5AQE

Cooperative bio-metallic selectivity in a tailored protease enables creation of a C-C cross-coupling Heckase

• PDB DOI: https://doi.org/10.2210/pdb5AQE/pdb

• Classification: HYDROLASE
• Organism(s): Lederbergia lenta
• Expression System: Bacillus subtilis
• Mutation(s): No 


• Deposited: 2015-09-22 Released: 2015-10-07 
• Deposition Author(s): Sharma, M., Diaz-Rodriguez, A., Offen, W.A., Palm-Espling, M.E., Pordea, A., Wormald, M.R., Mcdonough, M., Davies, G.J., Davis, B.G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free: 
  0.088 (Depositor), 0.100 (DCC) 
• R-Value Work: 
  0.076 (Depositor), 0.100 (DCC) 
• R-Value Observed: 
  0.077 (Depositor) 

Starting Model: experimental

Literature

Bisubstrate Localisation by a Tailored Serine Protease Allows Creation of a Heck-Ase

Sharma, M., Diaz-Rodriguez, A., Offen, W.A., Pordea, A., Wormald, M.R., Mcdonough, M., Davies, G.J., Davis, B.G.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 27.27 kDa 
• Atom Count: 2,551 
• Modelled Residue Count: 269 
• Deposited Residue Count: 269 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SUBTILISIN SAVINASE	A	269	Lederbergia lenta	Mutation(s): 0  EC: 3.4.21.62
UniProt
Find proteins for P29600 (Lederbergia lenta) Explore P29600  Go to UniProtKB:  P29600

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
VOD	B [auth A]	(4-VINYLPHENYL)METHANESULFONIC ACID C9 H10 O3 S SDXKWPVFZWZYNK-UHFFFAOYSA-N
SO4	C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	E [auth A], F [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
CA	D [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
CL	G [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free:  0.088 (Depositor), 0.100 (DCC) 
• R-Value Work:  0.076 (Depositor), 0.100 (DCC) 
• R-Value Observed: 0.077 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.648	α = 90
b = 61.246	β = 90
c = 74.615	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-10-07 
Deposition Author(s): Sharma, M., Diaz-Rodriguez, A., Offen, W.A., Palm-Espling, M.E., Pordea, A., Wormald, M.R., Mcdonough, M., Davies, G.J., Davis, B.G.

Revision History  

• Version 1.0: 2015-10-07
  Type: Initial release
  
• Version 1.1: 2024-01-10
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description
• Version 1.2: 2024-10-23
  Changes: Structure summary