Phyre 2 Results for P0AFW4

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Email | l.a.kelley@imperial.ac.uk
Description | P0AFW4
Date | Thu Jan 5 11:27:26 GMT 2012
Unique Job ID | 6d89c29b3262ba5a

Summary |

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

Model (left) based on template c3bmbB_
Top template information
PDB header:rna binding protein Chain: B: PDB Molecule:regulator of nucleoside diphosphate kinase; PDBTitle: crystal structure of a new rna polymerase interacting2 protein
Confidence and coverage
Confidence: | 100.0% | Coverage: | 99%
135 residues ( 99% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis |

Secondary structure and disorder prediction |

|  | 1 | . | . | . | . | . | . | . | . | 10 | . | . | . | . | . | . | . | . | . | 20 | . | . | . | . | . | . | . | . | . | 30 | . | . | . | . | . | . | . | . | . | 40 | . | . | . | . | . | . | . | . | . | 50 | . | . | . | . | . | . | . | . | . | 60
Sequence |  | M | S | R | P | T | I | I | I | N | D | L | D | A | E | R | I | D | I | L | L | E | Q | P | A | Y | A | G | L | P | I | A | D | A | L | N | A | E | L | D | R | A | Q | M | C | S | P | E | E | M | P | H | D | V | V | T | M | N | S | R | V
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | K | F | R | N | L | S | D | G | E | V | R | V | R | T | L | V | Y | P | A | K | M | T | D | S | N | T | Q | L | S | V | M | A | P | V | G | A | A | L | L | G | L | R | V | G | D | S | I | H | W | E | L | P | G | G | V | A | T | H | L | E
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | .
Sequence |  | V | L | E | L | E | Y | Q | P | E | A | A | G | D | Y | L | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |

Confidence Key
High(9) |  |  |  |  |  |  |  |  |  |  | Low (0)

? | Disordered
| Alpha helix
| Beta strand

Domain analysis |

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

Rank | Aligned region
--- | ---
1 |
| c3bmbB_ |

### PDB 3bmb chain B

Region: 2 - 136
Aligned: 135
Modelled: 135
Confidence: 100.0%
Identity: 100%
PDB header:rna binding protein
Chain: B: PDB Molecule:regulator of nucleoside diphosphate kinase;
PDBTitle: crystal structure of a new rna polymerase interacting2 protein

Phyre2
2 |
| c2pn0D_ |

### PDB 2pn0 chain D

Region: 3 - 126
Aligned: 120
Modelled: 124
Confidence: 100.0%
Identity: 48%
PDB header:transcription
Chain: D: PDB Molecule:prokaryotic transcription elongation factor
PDBTitle: prokaryotic transcription elongation factor grea/greb from2 nitrosomonas europaea

Phyre2
3 |
| c2p4vA_ |

### PDB 2p4v chain A

Region: 1 - 126
Aligned: 122
Modelled: 126
Confidence: 100.0%
Identity: 20%
PDB header:transcription
Chain: A: PDB Molecule:transcription elongation factor greb;
PDBTitle: crystal structure of the transcript cleavage factor, greb2 at 2.6a resolution

Phyre2
4 |
| c1grjA_ |

### PDB 1grj chain A

Region: 5 - 126
Aligned: 115
Modelled: 122
Confidence: 100.0%
Identity: 23%
PDB header:transcription regulation
Chain: A: PDB Molecule:grea protein;
PDBTitle: grea transcript cleavage factor from escherichia coli

Phyre2
5 |
| c2etnA_ |

### PDB 2etn chain A

Region: 5 - 125
Aligned: 118
Modelled: 121
Confidence: 99.9%
Identity: 27%
PDB header:transcription
Chain: A: PDB Molecule:anti-cleavage anti-grea transcription factor
PDBTitle: crystal structure of thermus aquaticus gfh1

Phyre2
6 |
| d2f23a2 |

### PDB 2f23 chain A domain 2

Region: 50 - 125
Aligned: 75
Modelled: 76
Confidence: 99.9%
Identity: 31%
Fold: FKBP-like
Superfamily: FKBP-like
Family: GreA transcript cleavage factor, C-terminal domain

Phyre2
7 |
| d2etna2 |

### PDB 2etn chain A domain 2

Region: 50 - 124
Aligned: 74
Modelled: 75
Confidence: 99.9%
Identity: 30%
Fold: FKBP-like
Superfamily: FKBP-like
Family: GreA transcript cleavage factor, C-terminal domain

Phyre2
8 |
| d1grja2 |

### PDB 1grj chain A domain 2

Region: 49 - 126
Aligned: 71
Modelled: 78
Confidence: 99.9%
Identity: 23%
Fold: FKBP-like
Superfamily: FKBP-like
Family: GreA transcript cleavage factor, C-terminal domain

Phyre2
9 |
| c3gtyX_ |

### PDB 3gty chain X

Region: 28 - 122
Aligned: 86
Modelled: 95
Confidence: 92.1%
Identity: 16%
PDB header:chaperone/ribosomal protein
Chain: X: PDB Molecule:trigger factor;
PDBTitle: promiscuous substrate recognition in folding and assembly activities2 of the trigger factor chaperone

Phyre2
10 |
| d1krha1 |

### PDB 1krh chain A domain 1

Region: 40 - 115
Aligned: 76
Modelled: 76
Confidence: 91.0%
Identity: 13%
Fold: Reductase/isomerase/elongation factor common domain
Superfamily: Riboflavin synthase domain-like
Family: Ferredoxin reductase FAD-binding domain-like

Phyre2
11 |
| d1fdra1 |

### PDB 1fdr chain A domain 1

Region: 40 - 115
Aligned: 75
Modelled: 76
Confidence: 84.7%
Identity: 15%
Fold: Reductase/isomerase/elongation factor common domain
Superfamily: Riboflavin synthase domain-like
Family: Ferredoxin reductase FAD-binding domain-like

Phyre2
12 |
| d1grja1 |

### PDB 1grj chain A domain 1

Region: 5 - 48
Aligned: 44
Modelled: 44
Confidence: 83.4%
Identity: 27%
Fold: Long alpha-hairpin
Superfamily: GreA transcript cleavage protein, N-terminal domain
Family: GreA transcript cleavage protein, N-terminal domain

Phyre2
13 |
| d2cnda1 |

### PDB 2cnd chain A domain 1

Region: 41 - 115
Aligned: 72
Modelled: 75
Confidence: 78.8%
Identity: 21%
Fold: Reductase/isomerase/elongation factor common domain
Superfamily: Riboflavin synthase domain-like
Family: Ferredoxin reductase FAD-binding domain-like

Phyre2
14 |
| d1t11a3 |

### PDB 1t11 chain A domain 3

Region: 28 - 121
Aligned: 86
Modelled: 94
Confidence: 78.8%
Identity: 12%
Fold: FKBP-like
Superfamily: FKBP-like
Family: FKBP immunophilin/proline isomerase

Phyre2
15 |
| d1gvha2 |

### PDB 1gvh chain A domain 2

Region: 41 - 115
Aligned: 75
Modelled: 75
Confidence: 78.5%
Identity: 12%
Fold: Reductase/isomerase/elongation factor common domain
Superfamily: Riboflavin synthase domain-like
Family: Ferredoxin reductase FAD-binding domain-like

Phyre2
16 |
| d1w26a3 |

### PDB 1w26 chain A domain 3

Region: 28 - 112
Aligned: 75
Modelled: 85
Confidence: 75.6%
Identity: 11%
Fold: FKBP-like
Superfamily: FKBP-like
Family: FKBP immunophilin/proline isomerase

Phyre2
17 |
| c1w26B_ |

### PDB 1w26 chain B

Region: 1 - 122
Aligned: 100
Modelled: 99
Confidence: 75.5%
Identity: 15%
PDB header:chaperone
Chain: B: PDB Molecule:trigger factor;
PDBTitle: trigger factor in complex with the ribosome forms a2 molecular cradle for nascent proteins

Phyre2
18 |
| d1a8pa1 |

### PDB 1a8p chain A domain 1

Region: 38 - 115
Aligned: 78
Modelled: 77
Confidence: 72.6%
Identity: 18%
Fold: Reductase/isomerase/elongation factor common domain
Superfamily: Riboflavin synthase domain-like
Family: Ferredoxin reductase FAD-binding domain-like

Phyre2
19 |
| d2f23a1 |

### PDB 2f23 chain A domain 1

Region: 5 - 45
Aligned: 41
Modelled: 41
Confidence: 72.5%
Identity: 27%
Fold: Long alpha-hairpin
Superfamily: GreA transcript cleavage protein, N-terminal domain
Family: GreA transcript cleavage protein, N-terminal domain

Phyre2
20 |
| c2l55A_ |

### PDB 2l55 chain A

Region: 98 - 133
Aligned: 36
Modelled: 36
Confidence: 70.1%
Identity: 19%
PDB header:metal binding protein
Chain: A: PDB Molecule:silb,silver efflux protein, mfp component of the three
PDBTitle: solution structure of the c-terminal domain of silb from cupriavidus2 metallidurans

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c3bmbB_ |
|  | 100.0 | 100 | PDB header:rna binding protein Chain: B: PDB Molecule:regulator of nucleoside diphosphate kinase; PDBTitle: crystal structure of a new rna polymerase interacting2 protein
2 | c2pn0D_ |
|  | 100.0 | 48 | PDB header:transcription Chain: D: PDB Molecule:prokaryotic transcription elongation factor PDBTitle: prokaryotic transcription elongation factor grea/greb from2 nitrosomonas europaea
3 | c2p4vA_ |
|  | 100.0 | 20 | PDB header:transcription Chain: A: PDB Molecule:transcription elongation factor greb; PDBTitle: crystal structure of the transcript cleavage factor, greb2 at 2.6a resolution
4 | c1grjA_ |
|  | 100.0 | 23 | PDB header:transcription regulation Chain: A: PDB Molecule:grea protein; PDBTitle: grea transcript cleavage factor from escherichia coli
5 | c2etnA_ |
|  | 99.9 | 27 | PDB header:transcription Chain: A: PDB Molecule:anti-cleavage anti-grea transcription factor PDBTitle: crystal structure of thermus aquaticus gfh1
6 | d2f23a2 |
|  | 99.9 | 31 | Fold:FKBP-like Superfamily:FKBP-like Family:GreA transcript cleavage factor, C-terminal domain
7 | d2etna2 |
|  | 99.9 | 30 | Fold:FKBP-like Superfamily:FKBP-like Family:GreA transcript cleavage factor, C-terminal domain
8 | d1grja2 |
|  | 99.9 | 23 | Fold:FKBP-like Superfamily:FKBP-like Family:GreA transcript cleavage factor, C-terminal domain
9 | c3gtyX_ |
|  | 92.1 | 16 | PDB header:chaperone/ribosomal protein Chain: X: PDB Molecule:trigger factor; PDBTitle: promiscuous substrate recognition in folding and assembly activities2 of the trigger factor chaperone
10 | d1krha1 |
|  | 91.0 | 13 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
11 | d1fdra1 |
|  | 84.7 | 15 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
12 | d1grja1 |
|  | 83.4 | 27 | Fold:Long alpha-hairpin Superfamily:GreA transcript cleavage protein, N-terminal domain Family:GreA transcript cleavage protein, N-terminal domain
13 | d2cnda1 |
|  | 78.8 | 21 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
14 | d1t11a3 |
|  | 78.8 | 12 | Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase
15 | d1gvha2 |
|  | 78.5 | 12 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
16 | d1w26a3 |
|  | 75.6 | 11 | Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase
17 | c1w26B_ |
|  | 75.5 | 15 | PDB header:chaperone Chain: B: PDB Molecule:trigger factor; PDBTitle: trigger factor in complex with the ribosome forms a2 molecular cradle for nascent proteins
18 | d1a8pa1 |
|  | 72.6 | 18 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
19 | d2f23a1 |
|  | 72.5 | 27 | Fold:Long alpha-hairpin Superfamily:GreA transcript cleavage protein, N-terminal domain Family:GreA transcript cleavage protein, N-terminal domain
20 | c2l55A_ |
|  | 70.1 | 19 | PDB header:metal binding protein Chain: A: PDB Molecule:silb,silver efflux protein, mfp component of the three PDBTitle: solution structure of the c-terminal domain of silb from cupriavidus2 metallidurans
21 | d2j3sa2 |
| not modelled | 69.8 | 16 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Filamin repeat (rod domain)
22 | d1qx4a1 |
| not modelled | 67.3 | 17 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
23 | c2gpjA_ |
| not modelled | 65.3 | 15 | PDB header:fad-binding protein Chain: A: PDB Molecule:siderophore-interacting protein; PDBTitle: crystal structure of a siderophore-interacting protein (sputcn32_0076)2 from shewanella putrefaciens cn-32 at 2.20 a resolution
24 | d1ndha1 |
| not modelled | 65.0 | 20 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
25 | c1krhA_ |
| not modelled | 58.4 | 13 | PDB header:oxidoreductase Chain: A: PDB Molecule:benzoate 1,2-dioxygenase reductase; PDBTitle: x-ray stucture of benzoate dioxygenase reductase
26 | d1ep3b1 |
| not modelled | 58.0 | 16 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
27 | c1t11A_ |
| not modelled | 55.8 | 9 | PDB header:chaperone Chain: A: PDB Molecule:trigger factor; PDBTitle: trigger factor
28 | d1tvca1 |
| not modelled | 54.8 | 17 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
29 | d1qfja1 |
| not modelled | 53.4 | 13 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
30 | d2piaa1 |
| not modelled | 51.4 | 15 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
31 | d1l1pa_ |
| not modelled | 49.7 | 16 | Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase
32 | c2kr7A_ |
| not modelled | 49.7 | 10 | PDB header:isomerase Chain: A: PDB Molecule:fkbp-type peptidyl-prolyl cis-trans isomerase slyd; PDBTitle: solution structure of helicobacter pylori slyd
33 | c2kfwA_ |
| not modelled | 48.3 | 20 | PDB header:isomerase Chain: A: PDB Molecule:fkbp-type peptidyl-prolyl cis-trans isomerase PDBTitle: solution structure of full-length slyd from e.coli
34 | d1umka1 |
| not modelled | 47.0 | 19 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
35 | c1a8pA_ |
| not modelled | 46.6 | 15 | PDB header:oxidoreductase Chain: A: PDB Molecule:nadph\:ferredoxin oxidoreductase; PDBTitle: ferredoxin reductase from azotobacter vinelandii
36 | c2k7pA_ |
| not modelled | 39.4 | 19 | PDB header:structural protein Chain: A: PDB Molecule:filamin-a; PDBTitle: filamin a ig-like domains 16-17
37 | c2jf1A_ |
| not modelled | 37.9 | 26 | PDB header:cell adhesion Chain: A: PDB Molecule:filamin-a; PDBTitle: crystal structure of the filamin a repeat 21 complexed with2 the integrin beta2 cytoplasmic tail peptide
38 | c2k7qA_ |
| not modelled | 37.6 | 19 | PDB header:structural protein Chain: A: PDB Molecule:filamin-a; PDBTitle: filamin a ig-like domains 18-19
39 | d1fnda1 |
| not modelled | 36.6 | 15 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
40 | c1hxvA_ |
| not modelled | 35.8 | 15 | PDB header:chaperone Chain: A: PDB Molecule:trigger factor; PDBTitle: ppiase domain of the mycoplasma genitalium trigger factor
41 | d1hxva_ |
| not modelled | 35.8 | 15 | Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase
42 | d1gawa1 |
| not modelled | 35.1 | 26 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
43 | c2k8iA_ |
| not modelled | 31.9 | 29 | PDB header:isomerase Chain: A: PDB Molecule:peptidyl-prolyl cis-trans isomerase; PDBTitle: solution structure of e.coli slyd
44 | d2d7na1 |
| not modelled | 30.5 | 16 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Filamin repeat (rod domain)
45 | d2d7ma1 |
| not modelled | 29.9 | 19 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Filamin repeat (rod domain)
46 | c3pr9A_ |
| not modelled | 29.7 | 29 | PDB header:chaperone Chain: A: PDB Molecule:fkbp-type peptidyl-prolyl cis-trans isomerase; PDBTitle: structural analysis of protein folding by the methanococcus jannaschii2 chaperone fkbp26
47 | c3cgnA_ |
| not modelled | 27.6 | 21 | PDB header:isomerase Chain: A: PDB Molecule:peptidyl-prolyl cis-trans isomerase; PDBTitle: crystal structure of thermophilic slyd
48 | d2dmca1 |
| not modelled | 26.7 | 16 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Filamin repeat (rod domain)
49 | c2bgjB_ |
| not modelled | 26.4 | 16 | PDB header:oxidoreductase Chain: B: PDB Molecule:ferredoxin-nadp(h) reductase; PDBTitle: x-ray structure of the ferredoxin-nadp(h) reductase from2 rhodobacter capsulatus at 2.1 angstroms
50 | d2bmwa1 |
| not modelled | 25.0 | 14 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
51 | c3h0gE_ |
| not modelled | 23.5 | 22 | PDB header:transcription Chain: E: PDB Molecule:dna-directed rna polymerases i, ii, and iii PDBTitle: rna polymerase ii from schizosaccharomyces pombe
52 | d2e9ia1 |
| not modelled | 23.4 | 29 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Filamin repeat (rod domain)
53 | c2l27B_ |
| not modelled | 23.4 | 26 | PDB header:membrane protein, peptide binding protei Chain: B: PDB Molecule:peptide agonist; PDBTitle: nmr structure of the ecd1 of crf-r1 in complex with a peptide agonist
54 | d1cqxa2 |
| not modelled | 23.1 | 11 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like
55 | c2pbcD_ |
| not modelled | 22.2 | 18 | PDB header:isomerase Chain: D: PDB Molecule:fk506-binding protein 2; PDBTitle: fk506-binding protein 2
56 | c3prdA_ |
| not modelled | 22.1 | 29 | PDB header:chaperone, isomerase Chain: A: PDB Molecule:fkbp-type peptidyl-prolyl cis-trans isomerase; PDBTitle: structural analysis of protein folding by the methanococcus jannaschii2 chaperone fkbp26
57 | d1eika_ |
| not modelled | 21.8 | 13 | Fold:RPB5-like RNA polymerase subunit Superfamily:RPB5-like RNA polymerase subunit Family:RPB5
58 | c2rmfA_ |
| not modelled | 21.5 | 22 | PDB header:hormone Chain: A: PDB Molecule:urocortin; PDBTitle: human urocortin 1
59 | d2diaa1 |
| not modelled | 21.4 | 23 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Filamin repeat (rod domain)
60 | c1zeqX_ |
| not modelled | 21.3 | 7 | PDB header:metal binding protein Chain: X: PDB Molecule:cation efflux system protein cusf; PDBTitle: 1.5 a structure of apo-cusf residues 6-88 from escherichia2 coli
61 | d2iv2x1 |
| not modelled | 21.1 | 13 | Fold:Double psi beta-barrel Superfamily:ADC-like Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
62 | d1ix5a_ |
| not modelled | 21.0 | 25 | Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase
63 | c2h8rA_ |
| not modelled | 20.7 | 14 | PDB header:transcription activator/dna Chain: A: PDB Molecule:hepatocyte nuclear factor 1-beta; PDBTitle: hepatocyte nuclear factor 1b bound to dna: mody5 gene2 product
64 | d1t9fa_ |
| not modelled | 20.1 | 47 | Fold:beta-Trefoil Superfamily:MIR domain Family:MIR domain
65 | c2vn1A_ |
| not modelled | 20.1 | 12 | PDB header:isomerase Chain: A: PDB Molecule:70 kda peptidylprolyl isomerase; PDBTitle: crystal structure of the fk506-binding domain of plasmodium2 falciparum fkbp35 in complex with fk506
66 | c2piaA_ |
| not modelled | 20.0 | 16 | PDB header:reductase Chain: A: PDB Molecule:phthalate dioxygenase reductase; PDBTitle: phthalate dioxygenase reductase: a modular structure for2 electron transfer from pyridine nucleotides to [2fe-2s]
67 | d2dj4a1 |
| not modelled | 19.5 | 26 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Filamin repeat (rod domain)
68 | c2e9jA_ |
| not modelled | 19.1 | 19 | PDB header:structural protein Chain: A: PDB Molecule:filamin-b; PDBTitle: solution structure of the 14th filamin domain from human2 filamin-b
69 | c2lgoA_ |
| not modelled | 19.1 | 10 | PDB header:isomerase Chain: A: PDB Molecule:fkbp; PDBTitle: solution nmr structure of a fkbp-type peptidyl-prolyl cis-trans2 isomerase from giardia lamblia, seattle structural genomics center3 for infectious disease target gilaa.00840.a
70 | c3entB_ |
| not modelled | 18.7 | 25 | PDB header:structural protein Chain: B: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of nitrollin, a betagamma-crystallin from2 nitrosospira multiformis-in alternate space group (p65)
71 | d1rl2a1 |
| not modelled | 18.4 | 20 | Fold:SH3-like barrel Superfamily:Translation proteins SH3-like domain Family:C-terminal domain of ribosomal protein L2
72 | d1kt0a2 |
| not modelled | 18.1 | 8 | Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase
73 | d1h0ha1 |
| not modelled | 17.8 | 26 | Fold:Double psi beta-barrel Superfamily:ADC-like Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
74 | d2jioa1 |
| not modelled | 17.4 | 29 | Fold:Double psi beta-barrel Superfamily:ADC-like Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
75 | d1vqoa1 |
| not modelled | 17.4 | 17 | Fold:SH3-like barrel Superfamily:Translation proteins SH3-like domain Family:C-terminal domain of ribosomal protein L2
76 | d1q1ca1 |
| not modelled | 17.2 | 24 | Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase
77 | c2ka3C_ |
| not modelled | 17.2 | 33 | PDB header:structural protein Chain: C: PDB Molecule:emilin-1; PDBTitle: structure of emilin-1 c1q-like domain
78 | d1qfha1 |
| not modelled | 17.2 | 19 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Filamin repeat (rod domain)
79 | c1wlfA_ |
| not modelled | 17.0 | 26 | PDB header:protein transport Chain: A: PDB Molecule:peroxisome biogenesis factor 1; PDBTitle: structure of the n-terminal domain of pex1 aaa-atpase:2 characterization of a putative adaptor-binding domain
80 | d1dzfa2 |
| not modelled | 16.9 | 23 | Fold:RPB5-like RNA polymerase subunit Superfamily:RPB5-like RNA polymerase subunit Family:RPB5
81 | c2opgB_ |
| not modelled | 16.4 | 19 | PDB header:structural protein Chain: B: PDB Molecule:multiple pdz domain protein; PDBTitle: the crystal structure of the 10th pdz domain of mpdz
82 | c3o5fA_ |
| not modelled | 15.6 | 14 | PDB header:isomerase Chain: A: PDB Molecule:peptidyl-prolyl cis-trans isomerase fkbp5; PDBTitle: fk1 domain of fkbp51, crystal form vii
83 | d1c9ha_ |
| not modelled | 15.6 | 7 | Fold:FKBP-like Superfamily:FKBP-like Family:FKBP immunophilin/proline isomerase
84 | c2xvsA_ |
| not modelled | 14.9 | 14 | PDB header:antitumor protein Chain: A: PDB Molecule:tetratricopeptide repeat protein 5; PDBTitle: crystal structure of human ttc5 (strap) c-terminal ob2 domain
85 | c3shwA_ |
| not modelled | 14.9 | 19 | PDB header:cell adhesion Chain: A: PDB Molecule:tight junction protein zo-1; PDBTitle: crystal structure of zo-1 pdz3-sh3-guk supramodule complex with2 connexin-45 peptide
86 | c1qfhB_ |
| not modelled | 14.4 | 19 | PDB header:actin binding protein Chain: B: PDB Molecule:protein (gelation factor); PDBTitle: dimerization of gelation factor from dictyostelium2 discoideum: crystal structure of rod domains 5 and 6
87 | c2pmzV_ |
| not modelled | 14.2 | 17 | PDB header:translation, transferase Chain: V: PDB Molecule:dna-directed rna polymerase subunit h; PDBTitle: archaeal rna polymerase from sulfolobus solfataricus
88 | d2d7pa1 |
| not modelled | 14.0 | 16 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Filamin repeat (rod domain)
89 | c3cnkB_ |
| not modelled | 13.9 | 23 | PDB header:structural protein Chain: B: PDB Molecule:filamin-a; PDBTitle: crystal structure of the dimerization domain of human2 filamin a
90 | d1ogya1 |
| not modelled | 13.8 | 23 | Fold:Double psi beta-barrel Superfamily:ADC-like Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
91 | c3pr3B_ |
| not modelled | 13.8 | 33 | PDB header:isomerase Chain: B: PDB Molecule:glucose-6-phosphate isomerase; PDBTitle: crystal structure of plasmodium falciparum glucose-6-phosphate2 isomerase (pf14_0341) in complex with fructose-6-phosphate
92 | d1r5pa_ |
| not modelled | 13.8 | 22 | Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:KaiB-like
93 | d2diba1 |
| not modelled | 13.6 | 29 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Filamin repeat (rod domain)
94 | d1cm3a_ |
| not modelled | 13.3 | 20 | Fold:HPr-like Superfamily:HPr-like Family:HPr-like
95 | d1gr3a_ |
| not modelled | 13.1 | 28 | Fold:TNF-like Superfamily:TNF-like Family:TNF-like
96 | c1gr3A_ |
| not modelled | 13.1 | 28 | PDB header:collagen Chain: A: PDB Molecule:collagen x; PDBTitle: structure of the human collagen x nc1 trimer
97 | d1vlfm1 |
| not modelled | 12.8 | 22 | Fold:Double psi beta-barrel Superfamily:ADC-like Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
98 | c3ujhB_ |
| not modelled | 12.7 | 47 | PDB header:isomerase Chain: B: PDB Molecule:glucose-6-phosphate isomerase; PDBTitle: crystal structure of substrate-bound glucose-6-phosphate isomerase2 from toxoplasma gondii
99 | c3fpkB_ |
| not modelled | 12.6 | 16 | PDB header:flavoprotein, oxidoreductase Chain: B: PDB Molecule:ferredoxin-nadp reductase; PDBTitle: crystal structure of ferredoxin-nadp reductase from salmonella2 typhimurium

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