SMTL ID : 6mev.1 (7 other biounits)

Structure of JMJD6 bound to Mono-Methyl Arginine.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

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

AKG.1: 12 residues within 4Å: Chain A: Y.131, F.133, T.184, H.187, D.189, A.195, N.197, K.204, V.267, H.273 Ligands: FE.2, NMM.3 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.133 Hydrogen bonds: A:T.184, A:N.197 Water bridges: A:N.287 Salt bridges: A:H.187, A:K.204, A:H.273

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

FE.2: 5 residues within 4Å: Chain A: H.187, D.189, H.273 Ligands: AKG.1, NMM.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.187, A:D.189, A:H.273

1 x NMM: (2S)-2-amino-5-[(N-methylcarbamimidoyl)amino]pentanoic acid(Non-covalent)

NMM.3: 10 residues within 4Å: Chain A: F.133, T.184, G.185, I.186, H.187, D.189, D.230, H.273 Ligands: AKG.1, FE.2 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:T.184 Hydrogen bonds: A:G.185, A:I.186, A:D.230 Water bridges: A:G.185, A:G.185 Salt bridges: A:H.187

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, S. et al., JMJD6 cleaves MePCE to release positive transcription elongation factor b (P-TEFb) in higher eukaryotes. Elife (2020)

Release Date

2019-09-18

Peptides

Bifunctional arginine demethylase and lysyl-hydroxylase JMJD6: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bifunctional arginine demethylase and lysyl-hydroxylase JMJD6

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