Phyre 2 Results for Q46920

Phyre Home | Retrieve Phyre Job Id

Email | l.a.kelley@imperial.ac.uk
Description | Q46920
Date | Thu Jan 5 12:35:53 GMT 2012
Unique Job ID | da6b85928219f7a4

Summary |

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

Model (left) based on template c3bp1A_
Top template information
PDB header:oxidoreductase Chain: A: PDB Molecule:nadph-dependent 7-cyano-7-deazaguanine reductase; PDBTitle: crystal structure of putative 7-cyano-7-deazaguanine2 reductase quef from vibrio cholerae o1 biovar eltor
Confidence and coverage
Confidence: | 100.0% | Coverage: | 90%
254 residues ( 90% 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 | S | Y | A | N | H | Q | A | L | A | G | L | T | L | G | K | S | T | D | Y | R | D | T | Y | D | A | S | L | L | Q | G | V | P | R | S | L | N | R | D | P | L | G | L | K | A | D | N | L | P | F | H | G | T | D | I | W | T | L | Y
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  | ? |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | E | L | S | W | L | N | A | K | G | L | P | Q | V | A | V | G | H | V | E | L | D | Y | T | S | V | N | L | I | E | S | K | S | F | K | L | Y | L | N | S | F | N | Q | T | R | F | N | N | W | D | E | V | R | Q | T | L | E | R | D | L | S
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | T | C | A | Q | G | K | I | S | V | A | L | Y | R | L | D | E | L | E | G | Q | P | I | G | H | F | N | G | T | C | I | D | D | Q | D | I | T | I | D | N | Y | E | F | T | T | D | Y | L | E | N | A | T | C | G | E | K | V | V | E | E | T
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  | ? |  |  |  |  |  |  |  |  |  |  | ? |  | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | L | V | S | H | L | L | K | S | N | C | L | I | T | H | Q | P | D | W | G | S | L | Q | I | Q | Y | R | G | R | Q | I | D | R | E | K | L | L | R | Y | L | V | S | F | R | H | H | N | E | F | H | E | Q | C | V | E | R | I | F | N | D | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | .
Sequence |  | L | R | F | C | Q | P | E | K | L | S | V | Y | A | R | Y | T | R | R | G | G | L | D | I | N | P | W | R | S | N | S | D | F | V | P | S | T | T | R | L | V | R | Q
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 |
| c3bp1A_ |

### PDB 3bp1 chain A

Region: 21 - 282
Aligned: 254
Modelled: 261
Confidence: 100.0%
Identity: 64%
PDB header:oxidoreductase
Chain: A: PDB Molecule:nadph-dependent 7-cyano-7-deazaguanine reductase;
PDBTitle: crystal structure of putative 7-cyano-7-deazaguanine2 reductase quef from vibrio cholerae o1 biovar eltor

Phyre2
2 |
| c1wm9D_ |

### PDB 1wm9 chain D

Region: 186 - 254
Aligned: 69
Modelled: 69
Confidence: 97.8%
Identity: 19%
PDB header:hydrolase
Chain: D: PDB Molecule:gtp cyclohydrolase i;
PDBTitle: structure of gtp cyclohydrolase i from thermus thermophilus hb8

Phyre2
3 |
| d1wura1 |

### PDB 1wur chain A domain 1

Region: 186 - 254
Aligned: 69
Modelled: 69
Confidence: 97.8%
Identity: 19%
Fold: T-fold
Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like
Family: GTP cyclohydrolase I

Phyre2
4 |
| c1is7F_ |

### PDB 1is7 chain F

Region: 186 - 254
Aligned: 69
Modelled: 69
Confidence: 95.5%
Identity: 20%
PDB header:hydrolase/protein binding
Chain: F: PDB Molecule:gtp cyclohydrolase i;
PDBTitle: crystal structure of rat gtpchi/gfrp stimulatory complex

Phyre2
5 |
| d1wpla_ |

### PDB 1wpl chain A

Region: 186 - 254
Aligned: 69
Modelled: 69
Confidence: 95.5%
Identity: 20%
Fold: T-fold
Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like
Family: GTP cyclohydrolase I

Phyre2
6 |
| d1a8ra_ |

### PDB 1a8r chain A

Region: 186 - 254
Aligned: 69
Modelled: 69
Confidence: 95.2%
Identity: 19%
Fold: T-fold
Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like
Family: GTP cyclohydrolase I

Phyre2
7 |
| c1rg9D_ |

### PDB 1rg9 chain D

Region: 61 - 238
Aligned: 164
Modelled: 178
Confidence: 77.9%
Identity: 16%
PDB header:transferase
Chain: D: PDB Molecule:s-adenosylmethionine synthetase;
PDBTitle: s-adenosylmethionine synthetase complexed with sam and ppnp

Phyre2
8 |
| c3imlB_ |

### PDB 3iml chain B

Region: 61 - 238
Aligned: 154
Modelled: 157
Confidence: 60.2%
Identity: 18%
PDB header:transferase
Chain: B: PDB Molecule:s-adenosylmethionine synthetase;
PDBTitle: crystal structure of s-adenosylmethionine synthetase from burkholderia2 pseudomallei

Phyre2
9 |
| c2obvA_ |

### PDB 2obv chain A

Region: 61 - 236
Aligned: 152
Modelled: 158
Confidence: 52.0%
Identity: 16%
PDB header:transferase
Chain: A: PDB Molecule:s-adenosylmethionine synthetase isoform type-1;
PDBTitle: crystal structure of the human s-adenosylmethionine synthetase 1 in2 complex with the product

Phyre2
10 |
| c2f42A_ |

### PDB 2f42 chain A

Region: 179 - 230
Aligned: 43
Modelled: 52
Confidence: 49.5%
Identity: 19%
PDB header:chaperone
Chain: A: PDB Molecule:stip1 homology and u-box containing protein 1;
PDBTitle: dimerization and u-box domains of zebrafish c-terminal of hsp702 interacting protein

Phyre2
11 |
| c3hjhA_ |

### PDB 3hjh chain A

Region: 253 - 267
Aligned: 15
Modelled: 15
Confidence: 48.9%
Identity: 53%
PDB header:hydrolase
Chain: A: PDB Molecule:transcription-repair-coupling factor;
PDBTitle: a rigid n-terminal clamp restrains the motor domains of the bacterial2 transcription-repair coupling factor

Phyre2
12 |
| d3bz6a2 |

### PDB 3bz6 chain A domain 2

Region: 95 - 117
Aligned: 23
Modelled: 23
Confidence: 32.7%
Identity: 30%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: PSPTO2686-like

Phyre2
13 |
| c3pg6D_ |

### PDB 3pg6 chain D

Region: 194 - 205
Aligned: 12
Modelled: 12
Confidence: 32.6%
Identity: 25%
PDB header:ligase
Chain: D: PDB Molecule:e3 ubiquitin-protein ligase dtx3l;
PDBTitle: the carboxyl terminal domain of human deltex 3-like

Phyre2
14 |
| d2b2na1 |

### PDB 2b2n chain A domain 1

Region: 253 - 265
Aligned: 13
Modelled: 13
Confidence: 31.1%
Identity: 54%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Tandem AAA-ATPase domain

Phyre2
15 |
| d1j6ra_ |

### PDB 1j6r chain A

Region: 209 - 267
Aligned: 56
Modelled: 59
Confidence: 31.0%
Identity: 27%
Fold: Methionine synthase activation domain-like
Superfamily: Methionine synthase activation domain-like
Family: Hypothetical protein TM0269

Phyre2
16 |
| d2eyqa4 |

### PDB 2eyq chain A domain 4

Region: 253 - 265
Aligned: 13
Modelled: 13
Confidence: 30.7%
Identity: 54%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Tandem AAA-ATPase domain

Phyre2
17 |
| d2o4ta1 |

### PDB 2o4t chain A domain 1

Region: 212 - 244
Aligned: 30
Modelled: 33
Confidence: 29.2%
Identity: 13%
Fold: Left-handed superhelix
Superfamily: BH3980-like
Family: BH3980-like

Phyre2
18 |
| c3gzfD_ |

### PDB 3gzf chain D

Region: 86 - 134
Aligned: 49
Modelled: 49
Confidence: 28.7%
Identity: 18%
PDB header:viral protein
Chain: D: PDB Molecule:replicase polyprotein 1ab;
PDBTitle: structure of the c-terminal domain of nsp4 from feline coronavirus

Phyre2
19 |
| c3rv2B_ |

### PDB 3rv2 chain B

Region: 61 - 236
Aligned: 160
Modelled: 176
Confidence: 27.0%
Identity: 18%
PDB header:transferase
Chain: B: PDB Molecule:s-adenosylmethionine synthase;
PDBTitle: crystal structure of s-adenosylmethionine synthetase from2 mycobacterium marinum

Phyre2
20 |
| c3fpnB_ |

### PDB 3fpn chain B

Region: 253 - 265
Aligned: 13
Modelled: 13
Confidence: 26.2%
Identity: 31%
PDB header:dna binding protein
Chain: B: PDB Molecule:geobacillus stearothermophilus uvrb interaction
PDBTitle: crystal structure of uvra-uvrb interaction domains

Phyre2
21 |
22 |
23 |
24 |
25 |
26 |
27 |
28 |
29 |
30 |
31 |
32 |
33 |
34 |
35 |
36 |
37 |
38 |
39 |
40 |
41 |
42 |
43 |
44 |
45 |
46 |
47 |
48 |
49 |
50 |
51 |
52 |
53 |
54 |
55 |
56 |
57 |
58 |
59 |
60 |
61 |
62 |
63 |
64 |
65 |
66 |
67 |
68 |
69 |
70 |
71 |
72 |
73 |
74 |
75 |
76 |
77 |
78 |
79 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c3bp1A_ |
|  | 100.0 | 64 | PDB header:oxidoreductase Chain: A: PDB Molecule:nadph-dependent 7-cyano-7-deazaguanine reductase; PDBTitle: crystal structure of putative 7-cyano-7-deazaguanine2 reductase quef from vibrio cholerae o1 biovar eltor
2 | c1wm9D_ |
|  | 97.8 | 19 | PDB header:hydrolase Chain: D: PDB Molecule:gtp cyclohydrolase i; PDBTitle: structure of gtp cyclohydrolase i from thermus thermophilus hb8
3 | d1wura1 |
|  | 97.8 | 19 | Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:GTP cyclohydrolase I
4 | c1is7F_ |
|  | 95.5 | 20 | PDB header:hydrolase/protein binding Chain: F: PDB Molecule:gtp cyclohydrolase i; PDBTitle: crystal structure of rat gtpchi/gfrp stimulatory complex
5 | d1wpla_ |
|  | 95.5 | 20 | Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:GTP cyclohydrolase I
6 | d1a8ra_ |
|  | 95.2 | 19 | Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:GTP cyclohydrolase I
7 | c1rg9D_ |
|  | 77.9 | 16 | PDB header:transferase Chain: D: PDB Molecule:s-adenosylmethionine synthetase; PDBTitle: s-adenosylmethionine synthetase complexed with sam and ppnp
8 | c3imlB_ |
|  | 60.2 | 18 | PDB header:transferase Chain: B: PDB Molecule:s-adenosylmethionine synthetase; PDBTitle: crystal structure of s-adenosylmethionine synthetase from burkholderia2 pseudomallei
9 | c2obvA_ |
|  | 52.0 | 16 | PDB header:transferase Chain: A: PDB Molecule:s-adenosylmethionine synthetase isoform type-1; PDBTitle: crystal structure of the human s-adenosylmethionine synthetase 1 in2 complex with the product
10 | c2f42A_ |
|  | 49.5 | 19 | PDB header:chaperone Chain: A: PDB Molecule:stip1 homology and u-box containing protein 1; PDBTitle: dimerization and u-box domains of zebrafish c-terminal of hsp702 interacting protein
11 | c3hjhA_ |
|  | 48.9 | 53 | PDB header:hydrolase Chain: A: PDB Molecule:transcription-repair-coupling factor; PDBTitle: a rigid n-terminal clamp restrains the motor domains of the bacterial2 transcription-repair coupling factor
12 | d3bz6a2 |
|  | 32.7 | 30 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PSPTO2686-like
13 | c3pg6D_ |
|  | 32.6 | 25 | PDB header:ligase Chain: D: PDB Molecule:e3 ubiquitin-protein ligase dtx3l; PDBTitle: the carboxyl terminal domain of human deltex 3-like
14 | d2b2na1 |
|  | 31.1 | 54 | Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Tandem AAA-ATPase domain
15 | d1j6ra_ |
|  | 31.0 | 27 | Fold:Methionine synthase activation domain-like Superfamily:Methionine synthase activation domain-like Family:Hypothetical protein TM0269
16 | d2eyqa4 |
|  | 30.7 | 54 | Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Tandem AAA-ATPase domain
17 | d2o4ta1 |
|  | 29.2 | 13 | Fold:Left-handed superhelix Superfamily:BH3980-like Family:BH3980-like
18 | c3gzfD_ |
|  | 28.7 | 18 | PDB header:viral protein Chain: D: PDB Molecule:replicase polyprotein 1ab; PDBTitle: structure of the c-terminal domain of nsp4 from feline coronavirus
19 | c3rv2B_ |
|  | 27.0 | 18 | PDB header:transferase Chain: B: PDB Molecule:s-adenosylmethionine synthase; PDBTitle: crystal structure of s-adenosylmethionine synthetase from2 mycobacterium marinum
20 | c3fpnB_ |
|  | 26.2 | 31 | PDB header:dna binding protein Chain: B: PDB Molecule:geobacillus stearothermophilus uvrb interaction PDBTitle: crystal structure of uvra-uvrb interaction domains
21 | c3ty1B_ |
| not modelled | 19.7 | 16 | PDB header:isomerase Chain: B: PDB Molecule:hypothetical aldose 1-epimerase; PDBTitle: crystal structure of a hypothetical aldose 1-epimerase (kpn_04629)2 from klebsiella pneumoniae subsp. pneumoniae mgh 78578 at 1.90 a3 resolution
22 | d1nb9a_ |
| not modelled | 16.4 | 10 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin kinase-like Family:ATP-dependent riboflavin kinase-like
23 | d2pvaa_ |
| not modelled | 15.6 | 18 | Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Penicillin V acylase
24 | d1t5la1 |
| not modelled | 15.5 | 31 | Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Tandem AAA-ATPase domain
25 | c2hezB_ |
| not modelled | 15.3 | 21 | PDB header:hydrolase Chain: B: PDB Molecule:bile salt hydrolase; PDBTitle: bifidobacterium longum bile salt hydrolase
26 | c3bz6A_ |
| not modelled | 15.1 | 30 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0502 protein pspto_2686; PDBTitle: crystal structure of a conserved protein of unknown function from2 pseudomonas syringae pv. tomato str. dc3000
27 | c3op1A_ |
| not modelled | 14.5 | 21 | PDB header:transferase Chain: A: PDB Molecule:macrolide-efflux protein; PDBTitle: crystal structure of macrolide-efflux protein sp_1110 from2 streptococcus pneumoniae
28 | d1n08a_ |
| not modelled | 13.9 | 10 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin kinase-like Family:ATP-dependent riboflavin kinase-like
29 | c3bnwA_ |
| not modelled | 12.9 | 16 | PDB header:transferase Chain: A: PDB Molecule:riboflavin kinase, putative; PDBTitle: crystal structure of riboflavin kinase from trypanosoma brucei
30 | d1tyja1 |
| not modelled | 12.6 | 25 | Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Carbohydrate-binding domain Family:Cellulose-binding domain family III
31 | d1zv9a1 |
| not modelled | 12.4 | 32 | Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Carbohydrate-binding domain Family:Cellulose-binding domain family III
32 | c3izcW_ |
| not modelled | 12.2 | 22 | PDB header:ribosome Chain: W: PDB Molecule:60s ribosomal protein rpl22 (l22e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome
33 | c2eyqA_ |
| not modelled | 11.8 | 54 | PDB header:hydrolase Chain: A: PDB Molecule:transcription-repair coupling factor; PDBTitle: crystal structure of escherichia coli transcription-repair2 coupling factor
34 | c2im9A_ |
| not modelled | 11.2 | 19 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of protein lpg0564 from legionella pneumophila str.2 philadelphia 1, pfam duf1460
35 | d2im9a1 |
| not modelled | 11.2 | 19 | Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Lpg0564-like
36 | c3h8mB_ |
| not modelled | 11.0 | 19 | PDB header:transferase Chain: B: PDB Molecule:ephrin type-a receptor 7; PDBTitle: sam domain of human ephrin type-a receptor 7 (epha7)
37 | c3lhiA_ |
| not modelled | 10.5 | 21 | PDB header:hydrolase Chain: A: PDB Molecule:putative 6-phosphogluconolactonase; PDBTitle: crystal structure of putative 6-2 phosphogluconolactonase(yp_207848.1) from neisseria3 gonorrhoeae fa 1090 at 1.33 a resolution
38 | c4a1dM_ |
| not modelled | 10.3 | 26 | PDB header:ribosome Chain: M: PDB Molecule:ribosomal protein l22; PDBTitle: t.thermophila 60s ribosomal subunit in complex with initiation2 factor 6. this file contains 26s rrna and proteins of3 molecule 4.
39 | c3kkaD_ |
| not modelled | 10.1 | 23 | PDB header:transferase Chain: D: PDB Molecule:ephrin type-a receptor 2; PDBTitle: co-crystal structure of the sam domains of epha1 and epha2
40 | c2b59A_ |
| not modelled | 9.7 | 44 | PDB header:hydrolase/structural protein Chain: A: PDB Molecule:cog1196: chromosome segregation atpases; PDBTitle: the type ii cohesin dockerin complex
41 | d2c2la2 |
| not modelled | 9.7 | 17 | Fold:RING/U-box Superfamily:RING/U-box Family:U-box
42 | d2bm3a1 |
| not modelled | 9.6 | 44 | Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Carbohydrate-binding domain Family:Cellulose-binding domain family III
43 | c2kreA_ |
| not modelled | 9.6 | 17 | PDB header:protein binding Chain: A: PDB Molecule:ubiquitin conjugation factor e4 b; PDBTitle: solution structure of e4b/ufd2a u-box domain
44 | c3o2kA_ |
| not modelled | 9.5 | 23 | PDB header:transferase Chain: A: PDB Molecule:brevianamide f prenyltransferase; PDBTitle: crystal structure of brevianamide f prenyltransferase complexed with2 brevianamide f and dimethylallyl s-thiolodiphosphate
45 | c2x0kB_ |
| not modelled | 9.4 | 11 | PDB header:transferase Chain: B: PDB Molecule:riboflavin biosynthesis protein ribf; PDBTitle: crystal structure of modular fad synthetase from2 corynebacterium ammoniagenes
46 | c1m0kA_ |
| not modelled | 9.3 | 50 | PDB header:ion transport Chain: A: PDB Molecule:bacteriorhodopsin; PDBTitle: bacteriorhodopsin k intermediate at 1.43 a resolution
47 | d1m0ka_ |
| not modelled | 9.3 | 50 | Fold:Family A G protein-coupled receptor-like Superfamily:Family A G protein-coupled receptor-like Family:Bacteriorhodopsin-like
48 | c3fnkA_ |
| not modelled | 9.2 | 56 | PDB header:structural protein Chain: A: PDB Molecule:cellulosomal scaffoldin adaptor protein b; PDBTitle: crystal structure of the second type ii cohesin module from2 the cellulosomal adaptor scaa scaffoldin of acetivibrio3 cellulolyticus
49 | c2y9xC_ |
| not modelled | 9.1 | 14 | PDB header:oxidoreductase Chain: C: PDB Molecule:polyphenol oxidase; PDBTitle: crystal structure of ppo3, a tyrosinase from agaricus bisporus, in2 deoxy-form that contains additional unknown lectin-like subunit,3 with inhibitor tropolone
50 | c2xfmA_ |
| not modelled | 8.6 | 33 | PDB header:rna/protein Chain: A: PDB Molecule:piwi-like protein 1; PDBTitle: complex structure of the miwi paz domain bound to methylated single2 stranded rna
51 | d1gwya_ |
| not modelled | 8.2 | 12 | Fold:Cytolysin/lectin Superfamily:Cytolysin/lectin Family:Anemone pore-forming cytolysin
52 | d2phcb2 |
| not modelled | 8.1 | 29 | Fold:DCoH-like Superfamily:PH0987 N-terminal domain-like Family:PH0987 N-terminal domain-like
53 | d1iyca_ |
| not modelled | 8.0 | 50 | Fold:Invertebrate chitin-binding proteins Superfamily:Invertebrate chitin-binding proteins Family:Antifungal peptide scarabaecin
54 | c3ghpA_ |
| not modelled | 7.9 | 56 | PDB header:structural protein Chain: A: PDB Molecule:cellulosomal scaffoldin adaptor protein b; PDBTitle: structure of the second type ii cohesin module from the2 adaptor scaa scaffoldin of acetivibrio cellulolyticus3 (including long c-terminal linker)
55 | d1v2ya_ |
| not modelled | 7.8 | 25 | Fold:beta-Grasp (ubiquitin-like) Superfamily:Ubiquitin-like Family:Ubiquitin-related
56 | c3i4zA_ |
| not modelled | 7.6 | 23 | PDB header:transferase Chain: A: PDB Molecule:tryptophan dimethylallyltransferase; PDBTitle: crystal structure of the dimethylallyl tryptophan synthase fgapt2 from2 aspergillus fumigatus
57 | d2cqpa1 |
| not modelled | 7.6 | 9 | Fold:Ferredoxin-like Superfamily:RNA-binding domain, RBD Family:Canonical RBD
58 | c1t6zB_ |
| not modelled | 7.6 | 14 | PDB header:transferase Chain: B: PDB Molecule:riboflavin kinase/fmn adenylyltransferase; PDBTitle: crystal structure of riboflavin bound tm379
59 | c2quoA_ |
| not modelled | 7.4 | 29 | PDB header:toxin Chain: A: PDB Molecule:heat-labile enterotoxin b chain; PDBTitle: crystal structure of c terminal fragment of clostridium2 perfringens enterotoxin
60 | c3htkC_ |
| not modelled | 7.3 | 17 | PDB header:recombination/replication/ligase Chain: C: PDB Molecule:e3 sumo-protein ligase mms21; PDBTitle: crystal structure of mms21 and smc5 complex
61 | d1p42a1 |
| not modelled | 6.9 | 10 | Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase LpxC
62 | c3dclC_ |
| not modelled | 6.8 | 10 | PDB header:structural genomics, unknown function Chain: C: PDB Molecule:tm1086; PDBTitle: crystal structure of tm1086
63 | d2gpia1 |
| not modelled | 6.8 | 27 | Fold:Shew3726-like Superfamily:Shew3726-like Family:Shew3726-like
64 | c2dbhA_ |
| not modelled | 6.6 | 56 | PDB header:signaling protein Chain: A: PDB Molecule:tumor necrosis factor receptor superfamily PDBTitle: solution structure of the carboxyl-terminal card-like2 domain in human tnfr-related death receptor-6
65 | d1mxaa2 |
| not modelled | 6.5 | 33 | Fold:S-adenosylmethionine synthetase Superfamily:S-adenosylmethionine synthetase Family:S-adenosylmethionine synthetase
66 | d2hiya1 |
| not modelled | 6.4 | 20 | Fold:SP0830-like Superfamily:SP0830-like Family:SP0830-like
67 | c1zc1A_ |
| not modelled | 6.1 | 21 | PDB header:protein turnover Chain: A: PDB Molecule:ubiquitin fusion degradation protein 1; PDBTitle: ufd1 exhibits the aaa-atpase fold with two distinct2 ubiquitin interaction sites
68 | d2d9ra1 |
| not modelled | 5.9 | 25 | Fold:Double-split beta-barrel Superfamily:AF2212/PG0164-like Family:PG0164-like
69 | d1ogya1 |
| not modelled | 5.8 | 25 | Fold:Double psi beta-barrel Superfamily:ADC-like Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
70 | d1c8sa_ |
| not modelled | 5.8 | 50 | Fold:Family A G protein-coupled receptor-like Superfamily:Family A G protein-coupled receptor-like Family:Bacteriorhodopsin-like
71 | c3vcbB_ |
| not modelled | 5.8 | 16 | PDB header:viral protein Chain: B: PDB Molecule:rna-directed rna polymerase; PDBTitle: c425s mutant of the c-terminal cytoplasmic domain of non-structural2 protein 4 from mouse hepatitis virus a59
72 | d2baya1 |
| not modelled | 5.8 | 40 | Fold:RING/U-box Superfamily:RING/U-box Family:U-box
73 | d2p02a2 |
| not modelled | 5.6 | 40 | Fold:S-adenosylmethionine synthetase Superfamily:S-adenosylmethionine synthetase Family:S-adenosylmethionine synthetase
74 | c1zbe1_ |
| not modelled | 5.4 | 23 | PDB header:virus Chain: 1: PDB Molecule:coat protein vp1; PDBTitle: foot-and mouth disease virus serotype a1061
75 | d2dira1 |
| not modelled | 5.4 | 15 | Fold:THUMP domain Superfamily:THUMP domain-like Family:Minimal THUMP
76 | d1x6ma_ |
| not modelled | 5.3 | 25 | Fold:Mss4-like Superfamily:Mss4-like Family:Glutathione-dependent formaldehyde-activating enzyme, Gfa
77 | d1usua_ |
| not modelled | 5.2 | 21 | Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:Hsp90 middle domain
78 | c2hz7A_ |
| not modelled | 5.2 | 17 | PDB header:ligase Chain: A: PDB Molecule:glutaminyl-trna synthetase; PDBTitle: crystal structure of the glutaminyl-trna synthetase from2 deinococcus radiodurans
79 | d1qm4a2 |
| not modelled | 5.1 | 40 | Fold:S-adenosylmethionine synthetase Superfamily:S-adenosylmethionine synthetase Family:S-adenosylmethionine synthetase

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
Disclaimer
Terms and Conditions
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