SMTL ID : 6ts6.1

Coagulation factor XI protease domain in complex with active site inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.33 Å

Oligo State

monomer

Ligands

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

SO4.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) SO4.2: 3 residues within 4Å: Chain A: Q.84, Y.92, K.170 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.84 Water bridges: A:Y.92, A:Y.92, A:K.170 Salt bridges: A:K.170 SO4.3: 5 residues within 4Å: Chain A: K.117, G.118, D.119, R.120, V.225 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.118, A:R.120 Water bridges: A:D.119, A:R.120, A:R.120 Salt bridges: A:R.120

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

DMS.4: 5 residues within 4Å: Chain A: Y.124, L.152, I.172, V.203, N.223 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Y.124, A:Y.124 DMS.5: 3 residues within 4Å: Chain A: T.125, H.196, N.197 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.197 Water bridges: A:E.198 DMS.6: 4 residues within 4Å: Chain A: T.154, N.155, E.156, H.169 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.155, A:E.156

1 x NW5: 2-[2-[[3-[(3~{S})-3-azanyl-2,3-dihydro-1-benzofuran-5-yl]-5-(2-cyanopropan-2-yl)phenyl]methoxy]phenyl]ethanoic acid(Non-covalent)

NW5.7: 17 residues within 4Å: Chain A: L.28, C.29, H.44, L.137, D.182, A.183, C.184, K.185, G.186, D.187, S.188, T.206, W.208, G.209, G.211, C.212, G.219 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.137, A:K.185, A:T.206 Hydrogen bonds: A:A.183, A:G.186, A:D.187, A:S.188, A:S.188, A:G.211 Salt bridges: A:H.44 pi-Stacking: A:H.44

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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