SMTL ID : 2q8c.2 (1 other biounit)

Crystal structure of JMJD2A in ternary complex with an histone H3K9me3 peptide and 2-oxoglutarate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 4 residues within 4Å: Chain A: H.190, E.192, H.278 Ligands: AKG.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.190, A:E.192, A:H.278, H2O.4

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: C.236, H.242, C.308, S.309, C.310 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.236, A:H.242, A:C.308, A:C.310

1 x AKG: 2-OXOGLUTARIC ACID(Non-covalent)

AKG.3: 12 residues within 4Å: Chain A: Y.134, Y.179, F.187, H.190, E.192, S.198, N.200, K.208, W.210, H.278 Chain B: K.9 Ligands: NI.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.187, A:W.210 Hydrogen bonds: A:Y.134, A:S.198, A:N.200 Salt bridges: A:K.208, A:H.278

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Couture, J.F. et al., Specificity and mechanism of JMJD2A, a trimethyllysine-specific histone demethylase. Nat.Struct.Mol.Biol. (2007)

Release Date

2007-07-03

Peptides

JmjC domain-containing histone demethylation protein 3A: A
HISTONE 3 PEPTIDE: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
G

JmjC domain-containing histone demethylation protein 3A

HISTONE 3 PEPTIDE

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