MolNFT v1 · #28439 · protein

Structure determination and analysis of yeast iso-2-cytochrome C and a composite mutant protein

1YEB: “Structure determination and analysis of yeast iso-2-cytochrome C and a composite mutant protein”. X-ray diffraction, 2 ligands (HEC, SO4), 1 pocket (best druggability 0.78). MolNFT v1 #28439 on GenesisL1: 3D structure, binding sites…

PDB: 1YEB
Type: protein
Length: 108 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Cytochrome C
UniProt: P00045
Ligands: HEC, SO4
Pockets: 1 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain · 42% helix, 2% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Cytochrome C	protein	108	42% helix, 2% strand	P00045

Ligands and binding sites

HEC · Heme C · ligand · chains A
SO4 · Sulfate ion · ion · 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	238	0.78	0.91	37	HEC

Modifications

Observed in the structure: 2 cofactor, 1 modified (heme c attachment, methylation).

Compared structures

1YEB · Structure determination and analysis of yeast iso-2-cytochrome C and a composite mutant… · the same entry in another collection · chain A against A, TM-score 1.00
P00045 · AlphaFold monomer V2.0 prediction for cytochrome C isoform 2 (P00045) · 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 P00045
Elsewhere: RCSB PDB 1YEB · PDBe 1YEB · UniProt P00045

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