› 2v87

X-ray diffraction
1.8Å resolution

Crystal structure of RAG2-PHD finger in complex with H3R2me2sK4me3 peptide

Released:
DOI: 10.2210/pdb2v87/pdb
PDB entry 2v87 coloured by chain, front view.
PDB entry 2v87 coloured by chain, side view.
PDB entry 2v87 coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
The plant homeodomain finger of RAG2 recognizes histone H3 methylated at both lysine-4 and arginine-2.
Ramón-Maiques S, Kuo AJ, Carney D, Matthews AG, Oettinger MA, Gozani O, Yang W
Proc Natl Acad Sci U S A 104 18993-8 (2007)
PMID: 18025461

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-149420 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
V(D)J recombination-activating protein 2 Chains: A, B
Molecule details ›
Chains: A, B
Length: 82 amino acids
Theoretical weight: 9.36 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P21784 (Residues: 414-487; Coverage: 14%)
Gene names: Rag-2, Rag2
Sequence domains: RAG2 PHD domain
Structure domains: Rag2 PHD finger
Histone H3.2 Chains: D, E
Molecule details ›
Chains: D, E
Length: 13 amino acids
Theoretical weight: 1.43 KDa
Source organism: Mus musculus
Expression system: Not provided
UniProt:
  • Canonical: P84228 (Residues: 2-14; Coverage: 10%)
Gene names: H3-143, H3-53, H3-B, H3-F, H3.2, H3.2-221, H3.2-614, H3.2-615, H3.2-616, H3b, H3c13, H3c14, H3c15, H3c2, H3c3, H3c4, H3c6, H3c7, H3f, Hist1h3b, Hist1h3c, Hist1h3d, Hist1h3e, Hist1h3f, Hist2h3b, Hist2h3c1, Hist2h3c2, Hist2h3ca1, Hist2h3ca2

Ligands and Environments

1 bound ligand:
Ligand ZN 4 x ZN
2 modified residues:
Ligand 2MR 2 x 2MR
Ligand M3L 2 x M3L

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: P21
Unit cell:
a: 40.407Å b: 46.63Å c: 57.005Å
α: 90° β: 95.13° γ: 90°
R-values:
R R work R free
0.181 0.181 0.208
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

59 review citations

Protein arginine methylation in mammals: who, what, and why.
Bedford et al. (2009)
58 more

4 mentions without citation

Handpicking epigenetic marks with PHD fingers.
Musselman et al. (2011)
3 more