MolNFT v1 · #117143 · protein

Crystal structure of the catalytic nucleophile mutant of VVEG16 in complex with a mixed-linkage glucan octasaccharide

5DZF · Endo-glucanase: “Crystal structure of the catalytic nucleophile mutant of VVEG16 in complex with a mixed-linkage glucan…”. X-ray diffraction, 3 ligands (BGC, GLC, SO4), 2 pockets (best druggability 0.45). MolNFT v1 #117143 on…

PDB: 5DZF
Type: protein
Length: 404 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Endo-glucanase
UniProt: F6I323
Ligands: BGC, GLC, SO4
Pockets: 2 · best druggability 0.45

Structure

x-ray diffraction · 2 distinct chains · 5% helix, 50% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Endo-glucanase	protein	206	5% helix, 49% strand	F6I323
B	Endo-glucanase	protein	198	5% helix, 51% strand	F6I323

Ligands and binding sites

BGC · beta-D-glucopyranose · sugar · 11 copies · chains A, B
GLC · alpha-D-glucopyranose · sugar · 2 copies · chains A, B
SO4 · Sulfate ion · ion · 3 copies · chains A, B

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

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	126	0.45	0.77	22	GLC, BGC
2	131	0.45	0.77	22	GLC, BGC

Compared structures

5DZF · Crystal Structure of the catalytic nucleophile mutant of VvEG16 in complex with a… · 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 F6I323
Elsewhere: RCSB PDB 5DZF · PDBe 5DZF · UniProt F6I323

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