Phyre 2 Results for P37351

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Email | l.a.kelley@imperial.ac.uk
Description | P37351
Date | Thu Jan 5 11:55:29 GMT 2012
Unique Job ID | c008354b7a67059b

Summary |

Top model
Image coloured by rainbow N → C terminus
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Model (left) based on template d1nn4a_
Top template information
Fold:Ribose/Galactose isomerase RpiB/AlsB Superfamily:Ribose/Galactose isomerase RpiB/AlsB Family:Ribose/Galactose isomerase RpiB/AlsB
Confidence and coverage
Confidence: | 100.0% | Coverage: | 98%
146 residues ( 98% 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 | K | I | A | F | G | C | D | H | V | G | F | I | L | K | H | E | I | V | A | H | L | V | E | R | G | V | E | V | I | D | K | G | T | W | S | S | E | R | T | D | Y | P | H | Y | A | S | Q | V | A | L | A | V | A | G | G | E | V | D
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | G | G | I | L | I | C | G | T | G | V | G | I | S | I | A | A | N | K | F | A | G | I | R | A | V | V | C | S | E | P | Y | S | A | Q | L | S | R | Q | H | N | D | T | N | V | L | A | F | G | S | R | V | V | G | L | E | L | A | K | M | I
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | .
Sequence |  | V | D | A | W | L | G | A | Q | Y | E | G | G | R | H | Q | Q | R | V | E | A | I | T | A | I | E | Q | R | R | N
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 |
| d1nn4a_ |

### PDB 1nn4 chain A

Region: 1 - 146
Aligned: 146
Modelled: 146
Confidence: 100.0%
Identity: 100%
Fold: Ribose/Galactose isomerase RpiB/AlsB
Superfamily: Ribose/Galactose isomerase RpiB/AlsB
Family: Ribose/Galactose isomerase RpiB/AlsB

Phyre2
2 |
| c3he8A_ |

### PDB 3he8 chain A

Region: 3 - 149
Aligned: 147
Modelled: 147
Confidence: 100.0%
Identity: 57%
PDB header:isomerase
Chain: A: PDB Molecule:ribose-5-phosphate isomerase;
PDBTitle: structural study of clostridium thermocellum ribose-5-phosphate2 isomerase b

Phyre2
3 |
| c3m1pA_ |

### PDB 3m1p chain A

Region: 1 - 149
Aligned: 149
Modelled: 149
Confidence: 100.0%
Identity: 40%
PDB header:isomerase
Chain: A: PDB Molecule:ribose 5-phosphate isomerase;
PDBTitle: structure of ribose 5-phosphate isomerase type b from trypanosoma2 cruzi, soaked with allose-6-phosphate

Phyre2
4 |
| c3k7pA_ |

### PDB 3k7p chain A

Region: 1 - 149
Aligned: 149
Modelled: 149
Confidence: 100.0%
Identity: 40%
PDB header:isomerase
Chain: A: PDB Molecule:ribose 5-phosphate isomerase;
PDBTitle: structure of mutant of ribose 5-phosphate isomerase type b from2 trypanosoma cruzi.

Phyre2
5 |
| d2vvpa1 |

### PDB 2vvp chain A domain 1

Region: 3 - 149
Aligned: 147
Modelled: 147
Confidence: 100.0%
Identity: 32%
Fold: Ribose/Galactose isomerase RpiB/AlsB
Superfamily: Ribose/Galactose isomerase RpiB/AlsB
Family: Ribose/Galactose isomerase RpiB/AlsB

Phyre2
6 |
| d1o1xa_ |

### PDB 1o1x chain A

Region: 2 - 144
Aligned: 142
Modelled: 143
Confidence: 100.0%
Identity: 46%
Fold: Ribose/Galactose isomerase RpiB/AlsB
Superfamily: Ribose/Galactose isomerase RpiB/AlsB
Family: Ribose/Galactose isomerase RpiB/AlsB

Phyre2
7 |
| c3qd5B_ |

### PDB 3qd5 chain B

Region: 3 - 148
Aligned: 145
Modelled: 146
Confidence: 100.0%
Identity: 39%
PDB header:isomerase
Chain: B: PDB Molecule:putative ribose-5-phosphate isomerase;
PDBTitle: crystal structure of a putative ribose-5-phosphate isomerase from2 coccidioides immitis solved by combined iodide ion sad and mr

Phyre2
8 |
| c3s5pA_ |

### PDB 3s5p chain A

Region: 3 - 140
Aligned: 130
Modelled: 138
Confidence: 100.0%
Identity: 45%
PDB header:isomerase
Chain: A: PDB Molecule:ribose 5-phosphate isomerase;
PDBTitle: crystal structure of ribose-5-phosphate isomerase b rpib from giardia2 lamblia

Phyre2
9 |
| c2ppwA_ |

### PDB 2ppw chain A

Region: 3 - 148
Aligned: 146
Modelled: 146
Confidence: 100.0%
Identity: 25%
PDB header:isomerase
Chain: A: PDB Molecule:conserved domain protein;
PDBTitle: the crystal structure of uncharacterized ribose 5-phosphate isomerase2 rpib from streptococcus pneumoniae

Phyre2
10 |
| c3onoA_ |

### PDB 3ono chain A

Region: 3 - 147
Aligned: 145
Modelled: 139
Confidence: 100.0%
Identity: 21%
PDB header:isomerase
Chain: A: PDB Molecule:ribose/galactose isomerase;
PDBTitle: crystal structure of ribose-5-phosphate isomerase lacab_rpib from2 vibrio parahaemolyticus

Phyre2
11 |
| c3c5yD_ |

### PDB 3c5y chain D

Region: 3 - 144
Aligned: 141
Modelled: 142
Confidence: 100.0%
Identity: 18%
PDB header:isomerase
Chain: D: PDB Molecule:ribose/galactose isomerase;
PDBTitle: crystal structure of a putative ribose 5-phosphate isomerase2 (saro_3514) from novosphingobium aromaticivorans dsm at 1.81 a3 resolution

Phyre2
12 |
| c2pjkA_ |

### PDB 2pjk chain A

Region: 1 - 71
Aligned: 68
Modelled: 71
Confidence: 93.2%
Identity: 25%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:178aa long hypothetical molybdenum cofactor
PDBTitle: structure of hypothetical molybdenum cofactor biosynthesis2 protein b from sulfolobus tokodaii

Phyre2
13 |
| d1mkza_ |

### PDB 1mkz chain A

Region: 1 - 71
Aligned: 68
Modelled: 71
Confidence: 91.5%
Identity: 22%
Fold: Molybdenum cofactor biosynthesis proteins
Superfamily: Molybdenum cofactor biosynthesis proteins
Family: MogA-like

Phyre2
14 |
| d1y5ea1 |

### PDB 1y5e chain A domain 1

Region: 1 - 71
Aligned: 68
Modelled: 71
Confidence: 91.0%
Identity: 21%
Fold: Molybdenum cofactor biosynthesis proteins
Superfamily: Molybdenum cofactor biosynthesis proteins
Family: MogA-like

Phyre2
15 |
| d1p5dx1 |

### PDB 1p5d chain X domain 1

Region: 2 - 65
Aligned: 55
Modelled: 64
Confidence: 90.0%
Identity: 27%
Fold: Phosphoglucomutase, first 3 domains
Superfamily: Phosphoglucomutase, first 3 domains
Family: Phosphoglucomutase, first 3 domains

Phyre2
16 |
| c3pdkB_ |

### PDB 3pdk chain B

Region: 2 - 68
Aligned: 58
Modelled: 67
Confidence: 89.0%
Identity: 29%
PDB header:isomerase
Chain: B: PDB Molecule:phosphoglucosamine mutase;
PDBTitle: crystal structure of phosphoglucosamine mutase from b. anthracis

Phyre2
17 |
| c3i3wB_ |

### PDB 3i3w chain B

Region: 2 - 65
Aligned: 55
Modelled: 64
Confidence: 89.0%
Identity: 25%
PDB header:isomerase
Chain: B: PDB Molecule:phosphoglucosamine mutase;
PDBTitle: structure of a phosphoglucosamine mutase from francisella tularensis

Phyre2
18 |
| c2is8A_ |

### PDB 2is8 chain A

Region: 18 - 71
Aligned: 51
Modelled: 54
Confidence: 88.5%
Identity: 20%
PDB header:structural protein
Chain: A: PDB Molecule:molybdopterin biosynthesis enzyme, moab;
PDBTitle: crystal structure of the molybdopterin biosynthesis enzyme moab2 (ttha0341) from thermus theromophilus hb8

Phyre2
19 |
| c1wqaB_ |

### PDB 1wqa chain B

Region: 2 - 68
Aligned: 58
Modelled: 67
Confidence: 88.3%
Identity: 31%
PDB header:isomerase
Chain: B: PDB Molecule:phospho-sugar mutase;
PDBTitle: crystal structure of pyrococcus horikoshii2 phosphomannomutase/phosphoglucomutase complexed with mg2+

Phyre2
20 |
| c2f7lA_ |

### PDB 2f7l chain A

Region: 2 - 68
Aligned: 58
Modelled: 67
Confidence: 87.8%
Identity: 34%
PDB header:isomerase
Chain: A: PDB Molecule:455aa long hypothetical phospho-sugar mutase;
PDBTitle: crystal structure of sulfolobus tokodaii2 phosphomannomutase/phosphoglucomutase

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1nn4a_ |
|  | 100.0 | 100 | Fold:Ribose/Galactose isomerase RpiB/AlsB Superfamily:Ribose/Galactose isomerase RpiB/AlsB Family:Ribose/Galactose isomerase RpiB/AlsB
2 | c3he8A_ |
|  | 100.0 | 57 | PDB header:isomerase Chain: A: PDB Molecule:ribose-5-phosphate isomerase; PDBTitle: structural study of clostridium thermocellum ribose-5-phosphate2 isomerase b
3 | c3m1pA_ |
|  | 100.0 | 40 | PDB header:isomerase Chain: A: PDB Molecule:ribose 5-phosphate isomerase; PDBTitle: structure of ribose 5-phosphate isomerase type b from trypanosoma2 cruzi, soaked with allose-6-phosphate
4 | c3k7pA_ |
|  | 100.0 | 40 | PDB header:isomerase Chain: A: PDB Molecule:ribose 5-phosphate isomerase; PDBTitle: structure of mutant of ribose 5-phosphate isomerase type b from2 trypanosoma cruzi.
5 | d2vvpa1 |
|  | 100.0 | 32 | Fold:Ribose/Galactose isomerase RpiB/AlsB Superfamily:Ribose/Galactose isomerase RpiB/AlsB Family:Ribose/Galactose isomerase RpiB/AlsB
6 | d1o1xa_ |
|  | 100.0 | 46 | Fold:Ribose/Galactose isomerase RpiB/AlsB Superfamily:Ribose/Galactose isomerase RpiB/AlsB Family:Ribose/Galactose isomerase RpiB/AlsB
7 | c3qd5B_ |
|  | 100.0 | 39 | PDB header:isomerase Chain: B: PDB Molecule:putative ribose-5-phosphate isomerase; PDBTitle: crystal structure of a putative ribose-5-phosphate isomerase from2 coccidioides immitis solved by combined iodide ion sad and mr
8 | c3s5pA_ |
|  | 100.0 | 45 | PDB header:isomerase Chain: A: PDB Molecule:ribose 5-phosphate isomerase; PDBTitle: crystal structure of ribose-5-phosphate isomerase b rpib from giardia2 lamblia
9 | c2ppwA_ |
|  | 100.0 | 25 | PDB header:isomerase Chain: A: PDB Molecule:conserved domain protein; PDBTitle: the crystal structure of uncharacterized ribose 5-phosphate isomerase2 rpib from streptococcus pneumoniae
10 | c3onoA_ |
|  | 100.0 | 21 | PDB header:isomerase Chain: A: PDB Molecule:ribose/galactose isomerase; PDBTitle: crystal structure of ribose-5-phosphate isomerase lacab_rpib from2 vibrio parahaemolyticus
11 | c3c5yD_ |
|  | 100.0 | 18 | PDB header:isomerase Chain: D: PDB Molecule:ribose/galactose isomerase; PDBTitle: crystal structure of a putative ribose 5-phosphate isomerase2 (saro_3514) from novosphingobium aromaticivorans dsm at 1.81 a3 resolution
12 | c2pjkA_ |
|  | 93.2 | 25 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:178aa long hypothetical molybdenum cofactor PDBTitle: structure of hypothetical molybdenum cofactor biosynthesis2 protein b from sulfolobus tokodaii
13 | d1mkza_ |
|  | 91.5 | 22 | Fold:Molybdenum cofactor biosynthesis proteins Superfamily:Molybdenum cofactor biosynthesis proteins Family:MogA-like
14 | d1y5ea1 |
|  | 91.0 | 21 | Fold:Molybdenum cofactor biosynthesis proteins Superfamily:Molybdenum cofactor biosynthesis proteins Family:MogA-like
15 | d1p5dx1 |
|  | 90.0 | 27 | Fold:Phosphoglucomutase, first 3 domains Superfamily:Phosphoglucomutase, first 3 domains Family:Phosphoglucomutase, first 3 domains
16 | c3pdkB_ |
|  | 89.0 | 29 | PDB header:isomerase Chain: B: PDB Molecule:phosphoglucosamine mutase; PDBTitle: crystal structure of phosphoglucosamine mutase from b. anthracis
17 | c3i3wB_ |
|  | 89.0 | 25 | PDB header:isomerase Chain: B: PDB Molecule:phosphoglucosamine mutase; PDBTitle: structure of a phosphoglucosamine mutase from francisella tularensis
18 | c2is8A_ |
|  | 88.5 | 20 | PDB header:structural protein Chain: A: PDB Molecule:molybdopterin biosynthesis enzyme, moab; PDBTitle: crystal structure of the molybdopterin biosynthesis enzyme moab2 (ttha0341) from thermus theromophilus hb8
19 | c1wqaB_ |
|  | 88.3 | 31 | PDB header:isomerase Chain: B: PDB Molecule:phospho-sugar mutase; PDBTitle: crystal structure of pyrococcus horikoshii2 phosphomannomutase/phosphoglucomutase complexed with mg2+
20 | c2f7lA_ |
|  | 87.8 | 34 | PDB header:isomerase Chain: A: PDB Molecule:455aa long hypothetical phospho-sugar mutase; PDBTitle: crystal structure of sulfolobus tokodaii2 phosphomannomutase/phosphoglucomutase
21 | c3c04A_ |
| not modelled | 82.0 | 31 | PDB header:isomerase Chain: A: PDB Molecule:phosphomannomutase/phosphoglucomutase; PDBTitle: structure of the p368g mutant of pmm/pgm from p. aeruginosa
22 | c2xecD_ |
| not modelled | 81.4 | 18 | PDB header:isomerase Chain: D: PDB Molecule:putative maleate isomerase; PDBTitle: nocardia farcinica maleate cis-trans isomerase bound to2 tris
23 | c1tvmA_ |
| not modelled | 80.8 | 35 | PDB header:transferase Chain: A: PDB Molecule:pts system, galactitol-specific iib component; PDBTitle: nmr structure of enzyme gatb of the galactitol-specific2 phosphoenolpyruvate-dependent phosphotransferase system
24 | c1tuoA_ |
| not modelled | 80.3 | 22 | PDB header:biosynthetic protein Chain: A: PDB Molecule:putative phosphomannomutase; PDBTitle: crystal structure of putative phosphomannomutase from2 thermus thermophilus hb8
25 | d1jlja_ |
| not modelled | 79.6 | 10 | Fold:Molybdenum cofactor biosynthesis proteins Superfamily:Molybdenum cofactor biosynthesis proteins Family:MogA-like
26 | c3rfqC_ |
| not modelled | 78.3 | 29 | PDB header:biosynthetic protein Chain: C: PDB Molecule:pterin-4-alpha-carbinolamine dehydratase moab2; PDBTitle: crystal structure of pterin-4-alpha-carbinolamine dehydratase moab22 from mycobacterium marinum
27 | d1uuya_ |
| not modelled | 77.7 | 17 | Fold:Molybdenum cofactor biosynthesis proteins Superfamily:Molybdenum cofactor biosynthesis proteins Family:MogA-like
28 | d2g2ca1 |
| not modelled | 74.2 | 22 | Fold:Molybdenum cofactor biosynthesis proteins Superfamily:Molybdenum cofactor biosynthesis proteins Family:MogA-like
29 | c1vkrA_ |
| not modelled | 70.8 | 32 | PDB header:transferase Chain: A: PDB Molecule:mannitol-specific pts system enzyme iiabc components; PDBTitle: structure of iib domain of the mannitol-specific permease enzyme ii
30 | d1vkra_ |
| not modelled | 70.8 | 32 | Fold:Phosphotyrosine protein phosphatases I-like Superfamily:PTS system IIB component-like Family:PTS system, Lactose/Cellobiose specific IIB subunit
31 | c3czcA_ |
| not modelled | 70.2 | 31 | PDB header:transferase Chain: A: PDB Molecule:rmpb; PDBTitle: the crystal structure of a putative pts iib(ptxb) from2 streptococcus mutans
32 | d2gaxa1 |
| not modelled | 68.6 | 10 | Fold:Peptidyl-tRNA hydrolase II Superfamily:Peptidyl-tRNA hydrolase II Family:Peptidyl-tRNA hydrolase II
33 | c3kbqA_ |
| not modelled | 67.7 | 18 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein ta0487; PDBTitle: the crystal structure of the protein cina with unknown function from2 thermoplasma acidophilum
34 | d2ftsa3 |
| not modelled | 67.1 | 18 | Fold:Molybdenum cofactor biosynthesis proteins Superfamily:Molybdenum cofactor biosynthesis proteins Family:MoeA central domain-like
35 | d2f7wa1 |
| not modelled | 66.7 | 9 | Fold:Molybdenum cofactor biosynthesis proteins Superfamily:Molybdenum cofactor biosynthesis proteins Family:MogA-like
36 | c2yxbA_ |
| not modelled | 65.7 | 23 | PDB header:isomerase Chain: A: PDB Molecule:coenzyme b12-dependent mutase; PDBTitle: crystal structure of the methylmalonyl-coa mutase alpha-subunit from2 aeropyrum pernix
37 | c3gpiA_ |
| not modelled | 61.6 | 32 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:nad-dependent epimerase/dehydratase; PDBTitle: structure of putative nad-dependent epimerase/dehydratase2 from methylobacillus flagellatus
38 | c3bq9A_ |
| not modelled | 61.2 | 22 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:predicted rossmann fold nucleotide-binding domain- PDBTitle: crystal structure of predicted nucleotide-binding protein from2 idiomarina baltica os145
39 | c2dgdD_ |
| not modelled | 60.5 | 16 | PDB header:lyase Chain: D: PDB Molecule:223aa long hypothetical arylmalonate decarboxylase; PDBTitle: crystal structure of st0656, a function unknown protein from2 sulfolobus tokodaii
40 | d3bula2 |
| not modelled | 60.1 | 22 | Fold:Flavodoxin-like Superfamily:Cobalamin (vitamin B12)-binding domain Family:Cobalamin (vitamin B12)-binding domain
41 | d1v7ra_ |
| not modelled | 59.1 | 18 | Fold:Anticodon-binding domain-like Superfamily:ITPase-like Family:ITPase (Ham1)
42 | d1uz5a3 |
| not modelled | 58.4 | 13 | Fold:Molybdenum cofactor biosynthesis proteins Superfamily:Molybdenum cofactor biosynthesis proteins Family:MoeA central domain-like
43 | c1k98A_ |
| not modelled | 54.0 | 22 | PDB header:transferase Chain: A: PDB Molecule:methionine synthase; PDBTitle: adomet complex of meth c-terminal fragment
44 | d2nqra3 |
| not modelled | 46.4 | 29 | Fold:Molybdenum cofactor biosynthesis proteins Superfamily:Molybdenum cofactor biosynthesis proteins Family:MoeA central domain-like
45 | d1di6a_ |
| not modelled | 46.3 | 9 | Fold:Molybdenum cofactor biosynthesis proteins Superfamily:Molybdenum cofactor biosynthesis proteins Family:MogA-like
46 | c3ezxA_ |
| not modelled | 45.3 | 17 | PDB header:transferase Chain: A: PDB Molecule:monomethylamine corrinoid protein 1; PDBTitle: structure of methanosarcina barkeri monomethylamine2 corrinoid protein
47 | d1fmfa_ |
| not modelled | 44.5 | 30 | Fold:Flavodoxin-like Superfamily:Cobalamin (vitamin B12)-binding domain Family:Cobalamin (vitamin B12)-binding domain
48 | c2nqqA_ |
| not modelled | 44.3 | 29 | PDB header:biosynthetic protein Chain: A: PDB Molecule:molybdopterin biosynthesis protein moea; PDBTitle: moea r137q
49 | c1c4gB_ |
| not modelled | 41.5 | 21 | PDB header:transferase Chain: B: PDB Molecule:protein (alpha-d-glucose 1-phosphate PDBTitle: phosphoglucomutase vanadate based transition state analog2 complex
50 | c2g4rB_ |
| not modelled | 41.4 | 26 | PDB header:biosynthetic protein Chain: B: PDB Molecule:molybdopterin biosynthesis mog protein; PDBTitle: anomalous substructure of moga
51 | c1kfiA_ |
| not modelled | 40.9 | 13 | PDB header:isomerase Chain: A: PDB Molecule:phosphoglucomutase 1; PDBTitle: crystal structure of the exocytosis-sensitive2 phosphoprotein, pp63/parafusin (phosphoglucomutase) from3 paramecium
52 | d1ws6a1 |
| not modelled | 40.4 | 15 | Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:YhhF-like
53 | c1bmtB_ |
| not modelled | 38.1 | 22 | PDB header:methyltransferase Chain: B: PDB Molecule:methionine synthase; PDBTitle: how a protein binds b12: a 3.o angstrom x-ray structure of2 the b12-binding domains of methionine synthase
54 | c2r60A_ |
| not modelled | 37.8 | 25 | PDB header:transferase Chain: A: PDB Molecule:glycosyl transferase, group 1; PDBTitle: structure of apo sucrose phosphate synthase (sps) of2 halothermothrix orenii
55 | c2fuvB_ |
| not modelled | 37.0 | 22 | PDB header:isomerase Chain: B: PDB Molecule:phosphoglucomutase; PDBTitle: phosphoglucomutase from salmonella typhimurium.
56 | c3dz1A_ |
| not modelled | 35.8 | 13 | PDB header:lyase Chain: A: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from2 rhodopseudomonas palustris at 1.87a resolution
57 | d7reqa2 |
| not modelled | 35.3 | 17 | Fold:Flavodoxin-like Superfamily:Cobalamin (vitamin B12)-binding domain Family:Cobalamin (vitamin B12)-binding domain
58 | d1xova2 |
| not modelled | 34.9 | 14 | Fold:Phosphorylase/hydrolase-like Superfamily:Zn-dependent exopeptidases Family:N-acetylmuramoyl-L-alanine amidase-like
59 | c3ir1F_ |
| not modelled | 34.1 | 26 | PDB header:protein binding Chain: F: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of lipoprotein gna1946 from neisseria2 meningitidis
60 | c3tngA_ |
| not modelled | 33.5 | 23 | PDB header:transferase Chain: A: PDB Molecule:lmo1369 protein; PDBTitle: the crystal structure of a possible phosphate acetyl/butaryl2 transferase from listeria monocytogenes egd-e.
61 | c3grzA_ |
| not modelled | 33.4 | 20 | PDB header:transferase Chain: A: PDB Molecule:ribosomal protein l11 methyltransferase; PDBTitle: crystal structure of ribosomal protein l11 methylase from2 lactobacillus delbrueckii subsp. bulgaricus
62 | d2jgra1 |
| not modelled | 32.8 | 19 | Fold:NAD kinase/diacylglycerol kinase-like Superfamily:NAD kinase/diacylglycerol kinase-like Family:Diacylglycerol kinase-like
63 | d1fp1d2 |
| not modelled | 32.5 | 12 | Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:Plant O-methyltransferase, C-terminal domain
64 | d1iiba_ |
| not modelled | 31.5 | 25 | Fold:Phosphotyrosine protein phosphatases I-like Superfamily:PTS system IIB component-like Family:PTS system, Lactose/Cellobiose specific IIB subunit
65 | c3gxaA_ |
| not modelled | 30.8 | 30 | PDB header:protein binding Chain: A: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of gna1946
66 | c2jrlA_ |
| not modelled | 30.7 | 24 | PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: solution structure of the beryllofluoride-activated ntrc4 receiver2 domain dimer
67 | c2esrB_ |
| not modelled | 30.7 | 15 | PDB header:transferase Chain: B: PDB Molecule:methyltransferase; PDBTitle: conserved hypothetical protein- streptococcus pyogenes
68 | c3dzcA_ |
| not modelled | 29.8 | 20 | PDB header:isomerase Chain: A: PDB Molecule:udp-n-acetylglucosamine 2-epimerase; PDBTitle: 2.35 angstrom resolution structure of wecb (vc0917), a udp-n-2 acetylglucosamine 2-epimerase from vibrio cholerae.
69 | c2p35A_ |
| not modelled | 29.0 | 11 | PDB header:transferase Chain: A: PDB Molecule:trans-aconitate 2-methyltransferase; PDBTitle: crystal structure of trans-aconitate methyltransferase from2 agrobacterium tumefaciens
70 | c3kklA_ |
| not modelled | 28.7 | 17 | PDB header:hydrolase Chain: A: PDB Molecule:probable chaperone protein hsp33; PDBTitle: crystal structure of functionally unknown hsp33 from2 saccharomyces cerevisiae
71 | c2i2xD_ |
| not modelled | 28.6 | 35 | PDB header:transferase Chain: D: PDB Molecule:methyltransferase 1; PDBTitle: crystal structure of methanol:cobalamin methyltransferase complex2 mtabc from methanosarcina barkeri
72 | c3d4oA_ |
| not modelled | 28.5 | 15 | PDB header:oxidoreductase Chain: A: PDB Molecule:dipicolinate synthase subunit a; PDBTitle: crystal structure of dipicolinate synthase subunit a (np_243269.1)2 from bacillus halodurans at 2.10 a resolution
73 | d2naca2 |
| not modelled | 28.2 | 13 | Fold:Flavodoxin-like Superfamily:Formate/glycerate dehydrogenase catalytic domain-like Family:Formate/glycerate dehydrogenases, substrate-binding domain
74 | d1vhta_ |
| not modelled | 28.0 | 26 | Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nucleotide and nucleoside kinases
75 | c3crnA_ |
| not modelled | 27.9 | 24 | PDB header:signaling protein Chain: A: PDB Molecule:response regulator receiver domain protein, chey-like; PDBTitle: crystal structure of response regulator receiver domain protein (chey-2 like) from methanospirillum hungatei jf-1
76 | c1yr3A_ |
| not modelled | 27.8 | 17 | PDB header:transferase Chain: A: PDB Molecule:xanthosine phosphorylase; PDBTitle: escherichia coli purine nucleoside phosphorylase ii, the2 product of the xapa gene
77 | d1fp2a2 |
| not modelled | 27.0 | 19 | Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:Plant O-methyltransferase, C-terminal domain
78 | c3h5dD_ |
| not modelled | 26.6 | 15 | PDB header:lyase Chain: D: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: dihydrodipicolinate synthase from drug-resistant streptococcus2 pneumoniae
79 | c3clhA_ |
| not modelled | 26.5 | 17 | PDB header:lyase Chain: A: PDB Molecule:3-dehydroquinate synthase; PDBTitle: crystal structure of 3-dehydroquinate synthase (dhqs)from2 helicobacter pylori
80 | c2q1wC_ |
| not modelled | 25.8 | 41 | PDB header:sugar binding protein Chain: C: PDB Molecule:putative nucleotide sugar epimerase/ dehydratase; PDBTitle: crystal structure of the bordetella bronchiseptica enzyme wbmh in2 complex with nad+
81 | c1y80A_ |
| not modelled | 24.8 | 22 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:predicted cobalamin binding protein; PDBTitle: structure of a corrinoid (factor iiim)-binding protein from2 moorella thermoacetica
82 | d3pmga1 |
| not modelled | 24.8 | 16 | Fold:Phosphoglucomutase, first 3 domains Superfamily:Phosphoglucomutase, first 3 domains Family:Phosphoglucomutase, first 3 domains
83 | d1mgta2 |
| not modelled | 24.7 | 33 | Fold:Ribonuclease H-like motif Superfamily:Methylated DNA-protein cysteine methyltransferase domain Family:Methylated DNA-protein cysteine methyltransferase domain
84 | d1j8fa_ |
| not modelled | 24.2 | 30 | Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Sir2 family of transcriptional regulators
85 | d1qrda_ |
| not modelled | 24.0 | 20 | Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Quinone reductase
86 | c2rirA_ |
| not modelled | 23.5 | 18 | PDB header:oxidoreductase Chain: A: PDB Molecule:dipicolinate synthase, a chain; PDBTitle: crystal structure of dipicolinate synthase, a chain, from bacillus2 subtilis
87 | c3nbmA_ |
| not modelled | 22.4 | 17 | PDB header:transferase Chain: A: PDB Molecule:pts system, lactose-specific iibc components; PDBTitle: the lactose-specific iib component domain structure of the2 phosphoenolpyruvate:carbohydrate phosphotransferase system (pts) from3 streptococcus pneumoniae.
88 | c2i2aA_ |
| not modelled | 22.1 | 33 | PDB header:transferase Chain: A: PDB Molecule:probable inorganic polyphosphate/atp-nad kinase 1; PDBTitle: crystal structure of lmnadk1 from listeria monocytogenes
89 | d1lrza3 |
| not modelled | 21.9 | 10 | Fold:Acyl-CoA N-acyltransferases (Nat) Superfamily:Acyl-CoA N-acyltransferases (Nat) Family:FemXAB nonribosomal peptidyltransferases
90 | c3g07C_ |
| not modelled | 21.7 | 23 | PDB header:transferase Chain: C: PDB Molecule:7sk snrna methylphosphate capping enzyme; PDBTitle: methyltransferase domain of human bicoid-interacting protein2 3 homolog (drosophila)
91 | d1qe5a_ |
| not modelled | 21.6 | 31 | Fold:Phosphorylase/hydrolase-like Superfamily:Purine and uridine phosphorylases Family:Purine and uridine phosphorylases
92 | c3i42A_ |
| not modelled | 21.5 | 9 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:response regulator receiver domain protein (chey- PDBTitle: structure of response regulator receiver domain (chey-like)2 from methylobacillus flagellatus
93 | c3nhzA_ |
| not modelled | 21.4 | 19 | PDB header:dna binding protein Chain: A: PDB Molecule:two component system transcriptional regulator mtra; PDBTitle: structure of n-terminal domain of mtra
94 | d2cara1 |
| not modelled | 21.4 | 17 | Fold:Anticodon-binding domain-like Superfamily:ITPase-like Family:ITPase (Ham1)
95 | c3daqB_ |
| not modelled | 21.3 | 15 | PDB header:lyase Chain: B: PDB Molecule:dihydrodipicolinate synthase; PDBTitle: crystal structure of dihydrodipicolinate synthase from methicillin-2 resistant staphylococcus aureus
96 | d2nxca1 |
| not modelled | 20.7 | 21 | Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:Ribosomal protein L11 methyltransferase PrmA
97 | d1gpja2 |
| not modelled | 20.7 | 24 | Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Aminoacid dehydrogenase-like, C-terminal domain
98 | c3cfyA_ |
| not modelled | 20.1 | 7 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative luxo repressor protein; PDBTitle: crystal structure of signal receiver domain of putative luxo2 repressor protein from vibrio parahaemolyticus
99 | d1wd7a_ |
| not modelled | 20.0 | 18 | Fold:HemD-like Superfamily:HemD-like Family:HemD-like

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