4PT5

Crystal structure of PLpro from Middle East Respiratory Syndrome (MERS) coronavirus

• PDB DOI: https://doi.org/10.2210/pdb4PT5/pdb

• Classification: HYDROLASE
• Organism(s): Human betacoronavirus 2c EMC/2012
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2014-03-10 Released: 2014-05-21 
• Deposition Author(s): Lei, H., Santarsiero, B.D., Lee, H., Johnson, M.E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.59 Å
• R-Value Free: 0.299 
• R-Value Work: 0.229 
• R-Value Observed: 0.232 

Literature

Crystal structure of PLpro from Middle East Respiratory Syndrome (MERS) coronavirus

Lei, H., Santarsiero, B.D., Lee, H., Johnson, M.E.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 36.1 kDa 
• Atom Count: 2,526 
• Modelled Residue Count: 321 
• Deposited Residue Count: 324 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Papain-like protease	A	324	Human betacoronavirus 2c EMC/2012	Mutation(s): 0  Gene Names: orf1ab EC: 3.4.22.2
UniProt
Find proteins for K4LC41 (Human betacoronavirus 2c EMC/2012) Explore K4LC41  Go to UniProtKB:  K4LC41

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Modified Residues  2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSO	A	L-PEPTIDE LINKING	C3 H7 N O3 S		CYS
OCS	A	L-PEPTIDE LINKING	C3 H7 N O5 S		CYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.59 Å
• R-Value Free: 0.299 
• R-Value Work: 0.229 
• R-Value Observed: 0.232 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.82	α = 90
b = 47.26	β = 121.6
c = 88.77	γ = 90

Software Package:

Software Name	Purpose
iMOSFLM	data reduction
PHASER	phasing
REFMAC	refinement
XDS	data reduction
XDS	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-05-21 
Deposition Author(s): Lei, H., Santarsiero, B.D., Lee, H., Johnson, M.E.

Revision History  

• Version 1.0: 2014-05-21
  Type: Initial release
  
• Version 1.1: 2014-05-28
  Changes: Structure summary
• Version 1.2: 2014-11-12
  Changes: Structure summary
• Version 1.3: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.4: 2023-12-06
  Changes: Data collection