SMTL ID : 4z6a.1

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

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x BGC: beta-D-glucopyranose(Non-covalent)

BGC.1: 5 residues within 4Å: Chain A: Q.2, S.5, P.7, Y.21, N.33 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.2, A:Y.21

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

FUC.2: 9 residues within 4Å: Chain A: G.11, G.12, S.13, F.24, C.25, L.26 Chain C: R.128, R.132, F.137 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:F.137 Hydrogen bonds: C:R.128, C:R.128, A:S.13

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

0Z6.3: 24 residues within 4Å: Chain B: C.26, 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, Y.220 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:W.207 Hydrogen bonds: B:S.182, B:S.182, B:G.185, B:S.187, B:S.206, B:G.208, B:G.210, B:G.210, B:G.210 Water bridges: B:W.207, B:G.210 Salt bridges: B:D.181

1 x CA: CALCIUM ION(Non-covalent)

CA.4: 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:E.58, B:E.63, H2O.2, H2O.5

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.5: 6 residues within 4Å: Chain C: K.156, K.163, D.175, V.176, D.177, Y.182 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:D.175, C:Y.182, C:Y.182 Salt bridges: C:K.156, C:K.163

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