6LU7 Viral Protein date Jan 26, 2020
title The Crystal Structure Of Covid-19 Main Protease In Complex W Inhibitor N3
authors X.Liu, B.Zhang, Z.Jin, H.Yang, Z.Rao
compound source
Molecule: 3c-Like Proteinase
Chain: A
Fragment: 3c-Like Proteinase
Synonym: Pp1ab,Orf1ab Polyprotein,3cl-Pro,3clp,Main Proteas Non-Structural Protein 5,Nsp5,Sars Coronavirus Main Protein
Engineered: Yes
Organism_scientific: Severe Acute Respiratory Syndrome Coro 2;
Organism_common: 2019-Ncov
Organism_taxid: 2697049
Gene: Rep, 1a-1b
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-6p-1

Molecule: N-[(5-Methylisoxazol-3-Yl)Carbonyl]Alanyl-L-Valyl ((1r,2z)-4-(Benzyloxy)-4-Oxo-1-{[(3r)-2-Oxopyrrolidin-3- Yl]Methyl}But-2-Enyl)-L-Leucinamide;
Chain: C
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: C 1 2 1
R_factor 0.202 R_Free 0.235
length a length b length c angle alpha angle beta angle gamma
97.931 79.477 51.803 90.00 114.55 90.00
method X-Ray Diffractionresolution 2.16 Å
ligand 010, 02J, PJE enzyme Hydrolase E.C. BRENDA

Primary referenceStructure of M(pro) from COVID-19 virus and discovery of its inhibitors., Jin Z, Du X, Xu Y, Deng Y, Liu M, Zhao Y, Zhang B, Li X, Zhang L, Peng C, Duan Y, Yu J, Wang L, Yang K, Liu F, Jiang R, Yang X, You T, Liu X, Yang X, Bai F, Liu H, Liu X, Guddat LW, Xu W, Xiao G, Qin C, Shi Z, Jiang H, Rao Z, Yang H, Nature. 2020 Apr 9. pii: 10.1038/s41586-020-2223-y. doi:, 10.1038/s41586-020-2223-y. PMID:32272481
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (56 Kb) [Save to disk]
  • Biological Unit Coordinates (6lu7.pdb1.gz) 100 Kb
  • LPC: Ligand-Protein Contacts for 6LU7
  • CSU: Contacts of Structural Units for 6LU7
  • Structure Factors (946 Kb)
  • Retrieve 6LU7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6LU7 from S2C, [Save to disk]
  • View 6LU7 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 6LU7
  • 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 6lu7 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6lu7_C] [6lu7_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6LU7
  • Community annotation for 6LU7 at PDBWiki (http://pdbwiki.org)

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