SMTL ID : 4uf7.1 (1 other biounit)

Ghanaian henipavirus (Gh-M74a) attachment glycoprotein in complex with human ephrinB2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

hetero-1-1-mer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: R.23, R.397, R.404 6 PLIP interactions: 6 interactions with chain A Water bridges: A:R.23, A:G.26, A:G.26 Salt bridges: A:R.23, A:R.397, A:R.404 SO4.2: 2 residues within 4Å: Chain A: E.175, S.176 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.176 Water bridges: A:G.177 SO4.3: 5 residues within 4Å: Chain A: R.89, S.90, R.141, H.142, N.143 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.90, A:S.90, A:N.143 Salt bridges: A:R.89, A:H.142 SO4.4: 3 residues within 4Å: Chain A: L.188, H.189, K.190 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.190 Water bridges: A:L.188, A:H.189 Salt bridges: A:H.189, A:K.190 SO4.5: 7 residues within 4Å: Chain A: N.201, S.203, R.204, T.205, D.206, D.207 Ligands: NAG.10 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.201, A:D.207 Water bridges: A:D.206, A:D.206, A:E.208 SO4.6: 8 residues within 4Å: Chain A: N.40, R.42, S.55, Y.57, K.66, E.69, H.101, S.102 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.40, A:S.55, A:Y.57, A:S.102 Salt bridges: A:R.42, A:K.66 SO4.14: 3 residues within 4Å: Chain B: K.69, K.70, Q.125 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.70, B:Q.125 Water bridges: B:E.71

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.7: 4 residues within 4Å: Chain A: F.310, K.342, S.343, E.344 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.344 Water bridges: A:E.344 ACT.8: 5 residues within 4Å: Chain A: Y.100, C.116, H.136, V.138, I.148 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.100, A:H.136 Salt bridges: A:H.136

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

CL.9: 5 residues within 4Å: Chain A: R.186, S.219, P.220, Q.221, H.222 Ligand excluded by PLIP

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

NAG.10: 5 residues within 4Å: Chain A: N.201, C.202, S.203, R.204 Ligands: SO4.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.204 NAG.11: 6 residues within 4Å: Chain A: T.120, S.121, K.127, A.128, N.129, N.132 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.127, A:K.127, A:N.129 NAG.12: 2 residues within 4Å: Chain A: N.60 Chain B: K.107 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:K.107, B:K.107 Water bridges: A:K.59, A:N.60, A:N.60, A:F.65 NAG.13: 2 residues within 4Å: Chain A: N.12, S.14 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.14 NAG.15: 5 residues within 4Å: Chain B: N.116, S.118, E.120, G.121, N.124 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.118, B:S.118, B:N.124 Water bridges: B:N.116

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, B. et al., Molecular Recognition of Human Ephrinb2 Cell Surface Receptor by an Emergent African Henipavirus. Proc.Natl.Acad.Sci.USA (2015)

Release Date

2015-04-01

Peptides

GLYCOPROTEIN: A
EPHRIN-B2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

GLYCOPROTEIN

EPHRIN-B2

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