Phyre 2 Results for P0AFM6

Phyre Home | Retrieve Phyre Job Id

Email | l.a.kelley@imperial.ac.uk
Description | P0AFM6
Date | Thu Jan 5 11:26:46 GMT 2012
Unique Job ID | 30ef9878c4e902c3

Summary |

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

Model (left) based on template c3ojaB_
Top template information
PDB header:protein binding Chain: B: PDB Molecule:anopheles plasmodium-responsive leucine-rich repeat protein PDBTitle: crystal structure of lrim1/apl1c complex
Confidence and coverage
Confidence: | 96.4% | Coverage: | 65%
145 residues ( 65% of your sequence) have been modelled with 96.4% 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 | G | I | F | S | R | F | A | D | I | V | N | A | N | I | N | A | L | L | E | K | A | E | D | P | Q | K | L | V | R | L | M | I | Q | E | M | E | D | T | L | V | E | V | R | S | T | S | A | R | A | L | A | E | K | K | Q | L | T | R | R
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | I | E | Q | A | S | A | R | E | V | E | W | Q | E | K | A | E | L | A | L | L | K | E | R | E | D | L | A | R | A | A | L | I | E | K | Q | K | L | T | D | L | I | K | S | L | E | H | E | V | T | L | V | D | D | T | L | A | R | M | K | K
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | E | I | G | E | L | E | N | K | L | S | E | T | R | A | R | Q | Q | A | L | M | L | R | H | Q | A | A | N | S | S | R | D | V | R | R | Q | L | D | S | G | K | L | D | E | A | M | A | R | F | E | S | F | E | R | R | I | D | Q | M | E | A
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | .
Sequence |  | E | A | E | S | H | S | F | G | K | Q | K | S | L | D | D | Q | F | A | E | L | K | A | D | D | A | I | S | E | Q | L | A | Q | L | K | A | K | M | K | Q | D | N | Q
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 |
| c3ojaB_ |

### PDB 3oja chain B

Region: 3 - 149
Aligned: 145
Modelled: 146
Confidence: 96.4%
Identity: 13%
PDB header:protein binding
Chain: B: PDB Molecule:anopheles plasmodium-responsive leucine-rich repeat protein
PDBTitle: crystal structure of lrim1/apl1c complex

Phyre2
2 |
| c3ghgK_ |

### PDB 3ghg chain K

Region: 1 - 122
Aligned: 122
Modelled: 122
Confidence: 96.3%
Identity: 7%
PDB header:blood clotting
Chain: K: PDB Molecule:fibrinogen beta chain;
PDBTitle: crystal structure of human fibrinogen

Phyre2
3 |
| c1deqO_ |

### PDB 1deq chain O

Region: 18 - 125
Aligned: 108
Modelled: 108
Confidence: 93.6%
Identity: 9%
PDB header:
PDB COMPND:

Phyre2
4 |
| c2efrB_ |

### PDB 2efr chain B

Region: 19 - 178
Aligned: 151
Modelled: 155
Confidence: 93.2%
Identity: 13%
PDB header:contractile protein
Chain: B: PDB Molecule:general control protein gcn4 and tropomyosin 1 alpha chain;
PDBTitle: crystal structure of the c-terminal tropomyosin fragment with n- and2 c-terminal extensions of the leucine zipper at 1.8 angstroms3 resolution

Phyre2
5 |
| c1ei3E_ |

### PDB 1ei3 chain E

Region: 11 - 122
Aligned: 112
Modelled: 112
Confidence: 92.9%
Identity: 10%
PDB header:
PDB COMPND:

Phyre2
6 |
| c2d3eD_ |

### PDB 2d3e chain D

Region: 24 - 150
Aligned: 127
Modelled: 127
Confidence: 92.8%
Identity: 13%
PDB header:contractile protein
Chain: D: PDB Molecule:general control protein gcn4 and tropomyosin 1
PDBTitle: crystal structure of the c-terminal fragment of rabbit2 skeletal alpha-tropomyosin

Phyre2
7 |
| c2fxmB_ |

### PDB 2fxm chain B

Region: 29 - 143
Aligned: 110
Modelled: 110
Confidence: 92.4%
Identity: 14%
PDB header:contractile protein
Chain: B: PDB Molecule:myosin heavy chain, cardiac muscle beta isoform;
PDBTitle: structure of the human beta-myosin s2 fragment

Phyre2
8 |
| c2b9cA_ |

### PDB 2b9c chain A

Region: 19 - 150
Aligned: 127
Modelled: 132
Confidence: 91.1%
Identity: 14%
PDB header:contractile protein
Chain: A: PDB Molecule:striated-muscle alpha tropomyosin;
PDBTitle: structure of tropomyosin's mid-region: bending and binding2 sites for actin

Phyre2
9 |
| c1deqF_ |

### PDB 1deq chain F

Region: 20 - 129
Aligned: 109
Modelled: 110
Confidence: 90.6%
Identity: 13%
PDB header:
PDB COMPND:

Phyre2
10 |
| c2rd0B_ |

### PDB 2rd0 chain B

Region: 29 - 151
Aligned: 123
Modelled: 123
Confidence: 89.9%
Identity: 12%
PDB header:transferase/oncoprotein
Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit alpha;
PDBTitle: structure of a human p110alpha/p85alpha complex

Phyre2
11 |
| c3o0zD_ |

### PDB 3o0z chain D

Region: 24 - 181
Aligned: 153
Modelled: 153
Confidence: 88.5%
Identity: 12%
PDB header:transferase
Chain: D: PDB Molecule:rho-associated protein kinase 1;
PDBTitle: crystal structure of a coiled-coil domain from human rock i

Phyre2
12 |
| c3na7A_ |

### PDB 3na7 chain A

Region: 1 - 182
Aligned: 182
Modelled: 182
Confidence: 87.9%
Identity: 12%
PDB header:gene regulation, chaperone
Chain: A: PDB Molecule:hp0958;
PDBTitle: 2.2 angstrom structure of the hp0958 protein from helicobacter pylori2 ccug 17874

Phyre2
13 |
| c1bf5A_ |

### PDB 1bf5 chain A

Region: 17 - 182
Aligned: 162
Modelled: 166
Confidence: 85.4%
Identity: 8%
PDB header:gene regulation/dna
Chain: A: PDB Molecule:signal transducer and activator of transcription
PDBTitle: tyrosine phosphorylated stat-1/dna complex

Phyre2
14 |
| c3ojaA_ |

### PDB 3oja chain A

Region: 12 - 175
Aligned: 160
Modelled: 164
Confidence: 85.4%
Identity: 10%
PDB header:protein binding
Chain: A: PDB Molecule:leucine-rich immune molecule 1;
PDBTitle: crystal structure of lrim1/apl1c complex

Phyre2
15 |
| c3cwgA_ |

### PDB 3cwg chain A

Region: 31 - 192
Aligned: 162
Modelled: 162
Confidence: 83.4%
Identity: 10%
PDB header:transcription
Chain: A: PDB Molecule:signal transducer and activator of transcription
PDBTitle: unphosphorylated mouse stat3 core fragment

Phyre2
16 |
| c1ciiA_ |

### PDB 1cii chain A

Region: 11 - 219
Aligned: 208
Modelled: 209
Confidence: 80.5%
Identity: 10%
PDB header:transmembrane protein
Chain: A: PDB Molecule:colicin ia;
PDBTitle: colicin ia

Phyre2
17 |
| c2v71A_ |

### PDB 2v71 chain A

Region: 9 - 156
Aligned: 147
Modelled: 148
Confidence: 80.0%
Identity: 10%
PDB header:nuclear protein
Chain: A: PDB Molecule:nuclear distribution protein nude-like 1;
PDBTitle: coiled-coil region of nudel

Phyre2
18 |
| c1l8dB_ |

### PDB 1l8d chain B

Region: 29 - 129
Aligned: 101
Modelled: 101
Confidence: 79.9%
Identity: 10%
PDB header:replication
Chain: B: PDB Molecule:dna double-strand break repair rad50 atpase;
PDBTitle: rad50 coiled-coil zn hook

Phyre2
19 |
| c4a55B_ |

### PDB 4a55 chain B

Region: 26 - 150
Aligned: 125
Modelled: 125
Confidence: 79.2%
Identity: 13%
PDB header:transferase
Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit alpha;
PDBTitle: crystal structure of p110alpha in complex with ish2 of p85alpha and2 the inhibitor pik-108

Phyre2
20 |
| c3dtpA_ |

### PDB 3dtp chain A

Region: 28 - 150
Aligned: 118
Modelled: 118
Confidence: 70.7%
Identity: 13%
PDB header:contractile protein
Chain: A: PDB Molecule:myosin 2 heavy chain chimera of smooth and
PDBTitle: tarantula heavy meromyosin obtained by flexible docking to2 tarantula muscle thick filament cryo-em 3d-map

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 |
52 |
53 |
54 |
55 |
56 |
57 |
58 |
59 |
60 |
61 |
62 |
63 |
64 |
65 |
66 |
67 |
68 |
69 |
70 |
71 |
72 |
73 |
74 |
75 |
76 |
77 |
78 |
79 |
80 |
81 |
82 |
83 |
84 |
85 |
86 |
87 |
88 |
89 |
90 |
91 |
92 |
93 |
94 |
95 |
96 |
97 |
98 |
99 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c3ojaB_ |
|  | 96.4 | 13 | PDB header:protein binding Chain: B: PDB Molecule:anopheles plasmodium-responsive leucine-rich repeat protein PDBTitle: crystal structure of lrim1/apl1c complex
2 | c3ghgK_ |
|  | 96.3 | 7 | PDB header:blood clotting Chain: K: PDB Molecule:fibrinogen beta chain; PDBTitle: crystal structure of human fibrinogen
3 | c1deqO_ |
|  | 93.6 | 9 | PDB header: PDB COMPND:
4 | c2efrB_ |
|  | 93.2 | 13 | PDB header:contractile protein Chain: B: PDB Molecule:general control protein gcn4 and tropomyosin 1 alpha chain; PDBTitle: crystal structure of the c-terminal tropomyosin fragment with n- and2 c-terminal extensions of the leucine zipper at 1.8 angstroms3 resolution
5 | c1ei3E_ |
|  | 92.9 | 10 | PDB header: PDB COMPND:
6 | c2d3eD_ |
|  | 92.8 | 13 | PDB header:contractile protein Chain: D: PDB Molecule:general control protein gcn4 and tropomyosin 1 PDBTitle: crystal structure of the c-terminal fragment of rabbit2 skeletal alpha-tropomyosin
7 | c2fxmB_ |
|  | 92.4 | 14 | PDB header:contractile protein Chain: B: PDB Molecule:myosin heavy chain, cardiac muscle beta isoform; PDBTitle: structure of the human beta-myosin s2 fragment
8 | c2b9cA_ |
|  | 91.1 | 14 | PDB header:contractile protein Chain: A: PDB Molecule:striated-muscle alpha tropomyosin; PDBTitle: structure of tropomyosin's mid-region: bending and binding2 sites for actin
9 | c1deqF_ |
|  | 90.6 | 13 | PDB header: PDB COMPND:
10 | c2rd0B_ |
|  | 89.9 | 12 | PDB header:transferase/oncoprotein Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit alpha; PDBTitle: structure of a human p110alpha/p85alpha complex
11 | c3o0zD_ |
|  | 88.5 | 12 | PDB header:transferase Chain: D: PDB Molecule:rho-associated protein kinase 1; PDBTitle: crystal structure of a coiled-coil domain from human rock i
12 | c3na7A_ |
|  | 87.9 | 12 | PDB header:gene regulation, chaperone Chain: A: PDB Molecule:hp0958; PDBTitle: 2.2 angstrom structure of the hp0958 protein from helicobacter pylori2 ccug 17874
13 | c1bf5A_ |
|  | 85.4 | 8 | PDB header:gene regulation/dna Chain: A: PDB Molecule:signal transducer and activator of transcription PDBTitle: tyrosine phosphorylated stat-1/dna complex
14 | c3ojaA_ |
|  | 85.4 | 10 | PDB header:protein binding Chain: A: PDB Molecule:leucine-rich immune molecule 1; PDBTitle: crystal structure of lrim1/apl1c complex
15 | c3cwgA_ |
|  | 83.4 | 10 | PDB header:transcription Chain: A: PDB Molecule:signal transducer and activator of transcription PDBTitle: unphosphorylated mouse stat3 core fragment
16 | c1ciiA_ |
|  | 80.5 | 10 | PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia
17 | c2v71A_ |
|  | 80.0 | 10 | PDB header:nuclear protein Chain: A: PDB Molecule:nuclear distribution protein nude-like 1; PDBTitle: coiled-coil region of nudel
18 | c1l8dB_ |
|  | 79.9 | 10 | PDB header:replication Chain: B: PDB Molecule:dna double-strand break repair rad50 atpase; PDBTitle: rad50 coiled-coil zn hook
19 | c4a55B_ |
|  | 79.2 | 13 | PDB header:transferase Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit alpha; PDBTitle: crystal structure of p110alpha in complex with ish2 of p85alpha and2 the inhibitor pik-108
20 | c3dtpA_ |
|  | 70.7 | 13 | PDB header:contractile protein Chain: A: PDB Molecule:myosin 2 heavy chain chimera of smooth and PDBTitle: tarantula heavy meromyosin obtained by flexible docking to2 tarantula muscle thick filament cryo-em 3d-map
21 | c3ipkA_ |
| not modelled | 69.5 | 16 | PDB header:cell adhesion Chain: A: PDB Molecule:agi/ii; PDBTitle: crystal structure of a3vp1 of agi/ii of streptococcus mutans
22 | c1y4cA_ |
| not modelled | 67.9 | 7 | PDB header:de novo protein Chain: A: PDB Molecule:maltose binding protein fused with designed PDBTitle: designed helical protein fusion mbp
23 | c3hizB_ |
| not modelled | 66.7 | 15 | PDB header:transferase/oncoprotein Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit PDBTitle: crystal structure of p110alpha h1047r mutant in complex with2 nish2 of p85alpha
24 | d1vmaa1 |
| not modelled | 66.1 | 13 | Fold:Four-helical up-and-down bundle Superfamily:Domain of the SRP/SRP receptor G-proteins Family:Domain of the SRP/SRP receptor G-proteins
25 | c3ol1A_ |
| not modelled | 64.0 | 11 | PDB header:structural protein Chain: A: PDB Molecule:vimentin; PDBTitle: crystal structure of vimentin (fragment 144-251) from homo sapiens,2 northeast structural genomics consortium target hr4796b
26 | c3u59C_ |
| not modelled | 63.5 | 12 | PDB header:contractile protein Chain: C: PDB Molecule:tropomyosin beta chain; PDBTitle: n-terminal 98-aa fragment of smooth muscle tropomyosin beta
27 | c1c1gA_ |
| not modelled | 59.8 | 14 | PDB header:contractile protein Chain: A: PDB Molecule:tropomyosin; PDBTitle: crystal structure of tropomyosin at 7 angstroms resolution2 in the spermine-induced crystal form
28 | c3iv1F_ |
| not modelled | 57.8 | 11 | PDB header:hydrolase Chain: F: PDB Molecule:tumor susceptibility gene 101 protein; PDBTitle: coiled-coil domain of tumor susceptibility gene 101
29 | c2jeeA_ |
| not modelled | 53.2 | 19 | PDB header:cell cycle Chain: A: PDB Molecule:yiiu; PDBTitle: xray structure of e. coli yiiu
30 | c1ei3C_ |
| not modelled | 52.4 | 15 | PDB header: PDB COMPND:
31 | c2v66C_ |
| not modelled | 52.2 | 7 | PDB header:structural protein Chain: C: PDB Molecule:nuclear distribution protein nude-like 1; PDBTitle: crystal structure of the coiled-coil domain of ndel1 (a.a.2 58 to 169)c
32 | c1bg1A_ |
| not modelled | 51.7 | 12 | PDB header:transcription/dna Chain: A: PDB Molecule:protein (transcription factor stat3b); PDBTitle: transcription factor stat3b/dna complex
33 | c3hnwB_ |
| not modelled | 43.5 | 12 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a basic coiled-coil protein of unknown function2 from eubacterium eligens atcc 27750
34 | c1deqD_ |
| not modelled | 42.5 | 5 | PDB header: PDB COMPND:
35 | c2gl2B_ |
| not modelled | 42.2 | 13 | PDB header:cell adhesion Chain: B: PDB Molecule:adhesion a; PDBTitle: crystal structure of the tetra muntant (t66g,r67g,f68g,2 y69g) of bacterial adhesin fada
36 | c2y3aB_ |
| not modelled | 42.2 | 12 | PDB header:transferase Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit beta; PDBTitle: crystal structure of p110beta in complex with icsh2 of p85beta and2 the drug gdc-0941
37 | c2v1yB_ |
| not modelled | 37.9 | 13 | PDB header:transferase Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit alpha; PDBTitle: structure of a phosphoinositide 3-kinase alpha adaptor-2 binding domain (abd) in a complex with the ish2 domain3 from p85 alpha
38 | c3movB_ |
| not modelled | 35.7 | 11 | PDB header:structural protein Chain: B: PDB Molecule:lamin-b1; PDBTitle: crystal structure of human lamin-b1 coil 2 segment
39 | c3kltB_ |
| not modelled | 33.8 | 7 | PDB header:structural protein Chain: B: PDB Molecule:vimentin; PDBTitle: crystal structure of a vimentin fragment
40 | c3u1aC_ |
| not modelled | 31.6 | 9 | PDB header:contractile protein Chain: C: PDB Molecule:smooth muscle tropomyosin alpha; PDBTitle: n-terminal 81-aa fragment of smooth muscle tropomyosin alpha
41 | c1yvlB_ |
| not modelled | 29.1 | 12 | PDB header:signaling protein Chain: B: PDB Molecule:signal transducer and activator of transcription PDBTitle: structure of unphosphorylated stat1
42 | c1gk4A_ |
| not modelled | 28.3 | 11 | PDB header:vimentin Chain: A: PDB Molecule:vimentin; PDBTitle: human vimentin coil 2b fragment (cys2)
43 | d1fxka_ |
| not modelled | 27.9 | 13 | Fold:Long alpha-hairpin Superfamily:Prefoldin Family:Prefoldin
44 | d2gqba1 |
| not modelled | 25.3 | 27 | Fold:RPA2825-like Superfamily:RPA2825-like Family:RPA2825-like
45 | c3a7pB_ |
| not modelled | 21.9 | 9 | PDB header:protein transport Chain: B: PDB Molecule:autophagy protein 16; PDBTitle: the crystal structure of saccharomyces cerevisiae atg16
46 | c1vmaA_ |
| not modelled | 21.7 | 13 | PDB header:protein transport Chain: A: PDB Molecule:cell division protein ftsy; PDBTitle: crystal structure of cell division protein ftsy (tm0570) from2 thermotoga maritima at 1.60 a resolution
47 | c1x8yA_ |
| not modelled | 18.7 | 10 | PDB header:structural protein Chain: A: PDB Molecule:lamin a/c; PDBTitle: human lamin coil 2b
48 | d1r05a_ |
| not modelled | 17.4 | 16 | Fold:HLH-like Superfamily:HLH, helix-loop-helix DNA-binding domain Family:HLH, helix-loop-helix DNA-binding domain
49 | d2daha1 |
| not modelled | 16.9 | 36 | Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain
50 | d2bwba1 |
| not modelled | 15.6 | 18 | Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain
51 | c1jchC_ |
| not modelled | 15.4 | 7 | PDB header:ribosome inhibitor, hydrolase Chain: C: PDB Molecule:colicin e3; PDBTitle: crystal structure of colicin e3 in complex with its immunity protein
52 | c2xdjF_ |
| not modelled | 14.3 | 9 | PDB header:unknown function Chain: F: PDB Molecule:uncharacterized protein ybgf; PDBTitle: crystal structure of the n-terminal domain of e.coli ybgf
53 | c1junB_ |
| not modelled | 13.6 | 17 | PDB header:transcription regulation Chain: B: PDB Molecule:c-jun homodimer; PDBTitle: nmr study of c-jun homodimer
54 | c2zvfG_ |
| not modelled | 13.4 | 13 | PDB header:ligase Chain: G: PDB Molecule:alanyl-trna synthetase; PDBTitle: crystal structure of archaeoglobus fulgidus alanyl-trna2 synthetase c-terminal dimerization domain
55 | c3n4xB_ |
| not modelled | 13.4 | 10 | PDB header:replication Chain: B: PDB Molecule:monopolin complex subunit csm1; PDBTitle: structure of csm1 full-length
56 | c1m1jA_ |
| not modelled | 13.4 | 13 | PDB header:blood clotting Chain: A: PDB Molecule:fibrinogen alpha subunit; PDBTitle: crystal structure of native chicken fibrinogen with two different2 bound ligands
57 | c2dnaA_ |
| not modelled | 12.7 | 32 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:unnamed protein product; PDBTitle: solution structure of rsgi ruh-056, a uba domain from mouse2 cdna
58 | c2qa7B_ |
| not modelled | 11.7 | 13 | PDB header:actin binding Chain: B: PDB Molecule:huntingtin-interacting protein 1; PDBTitle: crystal structure of huntingtin-interacting protein 12 (hip1) coiled-coil domain with a basic surface suitable3 for hip-protein interactor (hippi)
59 | c1gk7A_ |
| not modelled | 11.6 | 20 | PDB header:vimentin Chain: A: PDB Molecule:vimentin; PDBTitle: human vimentin coil 1a fragment (1a)
60 | d2cp8a1 |
| not modelled | 11.2 | 50 | Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain
61 | c3qh9A_ |
| not modelled | 11.2 | 14 | PDB header:structural protein Chain: A: PDB Molecule:liprin-beta-2; PDBTitle: human liprin-beta2 coiled-coil
62 | c3he4A_ |
| not modelled | 10.9 | 14 | PDB header:de novo protein Chain: A: PDB Molecule:synzip6; PDBTitle: heterospecific coiled-coil pair synzip5:synzip6
63 | c3m9bK_ |
| not modelled | 10.4 | 10 | PDB header:chaperone Chain: K: PDB Molecule:proteasome-associated atpase; PDBTitle: crystal structure of the amino terminal coiled coil domain and the2 inter domain of the mycobacterium tuberculosis proteasomal atpase mpa
64 | c1ic2B_ |
| not modelled | 9.8 | 19 | PDB header:contractile protein Chain: B: PDB Molecule:tropomyosin alpha chain, skeletal muscle; PDBTitle: deciphering the design of the tropomyosin molecule
65 | d1z0kb1 |
| not modelled | 9.7 | 9 | Fold:Long alpha-hairpin Superfamily:Rabenosyn-5 Rab-binding domain-like Family:Rabenosyn-5 Rab-binding domain-like
66 | c1ci6A_ |
| not modelled | 9.7 | 12 | PDB header:transcription Chain: A: PDB Molecule:transcription factor atf-4; PDBTitle: transcription factor atf4-c/ebp beta bzip heterodimer
67 | c2jy5A_ |
| not modelled | 9.7 | 40 | PDB header:signaling protein Chain: A: PDB Molecule:ubiquilin-1; PDBTitle: nmr structure of ubiquilin 1 uba domain
68 | c1fosF_ |
| not modelled | 9.6 | 10 | PDB header:transcription/dna Chain: F: PDB Molecule:c-jun proto-oncogene protein; PDBTitle: two human c-fos:c-jun:dna complexes
69 | c2hpcF_ |
| not modelled | 9.3 | 12 | PDB header:blood clotting Chain: F: PDB Molecule:fibrinogen, gamma polypeptide; PDBTitle: crystal structure of fragment d from human fibrinogen complexed with2 gly-pro-arg-pro-amide.
70 | c1sjjB_ |
| not modelled | 9.2 | 6 | PDB header:contractile protein Chain: B: PDB Molecule:actinin; PDBTitle: cryo-em structure of chicken gizzard smooth muscle alpha-2 actinin
71 | c2wukD_ |
| not modelled | 9.2 | 18 | PDB header:cell cycle Chain: D: PDB Molecule:septum site-determining protein diviva; PDBTitle: diviva n-terminal domain, f17a mutant
72 | c3layF_ |
| not modelled | 9.0 | 11 | PDB header:metal binding protein Chain: F: PDB Molecule:zinc resistance-associated protein; PDBTitle: alpha-helical barrel formed by the decamer of the zinc resistance-2 associated protein (stm4172) from salmonella enterica subsp. enterica3 serovar typhimurium str. lt2
73 | d1lvfa_ |
| not modelled | 8.9 | 18 | Fold:STAT-like Superfamily:t-snare proteins Family:t-snare proteins
74 | c3p8cD_ |
| not modelled | 8.8 | 10 | PDB header:protein binding Chain: D: PDB Molecule:wiskott-aldrich syndrome protein family member 1; PDBTitle: structure and control of the actin regulatory wave complex
75 | c2kxoA_ |
| not modelled | 8.8 | 14 | PDB header:cell cycle Chain: A: PDB Molecule:cell division topological specificity factor; PDBTitle: solution nmr structure of the cell division regulator mine protein2 from neisseria gonorrhoeae
76 | c1jccC_ |
| not modelled | 8.7 | 13 | PDB header:membrane protein Chain: C: PDB Molecule:major outer membrane lipoprotein; PDBTitle: crystal structure of a novel alanine-zipper trimer at 1.7 a2 resolution, v13a,l16a,v20a,l23a,v27a,m30a,v34a mutations
77 | c1gd2G_ |
| not modelled | 8.6 | 15 | PDB header:transcription/dna Chain: G: PDB Molecule:transcription factor pap1; PDBTitle: crystal structure of bzip transcription factor pap1 bound2 to dna
78 | d2dnaa1 |
| not modelled | 8.6 | 30 | Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain
79 | d1fxkc_ |
| not modelled | 8.5 | 19 | Fold:Long alpha-hairpin Superfamily:Prefoldin Family:Prefoldin
80 | c3og02_ |
| not modelled | 8.4 | 33 | PDB header:ribosome Chain: 2: PDB Molecule:50s ribosomal protein l34; PDBTitle: crystal structure of the e. coli ribosome bound to clindamycin. this2 file contains the 50s subunit of the second 70s ribosome.
81 | c1t2kD_ |
| not modelled | 8.4 | 15 | PDB header:transcription/dna Chain: D: PDB Molecule:cyclic-amp-dependent transcription factor atf-2; PDBTitle: structure of the dna binding domains of irf3, atf-2 and jun2 bound to dna
82 | c1novE_ |
| not modelled | 8.3 | 21 | PDB header:virus Chain: E: PDB Molecule:nodamura virus coat proteins; PDBTitle: nodamura virus
83 | d1k8ib2 |
| not modelled | 8.1 | 38 | Fold:MHC antigen-recognition domain Superfamily:MHC antigen-recognition domain Family:MHC antigen-recognition domain
84 | c1htmB_ |
| not modelled | 8.1 | 13 | PDB header:viral protein Chain: B: PDB Molecule:hemagglutinin ha2 chain; PDBTitle: structure of influenza haemagglutinin at the ph of membrane2 fusion
85 | c3qw3B_ |
| not modelled | 8.1 | 17 | PDB header:transferase, lyase Chain: B: PDB Molecule:orotidine-5-phosphate decarboxylase/orotate PDBTitle: structure of leishmania donovani omp decarboxylase
86 | c2dahA_ |
| not modelled | 8.1 | 40 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:ubiquilin-3; PDBTitle: solution structure of the c-terminal uba domain in the2 human ubiquilin 3
87 | d1yzma1 |
| not modelled | 8.1 | 8 | Fold:Long alpha-hairpin Superfamily:Rabenosyn-5 Rab-binding domain-like Family:Rabenosyn-5 Rab-binding domain-like
88 | c2zdiC_ |
| not modelled | 8.0 | 13 | PDB header:chaperone Chain: C: PDB Molecule:prefoldin subunit alpha; PDBTitle: crystal structure of prefoldin from pyrococcus horikoshii2 ot3
89 | c2no2A_ |
| not modelled | 7.9 | 14 | PDB header:cell adhesion Chain: A: PDB Molecule:huntingtin-interacting protein 1; PDBTitle: crystal structure of the dllrkn-containing coiled-coil2 domain of huntingtin-interacting protein 1
90 | c3cvfA_ |
| not modelled | 7.7 | 18 | PDB header:signaling protein Chain: A: PDB Molecule:homer protein homolog 3; PDBTitle: crystal structure of the carboxy terminus of homer3
91 | c3orb2_ |
| not modelled | 7.7 | 33 | PDB header:ribosome Chain: 2: PDB Molecule:50s ribosomal protein l34; PDBTitle: crystal structure of the e. coli ribosome bound to cem-101. this file2 contains the 50s subunit of the first 70s ribosome bound to cem-101.
92 | c3onjA_ |
| not modelled | 7.6 | 13 | PDB header:protein transport Chain: A: PDB Molecule:t-snare vti1; PDBTitle: crystal structure of yeast vti1p_habc domain
93 | c3g67A_ |
| not modelled | 7.6 | 11 | PDB header:signaling protein Chain: A: PDB Molecule:methyl-accepting chemotaxis protein; PDBTitle: crystal structure of a soluble chemoreceptor from thermotoga2 maritima
94 | c2cwbA_ |
| not modelled | 7.5 | 30 | PDB header:protein binding Chain: A: PDB Molecule:chimera of immunoglobulin g binding protein g PDBTitle: solution structure of the ubiquitin-associated domain of2 human bmsc-ubp and its complex with ubiquitin
95 | d1khia2 |
| not modelled | 7.5 | 10 | Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like
96 | c1kddC_ |
| not modelled | 7.4 | 19 | PDB header:de novo protein Chain: C: PDB Molecule:gcn4 acid base heterodimer acid-d12la16i; PDBTitle: x-ray structure of the coiled coil gcn4 acid base2 heterodimer acid-d12la16i base-d12la16l
97 | d1vcsa1 |
| not modelled | 7.4 | 7 | Fold:STAT-like Superfamily:t-snare proteins Family:t-snare proteins
98 | c1wr1B_ |
| not modelled | 7.3 | 30 | PDB header:signaling protein Chain: B: PDB Molecule:ubiquitin-like protein dsk2; PDBTitle: the complex sturcture of dsk2p uba with ubiquitin
99 | d1veja1 |
| not modelled | 7.3 | 30 | Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain

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