Phyre 2 Results for P29744

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Email | l.a.kelley@imperial.ac.uk
Description | P29744
Date | Thu Jan 5 11:45:40 GMT 2012
Unique Job ID | 4c3a3a93aa9dada0

Summary |

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

Model (left) based on template d1ucua_
Top template information
Fold:Phase 1 flagellin Superfamily:Phase 1 flagellin Family:Phase 1 flagellin
Confidence and coverage
Confidence: | 100.0% | Coverage: | 100%
317 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 | R | F | S | T | Q | M | M | Y | Q | Q | N | M | R | G | I | T | N | S | Q | A | E | W | M | K | Y | G | E | Q | M | S | T | G | K | R | V | V | N | P | S | D | D | P | I | A | A | S | Q | A | V | V | L | S | Q | A | Q | A | Q | N | S
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | Q | Y | T | L | A | R | T | F | A | T | Q | K | V | S | L | E | E | S | V | L | S | Q | V | T | T | A | I | Q | N | A | Q | E | K | I | V | Y | A | S | N | G | T | L | S | D | D | D | R | A | S | L | A | T | D | I | Q | G | L | R | D | Q
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? |  | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | L | L | N | L | A | N | T | T | D | G | N | G | R | Y | I | F | A | G | Y | K | T | E | T | A | P | F | S | E | E | K | G | K | Y | V | G | G | A | E | S | I | K | Q | Q | V | D | A | S | R | S | M | V | I | G | H | T | G | D | K | I | F
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  | ? | ? | ? | ? | ? | ? |  | ? |  |  |  |  |  |  |  |  | ? | ? | ? |  |  |  | ? | ? |  |  |  |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | D | S | I | T | S | N | A | V | A | E | P | D | G | S | A | S | E | T | N | L | F | A | M | L | D | S | A | I | A | A | L | K | T | P | V | A | D | S | E | A | D | K | E | T | A | A | A | A | L | D | K | T | N | R | G | L | K | N | S | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  | ? | ? |  |  | ? | ? | ? |  | ? | ? | ? | ? |  |  |  | ? |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | . | . | . | . | . | . | . | . | 290 | . | . | . | . | . | . | . | . | . | 300
Sequence |  | N | N | V | L | T | V | R | A | E | L | G | T | Q | L | N | E | L | E | S | L | D | S | L | G | S | D | R | A | L | G | Q | T | Q | Q | M | S | D | L | V | D | V | D | W | N | A | T | I | S | S | Y | I | M | Q | Q | T | A | L | Q | A | S
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 310 | . | . | . | . | . | . | .
Sequence |  | Y | K | A | F | T | D | M | Q | G | L | S | L | F | Q | L | S | K
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  | ? | ? | ? | ? |  |  |  |  | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |

Confidence Key
High(9) |  |  |  |  |  |  |  |  |  |  | Low (0)

? | Disordered
| Alpha helix
| Beta strand

Domain analysis |

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

Rank | Aligned region
--- | ---
1 |
| d1ucua_ |

### PDB 1ucu chain A

Region: 1 - 317
Aligned: 317
Modelled: 317
Confidence: 100.0%
Identity: 21%
Fold: Phase 1 flagellin
Superfamily: Phase 1 flagellin
Family: Phase 1 flagellin

Phyre2
2 |
| c3k8vB_ |

### PDB 3k8v chain B

Region: 44 - 300
Aligned: 257
Modelled: 257
Confidence: 100.0%
Identity: 19%
PDB header:structural protein
Chain: B: PDB Molecule:flagellin homolog;
PDBTitle: crysatl structure of a bacterial cell-surface flagellin n20c20

Phyre2
3 |
| c2d4xA_ |

### PDB 2d4x chain A

Region: 50 - 262
Aligned: 213
Modelled: 213
Confidence: 100.0%
Identity: 81%
PDB header:structural protein
Chain: A: PDB Molecule:flagellar hook-associated protein 3;
PDBTitle: crystal structure of a 26k fragment of hap3 (flgl)

Phyre2
4 |
| c3k8wA_ |

### PDB 3k8w chain A

Region: 42 - 275
Aligned: 234
Modelled: 234
Confidence: 100.0%
Identity: 19%
PDB header:structural protein
Chain: A: PDB Molecule:flagellin homolog;
PDBTitle: crysatl structure of a bacterial cell-surface flagellin n20c45

Phyre2
5 |
| c3pwxB_ |

### PDB 3pwx chain B

Region: 42 - 278
Aligned: 194
Modelled: 201
Confidence: 100.0%
Identity: 24%
PDB header:structural protein
Chain: B: PDB Molecule:putative flagellar hook-associated protein;
PDBTitle: structure of putative flagellar hook-associated protein from vibrio2 parahaemolyticus

Phyre2
6 |
| c2zbiB_ |

### PDB 2zbi chain B

Region: 61 - 264
Aligned: 204
Modelled: 204
Confidence: 100.0%
Identity: 22%
PDB header:structural protein
Chain: B: PDB Molecule:flagellin homolog;
PDBTitle: crysatl structure of a bacterial cell-surface flagellin

Phyre2
7 |
| d1io1a_ |

### PDB 1io1 chain A

Region: 56 - 275
Aligned: 220
Modelled: 220
Confidence: 100.0%
Identity: 22%
Fold: Phase 1 flagellin
Superfamily: Phase 1 flagellin
Family: Phase 1 flagellin

Phyre2
8 |
| c1oryB_ |

### PDB 1ory chain B

Region: 280 - 317
Aligned: 38
Modelled: 37
Confidence: 94.1%
Identity: 18%
PDB header:chaperone
Chain: B: PDB Molecule:flagellin;
PDBTitle: flagellar export chaperone in complex with its cognate binding partner

Phyre2
9 |
| c3a69A_ |

### PDB 3a69 chain A

Region: 280 - 310
Aligned: 31
Modelled: 31
Confidence: 45.8%
Identity: 10%
PDB header:motor protein
Chain: A: PDB Molecule:flagellar hook protein flge;
PDBTitle: atomic model of the bacterial flagellar hook based on2 docking an x-ray derived structure and terminal two alpha-3 helices into an 7.1 angstrom resolution cryoem map

Phyre2
10 |
| c2kyyA_ |

### PDB 2kyy chain A

Region: 115 - 137
Aligned: 23
Modelled: 23
Confidence: 9.3%
Identity: 13%
PDB header:hydrolase
Chain: A: PDB Molecule:possible atp-dependent dna helicase recg-related protein;
PDBTitle: solution nmr structure of the n-terminal domain of putative atp-2 dependent dna helicase recg-related protein from nitrosomonas3 europaea, northeast structural genomics consortium target ner70a

Phyre2
11 |
| c2ieqC_ |

### PDB 2ieq chain C

Region: 229 - 310
Aligned: 76
Modelled: 82
Confidence: 8.5%
Identity: 12%
PDB header:viral protein
Chain: C: PDB Molecule:spike glycoprotein;
PDBTitle: core structure of s2 from the human coronavirus nl63 spike2 glycoprotein

Phyre2
12 |
| c3pzdB_ |

### PDB 3pzd chain B

Region: 37 - 67
Aligned: 31
Modelled: 31
Confidence: 8.3%
Identity: 19%
PDB header:motor protein/apoptosis
Chain: B: PDB Molecule:netrin receptor dcc;
PDBTitle: structure of the myosin x myth4-ferm/dcc complex

Phyre2
13 |
| c2do9A_ |

### PDB 2do9 chain A

Region: 281 - 316
Aligned: 36
Modelled: 36
Confidence: 7.0%
Identity: 19%
PDB header:signaling protein
Chain: A: PDB Molecule:nacht-, lrr- and pyd-containing protein 10;
PDBTitle: solution structure of the pyrin/paad-dapin domain in mouse2 nalp10 (nacht, leucine rich repeat and pyd containing 10)

Phyre2
14 |
| d1ffva2 |

### PDB 1ffv chain A domain 2

Region: 309 - 317
Aligned: 9
Modelled: 9
Confidence: 7.0%
Identity: 11%
Fold: beta-Grasp (ubiquitin-like)
Superfamily: 2Fe-2S ferredoxin-like
Family: 2Fe-2S ferredoxin domains from multidomain proteins

Phyre2
15 |
| c3lmmA_ |

### PDB 3lmm chain A

Region: 112 - 146
Aligned: 34
Modelled: 35
Confidence: 6.7%
Identity: 24%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of the dip2311 protein from2 corynebacterium diphtheriae, northeast structural genomics3 consortium target cdr35

Phyre2
16 |
| c3a1yF_ |

### PDB 3a1y chain F

Region: 271 - 289
Aligned: 19
Modelled: 19
Confidence: 6.4%
Identity: 16%
PDB header:ribosomal protein
Chain: F: PDB Molecule:50s ribosomal protein p1 (l12p);
PDBTitle: the structure of protein complex

Phyre2
17 |
| c2w6jG_ |

### PDB 2w6j chain G

Region: 243 - 290
Aligned: 48
Modelled: 48
Confidence: 6.2%
Identity: 6%
PDB header:hydrolase
Chain: G: PDB Molecule:atp synthase subunit gamma, mitochondrial;
PDBTitle: low resolution structures of bovine mitochondrial f1-atpase2 during controlled dehydration: hydration state 5.

Phyre2
18 |
| c3fksY_ |

### PDB 3fks chain Y

Region: 243 - 290
Aligned: 48
Modelled: 48
Confidence: 6.2%
Identity: 8%
PDB header:hydrolase
Chain: Y: PDB Molecule:atp synthase subunit gamma, mitochondrial;
PDBTitle: yeast f1 atpase in the absence of bound nucleotides

Phyre2

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | d1ucua_ |
|  | 100.0 | 21 | Fold:Phase 1 flagellin Superfamily:Phase 1 flagellin Family:Phase 1 flagellin
2 | c3k8vB_ |
|  | 100.0 | 19 | PDB header:structural protein Chain: B: PDB Molecule:flagellin homolog; PDBTitle: crysatl structure of a bacterial cell-surface flagellin n20c20
3 | c2d4xA_ |
|  | 100.0 | 81 | PDB header:structural protein Chain: A: PDB Molecule:flagellar hook-associated protein 3; PDBTitle: crystal structure of a 26k fragment of hap3 (flgl)
4 | c3k8wA_ |
|  | 100.0 | 19 | PDB header:structural protein Chain: A: PDB Molecule:flagellin homolog; PDBTitle: crysatl structure of a bacterial cell-surface flagellin n20c45
5 | c3pwxB_ |
|  | 100.0 | 24 | PDB header:structural protein Chain: B: PDB Molecule:putative flagellar hook-associated protein; PDBTitle: structure of putative flagellar hook-associated protein from vibrio2 parahaemolyticus
6 | c2zbiB_ |
|  | 100.0 | 22 | PDB header:structural protein Chain: B: PDB Molecule:flagellin homolog; PDBTitle: crysatl structure of a bacterial cell-surface flagellin
7 | d1io1a_ |
|  | 100.0 | 22 | Fold:Phase 1 flagellin Superfamily:Phase 1 flagellin Family:Phase 1 flagellin
8 | c1oryB_ |
|  | 94.1 | 18 | PDB header:chaperone Chain: B: PDB Molecule:flagellin; PDBTitle: flagellar export chaperone in complex with its cognate binding partner
9 | c3a69A_ |
|  | 45.8 | 10 | PDB header:motor protein Chain: A: PDB Molecule:flagellar hook protein flge; PDBTitle: atomic model of the bacterial flagellar hook based on2 docking an x-ray derived structure and terminal two alpha-3 helices into an 7.1 angstrom resolution cryoem map
10 | c2kyyA_ |
|  | 9.3 | 13 | PDB header:hydrolase Chain: A: PDB Molecule:possible atp-dependent dna helicase recg-related protein; PDBTitle: solution nmr structure of the n-terminal domain of putative atp-2 dependent dna helicase recg-related protein from nitrosomonas3 europaea, northeast structural genomics consortium target ner70a
11 | c2ieqC_ |
|  | 8.5 | 12 | PDB header:viral protein Chain: C: PDB Molecule:spike glycoprotein; PDBTitle: core structure of s2 from the human coronavirus nl63 spike2 glycoprotein
12 | c3pzdB_ |
|  | 8.3 | 19 | PDB header:motor protein/apoptosis Chain: B: PDB Molecule:netrin receptor dcc; PDBTitle: structure of the myosin x myth4-ferm/dcc complex
13 | c2do9A_ |
|  | 7.0 | 19 | PDB header:signaling protein Chain: A: PDB Molecule:nacht-, lrr- and pyd-containing protein 10; PDBTitle: solution structure of the pyrin/paad-dapin domain in mouse2 nalp10 (nacht, leucine rich repeat and pyd containing 10)
14 | d1ffva2 |
|  | 7.0 | 11 | Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin domains from multidomain proteins
15 | c3lmmA_ |
|  | 6.7 | 24 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the dip2311 protein from2 corynebacterium diphtheriae, northeast structural genomics3 consortium target cdr35
16 | c3a1yF_ |
|  | 6.4 | 16 | PDB header:ribosomal protein Chain: F: PDB Molecule:50s ribosomal protein p1 (l12p); PDBTitle: the structure of protein complex
17 | c2w6jG_ |
|  | 6.2 | 6 | PDB header:hydrolase Chain: G: PDB Molecule:atp synthase subunit gamma, mitochondrial; PDBTitle: low resolution structures of bovine mitochondrial f1-atpase2 during controlled dehydration: hydration state 5.
18 | c3fksY_ |
|  | 6.2 | 8 | PDB header:hydrolase Chain: Y: PDB Molecule:atp synthase subunit gamma, mitochondrial; PDBTitle: yeast f1 atpase in the absence of bound nucleotides

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
Disclaimer
Terms and Conditions
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