SMTL ID : 6fin.1

DDR1, 3-[(3-cyclopropyl-1,2,4-oxadiazol-5-yl)methyl]-8-(1H-indazole-5-carbonyl)-1-phenyl-1,3,8-triazaspiro[4.5]decan-4-one, 1.670A, P1211, Rfree=22.8%

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.67 Å

Oligo State

monomer

Ligands

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

IOD.1: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.2: 2 residues within 4Å: Chain A: Q.125, L.126 Ligand excluded by PLIP IOD.3: 2 residues within 4Å: Chain A: R.66, T.70 Ligand excluded by PLIP IOD.4: 3 residues within 4Å: Chain A: G.27, G.30, K.63 Ligand excluded by PLIP IOD.5: 2 residues within 4Å: Chain A: R.288, P.298 Ligand excluded by PLIP IOD.6: 2 residues within 4Å: Chain A: D.89, P.90 Ligand excluded by PLIP IOD.7: 2 residues within 4Å: Chain A: I.140, S.141 Ligand excluded by PLIP IOD.8: 4 residues within 4Å: Chain A: G.188, M.189, S.190, R.191 Ligand excluded by PLIP

1 x DJQ: 3-[(3-cyclopropyl-1,2,4-oxadiazol-5-yl)methyl]-8-(1~{H}-indazol-5-ylcarbonyl)-1-phenyl-1,3,8-triazaspiro[4.5]decan-4-one(Non-covalent)

DJQ.9: 19 residues within 4Å: Chain A: L.24, V.32, A.61, K.63, E.80, M.84, L.87, I.92, I.93, M.107, T.109, D.110, Y.111, M.112, H.166, L.175, A.185, D.186, F.187 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:A.61, A:K.63, A:L.87, A:I.92, A:I.93, A:M.107, A:T.109, A:L.175, A:F.187 Hydrogen bonds: A:M.112, A:M.112, A:D.186 Water bridges: A:Y.111, A:G.115

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Richter, H. et al., DNA-Encoded Library-Derived DDR1 Inhibitor Prevents Fibrosis and Renal Function Loss in a Genetic Mouse Model of Alport Syndrome. Acs Chem.Biol. (2019)

Release Date

2018-11-28

Peptides

Epithelial discoidin domain-containing receptor 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Epithelial discoidin domain-containing receptor 1

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