SMTL ID : 7zh8.2 (3 other biounits)

DYRK1a in Complex with a Bromo-Triazolo-Pyridine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

2 x IWU: 6-bromanyl-3H-[1,2,3]triazolo[4,5-b]pyridine(Non-covalent)

IWU.1: 8 residues within 4Å: Chain A: V.70, A.83, K.85, F.135, E.136, L.191, V.203, D.204 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.135, A:V.203 Hydrogen bonds: A:D.204 Water bridges: A:D.204, A:D.204, A:F.205 IWU.2: 7 residues within 4Å: Chain A: V.273, L.274, K.319, L.320, H.321, K.350, L.354 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.354 Hydrogen bonds: A:L.320, A:H.321 Water bridges: A:K.350, A:K.350 pi-Cation interactions: A:K.319

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: K.90, K.91, A.92 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.90, A:K.90, A:K.91, A:A.92 GOL.5: 5 residues within 4Å: Chain A: R.214, I.215, Y.216, Q.217, Y.235 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.214, A:Q.217 Water bridges: A:R.214, A:R.214, A:G.232, A:M.233 GOL.6: 3 residues within 4Å: Chain A: K.287, K.290 Ligands: EPE.10 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.287, A:K.287 GOL.7: 5 residues within 4Å: Chain A: T.363, R.364, I.365, Q.366, Y.369 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.363, A:Q.366 GOL.8: 5 residues within 4Å: Chain A: L.158, L.192, P.195, K.196, R.197 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.196

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 4 residues within 4Å: Chain A: D.283, Q.284, A.285, P.286 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.286

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

1PE.9: 5 residues within 4Å: Chain A: D.59, S.60, K.72, W.81, M.137 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.60, A:S.60, A:K.72

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.10: 7 residues within 4Å: Chain A: Y.218, N.262, E.263, V.264, K.287, K.290 Ligands: GOL.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.263, A:V.264 Salt bridges: A:E.263, A:K.290

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

SO4.11: 3 residues within 4Å: Chain A: K.161, R.197, S.198 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.198 Salt bridges: A:K.161, A:R.197 SO4.12: 2 residues within 4Å: Chain A: S.155, N.157 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.155, A:S.155, A:N.157 Water bridges: A:S.155, A:L.156 SO4.13: 3 residues within 4Å: Chain A: R.152, S.155, R.335 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.155 Salt bridges: A:R.152, A:R.335

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.14: 3 residues within 4Å: Chain A: G.65, S.66, K.186 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dammann, M. et al., Screening of a Halogen-Enriched Fragment Library Leads to Unconventional Binding Modes. J.Med.Chem. (2022)

Release Date

2022-11-09

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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