Research workbench

Lipopolysaccharide outer core galactosyltransferase waab and udp complex

Analyse Lipopolysaccharide outer core galactosyltransferase waab and udp complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6Y6I
Type: protein
Length: 358 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Lipopolysaccharide 1,6-galactosyltransferase
EC: 2.4.1.-
UniProt: Q06994
Ligands: UDP
Pockets: 3 · best druggability 0.54

Structure

x-ray diffraction · 1 distinct chain · 41% helix, 19% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Lipopolysaccharide 1,6-galactosyltransferase (EC 2.4.1.-)	protein	358	41% helix, 19% strand	Q06994

Ligands and binding sites

UDP · Uridine-5'-diphosphate · ligand · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	308	0.54	0.75	41	UDP
2	121	0.52	0.81	17	empty
3	102	0.43	0.78	18	empty

Compared structures

6Y6I · lipopolysaccharide outer core galactosyltransferase WaaB and UDP complex · the same entry in another collection · chain A against A, TM-score 1.00
Q06994 · AlphaFold monomer V2.0 prediction for lipopolysaccharide 1,6-galactosyltransferase… · a predicted model of the same protein · chain A against A, TM-score 0.97

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 Q06994
Elsewhere: RCSB PDB 6Y6I · PDBe 6Y6I · UniProt Q06994

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