Research workbench
Structure of the reconstituted peridinin-chlorophyll a-protein (rfpcp)
Analyse Structure of the reconstituted peridinin-chlorophyll a-protein (rfpcp) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3IIS
- Type
- protein
- Length
- 151 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Peridinin-chlorophyll a-binding protein 1, chloroplastic
- UniProt
- P80484
- Ligands
- PID, CLA, J7Z, CD, K, CL
- Pockets
- 2 · best druggability 0.60
Structure
x-ray diffraction · 1 distinct chain · 75% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| M | Peridinin-chlorophyll a-binding protein 1, chloroplastic | protein | 151 | 75% helix, 1% strand | P80484 |
Ligands and binding sites
- PID · Peridinin · ligand · 4 copies · chains M
- CLA · Chlorophyll A · ligand · chains M
- J7Z · (2S)-3-[(6-O-alpha-D-galactopyranosyl-beta-D-galactopyranosyl)oxy]-2-[(3Z,6Z,9Z,12Z,15Z)-octadeca-3,6,9,12,15-pentaenoyloxy]propyl (5Z,8Z,11Z,14Z,17Z)-icosa-5,8,11,14,17-pentaenoate · ligand · chains M
- CD · Cadmium ion · metal · 4 copies · chains M
- K · Potassium ion · metal · 3 copies · chains M
- CL · Chloride ion · ion · 5 copies · chains M
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 446 | 0.60 | 0.74 | 39 | PID, CL |
| 2 | 52 | 0.29 | 0.75 | 12 | empty |
Compared structures
- 3IIS · Structure of the reconstituted Peridinin-Chlorophyll a-Protein (RFPCP) · the same entry in another collection · chain M against M, TM-score 1.00
- P80484 · AlphaFold monomer V2.0 prediction for peridinin-chlorophyll a-binding protein 1… · a predicted model of the same protein · chain M 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 P80484
- Elsewhere: RCSB PDB 3IIS · PDBe 3IIS · UniProt P80484
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.