SMTL ID : 6cnx.3 (3 other biounits)

Crystal Structure of the Human vaccinia-related kinase 1 (VRK1) bound to an N-propynyl-N-isopentyl-dihydropteridin inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x FCS: (7S)-2-[(3,5-difluoro-4-hydroxyphenyl)amino]-7-methyl-8-(3-methylbutyl)-5-(prop-2-yn-1-yl)-7,8-dihydropteridin-6(5H)-one(Non-covalent)

FCS.1: 15 residues within 4Å: Chain A: I.43, I.51, V.69, K.71, E.83, Y.87, P.111, M.131, D.132, R.133, F.134, G.135, S.181, V.196, D.197 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.43, A:M.131, A:F.134, A:V.196 Hydrogen bonds: A:K.71, A:E.83, A:Y.87, A:D.132, A:F.134, A:D.197

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 5 residues within 4Å: Chain A: R.151, A.295, P.296, G.297, A.330 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.297 Water bridges: A:R.151, A:R.151 Salt bridges: A:R.151

4 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 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 ACT.4: 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 ACT.5: 1 residues within 4Å: Chain A: R.89 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.89 ACT.6: 3 residues within 4Å: Chain A: L.200, H.221, P.238 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.238 Hydrogen bonds: A:L.200

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Counago, R.M. et al., Crystal Structure of the Human Vaccinia-Related Kinase 1 (VRK1) bound to a N-propynyl-N-isopentil-dihydropteridine inhibitor. To Be Published

Release Date

2018-04-04

Peptides

Serine/threonine-protein kinase VRK1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Serine/threonine-protein kinase VRK1

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