MolNFT v1 · #170633 · protein

Substrate-free P146A variant of beta-phosphoglucomutase from lactococcus lactis

6YDK: “Substrate-free P146A variant of beta-phosphoglucomutase from lactococcus lactis”. X-ray diffraction, 1 ligand (MG), 1 pocket (best druggability 0.69). MolNFT v1 #170633 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6YDK
Type: protein
Length: 221 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Beta-phosphoglucomutase
EC: 5.4.2.6
UniProt: P71447
Ligands: MG
Pockets: 1 · best druggability 0.69

Structure

x-ray diffraction · 1 distinct chain · 53% helix, 11% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Beta-phosphoglucomutase (EC 5.4.2.6)	protein	221	53% helix, 11% strand	P71447

Ligands and binding sites

MG · Magnesium ion · metal · 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	515	0.69	0.79	39	empty

Compared structures

6YDK · Substrate-free P146A variant of beta-phosphoglucomutase from Lactococcus lactis · the same entry in another collection · chain A against A, TM-score 1.00
P71447 · AlphaFold monomer V2.0 prediction for beta-phosphoglucomutase (P71447) · a predicted model of the same protein · chain A against A, TM-score 0.84

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 P71447
Elsewhere: RCSB PDB 6YDK · PDBe 6YDK · UniProt P71447

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