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The crystal structure of apo-dihydropyrimidinase from tetraodon nigroviridis

Analyse The crystal structure of apo-dihydropyrimidinase from tetraodon nigroviridis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4GZ7
Type: protein
Length: 492 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Dihydropyrimidinase
Ligands: MHA
Pockets: 1 · best druggability 0.70

Structure

x-ray diffraction · 1 distinct chain · 35% helix, 23% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Dihydropyrimidinase	protein	492	35% helix, 23% strand	—

Ligands and binding sites

MHA · (carbamoylmethyl-carboxymethyl-amino)-acetic acid · ligand · 3 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	430	0.70	0.81	43	MHA

Compared structures

4GZ7 · The crystal structure of Apo-dihydropyrimidinase from Tetraodon nigroviridis · the same entry in another collection · 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
Elsewhere: RCSB PDB 4GZ7 · PDBe 4GZ7

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