6UYM Viral Protein Immune System date Nov 13, 2019
title Structure Of Hepatitis C Virus Envelope Glycoprotein E2mc3-V Redesigned Core From Genotype 1a Bound To Broadly Neutraliz Antibody Ar3c
authors N.Tzarum, I.A.Wilson, J.Zhu
compound source
Molecule: Envelope Glycoprotein E2
Chain: E, F
Engineered: Yes
 Organism_scientific: Hepatitis C Virus (Isolate H)
Organism_taxid: 11108
Strain: Isolate H
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606

Molecule: Fab Ar3c Heavy Chain
Chain: H, A
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606

Molecule: Fab Ar3c Light Chain
Chain: L, B
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
symmetry Space Group: P 1
R_factor 0.215 R_Free 0.260
crystal
cell
length a length b length c angle alpha angle beta angle gamma
45.101 90.840 94.033 84.50 78.11 77.09
method X-Ray Diffractionresolution 2.85 Å
ligand NAG enzyme
Primary referenceProof of concept for rational design of hepatitis C virus E2 core nanoparticle vaccines., He L, Tzarum N, Lin X, Shapero B, Sou C, Mann CJ, Stano A, Zhang L, Nagy K, Giang E, Law M, Wilson IA, Zhu J, Sci Adv. 2020 Apr 15;6(16):eaaz6225. doi: 10.1126/sciadv.aaz6225. eCollection, 2020 Apr. PMID:32494617
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (185 Kb) [Save to disk]
  • Biological Unit Coordinates (6uym.pdb1.gz) 93 Kb
  • Biological Unit Coordinates (6uym.pdb2.gz) 91 Kb
  • LPC: Ligand-Protein Contacts for 6UYM
  • CSU: Contacts of Structural Units for 6UYM
  • Structure Factors (807 Kb)
  • Retrieve 6UYM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6UYM from S2C, [Save to disk]
    • View 6UYM in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 6UYM
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6uym_F] [6uym_B] [6uym_H] [6uym_L] [6uym_A] [6uym_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6UYM
  • Community annotation for 6UYM at PDBWiki (http://pdbwiki.org)

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