MolNFT v1 · #167119 · protein

Structure of human uracil DNA glycosylase (udg) bound to aurintricarboxylic acid (ata)

6VBA · Uracil-DNA glycosylase: “Structure of human uracil DNA glycosylase (udg) bound to aurintricarboxylic acid (ata)”. X-ray diffraction, 1 ligand (QU4), 2 pockets (best druggability 0.53). MolNFT v1 #167119 on GenesisL1: 3D structure…

PDB: 6VBA
Type: protein
Length: 223 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Uracil-DNA glycosylase
EC: 3.2.2.27
UniProt: P13051
Ligands: QU4
Pockets: 2 · best druggability 0.53

Structure

x-ray diffraction · 1 distinct chain · 39% helix, 11% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Uracil-DNA glycosylase (EC 3.2.2.27)	protein	223	39% helix, 11% strand	P13051

Ligands and binding sites

QU4 · 3,3'-[(3-carboxy-4-oxocyclohexa-2,5-dien-1-ylidene) methylene]bis(6-hydroxybenzoic acid) · ligand · chains A

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	171	0.53	0.79	36	QU4
2	66	0.37	0.77	12	empty

Compared structures

6VBA · Structure of human Uracil DNA Glycosylase (UDG) bound to Aurintricarboxylic acid (ATA) · the same entry in another collection · chain A against A, TM-score 1.00
P13051 · AlphaFold monomer V2.0 prediction for uracil-DNA glycosylase (P13051) · a predicted model of the same protein · 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 P13051
Elsewhere: RCSB PDB 6VBA · PDBe 6VBA · UniProt P13051

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