SMTL ID : 1dva.1 (1 other biounit)

Crystal Structure of the Complex Between the Peptide Exosite Inhibitor E-76 and Coagulation Factor VIIA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x BGC- GAL: beta-D-galactopyranose-(1-4)-beta-D-glucopyranose(Post Translational Modification)

BGC-GAL.1: 6 residues within 4Å: Chain B: Q.8, S.11, Q.25, S.26, Y.27, R.38 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.8, B:Q.8, B:S.11, B:Y.27, B:Q.25, B:Y.27, B:Y.27

1 x 0Z6: D-phenylalanyl-N-[(2S,3S)-6-{[amino(iminio)methyl]amino}-1-chloro-2-hydroxyhexan-3-yl]-L-phenylalaninamide(Covalent)

0Z6.2: 16 residues within 4Å: Chain A: H.41, G.85, T.86, T.87, D.186, S.187, C.188, K.189, G.190, S.192, V.210, S.211, W.212, G.213, Q.214, G.215 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:V.210, A:W.212, A:W.212, A:Q.214 Hydrogen bonds: A:S.187, A:S.187, A:G.190, A:D.191, A:S.192, A:S.211, A:G.213, A:G.213, A:G.215, A:G.215 Salt bridges: A:D.186

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: E.58, D.60, E.63, D.65, E.68 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.60, A:E.63, A:D.65, H2O.1 CA.7: 5 residues within 4Å: Chain B: D.5, G.6, Q.8, D.22, Q.23 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.5, B:G.6, B:D.22, B:D.22, B:Q.23

1 x CAC: CACODYLATE ION(Non-covalent)

CAC.4: 8 residues within 4Å: Chain A: C.158, S.162, P.169, I.171, C.177, Q.214, H.221, F.222 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.214, A:H.221, A:F.222, A:F.222, A:F.222

2 x FUC: alpha-L-fucopyranose(Post Translational Modification)(Non-covalent)

FUC.5: 5 residues within 4Å: Chain B: G.17, G.18, S.19, F.30, C.31 No protein-ligand interaction detected (PLIP) FUC.6: 1 residues within 4Å: Chain B: E.91 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.91

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dennis, M.S. et al., Peptide exosite inhibitors of factor VIIa as anticoagulants. Nature (2000)

Release Date

2000-05-12

Peptides

DES-GLA FACTOR VIIA (HEAVY CHAIN): A
DES-GLA FACTOR VIIA (LIGHT CHAIN): B
PEPTIDE E-76: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
X

DES-GLA FACTOR VIIA (HEAVY CHAIN)

DES-GLA FACTOR VIIA (LIGHT CHAIN)

PEPTIDE E-76

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