6M2Q Viral Protein date Feb 28, 2020
title Sars-Cov-2 3cl Protease (3cl Pro) Apo Structure (Space Group
authors H.X.Su, W.F.Zhao, M.J.Li, H.Xie, Y.C.Xu
compound source
Molecule: 3c-Like Proteinase
Chain: A
Synonym: 3cl-Pro, 3clp, Main Protease, Mpro, Non-Structural 5, Nsp5, Sars Coronavirus Main Proteinase;
Engineered: Yes
Organism_scientific: Severe Acute Respiratory Syndrome Coro 2;
Organism_common: 2019-Ncov
Organism_taxid: 2697049
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
symmetry Space Group: C 1 2 1
R_factor 0.176 R_Free 0.204
length a length b length c angle alpha angle beta angle gamma
114.868 53.600 44.705 90.00 101.25 90.00
method X-Ray Diffractionresolution 1.70 Å
enzyme Hydrolase E.C. BRENDA

Primary referenceAnti-SARS-CoV-2 activities in vitro of Shuanghuanglian preparations and bioactive ingredients., Su HX, Yao S, Zhao WF, Li MJ, Liu J, Shang WJ, Xie H, Ke CQ, Hu HC, Gao MN, Yu KQ, Liu H, Shen JS, Tang W, Zhang LK, Xiao GF, Ni L, Wang DW, Zuo JP, Jiang HL, Bai F, Wu Y, Ye Y, Xu YC, Acta Pharmacol Sin. 2020 Sep;41(9):1167-1177. doi: 10.1038/s41401-020-0483-6., Epub 2020 Jul 31. PMID:32737471
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (109 Kb) [Save to disk]
  • Biological Unit Coordinates (6m2q.pdb1.gz) 201 Kb
  • CSU: Contacts of Structural Units for 6M2Q
  • Structure Factors (373 Kb)
  • Retrieve 6M2Q in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6M2Q from S2C, [Save to disk]
  • View 6M2Q 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 6M2Q
  • 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 6m2q from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6m2q_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6M2Q
  • Community annotation for 6M2Q at PDBWiki (http://pdbwiki.org)

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