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

Crystal structure of human JMJD2C catalytic domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

monomer

Ligands

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

OGA.1: 13 residues within 4Å: Chain A: Y.135, Y.180, F.188, H.191, E.193, S.199, N.201, K.209, W.211, T.273, H.279, S.291 Ligands: NI.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.199, A:N.201 Salt bridges: A:K.209, A:H.279

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

NI.2: 4 residues within 4Å: Chain A: H.191, E.193, H.279 Ligands: OGA.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.191, A:E.193, A:H.279, H2O.4

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 5 residues within 4Å: Chain A: C.237, H.243, C.309, T.310, C.311 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.237, A:H.243, A:C.309, A:C.311

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 3 residues within 4Å: Chain A: F.205, G.206, A.267 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.206 Water bridges: A:G.206, A:A.267 EDO.5: 3 residues within 4Å: Chain A: A.267, G.268, E.269 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.268 EDO.6: 3 residues within 4Å: Chain A: Y.114, D.116, Y.117 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.114, A:Y.114, A:Y.117

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 3 residues within 4Å: Chain A: P.112, N.127, W.184 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hillringhaus, L. et al., Structural and Evolutionary Basis for the Dual Substrate Selectivity of Human Kdm4 Histone Demethylase Family. J.Biol.Chem. (2011)

Release Date

2010-09-29

Peptides

LYSINE-SPECIFIC DEMETHYLASE 4C: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

LYSINE-SPECIFIC DEMETHYLASE 4C

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