SMTL ID : 7p56.1

Variant Surface Glycoprotein 2 (VSG2, MiTat1.2, VSG221) Bound to Calcium

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.74 Å

Oligo State

homo-dimer

Ligands

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

NAG-NAG-BMA.1: 11 residues within 4Å: Chain A: K.64, K.67, M.68, A.71, R.74, Y.98, F.287, N.289, E.339, S.343, G.361 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:E.339 Hydrogen bonds: A:R.74, A:S.343 Water bridges: A:R.74

1 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.2: 14 residues within 4Å: Chain B: K.64, K.67, M.68, A.71, R.74, Y.98, F.287, N.289, E.339, S.343, E.344, K.359, G.361, E.362 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:E.339 Hydrogen bonds: B:R.74, B:S.343, B:E.344, B:K.359 Water bridges: B:R.74, B:R.74, B:E.339, B:S.343, B:E.364

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 4 residues within 4Å: Chain A: G.155, D.208, N.209, D.210 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:G.155, A:D.208, A:D.210, H2O.2, H2O.5 CA.4: 4 residues within 4Å: Chain B: G.155, D.208, N.209, D.210 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:G.155, B:D.208, H2O.10, H2O.11, H2O.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gkeka, A. et al., Immunodominant surface epitopes power immune evasion in the African trypanosome. Cell Rep (2023)

Release Date

2022-07-27

Peptides

Variant surface glycoprotein MITAT 1.2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Variant surface glycoprotein MITAT 1.2