Research workbench
Crystal structure of C-phycocyanin from galdieria sulphuraria
Analyse Crystal structure of C-phycocyanin from galdieria sulphuraria in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3BRP
- Type
- protein
- Length
- 329 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- C-phycocyanin alpha chain; C-phycocyanin beta chain
- UniProt
- P00306, P00311
- Ligands
- BLA
- Pockets
- 6 · best druggability 0.59
Structure
x-ray diffraction · 2 distinct chains · 78% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | C-phycocyanin alpha chain | protein | 159 | 79% helix, 0% strand | P00306 |
| B | C-phycocyanin beta chain | protein | 170 | 76% helix, 0% strand | P00311 |
Ligands and binding sites
- BLA · Biliverdine IX alpha · ligand · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 110 | 0.59 | 0.85 | 24 | BLA |
| 2 | 445 | 0.57 | 0.74 | 41 | empty |
| 3 | 144 | 0.57 | 0.82 | 28 | BLA |
| 4 | 142 | 0.42 | 0.76 | 20 | empty |
| 5 | 52 | 0.36 | 0.80 | 16 | BLA |
Interfaces
1 interface between chains.
- A–B · 249 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 cofactor, 1 modified (biliverdin attachment, nonstandard).
Compared structures
- 3BRP · Crystal Structure of C-Phycocyanin from Galdieria sulphuraria · the same entry in another collection · chain A against A, TM-score 1.00
- P00306 · AlphaFold monomer V2.0 prediction for C-phycocyanin alpha chain (P00306) · a predicted model of the same protein · chain A against A, TM-score 0.98
- P00311 · AlphaFold monomer V2.0 prediction for C-phycocyanin beta chain (P00311) · a predicted model of the same protein · chain B against A, TM-score 0.96
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 P00306
- Every structure of UniProt P00311
- Elsewhere: RCSB PDB 3BRP · PDBe 3BRP · UniProt P00306 · UniProt P00311
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