SMTL ID : 5jnx.1 (1 other biounit)

The 6.6 A cryo-EM structure of the full-length human NPC1 in complex with the cleaved glycoprotein of Ebola virus

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-3-mer

Ligands

4 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: 7 residues within 4Å: Chain A: G.65, F.66, F.68, N.106, C.109, E.110, N.222 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 3 residues within 4Å: Chain A: Q.88, N.524, K.1013 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.88 NAG-NAG.4: 3 residues within 4Å: Chain A: Q.442, N.596, N.598 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 4 residues within 4Å: Chain A: A.183, N.185, T.187, N.188 No protein-ligand interaction detected (PLIP)

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.3: 6 residues within 4Å: Chain A: K.417, D.428, P.430, D.551, N.554, N.557 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.428

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.5: 3 residues within 4Å: Chain A: Y.475, N.476, N.478 No protein-ligand interaction detected (PLIP)

9 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)

NAG.7: 3 residues within 4Å: Chain A: N.158, S.244, I.245 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.158, A:R.161, A:S.244 NAG.8: 2 residues within 4Å: Chain A: Y.571, N.572 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.571, A:N.572 NAG.9: 1 residues within 4Å: Chain A: N.122 No protein-ligand interaction detected (PLIP) NAG.10: 1 residues within 4Å: Chain A: N.70 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.70 NAG.11: 1 residues within 4Å: Chain A: N.1064 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.1064 NAG.12: 1 residues within 4Å: Chain A: N.1072 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.1072 NAG.13: 1 residues within 4Å: Chain A: N.135 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.135 NAG.14: 1 residues within 4Å: Chain A: N.452 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.452 NAG.15: 1 residues within 4Å: Chain A: N.459 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.459

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gong, X. et al., Structural Insights into the Niemann-Pick C1 (NPC1)-Mediated Cholesterol Transfer and Ebola Infection. Cell (2016)

Release Date

2016-06-15

Peptides

Niemann-Pick C1 protein: A
Envelope glycoprotein: BCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
E

D
G

Membrane

We predict this structure to be a membrane protein.
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Niemann-Pick C1 protein

Envelope glycoprotein

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