MolNFT v1 · #176971 · protein

Crystal structure of trypanosoma brucei cathepsin B Y217C/S275C mutant

7E3F · Cysteine peptidase C (cpc): “Crystal structure of trypanosoma brucei cathepsin B Y217C/S275C mutant”. X-ray diffraction, 2 ligands (NAG, BMA), 2 pockets (best druggability 0.56). MolNFT v1 #176971 on GenesisL1: 3D structure, binding…

PDB: 7E3F
Type: protein
Length: 308 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Cysteine peptidase C (cpc)
EC: 3.4.22.-
UniProt: D6XHE1
Ligands: NAG, BMA
Pockets: 2 · best druggability 0.56

Structure

x-ray diffraction · 1 distinct chain · 26% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Cysteine peptidase C (cpc) (EC 3.4.22.-)	protein	308	26% helix, 25% strand	D6XHE1

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains A
BMA · beta-D-mannopyranose · sugar

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	155	0.56	0.82	24	empty
2	108	0.39	0.76	26	empty

Modifications

Observed in the structure: 6 disulfide, 2 glycan (disulfide, N-glycosylation).

Compared structures

7E3F · Crystal structure of Trypanosoma brucei cathepsin B Y217C/S275C mutant · the same entry in another collection · chain A against A, TM-score 1.00

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 D6XHE1
Elsewhere: RCSB PDB 7E3F · PDBe 7E3F · UniProt D6XHE1

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