MolNFT v1 · #52690 · protein

Plastocyanin variant with N-terminal methionine - closed structure

2W8C: “Plastocyanin variant with N-terminal methionine - closed structure”. X-ray diffraction, 2 ligands (ZN, CU), 1 pocket (best druggability 0.36). MolNFT v1 #52690 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2W8C
Type: protein
Length: 212 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Plastocyanin
UniProt: Q51883
Ligands: ZN, CU
Pockets: 1 · best druggability 0.36

Structure

x-ray diffraction · 1 distinct chain · 15% helix, 44% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Plastocyanin	protein	106	15% helix, 44% strand	Q51883

Ligands and binding sites

ZN · Zinc ion · metal · 4 copies · chains A, B
CU · Copper (II) ion · metal · 2 copies · chains A, 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, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	81	0.36	0.76	24	empty

Interfaces

1 interface between chains.

A–B · 285 Å² buried · 9 hydrogen bonds · protein-protein

Compared structures

2W8C · Plastocyanin variant with N-terminal Methionine - closed structure · the same entry in another collection · chain A against A, TM-score 1.00
Q51883 · AlphaFold monomer V2.0 prediction for plastocyanin (Q51883) · a predicted model of the same protein · chain A against A, TM-score 0.98

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 2W8C · PDBe 2W8C · UniProt Q51883

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