Research workbench
The structure of phycocyanin from Gloeobacter violaceus
Analyse The structure of phycocyanin from Gloeobacter violaceus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2VJR
- Type
- protein
- Length
- 334 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.6
- Source
- GLOEOBACTER VIOLACEUS
- Molecule
- Phycocyanin alpha chain; Phycocyanin beta chain
- UniProt
- Q7M7F7, Q7M7C7
- Ligands
- CYC
- Pockets
- 3 · best druggability 0.61
Structure
x-ray diffraction · resolution 2.6 · 2 distinct chains · 76% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phycocyanin alpha chain | protein | 162 | 77% helix, 0% strand | Q7M7F7 |
| B | Phycocyanin beta chain | protein | 172 | 75% helix, 0% strand | Q7M7C7 |
Ligands and binding sites
- CYC · Phycocyanobilin · ligand · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 120 | 0.61 | 0.86 | 26 | CYC |
| 2 | 196 | 0.59 | 0.80 | 28 | CYC |
| 3 | 74 | 0.30 | 0.73 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 1577 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 cofactor (phycocyanobilin attachment).
Compared structures
- 2VJR · The structure of phycocyanin from gloeobacter violaceus · 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 Q7M7F7
- Every structure of UniProt Q7M7C7
- Elsewhere: RCSB PDB 2VJR · PDBe 2VJR · UniProt Q7M7F7 · UniProt Q7M7C7
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