6W41 Immune System Viral Protein date Mar 09, 2020
title Crystal Structure Of Sars-Cov-2 Receptor Binding Domain In C With Human Antibody Cr3022
authors M.Yuan, N.C.Wu, X.Y.Zhu, I.A.Wilson
compound source
Molecule: Cr3022 Fab Heavy Chain
Chain: H
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: Cr3022 Fab Light Chain
Chain: L
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: Spike Protein S1
Chain: C
Fragment: Receptor Binding Domain
Engineered: Yes

Organism_scientific: Severe Acute Respiratory Syndrome Coro 2;
Organism_common: 2019-Ncov
Organism_taxid: 2697049
Gene: S, 2
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111
Expression_system_vector_type: Baculovirus
symmetry Space Group: P 41 2 2
R_factor 0.223 R_Free 0.243
crystal
cell
length a length b length c angle alpha angle beta angle gamma
147.535 147.535 200.156 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.08 Å
ligand GOL, NAG, SO4 enzyme
Primary referenceA highly conserved cryptic epitope in the receptor-binding domains of SARS-CoV-2 and SARS-CoV., Yuan M, Wu NC, Zhu X, Lee CD, So RTY, Lv H, Mok CKP, Wilson IA, Science. 2020 Apr 3. pii: science.abb7269. doi: 10.1126/science.abb7269. PMID:32245784
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (106 Kb) [Save to disk]
  • Biological Unit Coordinates (6w41.pdb1.gz) 101 Kb
  • LPC: Ligand-Protein Contacts for 6W41
  • CSU: Contacts of Structural Units for 6W41
  • Structure Factors (1087 Kb)
  • Retrieve 6W41 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6W41 from S2C, [Save to disk]
  • View 6W41 in 3D
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  • 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 6W41
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6w41 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6w41_C] [6w41_L] [6w41_H]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6W41
  • Community annotation for 6W41 at PDBWiki (http://pdbwiki.org)

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