SMTL ID : 7z5n.2 (7 other biounits)

Crystal structure of DYRK1A in complex with CX-4945

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.77 Å

Oligo State

monomer

Ligands

1 x 3NG: 5-[(3-chlorophenyl)amino]benzo[c][2,6]naphthyridine-8-carboxylic acid(Non-covalent)

3NG.1: 17 residues within 4Å: Chain A: I.40, G.41, K.42, G.43, F.45, V.48, A.61, K.63, V.97, F.113, E.114, M.115, L.116, L.169, V.181, D.182 Ligands: SO4.4 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.40, A:V.48, A:A.61, A:V.97, A:F.113, A:L.169, A:V.181 Hydrogen bonds: A:L.116, A:D.182 Salt bridges: A:K.63

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

SO4.2: 2 residues within 4Å: Chain A: R.175, S.176 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.176, A:A.177 SO4.3: 3 residues within 4Å: Chain A: S.133, N.135, L.136 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.133, A:N.135, A:L.136 SO4.4: 5 residues within 4Å: Chain A: F.45, E.166, N.167, D.182 Ligands: 3NG.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.167 SO4.5: 5 residues within 4Å: Chain A: G.43, S.44, F.45, K.164, D.182 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.44 Salt bridges: A:K.164 SO4.6: 1 residues within 4Å: Chain A: Q.57 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.57

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.7: 4 residues within 4Å: Chain A: D.37, K.50, W.59, M.115 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.50 PG4.8: 5 residues within 4Å: Chain A: L.72, Q.76, H.102, M.104, L.109 No protein-ligand interaction detected (PLIP)

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.9: 2 residues within 4Å: Chain A: R.33, R.101 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.33, A:R.33 EDO.10: 4 residues within 4Å: Chain A: N.86, K.93, Y.94, H.98 No protein-ligand interaction detected (PLIP) EDO.11: 5 residues within 4Å: Chain A: Y.196, N.240, E.241, V.242, K.268 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.240, A:E.241, A:V.242, A:K.268

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.12: 6 residues within 4Å: Chain A: A.70, F.71, Q.74, G.184, S.185, Y.194 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Grygier, P. et al., Crystal structure DYRK1A in complex with CX-4945. To Be Published

Release Date

2023-03-22

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

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