6XKL Viral Protein date Jun 26, 2020
title Sars-Cov-2 Hexapro S One Rbd Up
authors D.Wrapp, C.L.Hsieh, J.A.Goldsmith, J.S.Mclellan
compound source
Molecule: Spike Glycoprotein
Chain: A, B, C
Synonym: S Glycoprotein,E2,Peplomer Protein
Engineered: Yes
Mutation: Yes
 Organism_scientific: Severe Acute Respiratory Syndrome Coro 2;
Organism_common: 2019-Ncov
Organism_taxid: 2697049
Gene: S, 2
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 3.21 Å
ligand NAG enzyme
Primary referenceStructure-based design of prefusion-stabilized SARS-CoV-2 spikes., Hsieh CL, Goldsmith JA, Schaub JM, DiVenere AM, Kuo HC, Javanmardi K, Le KC, Wrapp D, Lee AG, Liu Y, Chou CW, Byrne PO, Hjorth CK, Johnson NV, Ludes-Meyers J, Nguyen AW, Park J, Wang N, Amengor D, Lavinder JJ, Ippolito GC, Maynard JA, Finkelstein IJ, McLellan JS, Science. 2020 Sep 18;369(6510):1501-1505. doi: 10.1126/science.abd0826. Epub 2020, Jul 23. PMID:32703906
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (431 Kb) [Save to disk]
  • Biological Unit Coordinates (6xkl.pdb1.gz) 409 Kb
  • LPC: Ligand-Protein Contacts for 6XKL
  • CSU: Contacts of Structural Units for 6XKL
  • Retrieve 6XKL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6XKL from S2C, [Save to disk]
    • View 6XKL 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 6XKL
  • 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: [6xkl_B] [6xkl_C] [6xkl_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6XKL
  • Community annotation for 6XKL at PDBWiki (http://pdbwiki.org)

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