› 5wbv

X-ray diffraction
2.3Å resolution

Crystal Structure of the SET Domain of Human SUV420H1 In Complex With Inhibitor

Released:
DOI: 10.2210/pdb5wbv/pdb
PDB entry 5wbv coloured by chain, front view.
PDB entry 5wbv coloured by chain, side view.
PDB entry 5wbv coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Halabelian L, Tempel W, Brown PJ, Bountra C, Edwards AM, Arrowsmith CH, Structural Genomics Consortium (SGC)

Function and Biology Details

Reactions catalysed: 
S-adenosyl-L-methionine + a [histone H4]-L-lysine(20) = S-adenosyl-L-homocysteine + a [histone H4]-N(6)-methyl-L-lysine(20)
S-adenosyl-L-methionine + a [histone H4]-N(6)-methyl-L-lysine(20) = S-adenosyl-L-homocysteine + a [histone H4]-N(6),N(6)-dimethyl-L-lysine(20)
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-175523 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Histone-lysine N-methyltransferase KMT5B Chains: A, B
Molecule details ›
Chains: A, B
Length: 273 amino acids
Theoretical weight: 31.6 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q4FZB7 (Residues: 63-335; Coverage: 31%)
Gene names: CGI-85, KMT5B, SUV420H1
Sequence domains: SET domain
Structure domains:

Ligands and Environments

4 bound ligands:
Ligand ZN 2 x ZN
Ligand SAM 2 x SAM
Ligand 9ZY 2 x 9ZY
Ligand UNX 12 x UNX
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU FR-E SUPERBRIGHT
Spacegroup: P1
Unit cell:
a: 46.324Å b: 50.559Å c: 74.818Å
α: 101.26° β: 107.51° γ: 89.67°
R-values:
R R work R free
0.236 0.234 0.269
Expression system: Escherichia coli BL21(DE3)

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