SMTL ID : 2zzu.1

Human Factor VIIA-Tissue Factor Complexed with ethylsulfonamide-D-5-(3-carboxybenzyloxy)-Trp-Gln-p-aminobenzamidine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x BGC: beta-D-glucopyranose(Post Translational Modification)

BGC.1: 4 residues within 4Å: Chain A: Q.49, S.52, P.54, Y.68 No protein-ligand interaction detected (PLIP)

1 x FUC: alpha-L-fucopyranose(Post Translational Modification)

FUC.2: 6 residues within 4Å: Chain A: G.58, S.60, F.71, C.72, L.73 Chain C: R.131 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:L.73 Hydrogen bonds: C:R.131

9 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: D.46, G.47, Q.49, D.63, Q.64 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.4: 4 residues within 4Å: Chain A: E.7, E.26, E.29 Ligands: CA.5 No protein-ligand interaction detected (PLIP) CA.5: 6 residues within 4Å: Chain A: E.7, E.16, E.26, E.29 Ligands: CA.4, CA.6 No protein-ligand interaction detected (PLIP) CA.6: 8 residues within 4Å: Chain A: A.1, N.2, E.6, E.7, E.16, E.26 Ligands: CA.5, CA.7 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:A.1 CA.7: 5 residues within 4Å: Chain A: A.1, E.6, E.16, E.20 Ligands: CA.6 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:A.1, H2O.2 CA.8: 2 residues within 4Å: Chain A: E.14, E.19 No protein-ligand interaction detected (PLIP) CA.9: 1 residues within 4Å: Chain A: E.20 No protein-ligand interaction detected (PLIP) CA.10: 3 residues within 4Å: Chain A: E.25, R.28, E.29 No protein-ligand interaction detected (PLIP) CA.12: 4 residues within 4Å: Chain B: E.58, D.60, E.63, E.68 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.58, B:E.58, B:E.63, H2O.9, H2O.10

1 x 359: 3-[[3-[(2R)-3-[[(2S)-5-amino-1-[(4-carbamimidoylphenyl)methylamino]-1,5-dioxo-pentan-2-yl]amino]-2-(ethylsulfonylamino)-3-oxo-propyl]-1H-indol-5-yl]oxymethyl]benzoic acid(Non-covalent)

359.11: 22 residues within 4Å: Chain B: H.41, D.44, Y.82, G.85, T.86, T.87, D.167, S.168, 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, G.223 26 PLIP interactions: 26 interactions with chain B Hydrophobic interactions: B:P.169, B:P.169, B:K.189, B:V.210, B:W.212 Hydrogen bonds: B:D.44, B:G.85, B:T.86, B:T.87, B:D.186, B:S.187, B:K.189, B:S.211, B:G.213, B:G.213, B:Q.214, B:Q.214, B:G.215, B:G.215 Water bridges: B:K.45, B:K.45, B:T.87, B:N.88, B:N.170, B:W.212, B:A.217

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shiraishi, T. et al., Design and synthesis of peptidomimetic factor VIIa inhibitors. Chem.Pharm.Bull. (2010)

Release Date

2009-03-24

Peptides

Factor VII light chain: A
Factor VII heavy chain: B
Tissue factor: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
T

Factor VII light chain

Factor VII heavy chain

Tissue factor

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