SMTL ID : 9mzx.1

Crystal structure of human RIPK1 with Compound 1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.53 Å

Oligo State

homo-dimer

Ligands

2 x 01: 1-[(2S,5S)-2,3-dihydro-2,5-methano-1,4-benzoxazepin-4(5H)-yl]-2,2-dimethylpropan-1-one

01.1: 13 residues within 4Å: Chain A: M.62, L.65, V.70, V.71, M.87, L.124, H.131, I.149, A.150, D.151, L.152, L.154, F.157 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.65, A:L.65, A:V.70, A:L.124, A:D.151, A:L.152, A:L.154, A:F.157 Hydrogen bonds: A:D.151 01.4: 11 residues within 4Å: Chain B: M.62, L.65, V.70, V.71, M.87, L.124, H.131, I.149, A.150, D.151, F.157 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.65, B:V.70, B:L.124, B:D.151, B:F.157 Hydrogen bonds: B:D.151

7 x IOD: IODIDE ION(Non-functional Binders)

IOD.2: 1 residues within 4Å: Chain A: F.280 Ligand excluded by PLIP IOD.3: 1 residues within 4Å: Chain A: R.281 Ligand excluded by PLIP IOD.5: 2 residues within 4Å: Chain B: K.279, F.280 Ligand excluded by PLIP IOD.6: 2 residues within 4Å: Chain B: E.277, R.281 Ligand excluded by PLIP IOD.7: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.8: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.9: 3 residues within 4Å: Chain A: R.69 Chain B: R.281, L.285 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, J.L. et al., The Discovery of Bridged Benzoazepine Amides as Selective Allosteric Modulators of RIPK1. Acs Med.Chem.Lett. (2025)

Release Date

2025-05-28

Peptides

Receptor-interacting serine/threonine-protein kinase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Receptor-interacting serine/threonine-protein kinase 1