SMTL ID : 5l2y.1

Factor VIIa in complex with the inhibitor 1-[(2R,15R)-2-[(1-amino-4-fluoroisoquinolin-6-yl)amino]-4,15,20-trimethyl-3,12-dioxo-13-oxa-4,11-diazatricyclo[14.2.2.1~6,10~]henicosa-1(18),6,8,10(21),16,19-hexaen-7-yl] cyclobutane-1-carboxylic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

hetero-1-1-mer

Ligands

1 x 70D: 1-[(2R,15R)-2-[(1-amino-4-fluoroisoquinolin-6-yl)amino]-4,15,17-trimethyl-3,12-dioxo-13-oxa-4,11-diazatricyclo[14.2.2.1~6,10~]henicosa-1(18),6(21),7,9,16,19-hexaen-7-yl]cyclobutane-1-carboxylic acid(Non-covalent)

70D.1: 26 residues within 4Å: Chain A: L.25, C.26, H.41, C.42, D.44, K.45, G.85, T.86, T.87, D.90, P.169, D.186, S.187, C.188, K.189, S.192, V.210, S.211, W.212, G.213, Q.214, G.215, C.216, A.217, G.223, Y.225 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:L.25, A:T.87, A:V.210, A:W.212 Hydrogen bonds: A:D.186, A:S.192, A:S.192 Water bridges: A:D.44, A:D.44, A:K.45, A:K.45, A:G.85, A:W.212, A:Q.214 pi-Stacking: A:H.41, A:H.41

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: E.58, D.60, E.63, E.68 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.58, A:D.60, A:E.63, A:E.68, H2O.1, H2O.8

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

SO4.3: 5 residues within 4Å: Chain A: S.70, R.71, R.72, H.97, Q.98 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.72, A:H.97, A:Q.98 Water bridges: A:S.70 Salt bridges: A:R.72, A:H.97 SO4.4: 6 residues within 4Å: Chain A: V.20, N.21, K.45, I.46, K.47, N.48 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.21, A:K.47, A:N.48, A:N.48 SO4.5: 6 residues within 4Å: Chain A: C.158, S.162, I.171, H.221, F.222, V.224 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.162, A:F.222, A:F.222 Salt bridges: A:H.221 SO4.6: 6 residues within 4Å: Chain A: I.31, N.32, L.111, Q.236, M.239 Chain B: H.26 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:N.32, A:Q.236 Water bridges: B:H.26, B:E.27 Salt bridges: B:H.26

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 6 residues within 4Å: Chain A: F.43, D.44, W.49, I.78, P.84, L.248 No protein-ligand interaction detected (PLIP) GOL.8: 7 residues within 4Å: Chain A: C.7, E.11, C.12, L.128, W.204 Chain B: I.49, L.52 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.11 Water bridges: A:W.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ladziata, V.U. et al., Synthesis and P1' SAR exploration of potent macrocyclic tissue factor-factor VIIa inhibitors. Bioorg.Med.Chem.Lett. (2016)

Release Date

2016-09-28

Peptides

Coagulation factor VII (Heavy Chain): A
Coagulation factor VII (Light Chain): B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

Coagulation factor VII (Heavy Chain)

Coagulation factor VII (Light Chain)

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