Research workbench
Peridinin-chlorophyll a protein, high-salt form
Analyse Peridinin-chlorophyll a protein, high-salt form in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2C9E
- Type
- protein
- Length
- 317 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.1
- Source
- AMPHIDINIUM CARTERAE
- Molecule
- Peridinin-chlorophyll a protein
- UniProt
- O76183
- Ligands
- PID, CLA, DGD, MG
- Pockets
- 4 · best druggability 0.72
Structure
x-ray diffraction · resolution 2.1 · 1 distinct chain · 76% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Peridinin-chlorophyll a protein | protein | 317 | 76% helix, 0% strand | O76183 |
Ligands and binding sites
- PID · Peridinin · ligand · 6 copies · chains A
- CLA · Chlorophyll A · ligand · 2 copies · chains A
- DGD · Digalactosyl diacyl glycerol (dgdg) · sugar · 2 copies · chains A
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1056 | 0.72 | 0.75 | 64 | CLA, PID, DGD |
| 2 | 935 | 0.71 | 0.75 | 68 | PID |
| 3 | 339 | 0.57 | 0.75 | 35 | PID |
| 4 | 52 | 0.30 | 0.76 | 13 | empty |
Compared structures
- 2C9E · Peridinin-chlorophyll a protein, high-salt form · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt O76183
- Elsewhere: RCSB PDB 2C9E · PDBe 2C9E · UniProt O76183
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