SMTL ID : 7zh8.1 (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: 7 residues within 4Å: Chain A: K.85, V.119, F.135, E.136, L.138, 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:K.85, A:K.85, A:D.204 IWU.3: 7 residues within 4Å: Chain A: V.273, L.274, K.319, L.320, H.321, K.350, L.354 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.354 Hydrogen bonds: A:L.320, A:H.321

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

PG4.2: 6 residues within 4Å: Chain A: L.94, Q.98, V.101, H.124, M.126, L.131 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.98

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

PEG.4: 5 residues within 4Å: Chain A: E.80, M.114, H.120, K.122, E.136 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.80, A:H.120, A:K.122 Water bridges: A:K.122

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

PGE.5: 5 residues within 4Å: Chain A: A.92, F.93, Q.96, Y.216, Y.218 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.220 PGE.6: 6 residues within 4Å: Chain A: R.152, V.154, S.155, L.158, R.335, E.338 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.152, A:S.155, A:R.335, A:R.335

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 6 residues within 4Å: Chain A: P.176, E.177, L.178, S.179, Q.210, L.211 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.177, A:L.211

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

EPE.8: 6 residues within 4Å: Chain A: Q.217, Y.218, E.263, K.287, K.290 Ligands: SO4.11 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.263 Salt bridges: A:E.263, A:K.287, A:K.290

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 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.60, A:K.72

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

SO4.10: 4 residues within 4Å: Chain A: D.35, G.36, Y.37, K.47 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.35 Salt bridges: A:K.47 SO4.11: 5 residues within 4Å: Chain A: N.262, E.263, V.264, K.290 Ligands: EPE.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.263, A:V.264 Salt bridges: A:K.290 SO4.12: 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:Q.366, A:Q.366 SO4.13: 2 residues within 4Å: Chain A: K.319, N.322 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.319 SO4.14: 2 residues within 4Å: Chain A: K.122, R.123 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.123

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

CL.15: 2 residues within 4Å: Chain A: G.65, S.66 Ligand excluded by PLIP CL.16: 1 residues within 4Å: Chain A: K.269 Ligand excluded by PLIP CL.17: 2 residues within 4Å: Chain A: S.155, N.157 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
A

Dual specificity tyrosine-phosphorylation-regulated kinase 1A

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