SMTL ID : 2p5b.1 (1 other biounit)

The complex structure of JMJD2A and trimethylated H3K36 peptide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.99 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.236, H.242, C.308, 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 FE2: FE (II) ION(Non-covalent)

FE2.2: 5 residues within 4Å: Chain A: H.190, E.192, H.278 Ligands: OGA.3, OXY.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.190, A:E.192, A:H.278

1 x OGA: N-OXALYLGLYCINE(Non-covalent)

OGA.3: 15 residues within 4Å: Chain A: Y.134, Y.179, F.187, H.190, E.192, S.198, N.200, K.208, W.210, T.272, H.278, S.290 Chain B: K.11 Ligands: FE2.2, OXY.5 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.198, A:N.200, A:S.290 Salt bridges: A:K.208, A:H.278

2 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.4: 7 residues within 4Å: Chain A: H.190, T.191, E.192, D.193, K.243 Chain B: K.11 Ligands: OXY.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.193, A:K.243 Water bridges: A:N.292, A:N.292 OXY.5: 7 residues within 4Å: Chain A: H.190, E.192, K.243 Chain B: K.11 Ligands: FE2.2, OGA.3, OXY.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.243

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, Z. et al., Structural basis of the recognition of a methylated histone tail by JMJD2A. Proc.Natl.Acad.Sci.USA (2007)

Release Date

2007-06-12

Peptides

JmjC domain-containing histone demethylation protein 3A: A
Histone H3: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
I

JmjC domain-containing histone demethylation protein 3A

Histone H3

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