SMTL ID : 7dyw.1

Human JMJD5 in complex with MN and 5-((2-methoxybenzyl)amino)pyridine-2,4-dicarboxylic acid.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.13 Å

Oligo State

monomer

Ligands

1 x HRL: 5-((2-methoxybenzyl)amino)pyridine-2,4-dicarboxylic acid(Non-covalent)

HRL.1: 21 residues within 4Å: Chain A: E.58, W.68, Y.92, A.94, Q.95, W.130, T.136, I.137, S.138, P.139, H.141, D.143, N.147, L.149, K.156, I.214, H.220, V.222, S.232, W.234 Ligands: MN.2 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:Y.92, A:N.147, A:W.234 Salt bridges: A:K.156, A:H.220 pi-Stacking: A:W.68, A:W.68, A:Y.92, A:W.130

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.2: 5 residues within 4Å: Chain A: H.141, D.143, H.220, W.234 Ligands: HRL.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.141, A:D.143, A:H.220, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brewitz, L. et al., 5-Substituted Pyridine-2,4-dicarboxylate Derivatives Have Potential for Selective Inhibition of Human Jumonji-C Domain-Containing Protein 5. J.Med.Chem. (2023)

Release Date

2022-02-02

Peptides

Bifunctional peptidase and arginyl-hydroxylase JMJD5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bifunctional peptidase and arginyl-hydroxylase JMJD5