4WEB Immune System Viral Protein date Sep 09, 2014
title Structure Of The Core Ectodomain Of The Hepatitis C Virus En Glycoprotein 2
authors A.G.Khan, J.Whidby, M.T.Miller, H.Scarborough, A.V.Zatorski, A.Cy A.A.Price, S.A.Yost, C.D.Bohannon, J.Jacob, A.Grakoui, J.Marcotr
compound source
Molecule: Hepatitis C Virus Envelope Glycoprotein 2
Chain: E
Fragment: Unp Residues 456-655
Engineered: Yes
Organism_scientific: Hepatitis C Virus Subtype 2a
Organism_taxid: 31649
Expression_system: Lentivirus
Expression_system_taxid: 11646

Molecule: Mouse Fab Heavy Chain
Chain: H
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_taxid: 10090
Expression_system: Lentivirus
Expression_system_taxid: 11646

Molecule: Mouse Fab Light Chain
Chain: L
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_taxid: 10090
Expression_system: Lentivirus
Expression_system_taxid: 11646
symmetry Space Group: P 21 21 2
R_factor 0.199 R_Free 0.259
length a length b length c angle alpha angle beta angle gamma
85.960 194.570 37.920 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand ARF, NAG enzyme
note 4WEB supersedes 4NX3
Primary referenceStructure of the core ectodomain of the hepatitis C virus envelope glycoprotein 2., Khan AG, Whidby J, Miller MT, Scarborough H, Zatorski AV, Cygan A, Price AA, Yost SA, Bohannon CD, Jacob J, Grakoui A, Marcotrigiano J, Nature. 2014 Feb 19. doi: 10.1038/nature13117. PMID:24553139
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (96 Kb) [Save to disk]
  • Biological Unit Coordinates (4web.pdb1.gz) 89 Kb
  • LPC: Ligand-Protein Contacts for 4WEB
  • CSU: Contacts of Structural Units for 4WEB
  • Structure Factors (418 Kb)
  • Retrieve 4WEB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4WEB from S2C, [Save to disk]
  • Re-refined 4web structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4WEB 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 4WEB
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4WEB, from MSDmotif at EBI
  • Fold representative 4web from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4web_L] [4web_H] [4web] [4web_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4WEB: [IG_like] [IGv ] by SMART
  • Other resources with information on 4WEB
  • Community annotation for 4WEB at PDBWiki (http://pdbwiki.org)

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