Phyre 2 Results for P0A731

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Email | l.a.kelley@imperial.ac.uk
Description | P0A731
Date | Thu Jan 5 11:04:39 GMT 2012
Unique Job ID | 9ac53025da40a660

Summary |

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

Model (left) based on template d1b93a_
Top template information
Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Methylglyoxal synthase, MgsA
Confidence and coverage
Confidence: | 100.0% | Coverage: | 97%
148 residues ( 97% 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 | E | L | T | T | R | T | L | P | A | R | K | H | I | A | L | V | A | H | D | H | C | K | Q | M | L | M | S | W | V | E | R | H | Q | P | L | L | E | Q | H | V | L | Y | A | T | G | T | T | G | N | L | I | S | R | A | T | G | M | N | V
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | N | A | M | L | S | G | P | M | G | G | D | Q | Q | V | G | A | L | I | S | E | G | K | I | D | V | L | I | F | F | W | D | P | L | N | A | V | P | H | D | P | D | V | K | A | L | L | R | L | A | T | V | W | N | I | P | V | A | T | N | V
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  | ? |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | .
Sequence |  | A | T | A | D | F | I | I | Q | S | P | H | F | N | D | A | V | D | I | L | I | P | D | Y | Q | R | Y | L | A | D | R | L | K
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 |
| d1b93a_ |

### PDB 1b93 chain A

Region: 1 - 148
Aligned: 148
Modelled: 148
Confidence: 100.0%
Identity: 100%
Fold: Methylglyoxal synthase-like
Superfamily: Methylglyoxal synthase-like
Family: Methylglyoxal synthase, MgsA

Phyre2
2 |
| d1vmda_ |

### PDB 1vmd chain A

Region: 8 - 152
Aligned: 145
Modelled: 145
Confidence: 100.0%
Identity: 54%
Fold: Methylglyoxal synthase-like
Superfamily: Methylglyoxal synthase-like
Family: Methylglyoxal synthase, MgsA

Phyre2
3 |
| d1wo8a1 |

### PDB 1wo8 chain A domain 1

Region: 12 - 133
Aligned: 122
Modelled: 122
Confidence: 100.0%
Identity: 45%
Fold: Methylglyoxal synthase-like
Superfamily: Methylglyoxal synthase-like
Family: Methylglyoxal synthase, MgsA

Phyre2
4 |
| d1a9xa2 |

### PDB 1a9x chain A domain 2

Region: 5 - 149
Aligned: 136
Modelled: 145
Confidence: 100.0%
Identity: 15%
Fold: Methylglyoxal synthase-like
Superfamily: Methylglyoxal synthase-like
Family: Carbamoyl phosphate synthetase, large subunit allosteric, C-terminal domain

Phyre2
5 |
| c2yvqA_ |

### PDB 2yvq chain A

Region: 1 - 130
Aligned: 123
Modelled: 130
Confidence: 100.0%
Identity: 21%
PDB header:ligase
Chain: A: PDB Molecule:carbamoyl-phosphate synthase;
PDBTitle: crystal structure of mgs domain of carbamoyl-phosphate2 synthetase from homo sapiens

Phyre2
6 |
| c1m6vE_ |

### PDB 1m6v chain E

Region: 1 - 152
Aligned: 142
Modelled: 152
Confidence: 99.9%
Identity: 14%
PDB header:ligase
Chain: E: PDB Molecule:carbamoyl phosphate synthetase large chain;
PDBTitle: crystal structure of the g359f (small subunit) point mutant of2 carbamoyl phosphate synthetase

Phyre2
7 |
| d1zcza1 |

### PDB 1zcz chain A domain 1

Region: 12 - 128
Aligned: 108
Modelled: 117
Confidence: 98.9%
Identity: 19%
Fold: Methylglyoxal synthase-like
Superfamily: Methylglyoxal synthase-like
Family: Inosicase

Phyre2
8 |
| d1pkxa1 |

### PDB 1pkx chain A domain 1

Region: 10 - 135
Aligned: 121
Modelled: 126
Confidence: 98.9%
Identity: 22%
Fold: Methylglyoxal synthase-like
Superfamily: Methylglyoxal synthase-like
Family: Inosicase

Phyre2
9 |
| d1g8ma1 |

### PDB 1g8m chain A domain 1

Region: 11 - 135
Aligned: 121
Modelled: 123
Confidence: 98.7%
Identity: 21%
Fold: Methylglyoxal synthase-like
Superfamily: Methylglyoxal synthase-like
Family: Inosicase

Phyre2
10 |
| c1zczA_ |

### PDB 1zcz chain A

Region: 21 - 128
Aligned: 100
Modelled: 104
Confidence: 98.4%
Identity: 19%
PDB header:transferase/hydrolase
Chain: A: PDB Molecule:bifunctional purine biosynthesis protein purh;
PDBTitle: crystal structure of phosphoribosylaminoimidazolecarboxamide2 formyltransferase / imp cyclohydrolase (tm1249) from thermotoga3 maritima at 1.88 a resolution

Phyre2
11 |
| c4a1oB_ |

### PDB 4a1o chain B

Region: 10 - 136
Aligned: 119
Modelled: 127
Confidence: 98.3%
Identity: 19%
PDB header:transferase-hydrolase
Chain: B: PDB Molecule:bifunctional purine biosynthesis protein purh;
PDBTitle: crystal structure of mycobacterium tuberculosis purh complexed with2 aicar and a novel nucleotide cfair, at 2.48 a resolution.

Phyre2
12 |
| c1thzA_ |

### PDB 1thz chain A

Region: 21 - 63
Aligned: 40
Modelled: 43
Confidence: 97.6%
Identity: 28%
PDB header:transferase, hydrolase
Chain: A: PDB Molecule:bifunctional purine biosynthesis protein purh;
PDBTitle: crystal structure of avian aicar transformylase in complex2 with a novel inhibitor identified by virtual ligand3 screening

Phyre2
13 |
| d1ytla1 |

### PDB 1ytl chain A domain 1

Region: 10 - 89
Aligned: 72
Modelled: 80
Confidence: 87.1%
Identity: 15%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: ACDE2-like

Phyre2
14 |
| c2o48X_ |

### PDB 2o48 chain X

Region: 12 - 134
Aligned: 109
Modelled: 123
Confidence: 83.3%
Identity: 14%
PDB header:oxidoreductase
Chain: X: PDB Molecule:dimeric dihydrodiol dehydrogenase;
PDBTitle: crystal structure of mammalian dimeric dihydrodiol dehydrogenase

Phyre2
15 |
| c3ec7C_ |

### PDB 3ec7 chain C

Region: 11 - 148
Aligned: 124
Modelled: 130
Confidence: 80.3%
Identity: 15%
PDB header:oxidoreductase
Chain: C: PDB Molecule:putative dehydrogenase;
PDBTitle: crystal structure of putative dehydrogenase from salmonella2 typhimurium lt2

Phyre2
16 |
| d2a0ua1 |

### PDB 2a0u chain A domain 1

Region: 48 - 117
Aligned: 58
Modelled: 64
Confidence: 80.2%
Identity: 16%
Fold: NagB/RpiA/CoA transferase-like
Superfamily: NagB/RpiA/CoA transferase-like
Family: IF2B-like

Phyre2
17 |
| d1t0kb_ |

### PDB 1t0k chain B

Region: 70 - 118
Aligned: 44
Modelled: 49
Confidence: 76.7%
Identity: 18%
Fold: Bacillus chorismate mutase-like
Superfamily: L30e-like
Family: L30e/L7ae ribosomal proteins

Phyre2
18 |
| c3cpqB_ |

### PDB 3cpq chain B

Region: 70 - 118
Aligned: 44
Modelled: 49
Confidence: 76.2%
Identity: 18%
PDB header:ribosomal protein
Chain: B: PDB Molecule:50s ribosomal protein l30e;
PDBTitle: crystal structure of l30e a ribosomal protein from2 methanocaldococcus jannaschii dsm2661 (mj1044)

Phyre2
19 |
| d1w41a1 |

### PDB 1w41 chain A domain 1

Region: 70 - 118
Aligned: 44
Modelled: 49
Confidence: 75.9%
Identity: 16%
Fold: Bacillus chorismate mutase-like
Superfamily: L30e-like
Family: L30e/L7ae ribosomal proteins

Phyre2
20 |
| d2bo1a1 |

### PDB 2bo1 chain A domain 1

Region: 70 - 118
Aligned: 44
Modelled: 49
Confidence: 72.8%
Identity: 16%
Fold: Bacillus chorismate mutase-like
Superfamily: L30e-like
Family: L30e/L7ae ribosomal proteins

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1b93a_ |
|  | 100.0 | 100 | Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Methylglyoxal synthase, MgsA
2 | d1vmda_ |
|  | 100.0 | 54 | Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Methylglyoxal synthase, MgsA
3 | d1wo8a1 |
|  | 100.0 | 45 | Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Methylglyoxal synthase, MgsA
4 | d1a9xa2 |
|  | 100.0 | 15 | Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Carbamoyl phosphate synthetase, large subunit allosteric, C-terminal domain
5 | c2yvqA_ |
|  | 100.0 | 21 | PDB header:ligase Chain: A: PDB Molecule:carbamoyl-phosphate synthase; PDBTitle: crystal structure of mgs domain of carbamoyl-phosphate2 synthetase from homo sapiens
6 | c1m6vE_ |
|  | 99.9 | 14 | PDB header:ligase Chain: E: PDB Molecule:carbamoyl phosphate synthetase large chain; PDBTitle: crystal structure of the g359f (small subunit) point mutant of2 carbamoyl phosphate synthetase
7 | d1zcza1 |
|  | 98.9 | 19 | Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Inosicase
8 | d1pkxa1 |
|  | 98.9 | 22 | Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Inosicase
9 | d1g8ma1 |
|  | 98.7 | 21 | Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Inosicase
10 | c1zczA_ |
|  | 98.4 | 19 | PDB header:transferase/hydrolase Chain: A: PDB Molecule:bifunctional purine biosynthesis protein purh; PDBTitle: crystal structure of phosphoribosylaminoimidazolecarboxamide2 formyltransferase / imp cyclohydrolase (tm1249) from thermotoga3 maritima at 1.88 a resolution
11 | c4a1oB_ |
|  | 98.3 | 19 | PDB header:transferase-hydrolase Chain: B: PDB Molecule:bifunctional purine biosynthesis protein purh; PDBTitle: crystal structure of mycobacterium tuberculosis purh complexed with2 aicar and a novel nucleotide cfair, at 2.48 a resolution.
12 | c1thzA_ |
|  | 97.6 | 28 | PDB header:transferase, hydrolase Chain: A: PDB Molecule:bifunctional purine biosynthesis protein purh; PDBTitle: crystal structure of avian aicar transformylase in complex2 with a novel inhibitor identified by virtual ligand3 screening
13 | d1ytla1 |
|  | 87.1 | 15 | Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:ACDE2-like
14 | c2o48X_ |
|  | 83.3 | 14 | PDB header:oxidoreductase Chain: X: PDB Molecule:dimeric dihydrodiol dehydrogenase; PDBTitle: crystal structure of mammalian dimeric dihydrodiol dehydrogenase
15 | c3ec7C_ |
|  | 80.3 | 15 | PDB header:oxidoreductase Chain: C: PDB Molecule:putative dehydrogenase; PDBTitle: crystal structure of putative dehydrogenase from salmonella2 typhimurium lt2
16 | d2a0ua1 |
|  | 80.2 | 16 | Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:IF2B-like
17 | d1t0kb_ |
|  | 76.7 | 18 | Fold:Bacillus chorismate mutase-like Superfamily:L30e-like Family:L30e/L7ae ribosomal proteins
18 | c3cpqB_ |
|  | 76.2 | 18 | PDB header:ribosomal protein Chain: B: PDB Molecule:50s ribosomal protein l30e; PDBTitle: crystal structure of l30e a ribosomal protein from2 methanocaldococcus jannaschii dsm2661 (mj1044)
19 | d1w41a1 |
|  | 75.9 | 16 | Fold:Bacillus chorismate mutase-like Superfamily:L30e-like Family:L30e/L7ae ribosomal proteins
20 | d2bo1a1 |
|  | 72.8 | 16 | Fold:Bacillus chorismate mutase-like Superfamily:L30e-like Family:L30e/L7ae ribosomal proteins
21 | c4a1dG_ |
| not modelled | 72.2 | 15 | PDB header:ribosome Chain: G: PDB Molecule:rpl30; PDBTitle: t.thermophila 60s ribosomal subunit in complex with initiation2 factor 6. this file contains 26s rrna and proteins of3 molecule 4.
22 | c2i7pA_ |
| not modelled | 71.0 | 14 | PDB header:transferase Chain: A: PDB Molecule:pantothenate kinase 3; PDBTitle: crystal structure of human pank3 in complex with accoa
23 | c3q2kB_ |
| not modelled | 70.9 | 14 | PDB header:oxidoreductase Chain: B: PDB Molecule:oxidoreductase; PDBTitle: crystal structure of the wlba dehydrogenase from bordetella pertussis2 in complex with nadh and udp-glcnaca
24 | c2vpnB_ |
| not modelled | 70.9 | 10 | PDB header:transport Chain: B: PDB Molecule:periplasmic substrate binding protein; PDBTitle: high-resolution structure of the periplasmic ectoine-2 binding protein from teaabc trap-transporter of halomonas3 elongata
25 | c3ng3A_ |
| not modelled | 69.1 | 16 | PDB header:lyase Chain: A: PDB Molecule:deoxyribose-phosphate aldolase; PDBTitle: crystal structure of deoxyribose phosphate aldolase from mycobacterium2 avium 104 in a schiff base with an unknown aldehyde
26 | d1t9ka_ |
| not modelled | 68.8 | 23 | Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:IF2B-like
27 | d1n7ka_ |
| not modelled | 68.5 | 16 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase
28 | c2q5cA_ |
| not modelled | 68.3 | 11 | PDB header:transcription Chain: A: PDB Molecule:ntrc family transcriptional regulator; PDBTitle: crystal structure of ntrc family transcriptional regulator from2 clostridium acetobutylicum
29 | c3fxbB_ |
| not modelled | 66.7 | 10 | PDB header:transport protein Chain: B: PDB Molecule:trap dicarboxylate transporter, dctp subunit; PDBTitle: crystal structure of the ectoine-binding protein ueha
30 | c2zkr6_ |
| not modelled | 64.4 | 20 | PDB header:ribosomal protein/rna Chain: 6: PDB Molecule:60s ribosomal protein l30e; PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map
31 | c3nklA_ |
| not modelled | 63.2 | 12 | PDB header:oxidoreductase/lyase Chain: A: PDB Molecule:udp-d-quinovosamine 4-dehydrogenase; PDBTitle: crystal structure of udp-d-quinovosamine 4-dehydrogenase from vibrio2 fischeri
32 | c2pfzA_ |
| not modelled | 61.8 | 4 | PDB header:transport protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: crystal structure of dctp6, a bordetella pertussis2 extracytoplasmic solute receptor binding pyroglutamic acid
33 | c2lbwA_ |
| not modelled | 61.4 | 14 | PDB header:rna binding protein Chain: A: PDB Molecule:h/aca ribonucleoprotein complex subunit 2; PDBTitle: solution structure of the s. cerevisiae h/aca rnp protein nhp2p-s82w2 mutant
34 | d1t5oa_ |
| not modelled | 59.3 | 20 | Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:IF2B-like
35 | d2ctza1 |
| not modelled | 58.9 | 14 | Fold:PLP-dependent transferase-like Superfamily:PLP-dependent transferases Family:Cystathionine synthase-like
36 | c1evjC_ |
| not modelled | 58.8 | 13 | PDB header:oxidoreductase Chain: C: PDB Molecule:glucose-fructose oxidoreductase; PDBTitle: crystal structure of glucose-fructose oxidoreductase (gfor)2 delta1-22 s64d
37 | c2pfyA_ |
| not modelled | 57.8 | 12 | PDB header:transport protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: crystal structure of dctp7, a bordetella pertussis2 extracytoplasmic solute receptor binding pyroglutamic acid
38 | c2jlhA_ |
| not modelled | 57.7 | 11 | PDB header:protein transport Chain: A: PDB Molecule:yop proteins translocation protein u; PDBTitle: crystal structure of the cytoplasmic domain of yersinia2 pestis yscu n263a mutant
39 | c3on1A_ |
| not modelled | 56.1 | 24 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:bh2414 protein; PDBTitle: the structure of a protein with unknown function from bacillus2 halodurans c
40 | c2yvkA_ |
| not modelled | 56.0 | 19 | PDB header:isomerase Chain: A: PDB Molecule:methylthioribose-1-phosphate isomerase; PDBTitle: crystal structure of 5-methylthioribose 1-phosphate2 isomerase product complex from bacillus subtilis
41 | c1zh8B_ |
| not modelled | 55.7 | 14 | PDB header:oxidoreductase Chain: B: PDB Molecule:oxidoreductase; PDBTitle: crystal structure of oxidoreductase (tm0312) from thermotoga maritima2 at 2.50 a resolution
42 | c3r6uA_ |
| not modelled | 55.7 | 19 | PDB header:transport protein Chain: A: PDB Molecule:choline-binding protein; PDBTitle: crystal structure of choline binding protein opubc from bacillus2 subtilis
43 | c3pppA_ |
| not modelled | 55.5 | 19 | PDB header:transport protein Chain: A: PDB Molecule:glycine betaine/carnitine/choline-binding protein; PDBTitle: structures of the substrate-binding protein provide insights into the2 multiple compatible solutes binding specificities of bacillus3 subtilis abc transporter opuc
44 | c3t7yB_ |
| not modelled | 53.1 | 16 | PDB header:protein transport Chain: B: PDB Molecule:yop proteins translocation protein u; PDBTitle: structure of an autocleavage-inactive mutant of the cytoplasmic domain2 of ct091, the yscu homologue of chlamydia trachomatis
45 | c3o3nB_ |
| not modelled | 52.9 | 18 | PDB header:lyase Chain: B: PDB Molecule:beta-subunit 2-hydroxyacyl-coa dehydratase; PDBTitle: (r)-2-hydroxyisocaproyl-coa dehydratase in complex with its substrate2 (r)-2-hydroxyisocaproyl-coa
46 | c3btuD_ |
| not modelled | 52.5 | 15 | PDB header:transcription Chain: D: PDB Molecule:galactose/lactose metabolism regulatory protein PDBTitle: crystal structure of the super-repressor mutant of gal80p2 from saccharomyces cerevisiae; gal80(s2) [e351k]
47 | c1ofgF_ |
| not modelled | 50.9 | 16 | PDB header:oxidoreductase Chain: F: PDB Molecule:glucose-fructose oxidoreductase; PDBTitle: glucose-fructose oxidoreductase
48 | c1h6dL_ |
| not modelled | 50.9 | 16 | PDB header:protein translocation Chain: L: PDB Molecule:precursor form of glucose-fructose PDBTitle: oxidized precursor form of glucose-fructose oxidoreductase2 from zymomonas mobilis complexed with glycerol
49 | c2cb1A_ |
| not modelled | 49.8 | 22 | PDB header:lyase Chain: A: PDB Molecule:o-acetyl homoserine sulfhydrylase; PDBTitle: crystal structure of o-actetyl homoserine sulfhydrylase2 from thermus thermophilus hb8,oah2.
50 | c2f5xC_ |
| not modelled | 49.8 | 19 | PDB header:transport protein Chain: C: PDB Molecule:bugd; PDBTitle: structure of periplasmic binding protein bugd
51 | c3v5nA_ |
| not modelled | 49.1 | 16 | PDB header:oxidoreductase Chain: A: PDB Molecule:oxidoreductase; PDBTitle: the crystal structure of oxidoreductase from sinorhizobium meliloti
52 | d3bzra1 |
| not modelled | 48.8 | 18 | Fold:EscU C-terminal domain-like Superfamily:EscU C-terminal domain-like Family:EscU C-terminal domain-like
53 | c3bzrA_ |
| not modelled | 48.8 | 18 | PDB header:membrane protein, protein transport Chain: A: PDB Molecule:escu; PDBTitle: crystal structure of escu c-terminal domain with n262d mutation, space2 group p 41 21 2
54 | c3c01H_ |
| not modelled | 48.3 | 16 | PDB header:membrane protein, protein transport Chain: H: PDB Molecule:surface presentation of antigens protein spas; PDBTitle: crystal structural of native spas c-terminal domain
55 | c2zzxD_ |
| not modelled | 48.3 | 17 | PDB header:transport protein Chain: D: PDB Molecule:abc transporter, solute-binding protein; PDBTitle: crystal structure of a periplasmic substrate binding protein in2 complex with lactate
56 | d2nvwa1 |
| not modelled | 47.6 | 15 | Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
57 | c2vt1B_ |
| not modelled | 47.6 | 18 | PDB header:membrane protein Chain: B: PDB Molecule:surface presentation of antigens protein spas; PDBTitle: crystal structure of the cytoplasmic domain of spa40, the2 specificity switch for the shigella flexneri type iii3 secretion system
58 | c3c00B_ |
| not modelled | 47.3 | 18 | PDB header:membrane protein, protein transport Chain: B: PDB Molecule:escu; PDBTitle: crystal structural of the mutated g247t escu/spas c-terminal domain
59 | d1rlga_ |
| not modelled | 45.7 | 18 | Fold:Bacillus chorismate mutase-like Superfamily:L30e-like Family:L30e/L7ae ribosomal proteins
60 | c2xznU_ |
| not modelled | 45.2 | 12 | PDB header:ribosome Chain: U: PDB Molecule:ribosomal protein l7ae containing protein; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 2
61 | d1jx7a_ |
| not modelled | 44.3 | 20 | Fold:DsrEFH-like Superfamily:DsrEFH-like Family:DsrEF-like
62 | c3b50A_ |
| not modelled | 43.9 | 15 | PDB header:transport protein Chain: A: PDB Molecule:sialic acid-binding periplasmic protein siap; PDBTitle: structure of h. influenzae sialic acid binding protein2 bound to neu5ac.
63 | c3o3nA_ |
| not modelled | 43.7 | 18 | PDB header:lyase Chain: A: PDB Molecule:alpha-subunit 2-hydroxyisocaproyl-coa dehydratase; PDBTitle: (r)-2-hydroxyisocaproyl-coa dehydratase in complex with its substrate2 (r)-2-hydroxyisocaproyl-coa
64 | c2hpgB_ |
| not modelled | 41.9 | 15 | PDB header:ligand binding protein Chain: B: PDB Molecule:abc transporter, periplasmic substrate-binding PDBTitle: the crystal structure of a thermophilic trap periplasmic2 binding protein
65 | d1su7a_ |
| not modelled | 41.9 | 16 | Fold:Prismane protein-like Superfamily:Prismane protein-like Family:Carbon monoxide dehydrogenase
66 | c2hzkB_ |
| not modelled | 39.1 | 20 | PDB header:ligand binding, transport protein Chain: B: PDB Molecule:trap-t family sorbitol/mannitol transporter, periplasmic PDBTitle: crystal structures of a sodium-alpha-keto acid binding subunit from a2 trap transporter in its open form
67 | c1toaA_ |
| not modelled | 37.7 | 22 | PDB header:binding protein Chain: A: PDB Molecule:protein (periplasmic binding protein troa); PDBTitle: periplasmic zinc binding protein troa from treponema pallidum
68 | d1toaa_ |
| not modelled | 37.7 | 22 | Fold:Chelatase-like Superfamily:"Helical backbone" metal receptor Family:TroA-like
69 | c1ibjC_ |
| not modelled | 37.2 | 18 | PDB header:lyase Chain: C: PDB Molecule:cystathionine beta-lyase; PDBTitle: crystal structure of cystathionine beta-lyase from arabidopsis2 thaliana
70 | d1ibja_ |
| not modelled | 37.2 | 18 | Fold:PLP-dependent transferase-like Superfamily:PLP-dependent transferases Family:Cystathionine synthase-like
71 | c3e6gA_ |
| not modelled | 36.9 | 15 | PDB header:lyase Chain: A: PDB Molecule:cystathionine gamma-lyase-like protein; PDBTitle: crystal structure of xometc, a cystathionine c-lyase-like2 protein from xanthomonas oryzae pv.oryzae
72 | c2dvzA_ |
| not modelled | 36.7 | 19 | PDB header:transport protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of a periplasmic transporter
73 | c3g13B_ |
| not modelled | 36.4 | 22 | PDB header:recombination Chain: B: PDB Molecule:putative conjugative transposon recombinase; PDBTitle: crystal structure of putative conjugative transposon recombinase from2 clostridium difficile
74 | c2pjuD_ |
| not modelled | 36.2 | 9 | PDB header:transcription Chain: D: PDB Molecule:propionate catabolism operon regulatory protein; PDBTitle: crystal structure of propionate catabolism operon2 regulatory protein prpr
75 | d1rxwa2 |
| not modelled | 35.5 | 19 | Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain
76 | c3aemD_ |
| not modelled | 35.4 | 12 | PDB header:lyase Chain: D: PDB Molecule:methionine gamma-lyase; PDBTitle: reaction intermediate structure of entamoeba histolytica methionine2 gamma-lyase 1 containing michaelis complex and methionine imine-3 pyridoxamine-5'-phosphate
77 | d1y4ia1 |
| not modelled | 34.8 | 12 | Fold:PLP-dependent transferase-like Superfamily:PLP-dependent transferases Family:Cystathionine synthase-like
78 | c3ce8A_ |
| not modelled | 34.5 | 16 | PDB header:unknown function Chain: A: PDB Molecule:putative pii-like nitrogen regulatory protein; PDBTitle: crystal structure of a duf3240 family protein (sbal_0098) from2 shewanella baltica os155 at 2.40 a resolution
79 | c3ngjC_ |
| not modelled | 33.4 | 17 | PDB header:lyase Chain: C: PDB Molecule:deoxyribose-phosphate aldolase; PDBTitle: crystal structure of a putative deoxyribose-phosphate aldolase from2 entamoeba histolytica
80 | d1vqof1 |
| not modelled | 32.9 | 20 | Fold:Bacillus chorismate mutase-like Superfamily:L30e-like Family:L30e/L7ae ribosomal proteins
81 | d2aifa1 |
| not modelled | 32.7 | 14 | Fold:Bacillus chorismate mutase-like Superfamily:L30e-like Family:L30e/L7ae ribosomal proteins
82 | c3ndnC_ |
| not modelled | 32.1 | 27 | PDB header:lyase Chain: C: PDB Molecule:o-succinylhomoserine sulfhydrylase; PDBTitle: crystal structure of o-succinylhomoserine sulfhydrylase from2 mycobacterium tuberculosis covalently bound to pyridoxal-5-phosphate
83 | d1v77a_ |
| not modelled | 31.7 | 18 | Fold:7-stranded beta/alpha barrel Superfamily:PHP domain-like Family:RNase P subunit p30
84 | c3mc6C_ |
| not modelled | 31.6 | 16 | PDB header:lyase Chain: C: PDB Molecule:sphingosine-1-phosphate lyase; PDBTitle: crystal structure of scdpl1
85 | c3o85A_ |
| not modelled | 31.3 | 16 | PDB header:ribosomal protein Chain: A: PDB Molecule:ribosomal protein l7ae; PDBTitle: giardia lamblia 15.5kd rna binding protein
86 | c3moiA_ |
| not modelled | 29.7 | 14 | PDB header:oxidoreductase Chain: A: PDB Molecule:probable dehydrogenase; PDBTitle: the crystal structure of the putative dehydrogenase from bordetella2 bronchiseptica rb50
87 | d2czwa1 |
| not modelled | 29.6 | 24 | Fold:Bacillus chorismate mutase-like Superfamily:L30e-like Family:L30e/L7ae ribosomal proteins
88 | d1gc0a_ |
| not modelled | 29.2 | 24 | Fold:PLP-dependent transferase-like Superfamily:PLP-dependent transferases Family:Cystathionine synthase-like
89 | d1qgna_ |
| not modelled | 29.1 | 21 | Fold:PLP-dependent transferase-like Superfamily:PLP-dependent transferases Family:Cystathionine synthase-like
90 | d1mc8a2 |
| not modelled | 28.9 | 21 | Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain
91 | d2bwna1 |
| not modelled | 28.8 | 14 | Fold:PLP-dependent transferase-like Superfamily:PLP-dependent transferases Family:GABA-aminotransferase-like
92 | c3jpyA_ |
| not modelled | 27.9 | 14 | PDB header:transport protein Chain: A: PDB Molecule:glutamate [nmda] receptor subunit epsilon-2; PDBTitle: crystal structure of the zinc-bound amino terminal domain of the nmda2 receptor subunit nr2b
93 | d1ul1x2 |
| not modelled | 27.7 | 27 | Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain
94 | c3h14A_ |
| not modelled | 27.5 | 19 | PDB header:transferase Chain: A: PDB Molecule:aminotransferase, classes i and ii; PDBTitle: crystal structure of a putative aminotransferase from silicibacter2 pomeroyi
95 | c3ezsB_ |
| not modelled | 27.3 | 8 | PDB header:transferase Chain: B: PDB Molecule:aminotransferase aspb; PDBTitle: crystal structure of aminotransferase aspb (np_207418.1) from2 helicobacter pylori 26695 at 2.19 a resolution
96 | d2ozba1 |
| not modelled | 26.9 | 16 | Fold:Bacillus chorismate mutase-like Superfamily:L30e-like Family:L30e/L7ae ribosomal proteins
97 | c2nvwB_ |
| not modelled | 25.7 | 15 | PDB header:transcription Chain: B: PDB Molecule:galactose/lactose metabolism regulatory protein PDBTitle: crystal sctucture of transcriptional regulator gal80p from2 kluyveromymes lactis
98 | d1p1xa_ |
| not modelled | 25.4 | 13 | Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase
99 | d1fc4a_ |
| not modelled | 25.4 | 11 | Fold:PLP-dependent transferase-like Superfamily:PLP-dependent transferases Family:GABA-aminotransferase-like
100 | d1b43a2 |
| not modelled | 25.2 | 16 | Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain
101 | c1o94D_ |
| not modelled | 24.9 | 14 | PDB header:electron transport Chain: D: PDB Molecule:electron transfer flavoprotein alpha-subunit; PDBTitle: ternary complex between trimethylamine dehydrogenase and2 electron transferring flavoprotein
102 | d2fc3a1 |
| not modelled | 24.8 | 15 | Fold:Bacillus chorismate mutase-like Superfamily:L30e-like Family:L30e/L7ae ribosomal proteins
103 | d1ydwa1 |
| not modelled | 24.1 | 25 | Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
104 | c3h5oB_ |
| not modelled | 24.1 | 14 | PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator gntr; PDBTitle: the crystal structure of transcription regulator gntr from2 chromobacterium violaceum
105 | c3ftqA_ |
| not modelled | 24.0 | 18 | PDB header:cell cycle Chain: A: PDB Molecule:septin-2; PDBTitle: crystal structure of septin 2 in complex with gppnhp and2 mg2+
106 | c2hdyA_ |
| not modelled | 23.7 | 10 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:selenocysteine lyase; PDBTitle: structure of human selenocysteine lyase
107 | c3gyyC_ |
| not modelled | 23.4 | 10 | PDB header:transport protein Chain: C: PDB Molecule:periplasmic substrate binding protein; PDBTitle: the ectoine binding protein of the teaabc trap transporter teaa in the2 apo-state
108 | d1a77a2 |
| not modelled | 23.2 | 16 | Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain
109 | c1yl7F_ |
| not modelled | 23.1 | 25 | PDB header:oxidoreductase Chain: F: PDB Molecule:dihydrodipicolinate reductase; PDBTitle: the crystal structure of mycobacterium tuberculosis2 dihydrodipicolinate reductase (rv2773c) in complex with nadh (crystal3 form c)
110 | c2zkrf_ |
| not modelled | 23.0 | 26 | PDB header:ribosomal protein/rna Chain: F: PDB Molecule:rna expansion segment es7 part iii; PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map
111 | c3nysA_ |
| not modelled | 22.9 | 14 | PDB header:transferase Chain: A: PDB Molecule:aminotransferase wbpe; PDBTitle: x-ray structure of the k185a mutant of wbpe (wlbe) from pseudomonas2 aeruginosa in complex with plp at 1.45 angstrom resolution
112 | c1a77A_ |
| not modelled | 22.1 | 21 | PDB header:5'-3' exo/endo nuclease Chain: A: PDB Molecule:flap endonuclease-1 protein; PDBTitle: flap endonuclease-1 from methanococcus jannaschii
113 | d2alea1 |
| not modelled | 22.1 | 15 | Fold:Bacillus chorismate mutase-like Superfamily:L30e-like Family:L30e/L7ae ribosomal proteins
114 | c3mfqB_ |
| not modelled | 21.9 | 15 | PDB header:metal binding protein Chain: B: PDB Molecule:high-affinity zinc uptake system protein znua; PDBTitle: a glance into the metal binding specificity of troa: where elaborate2 behaviors occur in the active center
115 | c3ceaA_ |
| not modelled | 21.7 | 13 | PDB header:oxidoreductase Chain: A: PDB Molecule:myo-inositol 2-dehydrogenase; PDBTitle: crystal structure of myo-inositol 2-dehydrogenase (np_786804.1) from2 lactobacillus plantarum at 2.40 a resolution
116 | c3g0tA_ |
| not modelled | 21.5 | 19 | PDB header:transferase Chain: A: PDB Molecule:putative aminotransferase; PDBTitle: crystal structure of putative aspartate aminotransferase (np_905498.1)2 from porphyromonas gingivalis w83 at 1.75 a resolution
117 | c3f9tB_ |
| not modelled | 21.0 | 15 | PDB header:lyase Chain: B: PDB Molecule:l-tyrosine decarboxylase mfna; PDBTitle: crystal structure of l-tyrosine decarboxylase mfna (ec 4.1.1.25)2 (np_247014.1) from methanococcus jannaschii at 2.11 a resolution
118 | c1b43A_ |
| not modelled | 20.5 | 18 | PDB header:transferase Chain: A: PDB Molecule:protein (fen-1); PDBTitle: fen-1 from p. furiosus
119 | c3o66A_ |
| not modelled | 20.4 | 14 | PDB header:transport protein Chain: A: PDB Molecule:glycine betaine/carnitine/choline abc transporter; PDBTitle: crystal structure of glycine betaine/carnitine/choline abc transporter
120 | c2p0oA_ |
| not modelled | 20.2 | 16 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein duf871; PDBTitle: crystal structure of a conserved protein from locus ef_2437 in2 enterococcus faecalis with an unknown function

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