SMTL ID : 4mq2.2 (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 2.80 Å

Oligo State

monomer

Ligands

1 x 2C4: methyl 4-chloro-3-{[(2-methoxy-7-oxo-7,8-dihydropyrido[2,3-d]pyrimidin-6-yl)carbonyl]amino}benzoate(Non-covalent)

2C4.1: 15 residues within 4Å: Chain A: I.41, F.46, V.49, A.62, K.64, F.114, E.115, M.116, L.117, S.118, Y.119, L.170, V.182, D.183 Ligands: 1PE.2 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.41, A:F.114, A:F.114, A:L.170, A:V.182, A:V.182 Hydrogen bonds: A:L.117, A:L.117, A:D.183 Salt bridges: A:K.64

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

1PE.2: 6 residues within 4Å: Chain A: D.38, S.39, K.51, W.60, M.116 Ligands: 2C4.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.39, A:S.39, A:K.51 1PE.3: 4 residues within 4Å: Chain A: Q.77, H.103, M.105, L.110 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.77

3 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:R.343, A:Q.345 SO4.5: 3 residues within 4Å: Chain A: Y.197, R.201, R.204 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.201, A:R.201 Salt bridges: A:R.201, A:R.204 SO4.6: 3 residues within 4Å: Chain A: K.140, R.176, S.177 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.177, A:S.177 Salt bridges: A:K.140, A:R.176

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
B

Dual specificity tyrosine-phosphorylation-regulated kinase 1A

Related Entries With Identical Sequence