SMTL ID : 8v42.4 (3 other biounits)

Structure of Human Vaccinia-related Kinase 1 (VRK1) Bound to ACH000400

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

2 x SO4: SULFATE ION

SO4.1: 2 residues within 4Å: Chain A: Q.95, H.171 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.95 Salt bridges: A:H.171 SO4.2: 2 residues within 4Å: Chain A: R.148, H.258 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.148, A:H.258

1 x YD9: (7S)-2-(3,5-difluoro-4-hydroxyanilino)-7-methyl-5-[(1,2-oxazol-5-yl)methyl]-8-(prop-2-yn-1-yl)-7,8-dihydropteridin-6(5H)-one

YD9.3: 15 residues within 4Å: Chain A: I.43, I.51, L.53, V.69, K.71, E.83, P.111, M.131, D.132, R.133, F.134, G.135, L.184, V.196, D.197 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.43, A:I.43, A:V.69, A:M.131, A:F.134 Hydrogen bonds: A:E.83, A:D.132, A:R.133, A:F.134, A:D.197

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

de Souza Gama, F.H. et al., Novel Dihydropteridinone Derivatives As Potent Inhibitors of the Understudied Human Kinases Vaccinia-Related Kinase 1 and Casein Kinase 1 delta / epsilon. J.Med.Chem. (2024)

Release Date

2024-09-04

Peptides

Serine/threonine-protein kinase VRK1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Serine/threonine-protein kinase VRK1

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