SMTL ID : 9dub.1

Crystal Structure of Human DAPK1 Catalytic Subunit Complexed with Compound SRM-25-071

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x 01: 4-(pyridin-4-yl)pyridazine

01.1: 9 residues within 4Å: Chain A: L.18, V.26, A.39, I.76, E.93, L.94, V.95, I.159 Ligands: CL.2 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.26, A:A.39, A:I.76, A:I.159 Hydrogen bonds: A:V.95

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

CL.2: 4 residues within 4Å: Chain A: L.92, I.159, D.160 Ligands: 01.1 Ligand excluded by PLIP

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

SO4.3: 3 residues within 4Å: Chain A: R.62, H.165, K.174 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.62, A:K.174 SO4.4: 4 residues within 4Å: Chain A: V.25, K.27, F.42, D.87 2 PLIP interactions: 2 interactions with chain A Water bridges: A:V.25, A:D.87 SO4.5: 3 residues within 4Å: Chain A: Y.233, E.234, R.252 3 PLIP interactions: 3 interactions with chain A Water bridges: A:V.231, A:F.235 Salt bridges: A:R.252 SO4.6: 3 residues within 4Å: Chain A: F.235, K.248, R.252 4 PLIP interactions: 4 interactions with chain A Water bridges: A:F.235, A:K.248 Salt bridges: A:K.248, A:R.252 SO4.7: 4 residues within 4Å: Chain A: R.4, Y.11, E.31, S.33 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.31, A:S.33 Salt bridges: A:R.4 SO4.8: 3 residues within 4Å: Chain A: S.51, R.52, R.53 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.52, A:R.53 Water bridges: A:S.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Minasov, G. et al., Crystal Structure of Human DAPK1 Catalytic Subunit Complexed with Compound SRM-25-071. To Be Published

Release Date

2024-10-09

Peptides

Death-associated protein kinase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Death-associated protein kinase 1

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