Phyre 2 Results for P75966

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Email | l.a.kelley@imperial.ac.uk
Description | P75966
Date | Thu Jan 5 12:16:33 GMT 2012
Unique Job ID | 27e34be6dea04f27

Summary |

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

Model (left) based on template c2omlA_
Top template information
PDB header:isomerase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase e; PDBTitle: crystal structure of e. coli pseudouridine synthase rlue
Confidence and coverage
Confidence: | 100.0% | Coverage: | 83%
181 residues ( 83% 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 | R | Q | F | I | I | S | E | N | T | M | Q | K | T | S | F | R | N | H | Q | V | K | R | F | S | S | Q | R | S | T | R | R | K | P | E | N | Q | P | T | R | V | I | L | F | N | K | P | Y | D | V | L | P | Q | F | T | D | E | A | G | R
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? |  |  |  |  | ? |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | K | T | L | K | E | F | I | P | V | Q | G | V | Y | A | A | G | R | L | D | R | D | S | E | G | L | L | V | L | T | N | N | G | A | L | Q | A | R | L | T | Q | P | G | K | R | T | G | K | I | Y | Y | V | Q | V | E | G | I | P | T | Q | D
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | A | L | E | A | L | R | N | G | V | T | L | N | D | G | P | T | L | P | A | G | A | E | L | V | D | E | P | A | W | L | W | P | R | N | P | P | I | R | E | R | K | S | I | P | T | S | W | L | K | I | T | L | Y | E | G | R | N | R | Q | V
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? |  |  | ? |  | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | .
Sequence |  | R | R | M | T | A | H | V | G | F | P | T | L | R | L | I | R | Y | A | M | G | D | Y | S | L | D | N | L | A | N | G | E | W | R | E | V | T | 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 |
| c2omlA_ |

### PDB 2oml chain A

Region: 36 - 217
Aligned: 181
Modelled: 182
Confidence: 100.0%
Identity: 94%
PDB header:isomerase
Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase e;
PDBTitle: crystal structure of e. coli pseudouridine synthase rlue

Phyre2
2 |
| c2olwB_ |

### PDB 2olw chain B

Region: 38 - 217
Aligned: 179
Modelled: 180
Confidence: 100.0%
Identity: 95%
PDB header:isomerase
Chain: B: PDB Molecule:ribosomal large subunit pseudouridine synthase e;
PDBTitle: crystal structure of e. coli pseudouridine synthase rlue

Phyre2
3 |
| c3dh3C_ |

### PDB 3dh3 chain C

Region: 10 - 217
Aligned: 188
Modelled: 189
Confidence: 100.0%
Identity: 31%
PDB header:isomerase/rna
Chain: C: PDB Molecule:ribosomal large subunit pseudouridine synthase f;
PDBTitle: crystal structure of rluf in complex with a 22 nucleotide2 rna substrate

Phyre2
4 |
| c1vioA_ |

### PDB 1vio chain A

Region: 10 - 217
Aligned: 189
Modelled: 189
Confidence: 100.0%
Identity: 28%
PDB header:lyase
Chain: A: PDB Molecule:ribosomal small subunit pseudouridine synthase a;
PDBTitle: crystal structure of pseudouridylate synthase

Phyre2
5 |
| c1kskA_ |

### PDB 1ksk chain A

Region: 10 - 216
Aligned: 190
Modelled: 190
Confidence: 100.0%
Identity: 32%
PDB header:lyase
Chain: A: PDB Molecule:ribosomal small subunit pseudouridine synthase a;
PDBTitle: structure of rsua

Phyre2
6 |
| c2gmlA_ |

### PDB 2gml chain A

Region: 38 - 217
Aligned: 160
Modelled: 161
Confidence: 100.0%
Identity: 35%
PDB header:isomerase
Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase f;
PDBTitle: crystal structure of catalytic domain of e.coli rluf

Phyre2
7 |
| d1vioa1 |

### PDB 1vio chain A domain 1

Region: 37 - 216
Aligned: 163
Modelled: 163
Confidence: 100.0%
Identity: 29%
Fold: Pseudouridine synthase
Superfamily: Pseudouridine synthase
Family: Pseudouridine synthase RsuA/RluD

Phyre2
8 |
| d1kska4 |

### PDB 1ksk chain A domain 4

Region: 39 - 216
Aligned: 160
Modelled: 161
Confidence: 100.0%
Identity: 36%
Fold: Pseudouridine synthase
Superfamily: Pseudouridine synthase
Family: Pseudouridine synthase RsuA/RluD

Phyre2
9 |
| d1v9ka_ |

### PDB 1v9k chain A

Region: 34 - 198
Aligned: 162
Modelled: 163
Confidence: 100.0%
Identity: 17%
Fold: Pseudouridine synthase
Superfamily: Pseudouridine synthase
Family: Pseudouridine synthase RsuA/RluD

Phyre2
10 |
| c1v9fA_ |

### PDB 1v9f chain A

Region: 33 - 198
Aligned: 160
Modelled: 166
Confidence: 100.0%
Identity: 21%
PDB header:lyase
Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase d;
PDBTitle: crystal structure of catalytic domain of pseudouridine2 synthase rlud from escherichia coli

Phyre2
11 |
| d1v9fa_ |

### PDB 1v9f chain A

Region: 33 - 198
Aligned: 160
Modelled: 166
Confidence: 100.0%
Identity: 21%
Fold: Pseudouridine synthase
Superfamily: Pseudouridine synthase
Family: Pseudouridine synthase RsuA/RluD

Phyre2
12 |
| c1qyuA_ |

### PDB 1qyu chain A

Region: 33 - 201
Aligned: 163
Modelled: 169
Confidence: 100.0%
Identity: 20%
PDB header:lyase
Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase d;
PDBTitle: structure of the catalytic domain of 23s rrna pseudouridine2 synthase rlud

Phyre2
13 |
| c2i82D_ |

### PDB 2i82 chain D

Region: 33 - 198
Aligned: 163
Modelled: 166
Confidence: 100.0%
Identity: 20%
PDB header:lyase/rna
Chain: D: PDB Molecule:ribosomal large subunit pseudouridine synthase a;
PDBTitle: crystal structure of pseudouridine synthase rlua: indirect2 sequence readout through protein-induced rna structure

Phyre2
14 |
| d2apoa2 |

### PDB 2apo chain A domain 2

Region: 41 - 206
Aligned: 146
Modelled: 154
Confidence: 98.8%
Identity: 13%
Fold: Pseudouridine synthase
Superfamily: Pseudouridine synthase
Family: Pseudouridine synthase II TruB

Phyre2
15 |
| d2ey4a2 |

### PDB 2ey4 chain A domain 2

Region: 41 - 206
Aligned: 157
Modelled: 166
Confidence: 98.8%
Identity: 17%
Fold: Pseudouridine synthase
Superfamily: Pseudouridine synthase
Family: Pseudouridine synthase II TruB

Phyre2
16 |
| c2ey4A_ |

### PDB 2ey4 chain A

Region: 41 - 206
Aligned: 158
Modelled: 166
Confidence: 98.7%
Identity: 15%
PDB header:isomerase/biosynthetic protein
Chain: A: PDB Molecule:probable trna pseudouridine synthase b;
PDBTitle: crystal structure of a cbf5-nop10-gar1 complex

Phyre2
17 |
| d1r3ea2 |

### PDB 1r3e chain A domain 2

Region: 41 - 212
Aligned: 164
Modelled: 170
Confidence: 98.6%
Identity: 18%
Fold: Pseudouridine synthase
Superfamily: Pseudouridine synthase
Family: Pseudouridine synthase II TruB

Phyre2
18 |
| c2apoA_ |

### PDB 2apo chain A

Region: 41 - 206
Aligned: 146
Modelled: 154
Confidence: 98.6%
Identity: 14%
PDB header:isomerase/rna binding protein
Chain: A: PDB Molecule:probable trna pseudouridine synthase b;
PDBTitle: crystal structure of the methanococcus jannaschii cbf52 nop10 complex

Phyre2
19 |
| c3uaiA_ |

### PDB 3uai chain A

Region: 16 - 206
Aligned: 180
Modelled: 190
Confidence: 98.5%
Identity: 15%
PDB header:isomerase/chaperone
Chain: A: PDB Molecule:h/aca ribonucleoprotein complex subunit 4;
PDBTitle: structure of the shq1-cbf5-nop10-gar1 complex from saccharomyces2 cerevisiae

Phyre2
20 |
| d1sgva2 |

### PDB 1sgv chain A domain 2

Region: 41 - 206
Aligned: 150
Modelled: 166
Confidence: 98.5%
Identity: 18%
Fold: Pseudouridine synthase
Superfamily: Pseudouridine synthase
Family: Pseudouridine synthase II TruB

Phyre2
21 |
22 |
23 |
24 |
25 |
26 |
27 |
28 |
29 |
30 |
31 |
32 |
33 |
34 |
35 |
36 |
37 |
38 |
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43 |
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45 |
46 |
47 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c2omlA_ |
|  | 100.0 | 94 | PDB header:isomerase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase e; PDBTitle: crystal structure of e. coli pseudouridine synthase rlue
2 | c2olwB_ |
|  | 100.0 | 95 | PDB header:isomerase Chain: B: PDB Molecule:ribosomal large subunit pseudouridine synthase e; PDBTitle: crystal structure of e. coli pseudouridine synthase rlue
3 | c3dh3C_ |
|  | 100.0 | 31 | PDB header:isomerase/rna Chain: C: PDB Molecule:ribosomal large subunit pseudouridine synthase f; PDBTitle: crystal structure of rluf in complex with a 22 nucleotide2 rna substrate
4 | c1vioA_ |
|  | 100.0 | 28 | PDB header:lyase Chain: A: PDB Molecule:ribosomal small subunit pseudouridine synthase a; PDBTitle: crystal structure of pseudouridylate synthase
5 | c1kskA_ |
|  | 100.0 | 32 | PDB header:lyase Chain: A: PDB Molecule:ribosomal small subunit pseudouridine synthase a; PDBTitle: structure of rsua
6 | c2gmlA_ |
|  | 100.0 | 35 | PDB header:isomerase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase f; PDBTitle: crystal structure of catalytic domain of e.coli rluf
7 | d1vioa1 |
|  | 100.0 | 29 | Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase RsuA/RluD
8 | d1kska4 |
|  | 100.0 | 36 | Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase RsuA/RluD
9 | d1v9ka_ |
|  | 100.0 | 17 | Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase RsuA/RluD
10 | c1v9fA_ |
|  | 100.0 | 21 | PDB header:lyase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase d; PDBTitle: crystal structure of catalytic domain of pseudouridine2 synthase rlud from escherichia coli
11 | d1v9fa_ |
|  | 100.0 | 21 | Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase RsuA/RluD
12 | c1qyuA_ |
|  | 100.0 | 20 | PDB header:lyase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase d; PDBTitle: structure of the catalytic domain of 23s rrna pseudouridine2 synthase rlud
13 | c2i82D_ |
|  | 100.0 | 20 | PDB header:lyase/rna Chain: D: PDB Molecule:ribosomal large subunit pseudouridine synthase a; PDBTitle: crystal structure of pseudouridine synthase rlua: indirect2 sequence readout through protein-induced rna structure
14 | d2apoa2 |
|  | 98.8 | 13 | Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase II TruB
15 | d2ey4a2 |
|  | 98.8 | 17 | Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase II TruB
16 | c2ey4A_ |
|  | 98.7 | 15 | PDB header:isomerase/biosynthetic protein Chain: A: PDB Molecule:probable trna pseudouridine synthase b; PDBTitle: crystal structure of a cbf5-nop10-gar1 complex
17 | d1r3ea2 |
|  | 98.6 | 18 | Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase II TruB
18 | c2apoA_ |
|  | 98.6 | 14 | PDB header:isomerase/rna binding protein Chain: A: PDB Molecule:probable trna pseudouridine synthase b; PDBTitle: crystal structure of the methanococcus jannaschii cbf52 nop10 complex
19 | c3uaiA_ |
|  | 98.5 | 15 | PDB header:isomerase/chaperone Chain: A: PDB Molecule:h/aca ribonucleoprotein complex subunit 4; PDBTitle: structure of the shq1-cbf5-nop10-gar1 complex from saccharomyces2 cerevisiae
20 | d1sgva2 |
|  | 98.5 | 18 | Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase II TruB
21 | d1k8wa5 |
| not modelled | 98.5 | 20 | Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase II TruB
22 | c1sgvA_ |
| not modelled | 98.4 | 20 | PDB header:lyase Chain: A: PDB Molecule:trna pseudouridine synthase b; PDBTitle: structure of trna psi55 pseudouridine synthase (trub)
23 | c1k8wA_ |
| not modelled | 98.0 | 21 | PDB header:lyase/rna Chain: A: PDB Molecule:trna pseudouridine synthase b; PDBTitle: crystal structure of the e. coli pseudouridine synthase2 trub bound to a t stem-loop rna
24 | c1ze2B_ |
| not modelled | 95.4 | 18 | PDB header:lyase/rna Chain: B: PDB Molecule:trna pseudouridine synthase b; PDBTitle: conformational change of pseudouridine 55 synthase upon its2 association with rna substrate
25 | c2k6pA_ |
| not modelled | 32.2 | 11 | PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein hp_1423; PDBTitle: solution structure of hypothetical protein, hp1423
26 | c2fo1A_ |
| not modelled | 19.2 | 16 | PDB header:gene regulation/signalling protein/dna Chain: A: PDB Molecule:lin-12 and glp-1 phenotype protein 1, isoform b; PDBTitle: crystal structure of the csl-notch-mastermind ternary2 complex bound to dna
27 | d2ysca1 |
| not modelled | 13.8 | 45 | Fold:WW domain-like Superfamily:WW domain Family:WW domain
28 | d1nkga1 |
| not modelled | 12.4 | 14 | Fold:Prealbumin-like Superfamily:Starch-binding domain-like Family:Rhamnogalacturonase B, RhgB, middle domain
29 | c3cjsA_ |
| not modelled | 12.0 | 50 | PDB header:transferase/ribosomal protein Chain: A: PDB Molecule:ribosomal protein l11 methyltransferase; PDBTitle: minimal recognition complex between prma and ribosomal protein l11
30 | d2ho2a1 |
| not modelled | 11.7 | 42 | Fold:WW domain-like Superfamily:WW domain Family:WW domain
31 | c2jmzA_ |
| not modelled | 11.6 | 14 | PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein mj0781; PDBTitle: solution structure of a klba intein precursor from2 methanococcus jannaschii
32 | c1f5nA_ |
| not modelled | 11.4 | 13 | PDB header:signaling protein Chain: A: PDB Molecule:interferon-induced guanylate-binding protein 1; PDBTitle: human guanylate binding protein-1 in complex with the gtp2 analogue, gmppnp.
33 | c3h7hA_ |
| not modelled | 11.2 | 16 | PDB header:transcription Chain: A: PDB Molecule:transcription elongation factor spt4; PDBTitle: crystal structure of the human transcription elongation factor dsif,2 hspt4/hspt5 (176-273)
34 | d1zhva1 |
| not modelled | 9.4 | 31 | Fold:Ferredoxin-like Superfamily:ACT-like Family:Atu0741-like
35 | c1mzwB_ |
| not modelled | 8.3 | 23 | PDB header:isomerase Chain: B: PDB Molecule:u4/u6 snrnp 60kda protein; PDBTitle: crystal structure of a u4/u6 snrnp complex between human2 spliceosomal cyclophilin h and a u4/u6-60k peptide
36 | d2hq4a1 |
| not modelled | 7.9 | 33 | Fold:PH1570-like Superfamily:PH1570-like Family:PH1570-like
37 | c2voiB_ |
| not modelled | 7.8 | 27 | PDB header:apoptosis Chain: B: PDB Molecule:bh3-interacting domain death agonist p13; PDBTitle: structure of mouse a1 bound to the bid bh3-domain
38 | c2imzA_ |
| not modelled | 6.6 | 14 | PDB header:hydrolase Chain: A: PDB Molecule:endonuclease pi-mtui; PDBTitle: crystal structure of mtu reca intein splicing domain
39 | d1t6la1 |
| not modelled | 6.4 | 19 | Fold:DNA clamp Superfamily:DNA clamp Family:DNA polymerase processivity factor
40 | c2exuA_ |
| not modelled | 6.2 | 16 | PDB header:transcription Chain: A: PDB Molecule:transcription initiation protein spt4/spt5; PDBTitle: crystal structure of saccharomyces cerevisiae transcription elongation2 factors spt4-spt5ngn domain
41 | c1tlqA_ |
| not modelled | 6.1 | 13 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ypjq; PDBTitle: crystal structure of protein ypjq from bacillus subtilis, pfam duf64
42 | d1tlqa_ |
| not modelled | 6.1 | 13 | Fold:YutG-like Superfamily:YutG-like Family:YutG-like
43 | d1k4ta3 |
| not modelled | 5.4 | 13 | Fold:Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment Superfamily:Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment Family:Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
44 | d1y9ia_ |
| not modelled | 5.3 | 13 | Fold:YutG-like Superfamily:YutG-like Family:YutG-like
45 | c3bbnD_ |
| not modelled | 5.3 | 13 | PDB header:ribosome Chain: D: PDB Molecule:ribosomal protein s4; PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome.
46 | c1vs3B_ |
| not modelled | 5.2 | 40 | PDB header:isomerase Chain: B: PDB Molecule:trna pseudouridine synthase a; PDBTitle: crystal structure of the trna pseudouridine synthase trua from thermus2 thermophilus hb8
47 | c2x5pA_ |
| not modelled | 5.2 | 18 | PDB header:protein binding Chain: A: PDB Molecule:fibronectin binding protein; PDBTitle: crystal structure of the streptococcus pyogenes fibronectin binding2 protein fbab-b

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