globulin from2 brassica napus
72 | c3es4B_ |
| not modelled | 83.2 | 15 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein duf861 with a rmlc-like cupin fold; PDBTitle: crystal structure of protein of unknown function (duf861) with a rmlc-2 like cupin fold (17741406) from agrobacterium tumefaciens str. c583 (dupont) at 1.64 a resolution
73 | c2bnoA_ |
| not modelled | 78.1 | 12 | PDB header:oxidoreductase Chain: A: PDB Molecule:epoxidase; PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis.
74 | c1y9qA_ |
| not modelled | 70.8 | 12 | 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
75 | d1od5a2 |
| not modelled | 68.5 | 17 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein
76 | c3eo6B_ |
| not modelled | 64.9 | 13 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein of unknown function (duf1255); PDBTitle: crystal structure of protein of unknown function (duf1255)2 (afe_2634) from acidithiobacillus ferrooxidans ncib8455 at3 0.97 a resolution
77 | c2qnkA_ |
| not modelled | 64.1 | 16 | PDB header:oxidoreductase Chain: A: PDB Molecule:3-hydroxyanthranilate 3,4-dioxygenase; PDBTitle: crystal structure of human 3-hydroxyanthranilate 3,4-dioxygenase
78 | d1yfua1 |
| not modelled | 63.0 | 13 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:3-hydroxyanthranilic acid dioxygenase-like
79 | c2xlfA_ |
| not modelled | 61.7 | 19 | PDB header:metal binding protein Chain: A: PDB Molecule:sll1785 protein; PDBTitle: structure and metal-loading of a soluble periplasm cupro-protein:2 apo-cuca-closed (semet)
80 | c3es1A_ |
| not modelled | 61.6 | 19 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:cupin 2, conserved barrel domain protein; PDBTitle: crystal structure of protein with a cupin-like fold and unknown2 function (yp_001165807.1) from novosphingobium aromaticivorans dsm3 12444 at 1.91 a resolution
81 | c1cauB_ |
| not modelled | 61.4 | 28 | PDB header:seed storage protein Chain: B: PDB Molecule:canavalin; PDBTitle: determination of three crystal structures of canavalin by molecular2 replacement
82 | d2phla2 |
| not modelled | 59.5 | 10 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein
83 | c3qacA_ |
| not modelled | 57.9 | 17 | PDB header:plant protein Chain: A: PDB Molecule:11s globulin seed storage protein; PDBTitle: structure of amaranth 11s proglobulin seed storage protein from2 amaranthus hypochondriacus l.
84 | d2et1a1 |
| not modelled | 53.6 | 16 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein
85 | d1fxza1 |
| not modelled | 51.3 | 15 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein
86 | d1uija2 |
| not modelled | 48.4 | 11 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein
87 | d2bnma2 |
| not modelled | 48.3 | 10 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:TM1459-like
88 | c2xdvA_ |
| not modelled | 43.2 | 15 | PDB header:nuclear protein Chain: A: PDB Molecule:myc-induced nuclear antigen; PDBTitle: crystal structure of the catalytic domain of flj14393
89 | c2k5hA_ |
| not modelled | 32.8 | 21 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved protein; PDBTitle: solution nmr structure of protein encoded by mth693 from2 methanobacterium thermoautotrophicum: northeast structural3 genomics consortium target tt824a
90 | d2oyza1 |
| not modelled | 32.7 | 13 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:VPA0057-like
91 | c3hqxA_ |
| not modelled | 31.2 | 20 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0345 protein aciad0356; PDBTitle: crystal structure of protein of unknown function (duf1255,pf06865)2 from acinetobacter sp. adp1
92 | d1zrra1 |
| not modelled | 30.8 | 13 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Acireductone dioxygenase
93 | d2exda1 |
| not modelled | 30.7 | 13 | Fold:OB-fold Superfamily:NfeD domain-like Family:NfeD domain-like
94 | d1vrba1 |
| not modelled | 30.4 | 20 | Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:Asparaginyl hydroxylase-like
95 | c2ko2A_ |
| not modelled | 29.0 | 33 | PDB header:membrane protein Chain: A: PDB Molecule:reticulon-4; PDBTitle: nogo66
96 | c3kscD_ |
| not modelled | 28.7 | 14 | PDB header:plant protein Chain: D: PDB Molecule:lega class; PDBTitle: crystal structure of pea prolegumin, an 11s seed globulin2 from pisum sativum l.
97 | c3al6A_ |
| not modelled | 26.3 | 13 | PDB header:unknown function Chain: A: PDB Molecule:jmjc domain-containing protein c2orf60; PDBTitle: crystal structure of human tyw5
98 | d1fxza2 |
| not modelled | 25.4 | 7 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein
99 | c2d5fB_ |
| not modelled | 23.9 | 10 | PDB header:plant protein Chain: B: PDB Molecule:glycinin a3b4 subunit; PDBTitle: crystal structure of recombinant soybean proglycinin a3b4 subunit, its2 comparison with mature glycinin a3b4 subunit, responsible for hexamer3 assembly
100 | d1od5a1 |
| not modelled | 23.4 | 20 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein
101 | c2b9sB_ |
| not modelled | 21.4 | 50 | PDB header:isomerase/dna Chain: B: PDB Molecule:dna topoisomerase i-like protein; PDBTitle: crystal structure of heterodimeric l. donovani2 topoisomerase i-vanadate-dna complex

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