SMTL ID : 6sny.2 (1 other biounit)

Synthetic mimic of an EPCR-binding PfEMP1 bound to EPCR

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.11 Å

Oligo State

monomer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 4 residues within 4Å: Chain A: L.14, I.16, N.30, R.96 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.96

1 x NAG- NAG- MAN: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN.2: 3 residues within 4Å: Chain A: A.90, P.92, N.119 No protein-ligand interaction detected (PLIP)

1 x PTY: PHOSPHATIDYLETHANOLAMINE(Non-covalent)

PTY.3: 26 residues within 4Å: Chain A: L.11, M.13, L.14, Q.15, A.31, H.39, L.41, T.65, L.69, Y.72, Q.75, F.76, V.80, L.99, V.116, F.123, W.133, T.147, L.151, R.156, T.157, E.160, L.161, F.164, T.168, Y.172 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:L.11, A:Q.15, A:H.39, A:L.41, A:L.69, A:Y.72, A:Y.72, A:F.76, A:V.80, A:L.99, A:V.116, A:F.123, A:W.133, A:L.151, A:R.156, A:F.164, A:F.164, A:F.164, A:T.168, A:Y.172, A:Y.172 Hydrogen bonds: A:E.160

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.4: 2 residues within 4Å: Chain A: N.47, T.49 No protein-ligand interaction detected (PLIP) NAG.5: 2 residues within 4Å: Chain A: N.155, Y.159 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.155

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Barber, N.M. et al., Structure-Guided Design of a Synthetic Mimic of an Endothelial Protein C Receptor-Binding PfEMP1 Protein. Msphere (2021)

Release Date

2019-09-04

Peptides

Endothelial protein C receptor: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Endothelial protein C receptor

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