1P9U

Coronavirus Main Proteinase (3CLpro) Structure: Basis for Design of anti-SARS Drugs


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.37 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.200 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Coronavirus Main Proteinase (3CLpro) Structure: Basis for Design of anti-SARS Drugs

Anand, K.Ziebuhr, J.Wadhwani, P.Mesters, J.R.Hilgenfeld, R.

(2003) Science 300: 1763-1767

  • DOI: 10.1126/science.1085658
  • Primary Citation of Related Structures:  
    1P9U, 1P9S

  • PubMed Abstract: 
  • A novel coronavirus has been identified as the causative agent of severe acute respiratory syndrome (SARS). The viral main proteinase (Mpro, also called 3CLpro), which controls the activities of the coronavirus replication complex, is an attractive target for therapy ...

    A novel coronavirus has been identified as the causative agent of severe acute respiratory syndrome (SARS). The viral main proteinase (Mpro, also called 3CLpro), which controls the activities of the coronavirus replication complex, is an attractive target for therapy. We determined crystal structures for human coronavirus (strain 229E) Mpro and for an inhibitor complex of porcine coronavirus [transmissible gastroenteritis virus (TGEV)] Mpro, and we constructed a homology model for SARS coronavirus (SARS-CoV) Mpro. The structures reveal a remarkable degree of conservation of the substrate-binding sites, which is further supported by recombinant SARS-CoV Mpro-mediated cleavage of a TGEV Mpro substrate. Molecular modeling suggests that available rhinovirus 3Cpro inhibitors may be modified to make them useful for treating SARS.


    Organizational Affiliation

    Institute of Biochemistry, University of Lübeck, D-23538 Lübeck, Germany.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
putative coronavirus nsp2 (3CL-PRO)A, B, C, D, E, F302Transmissible gastroenteritis virusMutation(s): 0 
Gene Names: ORF1a
EC: 3.4.19.12 (UniProt), 3.4.22 (UniProt), 2.7.7.48 (UniProt), 3.6.4.12 (UniProt), 3.6.4.13 (UniProt), 3.1.13 (UniProt), 3.1 (UniProt), 2.1.1 (UniProt)
UniProt
Find proteins for P0C6Y5 (Porcine transmissible gastroenteritis coronavirus (strain Purdue))
Explore P0C6Y5 
Go to UniProtKB:  P0C6Y5
Protein Feature View
Expand
  • Reference Sequence
  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
PHQ-VNSTLQ-CHLOROMETHYLKETONE INHIBITORG, H8N/AMutation(s): 0 
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MRD
Query on MRD

Download Ideal Coordinates CCD File 
AA [auth D], GA [auth E], N [auth A], U [auth C](4R)-2-METHYLPENTANE-2,4-DIOL
C6 H14 O2
SVTBMSDMJJWYQN-RXMQYKEDSA-N
 Ligand Interaction
SO4
Query on SO4

Download Ideal Coordinates CCD File 
BA [auth E] , CA [auth E] , DA [auth E] , EA [auth E] , FA [auth E] , HA [auth F] , I [auth A] , IA [auth F] , 
BA [auth E],  CA [auth E],  DA [auth E],  EA [auth E],  FA [auth E],  HA [auth F],  I [auth A],  IA [auth F],  J [auth A],  JA [auth F],  K [auth A],  L [auth A],  M [auth A],  O [auth B],  P [auth B],  Q [auth C],  R [auth C],  S [auth C],  T [auth C],  V [auth D],  W [auth D],  X [auth D],  Y [auth D],  Z [auth D]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Biologically Interesting Molecules (External Reference) 1 Unique
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.37 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.200 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 72.39α = 90
b = 158.55β = 94.4
c = 88.2γ = 90
Software Package:
Software NamePurpose
CNSrefinement
MAR345data collection
SCALEPACKdata scaling
CNSphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2003-05-20
    Type: Initial release
  • Version 1.1: 2008-04-29
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary, Version format compliance
  • Version 1.3: 2012-12-12
    Changes: Other
  • Version 1.4: 2017-10-11
    Changes: Refinement description