8C66

Structure of the Reconstructed Ancestor of Phenolic Acid Decarboxylase AncPAD55

• PDB DOI: https://doi.org/10.2210/pdb8C66/pdb

• Classification: LYASE
• Organism(s): synthetic construct
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-01-11 Released: 2023-07-19 
• Deposition Author(s): Schruefer, A., Mokos, D., Gruber, K., Daniel, B.
• Funding Organization(s): H2020 Marie Curie Actions of the European Commission

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.272 
• R-Value Work: 0.230 

Literature

Reconstructed ancestral sequence of bacterial phenolic acid decarboxylase show increased thermostability

Myrtollari, K., Kracher, D., Calderini, E., Mokos, D., Schruefer, A., Wirnsberger, G., Gruber, K., Daniel, B., Kourist, R.

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)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 88.19 kDa 
• Atom Count: 6,165 
• Modelled Residue Count: 676 
• Deposited Residue Count: 768 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phenolic acid decarboxylase N55	A, B, C, D	192	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	E [auth B], F [auth B], G [auth C], H [auth D], I [auth D]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.272 
• R-Value Work: 0.230 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.999	α = 90
b = 105.274	β = 109.77
c = 81.317	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
REFMAC	refinement
PHENIX	model building
AutoProcess	data reduction
AutoProcess	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-07-19 
Deposition Author(s): Schruefer, A., Mokos, D., Gruber, K., Daniel, B.

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Funding Organization	Location	Grant Number
H2020 Marie Curie Actions of the European Commission	European Union	860414

Revision History  

• Version 1.0: 2023-07-19
  Type: Initial release
  
• Version 1.1: 2024-06-19
  Changes: Data collection