SMTL ID : 2aei.1

Crystal structure of a ternary complex of factor VIIa/tissue factor and 2-[[6-[3-(aminoiminomethyl)phenoxy]-3,5-difluro-4-[(1-methyl-3-phenylpropyl)amino]-2-pyridinyl]oxy]-benzoic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.52 Å

Oligo State

hetero-1-1-1-mer

Ligands

8 x CA: CALCIUM ION(Non-covalent)

CA.1: 2 residues within 4Å: Chain A: E.25, E.29 No protein-ligand interaction detected (PLIP) CA.2: 5 residues within 4Å: Chain A: N.2, E.7, E.25, E.26, E.29 No protein-ligand interaction detected (PLIP) CA.3: 6 residues within 4Å: Chain A: E.6, E.7, E.16, E.26, E.29 Ligands: CA.4 No protein-ligand interaction detected (PLIP) CA.4: 8 residues within 4Å: Chain A: A.1, N.2, E.6, E.7, E.16, E.26 Ligands: CA.3, CA.5 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:A.1 CA.5: 5 residues within 4Å: Chain A: A.1, E.6, E.16, E.20 Ligands: CA.4 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:A.1 CA.6: 2 residues within 4Å: Chain A: E.19, E.20 No protein-ligand interaction detected (PLIP) CA.7: 7 residues within 4Å: Chain A: D.46, G.47, Q.49, D.63, Q.64, L.65, Q.66 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.46, A:G.47, A:D.63, A:D.63, A:Q.64 CA.8: 5 residues within 4Å: Chain B: E.58, D.60, E.63, H.64, E.68 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.58, B:D.60, B:E.63, B:E.68, H2O.2

1 x CAC: CACODYLATE ION(Non-covalent)

CAC.9: 7 residues within 4Å: Chain B: C.158, S.162, I.171, Q.214, G.220, H.221, F.222 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.162, B:H.221, B:F.222

1 x 03R: 2-({6-{3-[AMINO(IMINO)METHYL]PHENOXY}-3,5-DIFLUORO-4-[(1-METHYL-3-PHENYLPROPYL)AMINO]-2-PYRIDINYL}OXY)BENZOIC ACID(Non-covalent)

03R.10: 18 residues within 4Å: Chain B: H.41, G.85, T.86, T.87, P.169, D.186, S.187, C.188, K.189, G.190, S.192, S.211, W.212, G.213, Q.214, G.215, C.216, G.223 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:H.41, B:P.169, B:K.189, B:W.212 Hydrogen bonds: B:D.186, B:S.187, B:G.190, B:S.192, B:S.192 Water bridges: B:W.212 Salt bridges: B:H.41 pi-Stacking: B:H.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kohrt, J.T. et al., The discovery of fluoropyridine-based inhibitors of the Factor VIIa/TF complex. Bioorg.Med.Chem.Lett. (2005)

Release Date

2006-08-01

Peptides

Coagulation factor VII: A
Coagulation factor VII: B
Tissue factor: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
T

Coagulation factor VII

Coagulation factor VII

Tissue factor

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