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Crystal structure of zebrafish MTH1 in complex with O6-methyl-dgmp

Analyse Crystal structure of zebrafish MTH1 in complex with O6-methyl-dgmp in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5OTN
Type: protein
Length: 156 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nudix (nucleoside diphosphate linked moiety X)-type motif 1
UniProt: Q7ZWC3
Ligands: 6OG, CA, CL
Pockets: 1 · best druggability 0.72

Structure

x-ray diffraction · 1 distinct chain · 18% helix, 46% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Nudix (nucleoside diphosphate linked moiety X)-type motif 1	protein	156	18% helix, 46% strand	Q7ZWC3

Ligands and binding sites

6OG · 6-O-methyl guanosine-5'-monophosphate · ligand · chains A
CA · Calcium ion · metal · 3 copies · chains A
CL · Chloride ion · ion · chains A
GOL · Glycerol · additive · 9 copies · chains A
EDO · 1,2-ethanediol · additive · 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	199	0.72	0.88	32	6OG, GOL

Compared structures

5OTN · Crystal structure of zebrafish MTH1 in complex with O6-methyl-dGMP · 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
Every structure of UniProt Q7ZWC3
Elsewhere: RCSB PDB 5OTN · PDBe 5OTN · UniProt Q7ZWC3

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