SMTL ID : 4uf7.2 (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

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

SO4.1: 3 residues within 4Å: Chain A: R.23, R.397, R.404 5 PLIP interactions: 5 interactions with chain A Water bridges: A:R.23, A:G.26 Salt bridges: A:R.23, A:R.397, A:R.404 SO4.2: 3 residues within 4Å: Chain A: R.23, W.369, R.397 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.369 Salt bridges: A:R.23, A:R.397 SO4.3: 4 residues within 4Å: Chain A: N.110, E.111, R.141, K.144 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.111 Salt bridges: A:K.144 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:H.189, A:R.191 Salt bridges: A:H.189, A:K.190 SO4.5: 3 residues within 4Å: Chain A: K.198, K.199, S.200 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.199, A:S.200 Water bridges: A:K.198 Salt bridges: A:K.198, A:K.199 SO4.6: 8 residues within 4Å: Chain A: N.40, R.42, S.55, Y.57, K.66, E.69, H.101, S.102 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:N.40, A:S.55, A:Y.57, A:E.69, A:S.102 Water bridges: A:S.55, A:Y.57 Salt bridges: A:R.42, A:K.66

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

ACT.7: 4 residues within 4Å: Chain A: R.89, S.90, R.141, H.142 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.90 Water bridges: A:R.89, A:S.90, A:Y.92 Salt bridges: A:R.89 ACT.8: 4 residues within 4Å: Chain A: F.310, K.342, S.343, E.344 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.310, A:K.342 ACT.9: 5 residues within 4Å: Chain A: P.17, T.18, I.19, K.362, F.364 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.364 Hydrogen bonds: A:I.19 Salt bridges: A:K.362 ACT.10: 4 residues within 4Å: Chain A: P.298, Y.299, Q.359, I.360 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.360 Hydrogen bonds: A:Y.299, A:I.360 ACT.16: 4 residues within 4Å: Chain A: S.306 Chain B: D.84, I.85, K.86 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:K.86, A:Q.345

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

CL.11: 5 residues within 4Å: Chain A: R.186, S.219, P.220, Q.221, H.222 Ligand excluded by PLIP

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

NAG.12: 3 residues within 4Å: Chain A: D.58, N.60 Chain B: K.107 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:K.107, B:K.107 Water bridges: A:N.60, A:N.60, A:N.60 NAG.13: 6 residues within 4Å: Chain A: T.120, S.121, K.127, A.128, N.129, N.132 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.127, A:K.127, A:N.129, A:S.131 NAG.14: 4 residues within 4Å: Chain A: N.201, C.202, S.203, R.204 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.204 NAG.15: 2 residues within 4Å: Chain A: N.12, S.14 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.14 NAG.17: 5 residues within 4Å: Chain B: N.116, S.118, E.120, G.121, N.124 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.118, B:S.118, B:N.124 NAG.18: 6 residues within 4Å: Chain B: Y.11, N.13, S.15, P.40, Q.49, E.51 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.13

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
A

B
E

GLYCOPROTEIN

EPHRIN-B2

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