6VWW Viral Protein date Feb 20, 2020
title Crystal Structure Of Nsp15 Endoribonuclease From Sars Cov-2.
authors Y.Kim, R.Jedrzejczak, N.Maltseva, M.Endres, A.Godzik, K.Michalska A.Joachimiak, Center For Structural Genomics Of Infectious D (Csgid)
compound source
Molecule: Uridylate-Specific Endoribonuclease
Chain: A, B
Synonym: Nsp15 Endoribnuclease
Ec: 3.1.-.-
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_variant: Gold
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmcsg53
symmetry Space Group: P 63
R_factor 0.158 R_Free 0.178
length a length b length c angle alpha angle beta angle gamma
150.539 150.539 111.310 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.20 Å
ligand ACY, CL, GOL, MG enzyme Hydrolase E.C.3.1 BRENDA
Primary referenceCrystal structure of Nsp15 endoribonuclease NendoU from SARS-CoV-2., Kim Y, Jedrzejczak R, Maltseva NI, Wilamowski M, Endres M, Godzik A, Michalska K, Joachimiak A, Protein Sci. 2020 Apr 17. doi: 10.1002/pro.3873. PMID:32304108
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (250 Kb) [Save to disk]
  • Biological Unit Coordinates (6vww.pdb1.gz) 723 Kb
  • LPC: Ligand-Protein Contacts for 6VWW
  • CSU: Contacts of Structural Units for 6VWW
  • Structure Factors (3011 Kb)
  • Retrieve 6VWW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6VWW from S2C, [Save to disk]
  • View 6VWW 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 6VWW
  • 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 6vww from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6vww_B] [6vww_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6VWW
  • Community annotation for 6VWW at PDBWiki (http://pdbwiki.org)

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