SMTL ID : 5qtx.1

FACTOR XIA IN COMPLEX WITH THE INHIBITOR ethyl (2R,7S)-7-({(2E)-3-[5-chloro-2-(1H-tetrazol-1-yl)phenyl]prop-2-enoyl}amino)-14-[(methoxycarbonyl)amino]-1,2,3,4,5,6,7,9-octahydro-11,8-(azeno)-1,9-benzodiazacyclotridecine-2-carboxylate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

hetero-1-1-mer

Ligands

1 x QLD: ethyl (2R,7S)-7-({(2E)-3-[5-chloro-2-(1H-tetrazol-1-yl)phenyl]prop-2-enoyl}amino)-14-[(methoxycarbonyl)amino]-1,2,3,4,5,6,7,9-octahydro-11,8-(azeno)-1,9-benzodiazacyclotridecine-2-carboxylate(Non-covalent)

QLD.1: 32 residues within 4Å: Chain A: T.20, R.26, H.27, L.28, C.29, H.44, C.45, Y.134, L.137, I.141, D.182, A.183, C.184, K.185, G.186, D.187, S.188, T.206, S.207, W.208, G.209, E.210, G.211, C.212, G.219, V.220, Y.221 Ligands: EDO.4, EDO.7, EDO.8, EDO.10, EDO.15 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:T.20, A:R.26, A:I.141, A:T.206 Hydrogen bonds: A:R.26, A:H.27, A:L.28, A:K.185, A:G.186, A:D.187, A:S.188, A:S.188 Water bridges: A:G.209 Salt bridges: A:R.26

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

SO4.2: 10 residues within 4Å: Chain A: S.7, V.8, R.9, G.10, E.11, W.12, P.13, I.61, L.62, L.145 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.10, A:E.11, A:W.12, A:W.12, A:I.61 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

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

EDO.4: 4 residues within 4Å: Ligands: QLD.1, EDO.7, EDO.8, EDO.15 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.185, A:K.185, A:K.185 EDO.5: 4 residues within 4Å: Chain A: N.36, V.103, G.104, Y.105 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.36, A:Y.105 Water bridges: A:Y.105 EDO.6: 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.7: 8 residues within 4Å: Chain A: L.137, K.185, G.209, E.210, G.211 Ligands: QLD.1, EDO.4, EDO.8 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.209, A:G.211 Water bridges: A:K.185, A:K.185 EDO.8: 7 residues within 4Å: Chain A: E.89, W.208, G.209, E.210 Ligands: QLD.1, EDO.4, EDO.7 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.210 Water bridges: A:G.209, A:G.209, A:E.210 EDO.9: 2 residues within 4Å: Chain A: T.168, H.169 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.169 EDO.10: 4 residues within 4Å: Chain A: R.26, Y.134 Ligands: QLD.1, EDO.15 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.26, A:R.26, A:Y.134 EDO.11: 3 residues within 4Å: Chain A: Q.25, I.67, K.68 5 PLIP interactions: 5 interactions with chain A Water bridges: A:H.19, A:Q.25, A:H.27, A:Q.64, A:K.68 EDO.12: 9 residues within 4Å: Chain A: V.153, E.157, R.161, G.175, Y.176, R.177, E.216, R.217, P.218 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.157, A:R.161 Water bridges: A:Y.176, A:R.217 EDO.13: 5 residues within 4Å: Chain A: S.90, G.91, Y.92, T.168, K.170 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.90, A:Y.92, A:T.168 EDO.14: 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.15: 3 residues within 4Å: Ligands: QLD.1, EDO.4, EDO.10 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.185 EDO.16: 6 residues within 4Å: Chain A: R.110, P.111, I.112, C.113, V.199, W.200 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.111, A:C.113, A:W.200

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fang, T. et al., Orally bioavailable amine-linked macrocyclic inhibitors of factor XIa. Bioorg.Med.Chem.Lett. (2020)

Release Date

2020-01-29

Peptides

Coagulation factor XI: A
Coagulation factor XI: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

Coagulation factor XI

Coagulation factor XI

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