SMTL ID : 4tn7.1 (1 other biounit)

Crystal structure of mouse KDM2A-H3K36ME-NO complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x FE: FE (III) ION(Non-covalent)

FE.1: 5 residues within 4Å: Chain A: H.177, D.179, H.249 Ligands: NO.2, SIN.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.177, A:D.179, A:H.249

1 x NO: NITRIC OXIDE(Non-covalent)

NO.2: 5 residues within 4Å: Chain A: H.177, D.179 Chain C: K.8 Ligands: FE.1, SIN.3 No protein-ligand interaction detected (PLIP)

1 x SIN: SUCCINIC ACID(Non-covalent)

SIN.3: 12 residues within 4Å: Chain A: N.107, I.109, L.166, T.174, H.177, Y.187, K.194, H.249, V.251 Chain C: K.8 Ligands: FE.1, NO.2 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.166, A:V.251 Hydrogen bonds: A:N.107, A:T.174 Water bridges: A:T.174 Salt bridges: A:H.177, A:K.194, A:H.249

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cheng, Z. et al., A molecular threading mechanism underlies Jumonji lysine demethylase KDM2A regulation of methylated H3K36. Genes Dev. (2014)

Release Date

2015-05-13

Peptides

Lysine-specific demethylase 2A: A
Lysine-specific demethylase 2A: B
Peptide: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
E

Lysine-specific demethylase 2A

Lysine-specific demethylase 2A

Peptide

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