MolNFT v1 · #52687 · protein
Plastocyanin variant with N-terminal methionine - open structure
2W88: “Plastocyanin variant with N-terminal methionine - open structure”. X-ray diffraction, 2 ligands (ZN, CU), 1 pocket (best druggability 0.75). MolNFT v1 #52687 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2W88
- Type
- protein
- Length
- 318 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Plastocyanin
- UniProt
- Q51883
- Ligands
- ZN, CU
- Pockets
- 1 · best druggability 0.75
Structure
x-ray diffraction · 1 distinct chain · 15% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Plastocyanin | protein | 106 | 15% helix, 42% strand | Q51883 |
Ligands and binding sites
- ZN · Zinc ion · metal · 7 copies · chains A, B, C
- CU · Copper (II) ion · metal · 3 copies · chains A, C, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 915 | 0.75 | 0.78 | 89 | empty |
Interfaces
3 interfaces between chains.
- B–C · 416 Ų buried · 8 hydrogen bonds · protein-protein
- A–B · 407 Ų buried · 9 hydrogen bonds · protein-protein
- A–C · 387 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
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 Q51883
- Elsewhere: RCSB PDB 2W88 · PDBe 2W88 · UniProt Q51883
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