Phyre 2 Results for P0A8U0

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Email | l.a.kelley@imperial.ac.uk
Description | P0A8U0
Date | Thu Jan 5 11:08:44 GMT 2012
Unique Job ID | 34463450d2d53420

Summary |

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

Model (left) based on template c3ffvA_
Top template information
PDB header:protein binding Chain: A: PDB Molecule:protein syd; PDBTitle: crystal structure analysis of syd
Confidence and coverage
Confidence: | 100.0% | Coverage: | 100%
181 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 | D | D | L | T | A | Q | A | L | K | D | F | T | A | R | Y | C | D | A | W | H | E | E | H | K | S | W | P | L | S | E | E | L | Y | G | V | P | S | P | C | I | I | S | T | T | E | D | A | V | Y | W | Q | P | Q | P | F | T | G | E | Q
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | N | V | N | A | V | E | R | A | F | D | I | V | I | Q | P | T | I | H | T | F | Y | T | T | Q | F | A | G | D | M | H | A | Q | F | G | D | I | K | L | T | L | L | Q | T | W | S | E | D | D | F | R | R | V | Q | E | N | L | I | G | H | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | V | T | Q | K | R | L | K | L | P | P | T | L | F | I | A | T | L | E | E | E | L | E | V | I | S | V | C | N | L | S | G | E | V | C | K | E | T | L | G | T | R | K | R | T | H | L | A | S | N | L | A | E | F | L | N | Q | L | K | P | L
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ?
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | .
Sequence |  | 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 |
| c3ffvA_ |

### PDB 3ffv chain A

Region: 1 - 181
Aligned: 181
Modelled: 181
Confidence: 100.0%
Identity: 100%
PDB header:protein binding
Chain: A: PDB Molecule:protein syd;
PDBTitle: crystal structure analysis of syd

Phyre2
2 |
| c3d5pB_ |

### PDB 3d5p chain B

Region: 51 - 177
Aligned: 116
Modelled: 127
Confidence: 97.7%
Identity: 13%
PDB header:gene regulation
Chain: B: PDB Molecule:putative glucan synthesis regulator of smi1/knr4 family;
PDBTitle: crystal structure of a putative glucan synthesis regulator of2 smi1/knr4 family (bf1740) from bacteroides fragilis nctc 9343 at 1.453 a resolution

Phyre2
3 |
| d2prva1 |

### PDB 2prv chain A domain 1

Region: 62 - 177
Aligned: 104
Modelled: 112
Confidence: 97.1%
Identity: 10%
Fold: SMI1/KNR4-like
Superfamily: SMI1/KNR4-like
Family: SMI1/KNR4-like

Phyre2
4 |
| d2icga1 |

### PDB 2icg chain A domain 1

Region: 51 - 177
Aligned: 121
Modelled: 127
Confidence: 96.2%
Identity: 11%
Fold: SMI1/KNR4-like
Superfamily: SMI1/KNR4-like
Family: SMI1/KNR4-like

Phyre2
5 |
| d2paga1 |

### PDB 2pag chain A domain 1

Region: 53 - 176
Aligned: 110
Modelled: 124
Confidence: 83.0%
Identity: 15%
Fold: SMI1/KNR4-like
Superfamily: SMI1/KNR4-like
Family: SMI1/KNR4-like

Phyre2
6 |
| c1hf9B_ |

### PDB 1hf9 chain B

Region: 108 - 130
Aligned: 23
Modelled: 23
Confidence: 32.2%
Identity: 26%
PDB header:atpase inhibitor
Chain: B: PDB Molecule:atpase inhibitor (mitochondrial);
PDBTitle: c-terminal coiled-coil domain from bovine if1

Phyre2
7 |
| c1z5sD_ |

### PDB 1z5s chain D

Region: 124 - 142
Aligned: 19
Modelled: 19
Confidence: 30.0%
Identity: 53%
PDB header:ligase
Chain: D: PDB Molecule:ran-binding protein 2;
PDBTitle: crystal structure of a complex between ubc9, sumo-1,2 rangap1 and nup358/ranbp2

Phyre2
8 |
| c3o27B_ |

### PDB 3o27 chain B

Region: 135 - 155
Aligned: 21
Modelled: 21
Confidence: 28.5%
Identity: 5%
PDB header:dna binding protein
Chain: B: PDB Molecule:putative uncharacterized protein;
PDBTitle: the crystal structure of c68 from the hybrid virus-plasmid pssvx

Phyre2
9 |
| d2bv3a4 |

### PDB 2bv3 chain A domain 4

Region: 130 - 159
Aligned: 30
Modelled: 30
Confidence: 23.6%
Identity: 17%
Fold: Ferredoxin-like
Superfamily: EF-G C-terminal domain-like
Family: EF-G/eEF-2 domains III and V

Phyre2
10 |
| c2wryA_ |

### PDB 2wry chain A

Region: 130 - 152
Aligned: 23
Modelled: 23
Confidence: 20.1%
Identity: 22%
PDB header:immune system
Chain: A: PDB Molecule:interleukin-1beta;
PDBTitle: crystal structure of chicken cytokine interleukin 1 beta

Phyre2
11 |
| d1e2wa2 |

### PDB 1e2w chain A domain 2

Region: 137 - 162
Aligned: 26
Modelled: 26
Confidence: 19.3%
Identity: 15%
Fold: Barrel-sandwich hybrid
Superfamily: Rudiment single hybrid motif
Family: Cytochrome f, small domain

Phyre2
12 |
| d1ci3m2 |

### PDB 1ci3 chain M domain 2

Region: 134 - 162
Aligned: 29
Modelled: 29
Confidence: 17.2%
Identity: 10%
Fold: Barrel-sandwich hybrid
Superfamily: Rudiment single hybrid motif
Family: Cytochrome f, small domain

Phyre2
13 |
| c3kepA_ |

### PDB 3kep chain A

Region: 97 - 152
Aligned: 47
Modelled: 56
Confidence: 16.4%
Identity: 17%
PDB header:protein transport, rna binding protein
Chain: A: PDB Molecule:nucleoporin nup145;
PDBTitle: crystal structure of the autoproteolytic domain from the2 nuclear pore complex component nup145 from saccharomyces3 cerevisiae

Phyre2
14 |
| c1q2lA_ |

### PDB 1q2l chain A

Region: 53 - 177
Aligned: 119
Modelled: 125
Confidence: 14.3%
Identity: 13%
PDB header:hydrolase
Chain: A: PDB Molecule:protease iii;
PDBTitle: crystal structure of pitrilysin

Phyre2
15 |
| c2jbuB_ |

### PDB 2jbu chain B

Region: 62 - 177
Aligned: 110
Modelled: 116
Confidence: 13.9%
Identity: 12%
PDB header:hydrolase
Chain: B: PDB Molecule:insulin-degrading enzyme;
PDBTitle: crystal structure of human insulin degrading enzyme2 complexed with co-purified peptides.

Phyre2
16 |
| c3dx5A_ |

### PDB 3dx5 chain A

Region: 151 - 175
Aligned: 25
Modelled: 25
Confidence: 12.2%
Identity: 16%
PDB header:lyase
Chain: A: PDB Molecule:uncharacterized protein asbf;
PDBTitle: crystal structure of the probable 3-dhs dehydratase asbf involved in2 the petrobactin synthesis from bacillus anthracis

Phyre2
17 |
| c2wk3A_ |

### PDB 2wk3 chain A

Region: 62 - 177
Aligned: 110
Modelled: 116
Confidence: 11.7%
Identity: 12%
PDB header:hydrolase
Chain: A: PDB Molecule:insulin degrading enzyme;
PDBTitle: crystal structure of human insulin-degrading enzyme in2 complex with amyloid-beta (1-42)

Phyre2
18 |
| d1j83a_ |

### PDB 1j83 chain A

Region: 132 - 150
Aligned: 16
Modelled: 19
Confidence: 11.5%
Identity: 31%
Fold: Galactose-binding domain-like
Superfamily: Galactose-binding domain-like
Family: Family 17 carbohydrate binding module, CBM17

Phyre2
19 |
| c3lgeF_ |

### PDB 3lge chain F

Region: 31 - 39
Aligned: 9
Modelled: 9
Confidence: 11.4%
Identity: 11%
PDB header:lyase/protein binding
Chain: F: PDB Molecule:sorting nexin-9;
PDBTitle: crystal structure of rabbit muscle aldolase-snx9 lc4 complex

Phyre2
20 |
| c3lgeG_ |

### PDB 3lge chain G

Region: 31 - 39
Aligned: 9
Modelled: 9
Confidence: 11.4%
Identity: 11%
PDB header:lyase/protein binding
Chain: G: PDB Molecule:sorting nexin-9;
PDBTitle: crystal structure of rabbit muscle aldolase-snx9 lc4 complex

Phyre2
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59 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c3ffvA_ |
|  | 100.0 | 100 | PDB header:protein binding Chain: A: PDB Molecule:protein syd; PDBTitle: crystal structure analysis of syd
2 | c3d5pB_ |
|  | 97.7 | 13 | PDB header:gene regulation Chain: B: PDB Molecule:putative glucan synthesis regulator of smi1/knr4 family; PDBTitle: crystal structure of a putative glucan synthesis regulator of2 smi1/knr4 family (bf1740) from bacteroides fragilis nctc 9343 at 1.453 a resolution
3 | d2prva1 |
|  | 97.1 | 10 | Fold:SMI1/KNR4-like Superfamily:SMI1/KNR4-like Family:SMI1/KNR4-like
4 | d2icga1 |
|  | 96.2 | 11 | Fold:SMI1/KNR4-like Superfamily:SMI1/KNR4-like Family:SMI1/KNR4-like
5 | d2paga1 |
|  | 83.0 | 15 | Fold:SMI1/KNR4-like Superfamily:SMI1/KNR4-like Family:SMI1/KNR4-like
6 | c1hf9B_ |
|  | 32.2 | 26 | PDB header:atpase inhibitor Chain: B: PDB Molecule:atpase inhibitor (mitochondrial); PDBTitle: c-terminal coiled-coil domain from bovine if1
7 | c1z5sD_ |
|  | 30.0 | 53 | PDB header:ligase Chain: D: PDB Molecule:ran-binding protein 2; PDBTitle: crystal structure of a complex between ubc9, sumo-1,2 rangap1 and nup358/ranbp2
8 | c3o27B_ |
|  | 28.5 | 5 | PDB header:dna binding protein Chain: B: PDB Molecule:putative uncharacterized protein; PDBTitle: the crystal structure of c68 from the hybrid virus-plasmid pssvx
9 | d2bv3a4 |
|  | 23.6 | 17 | Fold:Ferredoxin-like Superfamily:EF-G C-terminal domain-like Family:EF-G/eEF-2 domains III and V
10 | c2wryA_ |
|  | 20.1 | 22 | PDB header:immune system Chain: A: PDB Molecule:interleukin-1beta; PDBTitle: crystal structure of chicken cytokine interleukin 1 beta
11 | d1e2wa2 |
|  | 19.3 | 15 | Fold:Barrel-sandwich hybrid Superfamily:Rudiment single hybrid motif Family:Cytochrome f, small domain
12 | d1ci3m2 |
|  | 17.2 | 10 | Fold:Barrel-sandwich hybrid Superfamily:Rudiment single hybrid motif Family:Cytochrome f, small domain
13 | c3kepA_ |
|  | 16.4 | 17 | PDB header:protein transport, rna binding protein Chain: A: PDB Molecule:nucleoporin nup145; PDBTitle: crystal structure of the autoproteolytic domain from the2 nuclear pore complex component nup145 from saccharomyces3 cerevisiae
14 | c1q2lA_ |
|  | 14.3 | 13 | PDB header:hydrolase Chain: A: PDB Molecule:protease iii; PDBTitle: crystal structure of pitrilysin
15 | c2jbuB_ |
|  | 13.9 | 12 | PDB header:hydrolase Chain: B: PDB Molecule:insulin-degrading enzyme; PDBTitle: crystal structure of human insulin degrading enzyme2 complexed with co-purified peptides.
16 | c3dx5A_ |
|  | 12.2 | 16 | PDB header:lyase Chain: A: PDB Molecule:uncharacterized protein asbf; PDBTitle: crystal structure of the probable 3-dhs dehydratase asbf involved in2 the petrobactin synthesis from bacillus anthracis
17 | c2wk3A_ |
|  | 11.7 | 12 | PDB header:hydrolase Chain: A: PDB Molecule:insulin degrading enzyme; PDBTitle: crystal structure of human insulin-degrading enzyme in2 complex with amyloid-beta (1-42)
18 | d1j83a_ |
|  | 11.5 | 31 | Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:Family 17 carbohydrate binding module, CBM17
19 | c3lgeF_ |
|  | 11.4 | 11 | PDB header:lyase/protein binding Chain: F: PDB Molecule:sorting nexin-9; PDBTitle: crystal structure of rabbit muscle aldolase-snx9 lc4 complex
20 | c3lgeG_ |
|  | 11.4 | 11 | PDB header:lyase/protein binding Chain: G: PDB Molecule:sorting nexin-9; PDBTitle: crystal structure of rabbit muscle aldolase-snx9 lc4 complex
21 | c3d22A_ |
| not modelled | 11.2 | 25 | PDB header:oxidoreductase Chain: A: PDB Molecule:thioredoxin h-type; PDBTitle: crystal structure of a poplar thioredoxin h mutant,2 pttrxh4c61s
22 | d1ilr1_ |
| not modelled | 10.9 | 30 | Fold:beta-Trefoil Superfamily:Cytokine Family:Interleukin-1 (IL-1)
23 | c1m45B_ |
| not modelled | 10.6 | 25 | PDB header:cell cycle protein Chain: B: PDB Molecule:iq2 motif from myo2p, a class v myosin; PDBTitle: crystal structure of mlc1p bound to iq2 of myo2p, a class v2 myosin
24 | c2j57J_ |
| not modelled | 10.5 | 18 | PDB header:oxidoreductase Chain: J: PDB Molecule:methylamine dehydrogenase heavy chain; PDBTitle: x-ray reduced paraccocus denitrificans methylamine2 dehydrogenase n-quinol in complex with amicyanin.
25 | d2a6qb1 |
| not modelled | 10.5 | 14 | Fold:YefM-like Superfamily:YefM-like Family:YefM-like
26 | d1st9a_ |
| not modelled | 10.4 | 34 | Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Glutathione peroxidase-like
27 | d8i1ba_ |
| not modelled | 10.1 | 30 | Fold:beta-Trefoil Superfamily:Cytokine Family:Interleukin-1 (IL-1)
28 | d2bg1a1 |
| not modelled | 10.1 | 17 | Fold:beta-lactamase/transpeptidase-like Superfamily:beta-lactamase/transpeptidase-like Family:beta-Lactamase/D-ala carboxypeptidase
29 | c2kllA_ |
| not modelled | 10.0 | 33 | PDB header:cytokine Chain: A: PDB Molecule:interleukin-33; PDBTitle: solution structure of human interleukin-33
30 | c2hlwA_ |
| not modelled | 9.2 | 15 | PDB header:ligase, signaling protein Chain: A: PDB Molecule:ubiquitin-conjugating enzyme e2 variant 1; PDBTitle: solution structure of the human ubiquitin-conjugating2 enzyme variant uev1a
31 | c2a7oA_ |
| not modelled | 8.9 | 16 | PDB header:transcription Chain: A: PDB Molecule:huntingtin interacting protein b; PDBTitle: solution structure of the hset2/hypb sri domain
32 | d1smya1 |
| not modelled | 8.8 | 24 | Fold:DCoH-like Superfamily:RBP11-like subunits of RNA polymerase Family:RNA polymerase alpha subunit dimerisation domain
33 | d1md6a_ |
| not modelled | 8.0 | 17 | Fold:beta-Trefoil Superfamily:Cytokine Family:Interleukin-1 (IL-1)
34 | d2v0ea1 |
| not modelled | 7.8 | 16 | Fold:GYF/BRK domain-like Superfamily:BRK domain-like Family:BRK domain-like
35 | c3psiA_ |
| not modelled | 7.6 | 11 | PDB header:transcription Chain: A: PDB Molecule:transcription elongation factor spt6; PDBTitle: crystal structure of the spt6 core domain from saccharomyces2 cerevisiae, form spt6(239-1451)
36 | d1tu2b2 |
| not modelled | 7.6 | 26 | Fold:Barrel-sandwich hybrid Superfamily:Rudiment single hybrid motif Family:Cytochrome f, small domain
37 | c2nogA_ |
| not modelled | 7.1 | 6 | PDB header:dna binding protein Chain: A: PDB Molecule:iswi protein; PDBTitle: sant domain structure of xenopus remodeling factor iswi
38 | c3kh7A_ |
| not modelled | 7.0 | 18 | PDB header:oxidoreductase Chain: A: PDB Molecule:thiol:disulfide interchange protein dsbe; PDBTitle: crystal structure of the periplasmic soluble domain of reduced ccmg2 from pseudomonas aeruginosa
39 | c3iu6A_ |
| not modelled | 6.8 | 9 | PDB header:transcription Chain: A: PDB Molecule:protein polybromo-1; PDBTitle: crystal structure of the sixth bromodomain of human poly-bromodomain2 containing protein 1 (pb1)
40 | c2jciA_ |
| not modelled | 6.8 | 17 | PDB header:drug-binding protein Chain: A: PDB Molecule:penicillin-binding protein 1b; PDBTitle: structural insights into the catalytic mechanism and the2 role of streptococcus pneumoniae pbp1b
41 | c2j04C_ |
| not modelled | 6.6 | 13 | PDB header:transcription Chain: C: PDB Molecule:hypothetical protein ypl007c; PDBTitle: the tau60-tau91 subcomplex of yeast transcription factor2 iiic
42 | d1qy9a1 |
| not modelled | 6.1 | 20 | Fold:Diaminopimelate epimerase-like Superfamily:Diaminopimelate epimerase-like Family:PhzC/PhzF-like
43 | d1ii2a2 |
| not modelled | 6.0 | 32 | Fold:PEP carboxykinase N-terminal domain Superfamily:PEP carboxykinase N-terminal domain Family:PEP carboxykinase N-terminal domain
44 | c3uinD_ |
| not modelled | 5.9 | 70 | PDB header:ligase/isomerase/protein binding Chain: D: PDB Molecule:e3 sumo-protein ligase ranbp2; PDBTitle: complex between human rangap1-sumo2, ubc9 and the ir1 domain from2 ranbp2
45 | d1wb9a3 |
| not modelled | 5.6 | 20 | Fold:Ribonuclease H-like motif Superfamily:DNA repair protein MutS, domain II Family:DNA repair protein MutS, domain II
46 | d1zyma2 |
| not modelled | 5.6 | 14 | Fold:The "swivelling" beta/beta/alpha domain Superfamily:Phosphohistidine domain Family:N-terminal domain of enzyme I of the PEP:sugar phosphotransferase system
47 | d1yrva1 |
| not modelled | 5.5 | 21 | Fold:UBC-like Superfamily:UBC-like Family:UBC-related
48 | c3b79A_ |
| not modelled | 5.5 | 20 | PDB header:nucleotide binding protein Chain: A: PDB Molecule:toxin secretion atp-binding protein; PDBTitle: crystal structure of the n-terminal peptidase c39 like2 domain of the toxin secretion atp-binding protein from3 vibrio parahaemolyticus
49 | c1n2dC_ |
| not modelled | 5.5 | 25 | PDB header:cell cycle Chain: C: PDB Molecule:iq2 and iq3 motifs from myo2p, a class v myosin; PDBTitle: ternary complex of mlc1p bound to iq2 and iq3 of myo2p, a2 class v myosin
50 | c2o3oD_ |
| not modelled | 5.5 | 23 | PDB header:signaling protein Chain: D: PDB Molecule:yyci protein; PDBTitle: crystal structure of the sensor histidine kinase regulator yyci from2 bacillus subtitlis
51 | d1tf5a1 |
| not modelled | 5.4 | 22 | Fold:Pre-protein crosslinking domain of SecA Superfamily:Pre-protein crosslinking domain of SecA Family:Pre-protein crosslinking domain of SecA
52 | c1mzwB_ |
| not modelled | 5.4 | 38 | PDB header:isomerase Chain: B: PDB Molecule:u4/u6 snrnp 60kda protein; PDBTitle: crystal structure of a u4/u6 snrnp complex between human2 spliceosomal cyclophilin h and a u4/u6-60k peptide
53 | c2wadB_ |
| not modelled | 5.3 | 17 | PDB header:peptide binding protein Chain: B: PDB Molecule:penicillin-binding protein 2b; PDBTitle: penicillin-binding protein 2b (pbp-2b) from streptococcus2 pneumoniae (strain 5204)
54 | d2olua2 |
| not modelled | 5.2 | 8 | Fold:beta-lactamase/transpeptidase-like Superfamily:beta-lactamase/transpeptidase-like Family:beta-Lactamase/D-ala carboxypeptidase
55 | c1ezaA_ |
| not modelled | 5.2 | 14 | PDB header:phosphotransferase Chain: A: PDB Molecule:enzyme i; PDBTitle: amino terminal domain of enzyme i from escherichia coli nmr,2 restrained regularized mean structure
56 | c1qy9B_ |
| not modelled | 5.1 | 19 | PDB header:unknown function Chain: B: PDB Molecule:hypothetical protein ydde; PDBTitle: crystal structure of e. coli se-met protein ydde
57 | d2gw6a1 |
| not modelled | 5.1 | 22 | Fold:Restriction endonuclease-like Superfamily:tRNA-intron endonuclease catalytic domain-like Family:tRNA-intron endonuclease catalytic domain-like
58 | d1s1qa_ |
| not modelled | 5.1 | 19 | Fold:UBC-like Superfamily:UBC-like Family:UEV domain
59 | c3udiA_ |
| not modelled | 5.1 | 17 | PDB header:penicillin-binding protein/antibiotic Chain: A: PDB Molecule:penicillin-binding protein 1a; PDBTitle: crystal structure of acinetobacter baumannii pbp1a in complex with2 penicillin g

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