SMTL ID : 7dyx.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.27 Å

Oligo State

monomer

Ligands

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

MN.1: 5 residues within 4Å: Chain A: H.140, D.142, H.219, W.233 Ligands: HRR.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.140, A:D.142, A:H.219, H2O.1

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

HRR.2: 21 residues within 4Å: Chain A: E.57, W.67, Y.91, A.93, Q.94, W.129, T.135, I.136, S.137, P.138, H.140, D.142, N.146, L.148, K.155, I.213, H.219, V.221, S.231, W.233 Ligands: MN.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:Y.91, A:Y.91, A:W.129 Hydrogen bonds: A:Y.91, A:N.146, A:W.233 Salt bridges: A:K.155, A:H.219 pi-Stacking: A:W.67, A:W.129

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

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