SMTL ID : 4mq1.1 (3 other biounits)

The crystal structure of DYRK1a with a bound pyrido[2,3-d]pyrimidine inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

monomer

Ligands

1 x 2C3: N-(5-{[(1R)-3-amino-1-(3-chlorophenyl)propyl]carbamoyl}-2-chlorophenyl)-2-methoxy-7-oxo-7,8-dihydropyrido[2,3-d]pyrimidine-6-carboxamide(Non-covalent)

2C3.1: 23 residues within 4Å: Chain A: I.41, G.42, K.43, G.44, F.46, G.47, Q.48, V.49, A.62, K.64, V.98, F.114, E.115, M.116, L.117, S.118, Y.119, N.168, L.170, V.182, D.183 Ligands: 1PE.2, SO4.5 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:I.41, A:V.49, A:F.114, A:L.170, A:V.182, A:V.182 Hydrogen bonds: A:K.64, A:L.117, A:L.117, A:K.165 Water bridges: A:D.123, A:F.184

2 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.2: 4 residues within 4Å: Chain A: D.38, K.51, W.60 Ligands: 2C3.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.38, A:K.51 1PE.3: 3 residues within 4Å: Chain A: L.73, Q.77, H.103 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.77

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

SO4.4: 5 residues within 4Å: Chain A: T.342, R.343, I.344, Q.345, Y.348 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.345, A:Q.345 SO4.5: 5 residues within 4Å: Chain A: G.44, S.45, K.165, D.183 Ligands: 2C3.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.45 Water bridges: A:F.46, A:D.163, A:D.163 Salt bridges: A:K.165

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Anderson, K. et al., Pyrido[2,3-d]pyrimidines: Discovery and preliminary SAR of a novel series of DYRK1B and DYRK1A inhibitors. Bioorg.Med.Chem.Lett. (2013)

Release Date

2013-12-11

Peptides

Dual specificity tyrosine-phosphorylation-regulated kinase 1A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dual specificity tyrosine-phosphorylation-regulated kinase 1A

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