Phyre 2 Results for P76137

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Email | l.a.kelley@imperial.ac.uk
Description | P76137
Date | Wed Jan 25 15:21:05 GMT 2012
Unique Job ID | 1f69b33b39a0b9ab

Summary |

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

Model (left) based on template c3rfzB_
Top template information
PDB header:cell adhesion/transport/chaperone Chain: B: PDB Molecule:outer membrane usher protein, type 1 fimbrial synthesis; PDBTitle: crystal structure of the fimd usher bound to its cognate fimc:fimh2 substrate
Confidence and coverage
Confidence: | 100.0% | Coverage: | 99%
379 residues ( 99% 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 | S | G | Y | T | V | K | P | P | T | G | D | T | N | E | Q | T | Q | F | I | D | Y | F | N | L | F | Y | S | K | R | G | Q | E | Q | I | S | I | S | Q | Q | L | G | N | Y | G | T | T | F | F | S | A | S | R | Q | S | Y | W | N | T | S
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? | ? | ? |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  | ? |  | ? | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | R | S | D | Q | Q | I | S | F | G | L | N | V | P | F | G | D | I | T | T | S | L | N | Y | S | Y | S | N | N | I | W | Q | N | D | R | D | H | L | L | A | F | T | L | N | V | P | F | S | H | W | M | R | T | D | S | Q | S | A | F | R | N
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | S | N | A | S | Y | S | M | S | N | D | L | K | G | G | M | T | N | L | S | G | V | Y | G | T | L | L | P | D | N | N | L | N | Y | S | V | Q | V | G | N | T | H | G | G | N | T | S | S | G | T | S | G | Y | S | S | L | N | Y | R | G | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | Y | G | N | T | N | V | G | Y | S | R | S | G | D | S | S | Q | I | Y | Y | G | M | S | G | G | I | I | A | H | A | D | G | I | T | F | G | Q | P | L | G | D | T | M | V | L | V | K | A | P | G | A | D | N | V | K | I | E | N | Q | T | G
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? |  | ? |  |  | ? | ? | ? |  | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | . | . | . | . | . | . | . | . | 290 | . | . | . | . | . | . | . | . | . | 300
Sequence |  | I | H | T | D | W | R | G | Y | A | I | L | P | F | A | T | E | Y | R | E | N | R | V | A | L | N | A | N | S | L | A | D | N | V | E | L | D | E | T | V | V | T | V | I | P | T | H | G | A | I | A | R | A | T | F | N | A | Q | I | G | G
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  |  |  |  |  |  |  |  | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 310 | . | . | . | . | . | . | . | . | . | 320 | . | . | . | . | . | . | . | . | . | 330 | . | . | . | . | . | . | . | . | . | 340 | . | . | . | . | . | . | . | . | . | 350 | . | . | . | . | . | . | . | . | . | 360
Sequence |  | K | V | L | M | T | L | K | Y | G | N | K | S | V | P | F | G | A | I | V | T | H | G | E | N | K | N | G | S | I | V | A | E | N | G | Q | V | Y | L | T | G | L | P | Q | S | G | Q | L | Q | V | S | W | G | K | D | K | N | S | N | C | I
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? |  |  |  |  |  |  |  |  |  | ? | ? | ? |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 370 | . | . | . | . | . | . | . | . | . | 380 | . | .
Sequence |  | V | E | Y | K | L | P | E | V | S | P | G | T | L | L | N | Q | Q | T | A | I | C | R
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 |
| c3rfzB_ |

### PDB 3rfz chain B

Region: 1 - 382
Aligned: 379
Modelled: 382
Confidence: 100.0%
Identity: 56%
PDB header:cell adhesion/transport/chaperone
Chain: B: PDB Molecule:outer membrane usher protein, type 1 fimbrial synthesis;
PDBTitle: crystal structure of the fimd usher bound to its cognate fimc:fimh2 substrate

Phyre2
2 |
| c3ohnA_ |

### PDB 3ohn chain A

Region: 2 - 205
Aligned: 188
Modelled: 190
Confidence: 99.9%
Identity: 55%
PDB header:membrane protein
Chain: A: PDB Molecule:outer membrane usher protein fimd;
PDBTitle: crystal structure of the fimd translocation domain

Phyre2
3 |
| c2xetB_ |

### PDB 2xet chain B

Region: 301 - 381
Aligned: 81
Modelled: 81
Confidence: 99.9%
Identity: 40%
PDB header:transport protein
Chain: B: PDB Molecule:f1 capsule-anchoring protein;
PDBTitle: conserved hydrophobic clusters on the surface of the caf1a usher2 c-terminal domain are important for f1 antigen assembly

Phyre2
4 |
| c2vqiA_ |

### PDB 2vqi chain A

Region: 1 - 209
Aligned: 192
Modelled: 195
Confidence: 99.8%
Identity: 16%
PDB header:transport
Chain: A: PDB Molecule:outer membrane usher protein papc;
PDBTitle: structure of the p pilus usher (papc) translocation pore

Phyre2
5 |
| c3l48B_ |

### PDB 3l48 chain B

Region: 299 - 382
Aligned: 78
Modelled: 82
Confidence: 99.8%
Identity: 29%
PDB header:transport protein
Chain: B: PDB Molecule:outer membrane usher protein papc;
PDBTitle: crystal structure of the c-terminal domain of the papc usher

Phyre2
6 |
| c2x5pA_ |

### PDB 2x5p chain A

Region: 287 - 350
Aligned: 60
Modelled: 64
Confidence: 37.0%
Identity: 18%
PDB header:protein binding
Chain: A: PDB Molecule:fibronectin binding protein;
PDBTitle: crystal structure of the streptococcus pyogenes fibronectin binding2 protein fbab-b

Phyre2
7 |
| d1aoza2 |

### PDB 1aoz chain A domain 2

Region: 294 - 382
Aligned: 80
Modelled: 89
Confidence: 32.0%
Identity: 9%
Fold: Cupredoxin-like
Superfamily: Cupredoxins
Family: Multidomain cupredoxins

Phyre2
8 |
| d1uwya1 |

### PDB 1uwy chain A domain 1

Region: 302 - 380
Aligned: 78
Modelled: 79
Confidence: 30.9%
Identity: 12%
Fold: Prealbumin-like
Superfamily: Carboxypeptidase regulatory domain-like
Family: Carboxypeptidase regulatory domain

Phyre2
9 |
| c2nsmA_ |

### PDB 2nsm chain A

Region: 302 - 370
Aligned: 67
Modelled: 69
Confidence: 27.3%
Identity: 13%
PDB header:hydrolase
Chain: A: PDB Molecule:carboxypeptidase n catalytic chain;
PDBTitle: crystal structure of the human carboxypeptidase n (kininase i)2 catalytic domain

Phyre2
10 |
| c3nadB_ |

### PDB 3nad chain B

Region: 332 - 368
Aligned: 36
Modelled: 37
Confidence: 24.4%
Identity: 19%
PDB header:lyase
Chain: B: PDB Molecule:ferulate decarboxylase;
PDBTitle: crystal structure of phenolic acid decarboxylase from bacillus pumilus2 ui-670

Phyre2
11 |
| c2kywA_ |

### PDB 2kyw chain A

Region: 261 - 309
Aligned: 48
Modelled: 49
Confidence: 21.9%
Identity: 25%
PDB header:cell adhesion
Chain: A: PDB Molecule:adhesion exoprotein;
PDBTitle: solution nmr structure of a domain of adhesion exoprotein from2 pediococcus pentosaceus, northeast structural genomics consortium3 target ptr41o

Phyre2
12 |
| d1nkga1 |

### PDB 1nkg chain A domain 1

Region: 301 - 369
Aligned: 68
Modelled: 69
Confidence: 21.5%
Identity: 10%
Fold: Prealbumin-like
Superfamily: Starch-binding domain-like
Family: Rhamnogalacturonase B, RhgB, middle domain

Phyre2
13 |
| d2je6i3 |

### PDB 2je6 chain I domain 3

Region: 329 - 340
Aligned: 12
Modelled: 12
Confidence: 18.8%
Identity: 33%
Fold: Eukaryotic type KH-domain (KH-domain type I)
Superfamily: Eukaryotic type KH-domain (KH-domain type I)
Family: Eukaryotic type KH-domain (KH-domain type I)

Phyre2
14 |
| c2ww8A_ |

### PDB 2ww8 chain A

Region: 243 - 350
Aligned: 107
Modelled: 108
Confidence: 18.8%
Identity: 12%
PDB header:cell adhesion
Chain: A: PDB Molecule:cell wall surface anchor family protein;
PDBTitle: structure of the pilus adhesin (rrga) from streptococcus2 pneumoniae

Phyre2
15 |
| d2ey4c1 |

### PDB 2ey4 chain C domain 1

Region: 304 - 332
Aligned: 29
Modelled: 29
Confidence: 18.2%
Identity: 14%
Fold: Reductase/isomerase/elongation factor common domain
Superfamily: Translation proteins
Family: Gar1-like SnoRNP

Phyre2
16 |
| c2hvyB_ |

### PDB 2hvy chain B

Region: 304 - 332
Aligned: 29
Modelled: 29
Confidence: 17.6%
Identity: 14%
PDB header:isomerase/biosynthetic protein/rna
Chain: B: PDB Molecule:small nucleolar rnp similar to gar1;
PDBTitle: crystal structure of an h/aca box rnp from pyrococcus furiosus

Phyre2
17 |
| d1ci3m2 |

### PDB 1ci3 chain M domain 2

Region: 317 - 353
Aligned: 37
Modelled: 37
Confidence: 17.5%
Identity: 27%
Fold: Barrel-sandwich hybrid
Superfamily: Rudiment single hybrid motif
Family: Cytochrome f, small domain

Phyre2
18 |
| d2ja9a2 |

### PDB 2ja9 chain A domain 2

Region: 329 - 347
Aligned: 19
Modelled: 19
Confidence: 15.5%
Identity: 21%
Fold: Eukaryotic type KH-domain (KH-domain type I)
Superfamily: Eukaryotic type KH-domain (KH-domain type I)
Family: Eukaryotic type KH-domain (KH-domain type I)

Phyre2
19 |
| c3ilaG_ |

### PDB 3ila chain G

Region: 337 - 378
Aligned: 42
Modelled: 42
Confidence: 15.4%
Identity: 21%
PDB header:signaling protein
Chain: G: PDB Molecule:ryanodine receptor 1;
PDBTitle: crystal structure of rabbit ryanodine receptor 1 n-terminal domain (9-2 205)

Phyre2
20 |
| c1h8lA_ |

### PDB 1h8l chain A

Region: 300 - 369
Aligned: 68
Modelled: 70
Confidence: 13.3%
Identity: 9%
PDB header:carboxypeptidase
Chain: A: PDB Molecule:carboxypeptidase gp180 residues 503-882;
PDBTitle: duck carboxypeptidase d domain ii in complex with gemsa

Phyre2
21 |
22 |
23 |
24 |
25 |
26 |
27 |
28 |
29 |
30 |
31 |
32 |
33 |
34 |
35 |
36 |
37 |
38 |
39 |
40 |
41 |
42 |
43 |
44 |
45 |
46 |
47 |
48 |
49 |
50 |
51 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c3rfzB_ |
|  | 100.0 | 56 | PDB header:cell adhesion/transport/chaperone Chain: B: PDB Molecule:outer membrane usher protein, type 1 fimbrial synthesis; PDBTitle: crystal structure of the fimd usher bound to its cognate fimc:fimh2 substrate
2 | c3ohnA_ |
|  | 99.9 | 55 | PDB header:membrane protein Chain: A: PDB Molecule:outer membrane usher protein fimd; PDBTitle: crystal structure of the fimd translocation domain
3 | c2xetB_ |
|  | 99.9 | 40 | PDB header:transport protein Chain: B: PDB Molecule:f1 capsule-anchoring protein; PDBTitle: conserved hydrophobic clusters on the surface of the caf1a usher2 c-terminal domain are important for f1 antigen assembly
4 | c2vqiA_ |
|  | 99.8 | 16 | PDB header:transport Chain: A: PDB Molecule:outer membrane usher protein papc; PDBTitle: structure of the p pilus usher (papc) translocation pore
5 | c3l48B_ |
|  | 99.8 | 29 | PDB header:transport protein Chain: B: PDB Molecule:outer membrane usher protein papc; PDBTitle: crystal structure of the c-terminal domain of the papc usher
6 | c2x5pA_ |
|  | 37.0 | 18 | PDB header:protein binding Chain: A: PDB Molecule:fibronectin binding protein; PDBTitle: crystal structure of the streptococcus pyogenes fibronectin binding2 protein fbab-b
7 | d1aoza2 |
|  | 32.0 | 9 | Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins
8 | d1uwya1 |
|  | 30.9 | 12 | Fold:Prealbumin-like Superfamily:Carboxypeptidase regulatory domain-like Family:Carboxypeptidase regulatory domain
9 | c2nsmA_ |
|  | 27.3 | 13 | PDB header:hydrolase Chain: A: PDB Molecule:carboxypeptidase n catalytic chain; PDBTitle: crystal structure of the human carboxypeptidase n (kininase i)2 catalytic domain
10 | c3nadB_ |
|  | 24.4 | 19 | PDB header:lyase Chain: B: PDB Molecule:ferulate decarboxylase; PDBTitle: crystal structure of phenolic acid decarboxylase from bacillus pumilus2 ui-670
11 | c2kywA_ |
|  | 21.9 | 25 | PDB header:cell adhesion Chain: A: PDB Molecule:adhesion exoprotein; PDBTitle: solution nmr structure of a domain of adhesion exoprotein from2 pediococcus pentosaceus, northeast structural genomics consortium3 target ptr41o
12 | d1nkga1 |
|  | 21.5 | 10 | Fold:Prealbumin-like Superfamily:Starch-binding domain-like Family:Rhamnogalacturonase B, RhgB, middle domain
13 | d2je6i3 |
|  | 18.8 | 33 | Fold:Eukaryotic type KH-domain (KH-domain type I) Superfamily:Eukaryotic type KH-domain (KH-domain type I) Family:Eukaryotic type KH-domain (KH-domain type I)
14 | c2ww8A_ |
|  | 18.8 | 12 | PDB header:cell adhesion Chain: A: PDB Molecule:cell wall surface anchor family protein; PDBTitle: structure of the pilus adhesin (rrga) from streptococcus2 pneumoniae
15 | d2ey4c1 |
|  | 18.2 | 14 | Fold:Reductase/isomerase/elongation factor common domain Superfamily:Translation proteins Family:Gar1-like SnoRNP
16 | c2hvyB_ |
|  | 17.6 | 14 | PDB header:isomerase/biosynthetic protein/rna Chain: B: PDB Molecule:small nucleolar rnp similar to gar1; PDBTitle: crystal structure of an h/aca box rnp from pyrococcus furiosus
17 | d1ci3m2 |
|  | 17.5 | 27 | Fold:Barrel-sandwich hybrid Superfamily:Rudiment single hybrid motif Family:Cytochrome f, small domain
18 | d2ja9a2 |
|  | 15.5 | 21 | Fold:Eukaryotic type KH-domain (KH-domain type I) Superfamily:Eukaryotic type KH-domain (KH-domain type I) Family:Eukaryotic type KH-domain (KH-domain type I)
19 | c3ilaG_ |
|  | 15.4 | 21 | PDB header:signaling protein Chain: G: PDB Molecule:ryanodine receptor 1; PDBTitle: crystal structure of rabbit ryanodine receptor 1 n-terminal domain (9-2 205)
20 | c1h8lA_ |
|  | 13.3 | 9 | PDB header:carboxypeptidase Chain: A: PDB Molecule:carboxypeptidase gp180 residues 503-882; PDBTitle: duck carboxypeptidase d domain ii in complex with gemsa
21 | d1hfua2 |
| not modelled | 13.1 | 14 | Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins
22 | d1e2wa2 |
| not modelled | 12.5 | 28 | Fold:Barrel-sandwich hybrid Superfamily:Rudiment single hybrid motif Family:Cytochrome f, small domain
23 | d1h8la1 |
| not modelled | 12.0 | 8 | Fold:Prealbumin-like Superfamily:Carboxypeptidase regulatory domain-like Family:Carboxypeptidase regulatory domain
24 | c1yukB_ |
| not modelled | 11.4 | 29 | PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-2 b chain; PDBTitle: the crystal structure of the psi/hybrid domain/ i-egf12 segment from the human integrin beta2 at 1.8 resolution
25 | d2gc9a1 |
| not modelled | 11.0 | 14 | Fold:Lipocalins Superfamily:Lipocalins Family:Phenolic acid decarboxylase (PAD)
26 | d1gyca2 |
| not modelled | 10.4 | 9 | Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins
27 | d1lnza1 |
| not modelled | 9.9 | 30 | Fold:Obg-fold Superfamily:Obg GTP-binding protein N-terminal domain Family:Obg GTP-binding protein N-terminal domain
28 | d1zvca1 |
| not modelled | 8.5 | 18 | Fold:AOC barrel-like Superfamily:Allene oxide cyclase-like Family:Allene oxide cyclase-like
29 | c1wsrA_ |
| not modelled | 8.4 | 11 | PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of human t-protein of glycine cleavage2 system
30 | d1v8ha1 |
| not modelled | 8.2 | 13 | Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:SoxZ-like
31 | d1udxa1 |
| not modelled | 7.9 | 30 | Fold:Obg-fold Superfamily:Obg GTP-binding protein N-terminal domain Family:Obg GTP-binding protein N-terminal domain
32 | d1wkqa_ |
| not modelled | 7.6 | 20 | Fold:Cytidine deaminase-like Superfamily:Cytidine deaminase-like Family:Deoxycytidylate deaminase-like
33 | d1m1sa_ |
| not modelled | 7.5 | 11 | Fold:Immunoglobulin-like beta-sandwich Superfamily:PapD-like Family:MSP-like
34 | d1v76a_ |
| not modelled | 7.5 | 15 | Fold:Rof/RNase P subunit-like Superfamily:Rof/RNase P subunit-like Family:RNase P subunit p29-like
35 | c2zaeC_ |
| not modelled | 7.3 | 15 | PDB header:hydrolase Chain: C: PDB Molecule:ribonuclease p protein component 1; PDBTitle: crystal structure of protein ph1601p in complex with protein ph1771p2 of archaeal ribonuclease p from pyrococcus horikoshii ot3
36 | d2nn6g3 |
| not modelled | 7.3 | 16 | Fold:Eukaryotic type KH-domain (KH-domain type I) Superfamily:Eukaryotic type KH-domain (KH-domain type I) Family:Eukaryotic type KH-domain (KH-domain type I)
37 | d1fr5a_ |
| not modelled | 7.0 | 28 | Fold:RNA bacteriophage capsid protein Superfamily:RNA bacteriophage capsid protein Family:RNA bacteriophage capsid protein
38 | d1kyaa2 |
| not modelled | 6.9 | 9 | Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins
39 | d2hqya1 |
| not modelled | 6.5 | 31 | Fold:Acyl-CoA N-acyltransferases (Nat) Superfamily:Acyl-CoA N-acyltransferases (Nat) Family:FemXAB nonribosomal peptidyltransferases
40 | c1fw3A_ |
| not modelled | 6.0 | 31 | PDB header:hydrolase, membrane protein Chain: A: PDB Molecule:outer membrane phospholipase a; PDBTitle: outer membrane phospholipase a from escherichia coli
41 | c2eqnA_ |
| not modelled | 5.6 | 10 | PDB header:transcription Chain: A: PDB Molecule:hypothetical protein loc92345; PDBTitle: solution structure of the naf1 domain of hypothetical2 protein bc008207 [homo sapiens]
42 | c2jxmB_ |
| not modelled | 5.5 | 24 | PDB header:electron transport Chain: B: PDB Molecule:cytochrome f; PDBTitle: ensemble of twenty structures of the prochlorothrix2 hollandica plastocyanin- cytochrome f complex
43 | c2gw4C_ |
| not modelled | 5.4 | 17 | PDB header:luminescent protein Chain: C: PDB Molecule:kaede; PDBTitle: crystal structure of stony coral fluorescent protein kaede, red form
44 | d2q9oa2 |
| not modelled | 5.3 | 9 | Fold:Cupredoxin-like Superfamily:Cupredoxins Family:Multidomain cupredoxins
45 | c2ja9A_ |
| not modelled | 5.3 | 13 | PDB header:rna-binding protein Chain: A: PDB Molecule:exosome complex exonuclease rrp40; PDBTitle: structure of the n-terminal deletion of yeast exosome2 component rrp40
46 | d1rowa_ |
| not modelled | 5.3 | 9 | Fold:Immunoglobulin-like beta-sandwich Superfamily:PapD-like Family:MSP-like
47 | c3mn8A_ |
| not modelled | 5.2 | 13 | PDB header:hydrolase Chain: A: PDB Molecule:lp15968p; PDBTitle: structure of drosophila melanogaster carboxypeptidase d isoform 1b2 short
48 | c3nx2B_ |
| not modelled | 5.2 | 12 | PDB header:lyase Chain: B: PDB Molecule:ferulic acid decarboxylase; PDBTitle: enterobacter sp. px6-4 ferulic acid decarboxylase in complex with2 substrate analogues
49 | d1gyva_ |
| not modelled | 5.2 | 18 | Fold:Immunoglobulin-like beta-sandwich Superfamily:Clathrin adaptor appendage domain Family:gamma-adaptin C-terminal appendage domain-like
50 | c2brqA_ |
| not modelled | 5.1 | 7 | PDB header:structural protein Chain: A: PDB Molecule:filamin a; PDBTitle: crystal structure of the filamin a repeat 21 complexed with2 the integrin beta7 cytoplasmic tail peptide
51 | c3iswB_ |
| not modelled | 5.1 | 7 | PDB header:structural protein Chain: B: PDB Molecule:filamin-a; PDBTitle: crystal structure of filamin-a immunoglobulin-like repeat 21 bound to2 an n-terminal peptide of cftr

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