SMTL ID : 6pd4.1 (1 other biounit)

Crystal Structure of Hendra Virus Attachment G Glycoprotein

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

2 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: V.130, N.136 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 7 residues within 4Å: Chain A: T.191, Y.193, K.245, N.247, S.249, L.250 Ligands: SO4.5 No protein-ligand interaction detected (PLIP)

1 x NAG- FUC- NAG- FUC: alpha-L-fucopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)][alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-FUC-NAG-FUC.3: 4 residues within 4Å: Chain A: R.325, F.326, N.327, N.359 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:N.327

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

NAG.4: 4 residues within 4Å: Chain A: Q.308, W.309, R.310, N.311 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Q.308 Hydrogen bonds: A:W.309, A:N.311

7 x SO4: SULFATE ION(Non-functional Binders)

SO4.5: 6 residues within 4Å: Chain A: G.189, D.190, T.191, N.247, S.249 Ligands: NAG-NAG.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.190, A:S.249 Water bridges: A:Q.188, A:T.191 SO4.6: 3 residues within 4Å: Chain A: R.148, D.159, K.163 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.163 Salt bridges: A:R.148, A:K.163 SO4.7: 5 residues within 4Å: Chain A: D.49, L.64, K.66, H.110, D.132 6 PLIP interactions: 6 interactions with chain A Water bridges: A:D.49, A:K.66, A:S.107, A:H.110 Salt bridges: A:K.66, A:H.110 SO4.8: 5 residues within 4Å: Chain A: D.49, P.50, H.111, C.112, K.390 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:H.111, A:C.112 Water bridges: A:R.78, A:R.78, A:R.78, A:G.182, A:K.390, A:K.390, A:K.390, A:K.390, A:K.390, A:K.390 Salt bridges: A:H.111, A:K.390 SO4.9: 4 residues within 4Å: Chain A: L.135, N.136, S.137, T.138 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.137, A:S.137, A:T.138, A:T.138 Water bridges: A:N.232, A:H.236, A:H.236 SO4.10: 4 residues within 4Å: Chain A: K.426, P.428, A.429, Q.430 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.429, A:Q.430 Salt bridges: A:K.426 SO4.11: 4 residues within 4Å: Chain A: S.69, C.70, T.71, R.72 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:C.70, A:T.71 Salt bridges: A:R.72

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, K. et al., New insights into the Hendra virus attachment and entry process from structures of the virus G glycoprotein and its complex with Ephrin-B2. PLoS ONE (2012)

Release Date

2019-11-27

Peptides

Attachment glycoprotein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Attachment glycoprotein

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