SMTL ID : 4zma.1

Crystal Structure of a FVIIa-Trypsin Chimera (ST) in Complex with Soluble Tissue Factor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-1-mer

Ligands

8 x CA: CALCIUM ION(Non-covalent)

CA.1: 8 residues within 4Å: Chain A: D.46, G.47, D.48, 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.2: 5 residues within 4Å: Chain A: N.2, E.7, E.26, E.29 Ligands: CA.3 No protein-ligand interaction detected (PLIP) CA.3: 7 residues within 4Å: Chain A: E.6, E.7, E.16, E.26, E.29 Ligands: CA.2, 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: 6 residues within 4Å: Chain A: A.1, E.6, R.15, E.16, E.20 Ligands: CA.4 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:A.1 CA.6: 3 residues within 4Å: Chain A: R.15, E.19, E.20 No protein-ligand interaction detected (PLIP) CA.7: 2 residues within 4Å: Chain A: E.14, E.19 No protein-ligand interaction detected (PLIP) CA.11: 7 residues within 4Å: Chain B: E.58, H.59, D.60, L.61, E.63, H.64, E.68 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.58, B:D.60, B:E.68, H2O.4, H2O.4

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

BGC.8: 5 residues within 4Å: Chain A: Q.49, A.51, S.52, P.54, Y.68 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.52

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

FUC.9: 8 residues within 4Å: Chain A: G.58, G.59, S.60, F.71, C.72, L.73 Chain C: R.135, F.140 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:F.140 Hydrogen bonds: A:S.60

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

0Z6.10: 24 residues within 4Å: Chain B: C.26, A.39, H.41, C.42, G.85, T.86, T.87, D.181, S.182, C.183, K.184, G.185, D.186, S.187, V.205, S.206, W.207, G.208, Q.209, G.210, C.211, A.212, G.218, V.219 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:W.207, B:W.207 Hydrogen bonds: B:S.182, B:G.185, B:S.187, B:S.206, B:G.208, B:G.210, B:G.210 Water bridges: B:G.208, B:G.210 Salt bridges: B:D.181

2 x CAC: CACODYLATE ION(Non-covalent)

CAC.12: 10 residues within 4Å: Chain B: C.158, S.161, K.165, I.166, C.172, Q.209, G.215, H.216, F.217, V.219 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:C.158, B:S.161, B:F.217 CAC.13: 2 residues within 4Å: Chain B: P.8, E.11 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sorensen, A.B. et al., Molecular Basis of Enhanced Activity in Factor VIIa-Trypsin Variants Conveys Insights into Tissue Factor-mediated Allosteric Regulation of Factor VIIa Activity. J.Biol.Chem. (2016)

Release Date

2015-12-30

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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