Phyre 2 Results for P0A7D7

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Email | l.a.kelley@imperial.ac.uk
Description | P0A7D7
Date | Thu Jan 5 11:05:25 GMT 2012
Unique Job ID | 62c45d0618cf225c

Summary |

Top model
Image coloured by rainbow N → C terminus
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Model (left) based on template c2gqsA_
Top template information
PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide PDBTitle: saicar synthetase complexed with cair-mg2+ and adp
Confidence and coverage
Confidence: | 100.0% | Coverage: | 100%
237 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 | Q | K | Q | A | E | L | Y | R | G | K | A | K | T | V | Y | S | T | E | N | P | D | L | L | V | L | E | F | R | N | D | T | S | A | G | D | G | A | R | I | E | Q | F | D | R | K | G | M | V | N | N | K | F | N | Y | F | I | M | S | K
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? | ? |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | L | A | E | A | G | I | P | T | Q | M | E | R | L | L | S | D | T | E | C | L | V | K | K | L | D | M | V | P | V | E | C | V | V | R | N | R | A | A | G | S | L | V | K | R | L | G | I | E | E | G | I | E | L | N | P | P | L | F | D | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | F | L | K | N | D | A | M | H | D | P | M | V | N | E | S | Y | C | E | T | F | G | W | V | S | K | E | N | L | A | R | M | K | E | L | T | Y | K | A | N | D | V | L | K | K | L | F | D | D | A | G | L | I | L | V | D | F | K | L | E | F
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | .
Sequence |  | G | L | Y | K | G | E | V | V | L | G | D | E | F | S | P | D | G | S | R | L | W | D | K | E | T | L | E | K | M | D | K | D | R | F | R | Q | S | L | G | G | L | I | E | A | Y | E | A | V | A | R | R | L | G | V | Q | L | D
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 |
| c2gqsA_ |

### PDB 2gqs chain A

Region: 1 - 237
Aligned: 237
Modelled: 237
Confidence: 100.0%
Identity: 100%
PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide
PDBTitle: saicar synthetase complexed with cair-mg2+ and adp

Phyre2
2 |
| c2z02A_ |

### PDB 2z02 chain A

Region: 1 - 235
Aligned: 234
Modelled: 235
Confidence: 100.0%
Identity: 43%
PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide
PDBTitle: crystal structure of2 phosphoribosylaminoimidazolesuccinocarboxamide synthase3 wit atp from methanocaldococcus jannaschii

Phyre2
3 |
| c3kreA_ |

### PDB 3kre chain A

Region: 5 - 234
Aligned: 230
Modelled: 230
Confidence: 100.0%
Identity: 41%
PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide synthase;
PDBTitle: crystal structure of phosphoribosylaminoimidazole-succinocarboxamide2 synthase from ehrlichia chaffeensis at 1.8a resolution

Phyre2
4 |
| c3nuaB_ |

### PDB 3nua chain B

Region: 1 - 233
Aligned: 233
Modelled: 233
Confidence: 100.0%
Identity: 42%
PDB header:ligase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide synthase;
PDBTitle: crystal structure of phosphoribosylaminoimidazole-succinocarboxamide2 synthase from clostridium perfringens

Phyre2
5 |
| c2ywvB_ |

### PDB 2ywv chain B

Region: 2 - 233
Aligned: 232
Modelled: 232
Confidence: 100.0%
Identity: 44%
PDB header:ligase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole succinocarboxamide synthetase;
PDBTitle: crystal structure of saicar synthetase from geobacillus kaustophilus

Phyre2
6 |
| d2cnqa1 |

### PDB 2cnq chain A domain 1

Region: 4 - 232
Aligned: 223
Modelled: 229
Confidence: 100.0%
Identity: 30%
Fold: SAICAR synthase-like
Superfamily: SAICAR synthase-like
Family: SAICAR synthase

Phyre2
7 |
| c3r9rA_ |

### PDB 3r9r chain A

Region: 1 - 232
Aligned: 227
Modelled: 232
Confidence: 100.0%
Identity: 30%
PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide synthase;
PDBTitle: structure of a phosphoribosylaminoimidazole-succinocarboxamide2 synthase from mycobacterium abscessus atcc 19977 / dsm 44196

Phyre2
8 |
| d1kuta_ |

### PDB 1kut chain A

Region: 12 - 232
Aligned: 206
Modelled: 221
Confidence: 100.0%
Identity: 39%
Fold: SAICAR synthase-like
Superfamily: SAICAR synthase-like
Family: SAICAR synthase

Phyre2
9 |
| c2h31A_ |

### PDB 2h31 chain A

Region: 1 - 232
Aligned: 208
Modelled: 232
Confidence: 100.0%
Identity: 32%
PDB header:ligase, lyase
Chain: A: PDB Molecule:multifunctional protein ade2;
PDBTitle: crystal structure of human paics, a bifunctional carboxylase and2 synthetase in purine biosynthesis

Phyre2
10 |
| c1zp9A_ |

### PDB 1zp9 chain A

Region: 151 - 226
Aligned: 69
Modelled: 76
Confidence: 57.1%
Identity: 14%
PDB header:transferase
Chain: A: PDB Molecule:rio1 kinase;
PDBTitle: crystal structure of full-legnth a.fulgidus rio1 serine kinase bound2 to atp and mn2+ ions.

Phyre2
11 |
| d2h3ka1 |

### PDB 2h3k chain A domain 1

Region: 69 - 122
Aligned: 50
Modelled: 54
Confidence: 36.5%
Identity: 14%
Fold: Immunoglobulin-like beta-sandwich
Superfamily: NEAT domain-like
Family: NEAT domain

Phyre2
12 |
| c3nj2B_ |

### PDB 3nj2 chain B

Region: 132 - 230
Aligned: 95
Modelled: 99
Confidence: 33.8%
Identity: 16%
PDB header:unknown function
Chain: B: PDB Molecule:duf269-containing protein;
PDBTitle: crystal structure of cce_0566 from the cyanobacterium cyanothece2 51142, a protein associated with nitrogen fixation from the duf2693 family

Phyre2
13 |
| d1kjqa3 |

### PDB 1kjq chain A domain 3

Region: 143 - 195
Aligned: 44
Modelled: 53
Confidence: 19.8%
Identity: 34%
Fold: ATP-grasp
Superfamily: Glutathione synthetase ATP-binding domain-like
Family: BC ATP-binding domain-like

Phyre2
14 |
| d2a5za1 |

### PDB 2a5z chain A domain 1

Region: 89 - 130
Aligned: 42
Modelled: 42
Confidence: 18.7%
Identity: 12%
Fold: Concanavalin A-like lectins/glucanases
Superfamily: Concanavalin A-like lectins/glucanases
Family: SO2946-like

Phyre2
15 |
| d1i4ya_ |

### PDB 1i4y chain A

Region: 110 - 168
Aligned: 57
Modelled: 59
Confidence: 18.4%
Identity: 9%
Fold: Four-helical up-and-down bundle
Superfamily: Hemerythrin-like
Family: Hemerythrin-like

Phyre2
16 |
| c3g7pA_ |

### PDB 3g7p chain A

Region: 132 - 230
Aligned: 95
Modelled: 99
Confidence: 17.5%
Identity: 18%
PDB header:unknown function
Chain: A: PDB Molecule:nitrogen fixation protein;
PDBTitle: crystal structure of a nifx-associated protein of unknown function2 (afe_1514) from acidithiobacillus ferrooxidans atcc at 2.00 a3 resolution

Phyre2
17 |
| c2pvpB_ |

### PDB 2pvp chain B

Region: 143 - 195
Aligned: 44
Modelled: 53
Confidence: 16.8%
Identity: 34%
PDB header:ligase
Chain: B: PDB Molecule:d-alanine-d-alanine ligase;
PDBTitle: crystal structure of d-alanine-d-alanine ligase from helicobacter2 pylori

Phyre2
18 |
| d1pmia_ |

### PDB 1pmi chain A

Region: 85 - 104
Aligned: 20
Modelled: 20
Confidence: 15.3%
Identity: 15%
Fold: Double-stranded beta-helix
Superfamily: RmlC-like cupins
Family: Type I phosphomannose isomerase

Phyre2
19 |
| c3lzcA_ |

### PDB 3lzc chain A

Region: 37 - 121
Aligned: 75
Modelled: 85
Confidence: 14.1%
Identity: 15%
PDB header:biosynthetic protein
Chain: A: PDB Molecule:dph2;
PDBTitle: crystal structure of dph2 from pyrococcus horikoshii

Phyre2
20 |
| c2auwB_ |

### PDB 2auw chain B

Region: 191 - 234
Aligned: 44
Modelled: 44
Confidence: 12.7%
Identity: 23%
PDB header:unknown function
Chain: B: PDB Molecule:hypothetical protein ne0471;
PDBTitle: crystal structure of putative dna binding protein ne0471 from2 nitrosomonas europaea atcc 19718

Phyre2
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58 |
59 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c2gqsA_ |
|  | 100.0 | 100 | PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide PDBTitle: saicar synthetase complexed with cair-mg2+ and adp
2 | c2z02A_ |
|  | 100.0 | 43 | PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide PDBTitle: crystal structure of2 phosphoribosylaminoimidazolesuccinocarboxamide synthase3 wit atp from methanocaldococcus jannaschii
3 | c3kreA_ |
|  | 100.0 | 41 | PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide synthase; PDBTitle: crystal structure of phosphoribosylaminoimidazole-succinocarboxamide2 synthase from ehrlichia chaffeensis at 1.8a resolution
4 | c3nuaB_ |
|  | 100.0 | 42 | PDB header:ligase Chain: B: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide synthase; PDBTitle: crystal structure of phosphoribosylaminoimidazole-succinocarboxamide2 synthase from clostridium perfringens
5 | c2ywvB_ |
|  | 100.0 | 44 | PDB header:ligase Chain: B: PDB Molecule:phosphoribosylaminoimidazole succinocarboxamide synthetase; PDBTitle: crystal structure of saicar synthetase from geobacillus kaustophilus
6 | d2cnqa1 |
|  | 100.0 | 30 | Fold:SAICAR synthase-like Superfamily:SAICAR synthase-like Family:SAICAR synthase
7 | c3r9rA_ |
|  | 100.0 | 30 | PDB header:ligase Chain: A: PDB Molecule:phosphoribosylaminoimidazole-succinocarboxamide synthase; PDBTitle: structure of a phosphoribosylaminoimidazole-succinocarboxamide2 synthase from mycobacterium abscessus atcc 19977 / dsm 44196
8 | d1kuta_ |
|  | 100.0 | 39 | Fold:SAICAR synthase-like Superfamily:SAICAR synthase-like Family:SAICAR synthase
9 | c2h31A_ |
|  | 100.0 | 32 | PDB header:ligase, lyase Chain: A: PDB Molecule:multifunctional protein ade2; PDBTitle: crystal structure of human paics, a bifunctional carboxylase and2 synthetase in purine biosynthesis
10 | c1zp9A_ |
|  | 57.1 | 14 | PDB header:transferase Chain: A: PDB Molecule:rio1 kinase; PDBTitle: crystal structure of full-legnth a.fulgidus rio1 serine kinase bound2 to atp and mn2+ ions.
11 | d2h3ka1 |
|  | 36.5 | 14 | Fold:Immunoglobulin-like beta-sandwich Superfamily:NEAT domain-like Family:NEAT domain
12 | c3nj2B_ |
|  | 33.8 | 16 | PDB header:unknown function Chain: B: PDB Molecule:duf269-containing protein; PDBTitle: crystal structure of cce_0566 from the cyanobacterium cyanothece2 51142, a protein associated with nitrogen fixation from the duf2693 family
13 | d1kjqa3 |
|  | 19.8 | 34 | Fold:ATP-grasp Superfamily:Glutathione synthetase ATP-binding domain-like Family:BC ATP-binding domain-like
14 | d2a5za1 |
|  | 18.7 | 12 | Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:SO2946-like
15 | d1i4ya_ |
|  | 18.4 | 9 | Fold:Four-helical up-and-down bundle Superfamily:Hemerythrin-like Family:Hemerythrin-like
16 | c3g7pA_ |
|  | 17.5 | 18 | PDB header:unknown function Chain: A: PDB Molecule:nitrogen fixation protein; PDBTitle: crystal structure of a nifx-associated protein of unknown function2 (afe_1514) from acidithiobacillus ferrooxidans atcc at 2.00 a3 resolution
17 | c2pvpB_ |
|  | 16.8 | 34 | PDB header:ligase Chain: B: PDB Molecule:d-alanine-d-alanine ligase; PDBTitle: crystal structure of d-alanine-d-alanine ligase from helicobacter2 pylori
18 | d1pmia_ |
|  | 15.3 | 15 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Type I phosphomannose isomerase
19 | c3lzcA_ |
|  | 14.1 | 15 | PDB header:biosynthetic protein Chain: A: PDB Molecule:dph2; PDBTitle: crystal structure of dph2 from pyrococcus horikoshii
20 | c2auwB_ |
|  | 12.7 | 23 | PDB header:unknown function Chain: B: PDB Molecule:hypothetical protein ne0471; PDBTitle: crystal structure of putative dna binding protein ne0471 from2 nitrosomonas europaea atcc 19718
21 | c3h1yA_ |
| not modelled | 11.7 | 35 | 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)
22 | d1hrba_ |
| not modelled | 11.4 | 9 | Fold:Four-helical up-and-down bundle Superfamily:Hemerythrin-like Family:Hemerythrin-like
23 | c3cegA_ |
| not modelled | 11.0 | 13 | PDB header:ligase Chain: A: PDB Molecule:baculoviral iap repeat-containing protein 6; PDBTitle: crystal structure of the ubc domain of baculoviral iap2 repeat-containing protein 6
24 | c3eplA_ |
| not modelled | 10.6 | 24 | PDB header:transferase/rna Chain: A: PDB Molecule:trna isopentenyltransferase; PDBTitle: crystallographic snapshots of eukaryotic2 dimethylallyltransferase acting on trna: insight into trna3 recognition and reaction mechanism
25 | c3s6bA_ |
| not modelled | 10.5 | 7 | PDB header:hydrolase Chain: A: PDB Molecule:methionine aminopeptidase; PDBTitle: crystal structure of methionine aminopeptidase 1b from plasmodium2 falciparum, pf10_0150
26 | c1tqmA_ |
| not modelled | 10.3 | 13 | PDB header:ribosome Chain: A: PDB Molecule:conserved hypothetical protein; PDBTitle: crystal structure of a. fulgidus rio2 serine protein kinase bound to2 amppnp
27 | c3exaD_ |
| not modelled | 9.6 | 18 | PDB header:transferase Chain: D: PDB Molecule:trna delta(2)-isopentenylpyrophosphate PDBTitle: crystal structure of the full-length trna2 isopentenylpyrophosphate transferase (bh2366) from3 bacillus halodurans, northeast structural genomics4 consortium target bhr41.
28 | c3r23B_ |
| not modelled | 9.5 | 20 | PDB header:ligase Chain: B: PDB Molecule:d-alanine--d-alanine ligase; PDBTitle: crystal structure of d-alanine--d-alanine ligase from bacillus2 anthracis
29 | d1zara2 |
| not modelled | 9.5 | 15 | Fold:Protein kinase-like (PK-like) Superfamily:Protein kinase-like (PK-like) Family:RIO1-like kinases
30 | c3idwA_ |
| not modelled | 9.4 | 6 | PDB header:endocytosis Chain: A: PDB Molecule:actin cytoskeleton-regulatory complex protein sla1; PDBTitle: crystal structure of sla1 homology domain 2
31 | c2vd2A_ |
| not modelled | 8.8 | 16 | PDB header:transferase Chain: A: PDB Molecule:atp phosphoribosyltransferase; PDBTitle: the crystal structure of hisg from b. subtilis
32 | c2qeaB_ |
| not modelled | 8.3 | 24 | PDB header:oxidoreductase Chain: B: PDB Molecule:putative general stress protein 26; PDBTitle: crystal structure of a putative general stress protein 26 (jann_0955)2 from jannaschia sp. ccs1 at 2.46 a resolution
33 | c1ylaB_ |
| not modelled | 8.3 | 18 | PDB header:ligase Chain: B: PDB Molecule:ubiquitin-conjugating enzyme e2-25 kda; PDBTitle: ubiquitin-conjugating enzyme e2-25 kda (huntington interacting protein2 2)
34 | d2hq7a1 |
| not modelled | 8.3 | 7 | Fold:Split barrel-like Superfamily:FMN-binding split barrel Family:PNP-oxidase like
35 | d1a62a2 |
| not modelled | 8.2 | 18 | Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like
36 | c3a8tA_ |
| not modelled | 8.1 | 13 | PDB header:transferase Chain: A: PDB Molecule:adenylate isopentenyltransferase; PDBTitle: plant adenylate isopentenyltransferase in complex with atp
37 | c3d3qB_ |
| not modelled | 7.8 | 24 | PDB header:transferase Chain: B: PDB Molecule:trna delta(2)-isopentenylpyrophosphate PDBTitle: crystal structure of trna delta(2)-isopentenylpyrophosphate2 transferase (se0981) from staphylococcus epidermidis.3 northeast structural genomics consortium target ser100
38 | d2cdqa3 |
| not modelled | 7.6 | 11 | Fold:Ferredoxin-like Superfamily:ACT-like Family:Aspartokinase allosteric domain-like
39 | c2dvzA_ |
| not modelled | 7.6 | 14 | PDB header:transport protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of a periplasmic transporter
40 | c3dmbA_ |
| not modelled | 7.6 | 16 | PDB header:oxidoreductase Chain: A: PDB Molecule:putative general stress protein 26 with a pnp-oxidase like PDBTitle: crystal structure of a putative general stress family protein2 (xcc2264) from xanthomonas campestris pv. campestris at 2.30 a3 resolution
41 | d2hmfa2 |
| not modelled | 7.5 | 17 | Fold:Ferredoxin-like Superfamily:ACT-like Family:Aspartokinase allosteric domain-like
42 | d1rz4a1 |
| not modelled | 7.5 | 25 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Eukaryotic translation initiation factor 3 subunit 12, eIF3k, C-terminal domain
43 | d2d6fa1 |
| not modelled | 7.5 | 30 | Fold:Sm-like fold Superfamily:GatD N-terminal domain-like Family:GatD N-terminal domain-like
44 | d1tf5a1 |
| not modelled | 6.9 | 42 | Fold:Pre-protein crosslinking domain of SecA Superfamily:Pre-protein crosslinking domain of SecA Family:Pre-protein crosslinking domain of SecA
45 | d1nkta1 |
| not modelled | 6.9 | 50 | Fold:Pre-protein crosslinking domain of SecA Superfamily:Pre-protein crosslinking domain of SecA Family:Pre-protein crosslinking domain of SecA
46 | d2r7ka2 |
| not modelled | 6.7 | 20 | Fold:ATP-grasp Superfamily:Glutathione synthetase ATP-binding domain-like Family:PurP ATP-binding domain-like
47 | c3dzoA_ |
| not modelled | 6.7 | 21 | PDB header:transferase Chain: A: PDB Molecule:rhoptry kinase domain; PDBTitle: crystal structure of a rhoptry kinase from toxoplasma gondii
48 | c3fozB_ |
| not modelled | 6.5 | 6 | PDB header:transferase/rna Chain: B: PDB Molecule:trna delta(2)-isopentenylpyrophosphate transferase; PDBTitle: structure of e. coli isopentenyl-trna transferase in complex with e.2 coli trna(phe)
49 | c2pr1B_ |
| not modelled | 6.5 | 16 | PDB header:transferase Chain: B: PDB Molecule:uncharacterized n-acetyltransferase ylbp; PDBTitle: crystal structure of the bacillus subtilis n-acetyltransferase ylbp2 protein in complex with coenzyme-a
50 | c3e46A_ |
| not modelled | 6.1 | 18 | PDB header:ligase Chain: A: PDB Molecule:ubiquitin-conjugating enzyme e2-25 kda; PDBTitle: crystal structure of ubiquitin-conjugating enzyme e2-25kda2 (huntington interacting protein 2) m172a mutant
51 | d1g57a_ |
| not modelled | 6.0 | 18 | Fold:YrdC/RibB Superfamily:YrdC/RibB Family:3,4-dihydroxy-2-butanone 4-phosphate synthase, DHBP synthase, RibB
52 | d1uj4a2 |
| not modelled | 5.9 | 71 | Fold:Ferredoxin-like Superfamily:D-ribose-5-phosphate isomerase (RpiA), lid domain Family:D-ribose-5-phosphate isomerase (RpiA), lid domain
53 | d2es9a1 |
| not modelled | 5.9 | 15 | Fold:YoaC-like Superfamily:YoaC-like Family:YoaC-like
54 | d2ozla1 |
| not modelled | 5.9 | 15 | Fold:Thiamin diphosphate-binding fold (THDP-binding) Superfamily:Thiamin diphosphate-binding fold (THDP-binding) Family:Branched-chain alpha-keto acid dehydrogenase PP module
55 | c3lwbA_ |
| not modelled | 5.7 | 30 | PDB header:ligase Chain: A: PDB Molecule:d-alanine--d-alanine ligase; PDBTitle: crystal structure of apo d-alanine:d-alanine ligase (ddl) from2 mycobacterium tuberculosis
56 | c1zdbA_ |
| not modelled | 5.7 | 50 | PDB header:igg binding domain Chain: A: PDB Molecule:mini protein a domain, z38; PDBTitle: phage-selected mini protein a domain, z38, nmr, minimized2 mean structure
57 | c3byvA_ |
| not modelled | 5.5 | 23 | PDB header:transferase Chain: A: PDB Molecule:rhoptry kinase; PDBTitle: crystal structure of toxoplasma gondii specific rhoptry2 antigen kinase domain
58 | d2cyya1 |
| not modelled | 5.4 | 11 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
59 | d1q46a1 |
| not modelled | 5.4 | 18 | Fold:SAM domain-like Superfamily:eIF2alpha middle domain-like Family:eIF2alpha middle domain-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