MolNFT v1 · #27671 · protein

Crystal structure of 8-oxoguanosine complexed pa-agog, 8-oxoguanine DNA glycosylase from pyrobaculum aerophilum

1XQP: “Crystal structure of 8-oxoguanosine complexed pa-agog, 8-oxoguanine DNA glycosylase from pyrobaculum…”. X-ray diffraction, 1 ligand (8HG), 1 pocket (best druggability 0.59). MolNFT v1 #27671 on GenesisL1: 3D structure, binding sites…

PDB: 1XQP
Type: protein
Length: 252 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 8-oxoguanine DNA glycosylase
UniProt: Q8ZVK6
Ligands: 8HG
Pockets: 1 · best druggability 0.59

Structure

x-ray diffraction · 1 distinct chain · 65% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	8-oxoguanine DNA glycosylase	protein	252	65% helix, 0% strand	Q8ZVK6

Ligands and binding sites

8HG · 2'-deoxy-8-oxoguanosine · ligand · 2 copies · 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	188	0.59	0.81	24	8HG

Modifications

Observed in the structure: 3 disulfide (disulfide).

Compared structures

1XQP · Crystal structure of 8-oxoguanosine complexed Pa-AGOG, 8-oxoguanine DNA glycosylase from… · the same entry in another collection · chain A against A, TM-score 1.00
Q8ZVK6 · AlphaFold monomer V2.0 prediction for N-GLYCOSYLASE/DNA lyase (Q8ZVK6) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 Q8ZVK6
Elsewhere: RCSB PDB 1XQP · PDBe 1XQP · UniProt Q8ZVK6

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