› 4ij8

X-ray diffraction
2Å resolution

Crystal structure of the complex of SETD8 with SAM

Released:
DOI: 10.2210/pdb4ij8/pdb
PDB entry 4ij8 coloured by chain, front view.
PDB entry 4ij8 coloured by chain, side view.
PDB entry 4ij8 coloured by chain, top view.
Source organisms:
Entry authors: Yu W, Tempel W, Li Y, El Bakkouri M, Shapira M, Bountra C, Arrowsmith CH, Edwards AM, Brown PJ, Structural Genomics Consortium (SGC)

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
homo dimer (preferred)
monomeric
Assembly name:
PDBe Complex ID:
PDB-CPX-192510 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
N-lysine methyltransferase KMT5A Chains: A, B
Molecule details ›
Chains: A, B
Length: 165 amino acids
Theoretical weight: 18.72 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q9NQR1 (Residues: 232-393; Coverage: 41%)
Gene names: KMT5A, PRSET7, SET07, SET8, SETD8
Sequence domains: SET domain
Structure domains: SET domain
helical peptide Chain: I
Molecule details ›
Chain: I
Length: 10 amino acids
Theoretical weight: 869 Da
Source organism: unidentified
Expression system: Escherichia coli

Ligands and Environments

2 bound ligands:
Ligand SAM 2 x SAM
Ligand UNX 22 x UNX
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CLSI BEAMLINE 08ID-1
Spacegroup: P6122
Unit cell:
a: 101.439Å b: 101.439Å c: 140.799Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.177 0.176 0.198
Expression systems:
  • Escherichia coli BL21
  • Escherichia coli

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