SMTL ID : 6tfi.2 (1 other biounit)

PXR IN COMPLEX WITH THROMBIN INHIBITOR COMPOUND 17

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.1: 3 residues within 4Å: Chain A: L.56, V.59, W.105 2 PLIP interactions: 2 interactions with chain A pi-Cation interactions: A:W.105, A:W.105 DMS.4: 4 residues within 4Å: Chain A: T.172, L.217, E.219, Y.222 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.219

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.2: 4 residues within 4Å: Chain A: M.211, K.274, A.277, M.278 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.277 Water bridges: A:K.274

1 x N6H: [2-[(3-chlorophenyl)methylamino]-7-methoxy-1,3-benzoxazol-5-yl]-(2,2-dimethylmorpholin-4-yl)methanone(Non-covalent)

N6H.3: 17 residues within 4Å: Chain A: D.87, S.90, L.91, V.93, M.125, M.128, Q.167, F.170, W.181, Y.188, E.203, M.205, L.206, H.209, H.289, R.292, I.296 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.91, A:L.91, A:W.181, A:Y.188, A:Y.188 Hydrogen bonds: A:Q.167, A:W.181, A:H.289, A:R.292 pi-Stacking: A:F.170, A:W.181

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 4 residues within 4Å: Chain A: E.249, I.253, K.256, F.272 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.249 GOL.6: 5 residues within 4Å: Chain A: I.228, Q.248, M.276, T.280, R.283 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.248, A:M.276, A:T.280, A:R.283 GOL.7: 6 residues within 4Å: Chain A: M.41, K.42, T.43, F.44, D.45, H.50 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.42, A:T.43, A:H.50 Water bridges: A:T.46

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hillisch, A. et al., Design, Synthesis, and Pharmacological Characterization of a Neutral, Non-Prodrug Thrombin Inhibitor with Good Oral Pharmacokinetics. J.Med.Chem. (2020)

Release Date

2020-11-11

Peptides

Nuclear receptor subfamily 1 group I member 2,Nuclear receptor coactivator 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Nuclear receptor subfamily 1 group I member 2,Nuclear receptor coactivator 1

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