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Crystal structure of POLY(ADP-ribose) glycohydrolase (parg) from deinococcus radiodurans in complex with ADP-ribose (P212121)

Analyse Crystal structure of POLY(ADP-ribose) glycohydrolase (parg) from deinococcus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5ZDD
Type: protein
Length: 248 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Poly ADP-ribose glycohydrolase
UniProt: Q9RZM4
Ligands: AR6, PO4
Pockets: 1 · best druggability 0.66

Structure

x-ray diffraction · 1 distinct chain · 43% helix, 19% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Poly ADP-ribose glycohydrolase	protein	248	43% helix, 19% strand	Q9RZM4

Ligands and binding sites

AR6 · [(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl [hydroxy-[[(2R,3S,4R,5S)-3,4,5-trihydroxyoxolan-2-yl]methoxy]phosphoryl] hydrogen phosphate · ligand · chains A
PO4 · Phosphate ion · ion · 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	286	0.66	0.82	41	AR6

Compared structures

5ZDD · Crystal structure of poly(ADP-ribose) glycohydrolase (PARG) from Deinococcus radiodurans… · the same entry in another collection · chain A against A, TM-score 1.00

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Every structure of UniProt Q9RZM4
Elsewhere: RCSB PDB 5ZDD · PDBe 5ZDD · UniProt Q9RZM4

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