SMTL ID : 4hsi.1 (3 other biounits)

Glycoprotein B from Herpes simplex virus type 1, A504P/R505G/Q507G/N511G mutant, low-pH

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

homo-trimer

Ligands

3 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: 2 residues within 4Å: Chain A: N.371, L.416 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 2 residues within 4Å: Chain B: N.371, L.416 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 2 residues within 4Å: Chain C: N.371, L.416 No protein-ligand interaction detected (PLIP)

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

NAG.2: 2 residues within 4Å: Chain A: A.399, N.403 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:N.403 NAG.6: 2 residues within 4Å: Chain B: A.399, N.403 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:N.403 NAG.10: 2 residues within 4Å: Chain C: A.399, N.403 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:N.403

3 x MRY: MESO-ERYTHRITOL(Non-covalent)

MRY.3: 4 residues within 4Å: Chain A: Y.138, R.162 Chain C: N.682, H.685 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:H.685, A:R.162, A:R.162 Water bridges: C:R.681, C:N.682 MRY.7: 4 residues within 4Å: Chain A: N.682, H.685 Chain B: Y.138, R.162 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:R.162, B:R.162, A:H.685 Water bridges: A:R.681, A:N.682 MRY.11: 4 residues within 4Å: Chain B: N.682, H.685 Chain C: Y.138, R.162 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:H.685, C:R.162, C:R.162 Water bridges: B:R.681, B:N.682

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 4 residues within 4Å: Chain A: R.358, T.367, H.485, R.488 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain B: R.358, T.367, H.485, R.488 Ligand excluded by PLIP CL.12: 4 residues within 4Å: Chain C: R.358, T.367, H.485, R.488 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vitu, E. et al., Extensive Mutagenesis of the HSV-1 gB Ectodomain Reveals Remarkable Stability of Its Postfusion Form. J.Mol.Biol. (2013)

Release Date

2013-03-27

Peptides

Envelope glycoprotein B: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Envelope glycoprotein B

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