Research workbench
The structure of thermosynechococcus elongatus allophycocyanin at 3.5 angstroems.
Analyse The structure of thermosynechococcus elongatus allophycocyanin at 3.5… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2V8A
- Type
- protein
- Length
- 321 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Allophycocyanin alpha chain; Allophycocyanin beta chain
- UniProt
- P50030, P50031
- Ligands
- CYC
- Pockets
- 3 · best druggability 0.59
Structure
x-ray diffraction · 2 distinct chains · 79% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Allophycocyanin alpha chain | protein | 160 | 81% helix, 0% strand | P50030 |
| B | Allophycocyanin beta chain | protein | 161 | 78% helix, 0% strand | P50031 |
Ligands and binding sites
- CYC · Phycocyanobilin · ligand · 2 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 | 164 | 0.59 | 0.82 | 32 | CYC |
| 2 | 155 | 0.57 | 0.81 | 25 | CYC |
| 3 | 51 | 0.37 | 0.80 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 1540 Ų buried · 14 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 cofactor, 1 modified (phycocyanobilin attachment, nonstandard).
Compared structures
- 2V8A · The structure of Thermosynechococcus elongatus allophycocyanin at 3.5 Angstroems. · the same entry in another collection · chain A against A, TM-score 1.00
- P50031 · AlphaFold monomer V2.0 prediction for allophycocyanin beta chain (P50031) · a predicted model of the same protein · chain B against A, TM-score 0.99
- P50030 · AlphaFold monomer V2.0 prediction for allophycocyanin alpha chain (P50030) · a predicted model of the same protein · chain A 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 P50030
- Every structure of UniProt P50031
- Elsewhere: RCSB PDB 2V8A · PDBe 2V8A · UniProt P50030 · UniProt P50031
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