Phyre 2 Results for P0A6M4

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Email | l.a.kelley@imperial.ac.uk
Description | P0A6M4
Date | Thu Jan 5 11:03:33 GMT 2012
Unique Job ID | 4094e3cf6bd409f9

Summary |

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

Model (left) based on template d1jkea_
Top template information
Fold:DTD-like Superfamily:DTD-like Family:DTD-like
Confidence and coverage
Confidence: | 100.0% | Coverage: | 100%
145 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 | I | A | L | I | Q | R | V | T | R | A | S | V | T | V | E | G | E | V | T | G | E | I | G | A | G | L | L | V | L | L | G | V | E | K | D | D | D | E | Q | K | A | N | R | L | C | E | R | V | L | G | Y | R | I | F | S | D | A | E | G
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | K | M | N | L | N | V | Q | Q | A | G | G | S | V | L | V | V | S | Q | F | T | L | A | A | D | T | E | R | G | M | R | P | S | F | S | K | G | A | S | P | D | R | A | E | A | L | Y | D | Y | F | V | E | R | C | R | Q | Q | E | M | N | T
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  | ? |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | .
Sequence |  | Q | T | G | R | F | A | A | D | M | Q | V | S | L | V | N | D | G | P | V | T | F | W | L | Q | V
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 |
| d1jkea_ |

### PDB 1jke chain A

Region: 1 - 145
Aligned: 145
Modelled: 145
Confidence: 100.0%
Identity: 100%
Fold: DTD-like
Superfamily: DTD-like
Family: DTD-like

Phyre2
2 |
| d1j7ga_ |

### PDB 1j7g chain A

Region: 1 - 145
Aligned: 144
Modelled: 145
Confidence: 100.0%
Identity: 68%
Fold: DTD-like
Superfamily: DTD-like
Family: DTD-like

Phyre2
3 |
| c2dboA_ |

### PDB 2dbo chain A

Region: 1 - 144
Aligned: 144
Modelled: 144
Confidence: 100.0%
Identity: 44%
PDB header:hydrolase
Chain: A: PDB Molecule:d-tyrosyl-trna(tyr) deacylase;
PDBTitle: crystal structure of d-tyr-trna(tyr) deacylase from aquifex aeolicus

Phyre2
4 |
| c3ko7E_ |

### PDB 3ko7 chain E

Region: 1 - 144
Aligned: 144
Modelled: 144
Confidence: 100.0%
Identity: 31%
PDB header:hydrolase
Chain: E: PDB Molecule:d-tyrosyl-trna(tyr) deacylase;
PDBTitle: dtd from plasmodium falciparum in complex with d-lysine

Phyre2
5 |
| c2okvC_ |

### PDB 2okv chain C

Region: 1 - 144
Aligned: 143
Modelled: 144
Confidence: 100.0%
Identity: 41%
PDB header:hydrolase
Chain: C: PDB Molecule:probable d-tyrosyl-trna(tyr) deacylase 1;
PDBTitle: c-myc dna unwinding element binding protein

Phyre2
6 |
| d1tc5a_ |

### PDB 1tc5 chain A

Region: 1 - 145
Aligned: 144
Modelled: 145
Confidence: 100.0%
Identity: 19%
Fold: DTD-like
Superfamily: DTD-like
Family: DTD-like

Phyre2
7 |
| d2k8ea1 |

### PDB 2k8e chain A domain 1

Region: 54 - 78
Aligned: 25
Modelled: 25
Confidence: 68.6%
Identity: 8%
Fold: YegP-like
Superfamily: YegP-like
Family: YegP-like

Phyre2
8 |
| d2k49a2 |

### PDB 2k49 chain A domain 2

Region: 54 - 78
Aligned: 25
Modelled: 25
Confidence: 67.1%
Identity: 12%
Fold: YegP-like
Superfamily: YegP-like
Family: YegP-like

Phyre2
9 |
| d3bida1 |

### PDB 3bid chain A domain 1

Region: 54 - 78
Aligned: 25
Modelled: 25
Confidence: 66.5%
Identity: 20%
Fold: YegP-like
Superfamily: YegP-like
Family: YegP-like

Phyre2
10 |
| d2k7ia1 |

### PDB 2k7i chain A domain 1

Region: 54 - 78
Aligned: 25
Modelled: 25
Confidence: 61.3%
Identity: 20%
Fold: YegP-like
Superfamily: YegP-like
Family: YegP-like

Phyre2
11 |
| c2k7iB_ |

### PDB 2k7i chain B

Region: 54 - 78
Aligned: 25
Modelled: 25
Confidence: 61.3%
Identity: 20%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:upf0339 protein atu0232;
PDBTitle: solution nmr structure of protein atu0232 from agrobacterium2 tumefaciens. northeast structural genomics consortium (nesg) target3 att3. ontario center for structural proteomics target atc0223.

Phyre2
12 |
| c2k49A_ |

### PDB 2k49 chain A

Region: 54 - 78
Aligned: 25
Modelled: 25
Confidence: 55.9%
Identity: 12%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:upf0339 protein so_3888;
PDBTitle: solution nmr structure of upf0339 protein so3888 from shewanella2 oneidensis. northeast structural genomics consortium target sor190

Phyre2
13 |
| c2k8eA_ |

### PDB 2k8e chain A

Region: 54 - 78
Aligned: 25
Modelled: 25
Confidence: 52.1%
Identity: 8%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:upf0339 protein yegp;
PDBTitle: solution nmr structure of protein of unknown function yegp from e.2 coli. ontario center for structural proteomics target ec0640_1_1233 northeast structural genomics consortium target et102.

Phyre2
14 |
| d1s7ia_ |

### PDB 1s7i chain A

Region: 90 - 140
Aligned: 51
Modelled: 51
Confidence: 45.8%
Identity: 8%
Fold: Ferredoxin-like
Superfamily: Dimeric alpha+beta barrel
Family: DGPF domain (Pfam 04946)

Phyre2
15 |
| c2z8nB_ |

### PDB 2z8n chain B

Region: 78 - 141
Aligned: 57
Modelled: 64
Confidence: 45.0%
Identity: 19%
PDB header:lyase
Chain: B: PDB Molecule:27.5 kda virulence protein;
PDBTitle: structural basis for the catalytic mechanism of phosphothreonine lyase

Phyre2
16 |
| d1llna_ |

### PDB 1lln chain A

Region: 106 - 145
Aligned: 40
Modelled: 40
Confidence: 35.7%
Identity: 23%
Fold: Ribosome inactivating proteins (RIP)
Superfamily: Ribosome inactivating proteins (RIP)
Family: Plant cytotoxins

Phyre2
17 |
| c3i0uA_ |

### PDB 3i0u chain A

Region: 78 - 141
Aligned: 57
Modelled: 64
Confidence: 26.4%
Identity: 16%
PDB header:lyase
Chain: A: PDB Molecule:phosphothreonine lyase ospf;
PDBTitle: structure of the type iii effector/phosphothreonine lyase ospf from2 shigella flexneri

Phyre2
18 |
| c1k6mA_ |

### PDB 1k6m chain A

Region: 87 - 137
Aligned: 50
Modelled: 51
Confidence: 23.3%
Identity: 6%
PDB header:transferase, hydrolase
Chain: A: PDB Molecule:6-phosphofructo-2-kinase/fructose-2,6-
PDBTitle: crystal structure of human liver 6-phosphofructo-2-2 kinase/fructose-2,6-bisphosphatase

Phyre2
19 |
| c2dclB_ |

### PDB 2dcl chain B

Region: 50 - 126
Aligned: 39
Modelled: 39
Confidence: 23.2%
Identity: 28%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:hypothetical upf0166 protein ph1503;
PDBTitle: structure of ph1503 protein from pyrococcus horikoshii ot3

Phyre2
20 |
| d2k8ea2 |

### PDB 2k8e chain A domain 2

Region: 56 - 78
Aligned: 23
Modelled: 23
Confidence: 21.8%
Identity: 26%
Fold: YegP-like
Superfamily: YegP-like
Family: YegP-like

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1jkea_ |
|  | 100.0 | 100 | Fold:DTD-like Superfamily:DTD-like Family:DTD-like
2 | d1j7ga_ |
|  | 100.0 | 68 | Fold:DTD-like Superfamily:DTD-like Family:DTD-like
3 | c2dboA_ |
|  | 100.0 | 44 | PDB header:hydrolase Chain: A: PDB Molecule:d-tyrosyl-trna(tyr) deacylase; PDBTitle: crystal structure of d-tyr-trna(tyr) deacylase from aquifex aeolicus
4 | c3ko7E_ |
|  | 100.0 | 31 | PDB header:hydrolase Chain: E: PDB Molecule:d-tyrosyl-trna(tyr) deacylase; PDBTitle: dtd from plasmodium falciparum in complex with d-lysine
5 | c2okvC_ |
|  | 100.0 | 41 | PDB header:hydrolase Chain: C: PDB Molecule:probable d-tyrosyl-trna(tyr) deacylase 1; PDBTitle: c-myc dna unwinding element binding protein
6 | d1tc5a_ |
|  | 100.0 | 19 | Fold:DTD-like Superfamily:DTD-like Family:DTD-like
7 | d2k8ea1 |
|  | 68.6 | 8 | Fold:YegP-like Superfamily:YegP-like Family:YegP-like
8 | d2k49a2 |
|  | 67.1 | 12 | Fold:YegP-like Superfamily:YegP-like Family:YegP-like
9 | d3bida1 |
|  | 66.5 | 20 | Fold:YegP-like Superfamily:YegP-like Family:YegP-like
10 | d2k7ia1 |
|  | 61.3 | 20 | Fold:YegP-like Superfamily:YegP-like Family:YegP-like
11 | c2k7iB_ |
|  | 61.3 | 20 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:upf0339 protein atu0232; PDBTitle: solution nmr structure of protein atu0232 from agrobacterium2 tumefaciens. northeast structural genomics consortium (nesg) target3 att3. ontario center for structural proteomics target atc0223.
12 | c2k49A_ |
|  | 55.9 | 12 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0339 protein so_3888; PDBTitle: solution nmr structure of upf0339 protein so3888 from shewanella2 oneidensis. northeast structural genomics consortium target sor190
13 | c2k8eA_ |
|  | 52.1 | 8 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0339 protein yegp; PDBTitle: solution nmr structure of protein of unknown function yegp from e.2 coli. ontario center for structural proteomics target ec0640_1_1233 northeast structural genomics consortium target et102.
14 | d1s7ia_ |
|  | 45.8 | 8 | Fold:Ferredoxin-like Superfamily:Dimeric alpha+beta barrel Family:DGPF domain (Pfam 04946)
15 | c2z8nB_ |
|  | 45.0 | 19 | PDB header:lyase Chain: B: PDB Molecule:27.5 kda virulence protein; PDBTitle: structural basis for the catalytic mechanism of phosphothreonine lyase
16 | d1llna_ |
|  | 35.7 | 23 | Fold:Ribosome inactivating proteins (RIP) Superfamily:Ribosome inactivating proteins (RIP) Family:Plant cytotoxins
17 | c3i0uA_ |
|  | 26.4 | 16 | PDB header:lyase Chain: A: PDB Molecule:phosphothreonine lyase ospf; PDBTitle: structure of the type iii effector/phosphothreonine lyase ospf from2 shigella flexneri
18 | c1k6mA_ |
|  | 23.3 | 6 | PDB header:transferase, hydrolase Chain: A: PDB Molecule:6-phosphofructo-2-kinase/fructose-2,6- PDBTitle: crystal structure of human liver 6-phosphofructo-2-2 kinase/fructose-2,6-bisphosphatase
19 | c2dclB_ |
|  | 23.2 | 28 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical upf0166 protein ph1503; PDBTitle: structure of ph1503 protein from pyrococcus horikoshii ot3
20 | d2k8ea2 |
|  | 21.8 | 26 | Fold:YegP-like Superfamily:YegP-like Family:YegP-like
21 | c2dgaA_ |
| not modelled | 19.9 | 31 | PDB header:hydrolase Chain: A: PDB Molecule:beta-glucosidase; PDBTitle: crystal structure of hexameric beta-glucosidase in wheat
22 | d1onka_ |
| not modelled | 19.6 | 16 | Fold:Ribosome inactivating proteins (RIP) Superfamily:Ribosome inactivating proteins (RIP) Family:Plant cytotoxins
23 | c3gnoA_ |
| not modelled | 19.5 | 25 | PDB header:hydrolase Chain: A: PDB Molecule:os03g0212800 protein; PDBTitle: crystal structure of a rice os3bglu6 beta-glucosidase
24 | d2giab1 |
| not modelled | 16.3 | 22 | Fold:ssDNA-binding transcriptional regulator domain Superfamily:ssDNA-binding transcriptional regulator domain Family:Guide RNA binding protein gBP
25 | c2giaB_ |
| not modelled | 16.3 | 22 | PDB header:translation Chain: B: PDB Molecule:mitochondrial rna-binding protein 1; PDBTitle: crystal structures of trypanosoma bruciei mrp1/mrp2
26 | c1bifA_ |
| not modelled | 15.7 | 10 | PDB header:bifunctional enzyme Chain: A: PDB Molecule:6-phosphofructo-2-kinase/ fructose-2,6-bisphosphatase; PDBTitle: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase bifunctional2 enzyme complexed with atp-g-s and phosphate
27 | d2d6fc3 |
| not modelled | 15.6 | 19 | Fold:Glutamine synthetase/guanido kinase Superfamily:Glutamine synthetase/guanido kinase Family:GatB/GatE catalytic domain-like
28 | c3tekA_ |
| not modelled | 14.6 | 31 | PDB header:dna binding protein Chain: A: PDB Molecule:thermodbp-single stranded dna binding protein; PDBTitle: thermodbp: a non-canonical single-stranded dna binding protein with a2 novel structure and mechanism
29 | d1a9xb2 |
| not modelled | 13.4 | 42 | Fold:Flavodoxin-like Superfamily:Class I glutamine amidotransferase-like Family:Class I glutamine amidotransferases (GAT)
30 | c2d6fC_ |
| not modelled | 13.3 | 19 | PDB header:ligase/rna Chain: C: PDB Molecule:glutamyl-trna(gln) amidotransferase subunit e; PDBTitle: crystal structure of glu-trna(gln) amidotransferase in the2 complex with trna(gln)
31 | d1ofua2 |
| not modelled | 11.6 | 17 | Fold:Bacillus chorismate mutase-like Superfamily:Tubulin C-terminal domain-like Family:Tubulin, C-terminal domain
32 | c2xtsD_ |
| not modelled | 10.3 | 23 | PDB header:oxidoreductase/electron transport Chain: D: PDB Molecule:cytochrome; PDBTitle: crystal structure of the sulfane dehydrogenase soxcd from paracoccus2 pantotrophus
33 | d2k49a1 |
| not modelled | 10.1 | 25 | Fold:YegP-like Superfamily:YegP-like Family:YegP-like
34 | d1ii2a2 |
| not modelled | 10.0 | 11 | Fold:PEP carboxykinase N-terminal domain Superfamily:PEP carboxykinase N-terminal domain Family:PEP carboxykinase N-terminal domain
35 | d1s9ra_ |
| not modelled | 9.9 | 21 | Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Arginine deiminase
36 | c2an7A_ |
| not modelled | 9.9 | 21 | PDB header:dna binding protein Chain: A: PDB Molecule:protein pard; PDBTitle: solution structure of the bacterial antidote pard
37 | d1s1ma1 |
| not modelled | 9.7 | 21 | Fold:Flavodoxin-like Superfamily:Class I glutamine amidotransferase-like Family:Class I glutamine amidotransferases (GAT)
38 | d1nlqa_ |
| not modelled | 9.7 | 23 | Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily:Nucleoplasmin-like core domain Family:Nucleoplasmin-like core domain
39 | d1j3ba2 |
| not modelled | 9.5 | 28 | Fold:PEP carboxykinase N-terminal domain Superfamily:PEP carboxykinase N-terminal domain Family:PEP carboxykinase N-terminal domain
40 | d1rq2a2 |
| not modelled | 9.3 | 15 | Fold:Bacillus chorismate mutase-like Superfamily:Tubulin C-terminal domain-like Family:Tubulin, C-terminal domain
41 | d2ftsa1 |
| not modelled | 9.0 | 21 | Fold:beta-clip Superfamily:MoeA C-terminal domain-like Family:MoeA C-terminal domain-like
42 | c2hl2A_ |
| not modelled | 8.9 | 20 | PDB header:ligase Chain: A: PDB Molecule:threonyl-trna synthetase; PDBTitle: crystal structure of the editing domain of threonyl-trna2 synthetase from pyrococcus abyssi in complex with an3 analog of seryladenylate
43 | d1nm3a2 |
| not modelled | 8.4 | 16 | Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Glutathione peroxidase-like
44 | d2j44a2 |
| not modelled | 8.4 | 13 | Fold:Prealbumin-like Superfamily:Starch-binding domain-like Family:PUD-like
45 | d1xrua1 |
| not modelled | 8.2 | 26 | Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:KduI-like
46 | c3h0mE_ |
| not modelled | 8.1 | 20 | PDB header:ligase Chain: E: PDB Molecule:aspartyl/glutamyl-trna(asn/gln) amidotransferase PDBTitle: structure of trna-dependent amidotransferase gatcab from2 aquifex aeolicus
47 | c3h16A_ |
| not modelled | 8.1 | 14 | PDB header:signaling protein Chain: A: PDB Molecule:tir protein; PDBTitle: crystal structure of a bacteria tir domain, pdtir from2 paracoccus denitrificans
48 | c3k6sB_ |
| not modelled | 7.7 | 26 | PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-2; PDBTitle: structure of integrin alphaxbeta2 ectodomain
49 | d1k8wa5 |
| not modelled | 7.7 | 16 | Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase II TruB
50 | d2ob5a1 |
| not modelled | 7.7 | 21 | Fold:RbsD-like Superfamily:RbsD-like Family:RbsD-like
51 | d1o51a_ |
| not modelled | 7.7 | 15 | Fold:Ferredoxin-like Superfamily:GlnB-like Family:DUF190/COG1993
52 | c3r84O_ |
| not modelled | 7.5 | 19 | PDB header:transcription Chain: O: PDB Molecule:mediator of rna polymerase ii transcription subunit 11; PDBTitle: structure of the mediator head subcomplex med11/22
53 | c2g5xA_ |
| not modelled | 7.5 | 23 | PDB header:hydrolase Chain: A: PDB Molecule:ribosome-inactivating protein; PDBTitle: crystal structure of lychnin a type 1 ribosome inactivating2 protein (rip)
54 | d1cb0a_ |
| not modelled | 7.3 | 18 | Fold:Phosphorylase/hydrolase-like Superfamily:Purine and uridine phosphorylases Family:Purine and uridine phosphorylases
55 | d2f2ab2 |
| not modelled | 7.3 | 22 | Fold:Glutamine synthetase/guanido kinase Superfamily:Glutamine synthetase/guanido kinase Family:GatB/GatE catalytic domain-like
56 | d1tf5a1 |
| not modelled | 7.3 | 38 | Fold:Pre-protein crosslinking domain of SecA Superfamily:Pre-protein crosslinking domain of SecA Family:Pre-protein crosslinking domain of SecA
57 | d1a79a1 |
| not modelled | 7.3 | 21 | Fold:Restriction endonuclease-like Superfamily:tRNA-intron endonuclease catalytic domain-like Family:tRNA-intron endonuclease catalytic domain-like
58 | c1keeH_ |
| not modelled | 7.2 | 42 | PDB header:ligase Chain: H: PDB Molecule:carbamoyl-phosphate synthetase small chain; PDBTitle: inactivation of the amidotransferase activity of carbamoyl phosphate2 synthetase by the antibiotic acivicin
59 | d1ogda_ |
| not modelled | 7.2 | 17 | Fold:RbsD-like Superfamily:RbsD-like Family:RbsD-like
60 | c2v4uA_ |
| not modelled | 7.1 | 21 | PDB header:ligase Chain: A: PDB Molecule:ctp synthase 2; PDBTitle: human ctp synthetase 2 - glutaminase domain in complex with2 5-oxo-l-norleucine
61 | c3epyA_ |
| not modelled | 7.0 | 22 | PDB header:lipid binding protein Chain: A: PDB Molecule:acyl-coa-binding domain-containing protein 7; PDBTitle: crystal structure of human acyl-coa binding domain 72 complexed with palmitoyl-coa
62 | d1wv8a1 |
| not modelled | 7.0 | 11 | Fold:TTHA1013/TTHA0281-like Superfamily:TTHA1013/TTHA0281-like Family:TTHA1013-like
63 | c2dzlA_ |
| not modelled | 6.7 | 38 | PDB header:structural genomics unknown function Chain: A: PDB Molecule:protein fam100b; PDBTitle: solution structure of the uba domain in human protein2 fam100b
64 | c2copA_ |
| not modelled | 6.7 | 26 | PDB header:lipid binding protein Chain: A: PDB Molecule:acyl-coenzyme a binding domain containing 6; PDBTitle: solution structure of rsgi ruh-040, an acbp domain from2 human cdna
65 | d1ce7a_ |
| not modelled | 6.5 | 25 | Fold:Ribosome inactivating proteins (RIP) Superfamily:Ribosome inactivating proteins (RIP) Family:Plant cytotoxins
66 | c2pebB_ |
| not modelled | 6.4 | 30 | PDB header:oxidoreductase Chain: B: PDB Molecule:putative dioxygenase; PDBTitle: crystal structure of a putative dioxygenase (npun_f1925) from nostoc2 punctiforme pcc 73102 at 1.46 a resolution
67 | c3mk9A_ |
| not modelled | 6.4 | 25 | PDB header:hydrolase Chain: A: PDB Molecule:ricin; PDBTitle: stabilized ricin immunogen 1-33/44-198
68 | c3mvkA_ |
| not modelled | 6.4 | 18 | PDB header:isomerase Chain: A: PDB Molecule:protein fucu; PDBTitle: the crystal structure of fucu from bifidobacterium longum to 1.65a
69 | c1a79B_ |
| not modelled | 6.3 | 21 | PDB header:endonuclease Chain: B: PDB Molecule:trna endonuclease; PDBTitle: crystal structure of the trna splicing endonuclease from2 methanococcus jannaschii
70 | d2olra2 |
| not modelled | 6.1 | 14 | Fold:PEP carboxykinase N-terminal domain Superfamily:PEP carboxykinase N-terminal domain Family:PEP carboxykinase N-terminal domain
71 | d1gtfa_ |
| not modelled | 6.1 | 32 | Fold:Double-stranded beta-helix Superfamily:TRAP-like Family:Trp RNA-binding attenuation protein (TRAP)
72 | d1kska3 |
| not modelled | 6.1 | 56 | Fold:Alpha-L RNA-binding motif Superfamily:Alpha-L RNA-binding motif Family:Pseudouridine synthase RsuA N-terminal domain
73 | d1i96v_ |
| not modelled | 6.1 | 23 | Fold:IF3-like Superfamily:Translation initiation factor IF3, C-terminal domain Family:Translation initiation factor IF3, C-terminal domain
74 | c3icgD_ |
| not modelled | 6.0 | 8 | PDB header:hydrolase Chain: D: PDB Molecule:endoglucanase d; PDBTitle: crystal structure of the catalytic and carbohydrate binding domain of2 endoglucanase d from clostridium cellulovorans
75 | c2i1vB_ |
| not modelled | 5.7 | 10 | PDB header:transferase, hydrolase Chain: B: PDB Molecule:6-phosphofructo-2-kinase/fructose-2,6- PDBTitle: crystal structure of pfkfb3 in complex with adp and2 fructose-2,6-bisphosphate
76 | d1rxxa_ |
| not modelled | 5.7 | 18 | Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Arginine deiminase
77 | c2z5sN_ |
| not modelled | 5.6 | 11 | PDB header:cell cycle Chain: N: PDB Molecule:mdm4 protein; PDBTitle: molecular basis for the inhibition of p53 by mdmx
78 | c2g5iB_ |
| not modelled | 5.6 | 22 | PDB header:ligase Chain: B: PDB Molecule:aspartyl/glutamyl-trna(asn/gln) amidotransferase PDBTitle: structure of trna-dependent amidotransferase gatcab2 complexed with adp-alf4
79 | d1t4aa_ |
| not modelled | 5.4 | 21 | Fold:PurS-like Superfamily:PurS-like Family:PurS subunit of FGAM synthetase
80 | c3al0B_ |
| not modelled | 5.3 | 22 | PDB header:ligase/rna Chain: B: PDB Molecule:aspartyl/glutamyl-trna(asn/gln) amidotransferase subunit b; PDBTitle: crystal structure of the glutamine transamidosome from thermotoga2 maritima in the glutamylation state.
81 | c2yx5A_ |
| not modelled | 5.2 | 10 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0062 protein mj1593; PDBTitle: crystal structure of methanocaldococcus jannaschii purs, one of the2 subunits of formylglycinamide ribonucleotide amidotransferase in the3 purine biosynthetic pathway
82 | d1p8ja1 |
| not modelled | 5.2 | 18 | Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:Proprotein convertase P-domain
83 | d2q3na1 |
| not modelled | 5.2 | 13 | Fold:Ribosome inactivating proteins (RIP) Superfamily:Ribosome inactivating proteins (RIP) Family:Plant cytotoxins

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