SMTL ID : 6ts5.1

Coagulation factor XI protease domain in complex with active site inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.29 Å

Oligo State

monomer

Ligands

1 x NW2: 2-[2-[3-[(3~{S})-3-azanyl-2,3-dihydro-1-benzofuran-5-yl]-5-propan-2-yl-phenyl]ethoxy]-3-methoxy-benzoic acid(Non-covalent)

NW2.1: 18 residues within 4Å: Chain A: C.29, H.44, C.45, Y.47, Y.134, L.137, D.182, A.183, C.184, K.185, G.186, S.188, T.206, W.208, G.209, G.211, C.212, G.219 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:Y.134, A:L.137, A:K.185, A:T.206 Hydrogen bonds: A:G.186, A:S.188, A:G.211 Water bridges: A:L.28 Salt bridges: A:H.44 pi-Stacking: A:H.44

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

SO4.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) SO4.3: 3 residues within 4Å: Chain A: Q.84, Y.92, K.170 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.84 Water bridges: A:Y.92, A:Y.92, A:K.170, A:K.170 Salt bridges: A:K.170 SO4.4: 5 residues within 4Å: Chain A: K.117, G.118, D.119, R.120, V.225 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.118, A:R.120 Water bridges: A:K.117, A:D.119

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

DMS.5: 3 residues within 4Å: Chain A: P.151, Y.176, R.177 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.177 Water bridges: A:E.178 DMS.6: 5 residues within 4Å: Chain A: Y.162, R.163, G.164, H.165, E.210 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.164, A:H.165, A:H.165 Salt bridges: A:E.210

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lorthiois, E. et al., Structure-Based Design and Preclinical Characterization of Selective and Orally Bioavailable Factor XIa Inhibitors: Demonstrating the Power of an Integrated S1 Protease Family Approach. J.Med.Chem. (2020)

Release Date

2020-07-08

Peptides

Coagulation factor XI: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Coagulation factor XI

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