SMTL ID : 6w50.1

FACTOR XIA IN COMPLEX WITH THE INHIBITOR METHYL ((10R,14S)- 14-(4-(3-CHLORO-2,6-DIFLUOROPHENYL)-6-OXO-3,6-DIHYDRO- 1(2H)-PYRIDINYL)-10-METHYL-9-OXO-8,16- DIAZATRICYCLO[13.3.1.0~2,7~]NONADECA-1(19),2,4,6,15,17- HEXAEN-5-YL)CARBAMATE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

1 x SWP: methyl ((10R,14S)-14-(4-(3-chloro-2,6-difluorophenyl)-6-oxo-3,6-dihydro- 1(2h)-pyridinyl)-10-methyl-9-oxo-8,16-diazatricyclo[13.3.1.0~2,7~]nonadeca- 1(19),2,4,6,15,17-hexaen-5-yl)carbamate(Non-covalent)

SWP.1: 25 residues within 4Å: Chain A: R.26, H.27, L.28, C.29, H.44, C.45, Y.134, I.141, D.182, A.183, C.184, K.185, G.186, D.187, S.188, T.206, S.207, W.208, G.209, G.211, C.212, G.219, V.220, Y.221 Ligands: SO4.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.28, A:I.141, A:K.185 Hydrogen bonds: A:R.26, A:H.27, A:L.28, A:G.186, A:D.187, A:S.188

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

SO4.2: 5 residues within 4Å: Chain A: H.44, K.185, G.186, S.188 Ligands: SWP.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.186, A:D.187, A:S.188, A:S.188 Salt bridges: A:H.44 SO4.3: 2 residues within 4Å: Chain A: R.161, R.177 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.161, A:R.177

12 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 5 residues within 4Å: Chain A: N.36, T.102, V.103, G.104, Y.105 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.36, A:Y.105 EDO.5: 9 residues within 4Å: Chain A: V.8, R.9, G.10, E.11, W.12, P.13, I.61, L.62, L.145 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.10, A:G.10, A:W.12, A:I.61 EDO.6: 4 residues within 4Å: Chain A: E.89, W.208, G.209, E.210 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.210 Water bridges: A:G.209, A:G.211 EDO.7: 6 residues within 4Å: Chain A: S.90, G.91, Y.92, T.168, K.170, M.171 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.90, A:Y.92, A:T.168 Water bridges: A:Y.92 EDO.8: 9 residues within 4Å: Chain A: V.153, E.157, R.161, G.175, Y.176, R.177, E.216, R.217, P.218 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.157, A:E.157, A:R.161, A:Y.176 Water bridges: A:R.217 EDO.9: 4 residues within 4Å: Chain A: H.169, M.171, I.172, N.223 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.169 Water bridges: A:V.153, A:N.155 EDO.10: 4 residues within 4Å: Chain A: E.11, W.12, W.128, K.147 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.147 EDO.11: 3 residues within 4Å: Chain A: Q.25, I.67, K.68 4 PLIP interactions: 4 interactions with chain A Water bridges: A:H.19, A:Q.25, A:I.67, A:K.68 EDO.12: 5 residues within 4Å: Chain A: I.34, G.35, L.232, T.235, Q.236 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.235, A:Q.236 EDO.13: 4 residues within 4Å: Chain A: K.166, T.168, H.169 Ligands: EDO.15 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.166, A:K.166, A:H.169 EDO.14: 1 residues within 4Å: Chain A: R.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.9 Water bridges: A:N.63 EDO.15: 4 residues within 4Å: Chain A: H.169, K.170, E.226 Ligands: EDO.13 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.169, A:K.170, A:E.226

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, W. et al., Discovery of a High Affinity, Orally Bioavailable Macrocyclic FXIa Inhibitor with Antithrombotic Activity in Preclinical Species. J.Med.Chem. (2020)

Release Date

2020-06-10

Peptides

Coagulation factor XI: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Coagulation factor XI

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