SMTL ID : 4x8v.1

FACTOR VIIA IN COMPLEX WITH THE INHIBITOR (methyl {3-[(2R)-1-{(2R)-2-(3,4-dimethoxyphenyl)-2-[(1-oxo-1,2,3,4-tetrahydroisoquinolin-7-yl)amino]acetyl}pyrrolidin-2-yl]-4-(propan-2-ylsulfonyl)phenyl}carbamate)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-1-1-mer

Ligands

1 x 3Z9: methyl {3-[(2R)-1-{(2R)-2-(3,4-dimethoxyphenyl)-2-[(1-oxo-1,2,3,4-tetrahydroisoquinolin-7-yl)amino]acetyl}pyrrolidin-2-yl]-4-(propan-2-ylsulfonyl)phenyl}carbamate(Non-covalent)

3Z9.1: 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, F.222, G.223, V.224 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.25, A:H.41, A:V.210 Hydrogen bonds: A:S.192, A:S.192, A:Q.214, A:G.215, A:G.215 Water bridges: A:D.44, A:G.85 pi-Stacking: 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 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.58, A:D.60, A:E.63, A:E.68, H2O.1

3 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 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.72, A:H.97, A:Q.98 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.45, A:K.47, A:N.48 SO4.5: 5 residues within 4Å: Chain A: I.31, N.32, Q.236, M.239 Chain B: H.26 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:I.31, A:N.32, A:Q.236, A:Q.236 Water bridges: A:L.111, B:E.27 Salt bridges: B:H.26

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 5 residues within 4Å: Chain A: F.43, D.44, W.49, P.84, L.248 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.43 GOL.7: 6 residues within 4Å: Chain A: K.5, E.11, C.12, L.128, V.147 Chain B: I.49 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.5, A:E.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cheney, D.L. et al., Discovery of Novel P1 Groups for Coagulation Factor VIIa Inhibition Using Fragment-Based Screening. J.Med.Chem. (2015)

Release Date

2015-03-25

Peptides

Factor VIIa (Heavy Chain): A
Factor VIIa (Light Chain): B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

Factor VIIa (Heavy Chain)

Factor VIIa (Light Chain)

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