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Copper oxidase from colletotrichum graminicola

Analyse Copper oxidase from colletotrichum graminicola in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6RYV
Type: protein
Length: 605 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Kelch domain-containing protein
EC: 1.1.3.7
UniProt: E3Q9X3
Ligands: NAG, CU, SO4
Pockets: 4 · best druggability 0.65

Structure

x-ray diffraction · 1 distinct chain · 7% helix, 39% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Kelch domain-containing protein (EC 1.1.3.7)	protein	605	7% helix, 39% strand	E3Q9X3

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A
CU · Copper (II) ion · metal · chains A
SO4 · Sulfate ion · ion · chains A
1PE · Pentaethylene glycol · additive · chains A

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

Pockets

4 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	431	0.65	0.78	45	empty
2	135	0.41	0.75	24	empty
3	110	0.40	0.76	18	empty
4	67	0.32	0.75	20	empty

Modifications

Observed in the structure: 5 disulfide, 1 glycan (disulfide, N-glycosylation).

Compared structures

6RYV · Copper oxidase from Colletotrichum graminicola · 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 E3Q9X3
Elsewhere: RCSB PDB 6RYV · PDBe 6RYV · UniProt E3Q9X3

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