Phyre 2 Results for P68066

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Email | l.a.kelley@imperial.ac.uk
Description | P68066
Date | Thu Jan 5 12:10:55 GMT 2012
Unique Job ID | 01b4daeb11285427

Summary |

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

Model (left) based on template d1h16a_
Top template information
Fold:PFL-like glycyl radical enzymes Superfamily:PFL-like glycyl radical enzymes Family:PFL-like
Confidence and coverage
Confidence: | 100.0% | Coverage: | 48%
61 residues ( 48% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
91 residues ( 72%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis |

Secondary structure and disorder prediction |

|  | 1 | . | . | . | . | . | . | . | . | 10 | . | . | . | . | . | . | . | . | . | 20 | . | . | . | . | . | . | . | . | . | 30 | . | . | . | . | . | . | . | . | . | 40 | . | . | . | . | . | . | . | . | . | 50 | . | . | . | . | . | . | . | . | . | 60
Sequence |  | M | I | T | G | I | Q | I | T | K | A | A | N | D | D | L | L | N | S | F | W | L | L | D | S | E | K | G | E | A | R | C | I | V | A | K | A | G | Y | A | E | D | E | V | V | A | V | S | K | L | G | D | I | E | Y | R | E | V | P | V | E
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? |  | ? |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | V | K | P | E | V | R | V | E | G | G | Q | H | L | N | V | N | V | L | R | R | E | T | L | E | D | A | V | K | H | P | E | K | Y | P | Q | L | T | I | R | V | S | G | Y | A | V | R | F | N | S | L | T | P | E | Q | Q | R | D | V | I | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | .
Sequence |  | R | T | F | T | E | S | L
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 |
| d1h16a_ |

### PDB 1h16 chain A

Region: 67 - 127
Aligned: 61
Modelled: 61
Confidence: 100.0%
Identity: 79%
Fold: PFL-like glycyl radical enzymes
Superfamily: PFL-like glycyl radical enzymes
Family: PFL-like

Phyre2
2 |
| c2y8nC_ |

### PDB 2y8n chain C

Region: 47 - 125
Aligned: 79
Modelled: 79
Confidence: 100.0%
Identity: 29%
PDB header:lyase
Chain: C: PDB Molecule:4-hydroxyphenylacetate decarboxylase large subunit;
PDBTitle: crystal structure of glycyl radical enzyme

Phyre2
3 |
| d1r9da_ |

### PDB 1r9d chain A

Region: 37 - 125
Aligned: 89
Modelled: 89
Confidence: 100.0%
Identity: 31%
Fold: PFL-like glycyl radical enzymes
Superfamily: PFL-like glycyl radical enzymes
Family: PFL-like

Phyre2
4 |
| c2f3oB_ |

### PDB 2f3o chain B

Region: 37 - 125
Aligned: 88
Modelled: 89
Confidence: 100.0%
Identity: 27%
PDB header:unknown function
Chain: B: PDB Molecule:pyruvate formate-lyase 2;
PDBTitle: crystal structure of a glycyl radical enzyme from archaeoglobus2 fulgidus

Phyre2
5 |
| d1aisa1 |

### PDB 1ais chain A domain 1

Region: 89 - 99
Aligned: 11
Modelled: 11
Confidence: 26.3%
Identity: 27%
Fold: TBP-like
Superfamily: TATA-box binding protein-like
Family: TATA-box binding protein (TBP), C-terminal domain

Phyre2
6 |
| d1nh2a1 |

### PDB 1nh2 chain A domain 1

Region: 89 - 101
Aligned: 13
Modelled: 13
Confidence: 25.1%
Identity: 15%
Fold: TBP-like
Superfamily: TATA-box binding protein-like
Family: TATA-box binding protein (TBP), C-terminal domain

Phyre2
7 |
| d1qnaa1 |

### PDB 1qna chain A domain 1

Region: 89 - 100
Aligned: 12
Modelled: 12
Confidence: 25.0%
Identity: 17%
Fold: TBP-like
Superfamily: TATA-box binding protein-like
Family: TATA-box binding protein (TBP), C-terminal domain

Phyre2
8 |
| d1nh2a2 |

### PDB 1nh2 chain A domain 2

Region: 89 - 100
Aligned: 12
Modelled: 12
Confidence: 24.8%
Identity: 42%
Fold: TBP-like
Superfamily: TATA-box binding protein-like
Family: TATA-box binding protein (TBP), C-terminal domain

Phyre2
9 |
| d1mp9a1 |

### PDB 1mp9 chain A domain 1

Region: 89 - 100
Aligned: 12
Modelled: 12
Confidence: 23.8%
Identity: 33%
Fold: TBP-like
Superfamily: TATA-box binding protein-like
Family: TATA-box binding protein (TBP), C-terminal domain

Phyre2
10 |
| d1aisa2 |

### PDB 1ais chain A domain 2

Region: 89 - 100
Aligned: 12
Modelled: 12
Confidence: 23.5%
Identity: 42%
Fold: TBP-like
Superfamily: TATA-box binding protein-like
Family: TATA-box binding protein (TBP), C-terminal domain

Phyre2
11 |
| d1qnaa2 |

### PDB 1qna chain A domain 2

Region: 89 - 100
Aligned: 12
Modelled: 12
Confidence: 22.9%
Identity: 42%
Fold: TBP-like
Superfamily: TATA-box binding protein-like
Family: TATA-box binding protein (TBP), C-terminal domain

Phyre2
12 |
| d1cdwa2 |

### PDB 1cdw chain A domain 2

Region: 89 - 100
Aligned: 12
Modelled: 12
Confidence: 22.3%
Identity: 42%
Fold: TBP-like
Superfamily: TATA-box binding protein-like
Family: TATA-box binding protein (TBP), C-terminal domain

Phyre2
13 |
| d1mp9a2 |

### PDB 1mp9 chain A domain 2

Region: 89 - 100
Aligned: 12
Modelled: 12
Confidence: 21.5%
Identity: 42%
Fold: TBP-like
Superfamily: TATA-box binding protein-like
Family: TATA-box binding protein (TBP), C-terminal domain

Phyre2
14 |
| d1cdwa1 |

### PDB 1cdw chain A domain 1

Region: 89 - 107
Aligned: 19
Modelled: 19
Confidence: 19.4%
Identity: 11%
Fold: TBP-like
Superfamily: TATA-box binding protein-like
Family: TATA-box binding protein (TBP), C-terminal domain

Phyre2
15 |
| d1pg5b2 |

### PDB 1pg5 chain B domain 2

Region: 11 - 46
Aligned: 36
Modelled: 36
Confidence: 18.9%
Identity: 17%
Fold: Rubredoxin-like
Superfamily: Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain
Family: Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain

Phyre2
16 |
| c1wd6B_ |

### PDB 1wd6 chain B

Region: 15 - 34
Aligned: 20
Modelled: 20
Confidence: 18.8%
Identity: 25%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:protein ydhr;
PDBTitle: crystal structure of jw1657 from escherichia coli

Phyre2
17 |
| c3iz5P_ |

### PDB 3iz5 chain P

Region: 11 - 26
Aligned: 16
Modelled: 16
Confidence: 16.9%
Identity: 25%
PDB header:ribosome
Chain: P: PDB Molecule:60s ribosomal protein l15 (l15e);
PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome

Phyre2
18 |
| c2z1dA_ |

### PDB 2z1d chain A

Region: 32 - 92
Aligned: 61
Modelled: 61
Confidence: 16.3%
Identity: 10%
PDB header:metal binding protein
Chain: A: PDB Molecule:hydrogenase expression/formation protein hypd;
PDBTitle: crystal structure of [nife] hydrogenase maturation protein, hypd from2 thermococcus kodakaraensis

Phyre2
19 |
| d2hiqa1 |

### PDB 2hiq chain A domain 1

Region: 15 - 34
Aligned: 20
Modelled: 20
Confidence: 15.7%
Identity: 25%
Fold: Ferredoxin-like
Superfamily: Dimeric alpha+beta barrel
Family: Hypothetical protein YdhR

Phyre2
20 |
| c1vraB_ |

### PDB 1vra chain B

Region: 25 - 114
Aligned: 75
Modelled: 81
Confidence: 14.0%
Identity: 15%
PDB header:transferase
Chain: B: PDB Molecule:arginine biosynthesis bifunctional protein argj;
PDBTitle: crystal structure of arginine biosynthesis bifunctional protein argj2 (10175521) from bacillus halodurans at 2.00 a resolution

Phyre2
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Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1h16a_ |
|  | 100.0 | 79 | Fold:PFL-like glycyl radical enzymes Superfamily:PFL-like glycyl radical enzymes Family:PFL-like
2 | c2y8nC_ |
|  | 100.0 | 29 | PDB header:lyase Chain: C: PDB Molecule:4-hydroxyphenylacetate decarboxylase large subunit; PDBTitle: crystal structure of glycyl radical enzyme
3 | d1r9da_ |
|  | 100.0 | 31 | Fold:PFL-like glycyl radical enzymes Superfamily:PFL-like glycyl radical enzymes Family:PFL-like
4 | c2f3oB_ |
|  | 100.0 | 27 | PDB header:unknown function Chain: B: PDB Molecule:pyruvate formate-lyase 2; PDBTitle: crystal structure of a glycyl radical enzyme from archaeoglobus2 fulgidus
5 | d1aisa1 |
|  | 26.3 | 27 | Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain
6 | d1nh2a1 |
|  | 25.1 | 15 | Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain
7 | d1qnaa1 |
|  | 25.0 | 17 | Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain
8 | d1nh2a2 |
|  | 24.8 | 42 | Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain
9 | d1mp9a1 |
|  | 23.8 | 33 | Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain
10 | d1aisa2 |
|  | 23.5 | 42 | Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain
11 | d1qnaa2 |
|  | 22.9 | 42 | Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain
12 | d1cdwa2 |
|  | 22.3 | 42 | Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain
13 | d1mp9a2 |
|  | 21.5 | 42 | Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain
14 | d1cdwa1 |
|  | 19.4 | 11 | Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain
15 | d1pg5b2 |
|  | 18.9 | 17 | Fold:Rubredoxin-like Superfamily:Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain Family:Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain
16 | c1wd6B_ |
|  | 18.8 | 25 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein ydhr; PDBTitle: crystal structure of jw1657 from escherichia coli
17 | c3iz5P_ |
|  | 16.9 | 25 | PDB header:ribosome Chain: P: PDB Molecule:60s ribosomal protein l15 (l15e); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
18 | c2z1dA_ |
|  | 16.3 | 10 | PDB header:metal binding protein Chain: A: PDB Molecule:hydrogenase expression/formation protein hypd; PDBTitle: crystal structure of [nife] hydrogenase maturation protein, hypd from2 thermococcus kodakaraensis
19 | d2hiqa1 |
|  | 15.7 | 25 | Fold:Ferredoxin-like Superfamily:Dimeric alpha+beta barrel Family:Hypothetical protein YdhR
20 | c1vraB_ |
|  | 14.0 | 15 | PDB header:transferase Chain: B: PDB Molecule:arginine biosynthesis bifunctional protein argj; PDBTitle: crystal structure of arginine biosynthesis bifunctional protein argj2 (10175521) from bacillus halodurans at 2.00 a resolution
21 | c1yo8A_ |
| not modelled | 12.8 | 17 | PDB header:cell adhesion Chain: A: PDB Molecule:thrombospondin-2; PDBTitle: structure of the c-terminal domain of human thrombospondin-2
22 | c3h0mE_ |
| not modelled | 12.1 | 21 | PDB header:ligase Chain: E: PDB Molecule:aspartyl/glutamyl-trna(asn/gln) amidotransferase PDBTitle: structure of trna-dependent amidotransferase gatcab from2 aquifex aeolicus
23 | d1xlya_ |
| not modelled | 11.8 | 33 | Fold:RNA-binding protein She2p Superfamily:RNA-binding protein She2p Family:RNA-binding protein She2p
24 | d2fzcb2 |
| not modelled | 11.4 | 15 | Fold:Rubredoxin-like Superfamily:Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain Family:Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain
25 | d1vqom1 |
| not modelled | 10.4 | 24 | Fold:Ribosomal proteins S24e, L23 and L15e Superfamily:Ribosomal proteins S24e, L23 and L15e Family:L15e
26 | c4a1cL_ |
| not modelled | 10.3 | 25 | PDB header:ribosome Chain: L: PDB Molecule:ribosomal protein l15; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna,3 5.8s rrna and proteins of molecule 4.
27 | d1jj2l_ |
| not modelled | 10.2 | 24 | Fold:Ribosomal proteins S24e, L23 and L15e Superfamily:Ribosomal proteins S24e, L23 and L15e Family:L15e
28 | c2kwuA_ |
| not modelled | 9.9 | 36 | PDB header:protein binding/signaling protein Chain: A: PDB Molecule:dna polymerase iota; PDBTitle: solution structure of ubm2 of murine polymerase iota in complex with2 ubiquitin
29 | d1v82a_ |
| not modelled | 9.8 | 20 | Fold:Nucleotide-diphospho-sugar transferases Superfamily:Nucleotide-diphospho-sugar transferases Family:1,3-glucuronyltransferase
30 | c2vzkD_ |
| not modelled | 9.8 | 15 | PDB header:transferase Chain: D: PDB Molecule:glutamate n-acetyltransferase 2 beta chain; PDBTitle: structure of the acyl-enzyme complex of an n-terminal2 nucleophile (ntn) hydrolase, oat2
31 | c2z8uQ_ |
| not modelled | 9.5 | 32 | PDB header:transcription Chain: Q: PDB Molecule:tata-box-binding protein; PDBTitle: methanococcus jannaschii tbp
32 | c2q82A_ |
| not modelled | 9.4 | 43 | PDB header:structural protein Chain: A: PDB Molecule:core protein p7; PDBTitle: crystal structure of core protein p7 from pseudomonas phage2 phi12. northeast structural genomics target oc1
33 | c1eysH_ |
| not modelled | 8.7 | 11 | PDB header:electron transport Chain: H: PDB Molecule:photosynthetic reaction center; PDBTitle: crystal structure of photosynthetic reaction center from a2 thermophilic bacterium, thermochromatium tepidum
34 | d8ruci_ |
| not modelled | 8.6 | 25 | Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit
35 | d1gk8i_ |
| not modelled | 8.5 | 17 | Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit
36 | c2hx6A_ |
| not modelled | 8.4 | 14 | PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease; PDBTitle: solution structure analysis of the phage t42 endoribonuclease regb
37 | d1cmwa2 |
| not modelled | 8.4 | 28 | Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain
38 | d1ej7s_ |
| not modelled | 8.3 | 29 | Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit
39 | d1tfra2 |
| not modelled | 8.3 | 18 | Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain
40 | d1wdds_ |
| not modelled | 7.7 | 21 | Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit
41 | d1ffki_ |
| not modelled | 7.6 | 31 | Fold:Ribosomal proteins S24e, L23 and L15e Superfamily:Ribosomal proteins S24e, L23 and L15e Family:L15e
42 | c3al0B_ |
| not modelled | 7.4 | 20 | 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.
43 | c1d3uA_ |
| not modelled | 7.4 | 42 | PDB header:gene regulation/dna Chain: A: PDB Molecule:tata-binding protein; PDBTitle: tata-binding protein/transcription factor (ii)b/bre+tata-2 box complex from pyrococcus woesei
44 | c2j6pF_ |
| not modelled | 7.3 | 16 | PDB header:oxidoreductase Chain: F: PDB Molecule:sb(v)-as(v) reductase; PDBTitle: structure of as-sb reductase from leishmania major
45 | c3eikB_ |
| not modelled | 7.3 | 17 | PDB header:transcription Chain: B: PDB Molecule:tata-box-binding protein; PDBTitle: double stranded dna binding protein
46 | d2v6ai1 |
| not modelled | 7.2 | 17 | Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit
47 | c1mp9B_ |
| not modelled | 7.0 | 33 | PDB header:dna binding protein Chain: B: PDB Molecule:tata-binding protein; PDBTitle: tbp from a mesothermophilic archaeon, sulfolobus2 acidocaldarius
48 | c3gqjA_ |
| not modelled | 6.9 | 25 | PDB header:unknown function Chain: A: PDB Molecule:cell inhibiting factor (cif); PDBTitle: crystal structure of cell inhibiting factor (cif) from photorhabdus2 luminescens
49 | d2f2ab2 |
| not modelled | 6.9 | 14 | Fold:Glutamine synthetase/guanido kinase Superfamily:Glutamine synthetase/guanido kinase Family:GatB/GatE catalytic domain-like
50 | c3f3hA_ |
| not modelled | 6.5 | 27 | PDB header:antitumor protein Chain: A: PDB Molecule:immunomodulatory protein ling zhi-8; PDBTitle: crystal structure and anti-tumor activity of lz-8 from the fungus2 ganoderma lucidium
51 | d1uzdc1 |
| not modelled | 6.5 | 17 | Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit
52 | c3ol0C_ |
| not modelled | 6.3 | 50 | PDB header:de novo protein Chain: C: PDB Molecule:de novo designed monomer trefoil-fold sub-domain which PDBTitle: crystal structure of monofoil-4p homo-trimer: de novo designed monomer2 trefoil-fold sub-domain which forms homo-trimer assembly
53 | d1v5ra1 |
| not modelled | 6.3 | 33 | Fold:N domain of copper amine oxidase-like Superfamily:GAS2 domain-like Family:GAS2 domain
54 | c1s1iL_ |
| not modelled | 6.1 | 35 | PDB header:ribosome Chain: L: PDB Molecule:60s ribosomal protein l15-a; PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1i,4 contains 60s subunit. the 40s ribosomal subunit is in file5 1s1h.
55 | c3q3jA_ |
| not modelled | 6.1 | 22 | PDB header:membrane protein/protein binding Chain: A: PDB Molecule:plexin-a2; PDBTitle: crystal structure of plexin a2 rbd in complex with rnd1
56 | c3su8X_ |
| not modelled | 6.1 | 29 | PDB header:apoptosis/signaling protein Chain: X: PDB Molecule:plexin-b1; PDBTitle: crystal structure of a truncated intracellular domain of plexin-b1 in2 complex with rac1
57 | d2nlua1 |
| not modelled | 5.9 | 39 | Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:PWWP domain
58 | d1eysh1 |
| not modelled | 5.8 | 11 | Fold:PRC-barrel domain Superfamily:PRC-barrel domain Family:Photosynthetic reaction centre, H-chain, cytoplasmic domain
59 | c3ajfA_ |
| not modelled | 5.6 | 43 | PDB header:viral protein Chain: A: PDB Molecule:non-structural protein 3; PDBTitle: structural insigths into dsrna binding and rna silencing suppression2 by ns3 protein of rice hoja blanca tenuivirus
60 | c1ux6A_ |
| not modelled | 5.5 | 19 | PDB header:cell adhesion Chain: A: PDB Molecule:thrombospondin-1; PDBTitle: structure of a thrombospondin c-terminal fragment reveals a2 novel calcium core in the type 3 repeats
61 | d1xo1a2 |
| not modelled | 5.4 | 22 | Fold:PIN domain-like Superfamily:PIN domain-like Family:5' to 3' exonuclease catalytic domain
62 | c1zswA_ |
| not modelled | 5.1 | 17 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:glyoxalase family protein; PDBTitle: crystal structure of bacillus cereus metallo protein from glyoxalase2 family
63 | d1v54b1 |
| not modelled | 5.1 | 11 | Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Periplasmic domain of cytochrome c oxidase subunit II
64 | c3bl9B_ |
| not modelled | 5.0 | 16 | PDB header:hydrolase Chain: B: PDB Molecule:scavenger mrna-decapping enzyme dcps; PDBTitle: synthetic gene encoded dcps bound to inhibitor dg157493
65 | c3gr1A_ |
| not modelled | 5.0 | 22 | PDB header:membrane protein Chain: A: PDB Molecule:protein prgh; PDBTitle: periplamic domain of the t3ss inner membrane protein prgh2 from s.typhimurium (fragment 170-392)

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