MolNFT v1 · #55910 · protein

The Y65A mutant of tetraheme cytochrome C3 from desulfovibrio vulgaris miyazaki F

2YYX: “The Y65A mutant of tetraheme cytochrome C3 from desulfovibrio vulgaris miyazaki F”. X-ray diffraction, 1 ligand (HEM), 1 pocket (best druggability 0.77). MolNFT v1 #55910 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2YYX
Type: protein
Length: 107 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Cytochrome C3
UniProt: P00132
Ligands: HEM
Pockets: 1 · best druggability 0.77

Structure

x-ray diffraction · 1 distinct chain · 28% helix, 11% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Cytochrome C3	protein	107	28% helix, 11% strand	P00132

Ligands and binding sites

HEM · Protoporphyrin IX containing Fe · ligand · 4 copies · chains A

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.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	765	0.77	0.81	70	HEM

Modifications

Observed in the structure: 8 cofactor (heme attachment).

Compared structures

2YYX · The Y65A mutant of tetraheme cytochrome c3 from Desulfovibrio Vulgaris Miyazaki F · the same entry in another collection · chain A against A, TM-score 1.00
P00132 · AlphaFold monomer V2.0 prediction for cytochrome C3 (P00132) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 P00132
Elsewhere: RCSB PDB 2YYX · PDBe 2YYX · UniProt P00132

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.