› 5v9j

X-ray diffraction
1.74Å resolution

Crystal structure of catalytic domain of GLP with MS0105

Released:
DOI: 10.2210/pdb5v9j/pdb
PDB entry 5v9j coloured by chain, front view.
PDB entry 5v9j coloured by chain, side view.
PDB entry 5v9j coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Dong A, Zeng H, Liu J, Xiong Y, Babault N, Jin J, Tempel W, Bountra C, Arrowsmith CH, Edwards AM, Wu H, Brown PJ, Structural Genomics Consortium (SGC)

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + a [histone H3]-L-lysine(9) = S-adenosyl-L-homocysteine + a [histone H3]-N(6)-methyl-L-lysine(9)
Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Histone-lysine N-methyltransferase EHMT1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 287 amino acids
Theoretical weight: 32.97 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q9H9B1 (Residues: 982-1266; Coverage: 22%)
Gene names: EHMT1, EUHMTASE1, GLP, KIAA1876, KMT1D
Sequence domains:
Structure domains: SET domain

Ligands and Environments

6 bound ligands:
Ligand SAM 2 x SAM
Ligand 90P 2 x 90P
Ligand ZN 8 x ZN
Ligand CL 3 x CL
Ligand UNX 13 x UNX
Ligand DMS 1 x DMS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CLSI BEAMLINE 08ID-1
Spacegroup: P212121
Unit cell:
a: 74.848Å b: 95.891Å c: 102.416Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.174 0.173 0.197
Expression system: Escherichia coli BL21

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