5KR4

Directed Evolution of Transaminases By Ancestral Reconstruction. Using Old Proteins for New Chemistries

• PDB DOI: https://doi.org/10.2210/pdb5KR4/pdb

• Classification: TRANSFERASE
• Organism(s): Pseudomonas
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-07-06 Released: 2017-07-12 
• Deposition Author(s): Wilding, M., Newman, J., Peat, T.S., Scott, C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.224 
• R-Value Work: 0.192 
• R-Value Observed: 0.194 

Literature

Reverse engineering: transaminase biocatalyst development using ancestral sequence reconstruction

Wilding, M., Peat, T.S., Kalyaanamoorthy, S., Newman, J., Scott, C., Jermiin, L.S.

(2017) Green Chemistry 19: 5375

• DOI: https://doi.org/10.1039/c7gc02343j

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: 104.52 kDa 
• Atom Count: 7,504 
• Modelled Residue Count: 914 
• Deposited Residue Count: 958 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
4-aminobutyrate transaminase	A, B	479	Pseudomonas	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PLP	C [auth A], G [auth B]	PYRIDOXAL-5'-PHOSPHATE C8 H10 N O6 P NGVDGCNFYWLIFO-UHFFFAOYSA-N
EDO	D [auth A], E [auth A], F [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.224 
• R-Value Work: 0.192 
• R-Value Observed: 0.194 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.053	α = 90
b = 121.783	β = 90
c = 125.629	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-07-12 
Deposition Author(s): Wilding, M., Newman, J., Peat, T.S., Scott, C.

Revision History  

• Version 1.0: 2017-07-12
  Type: Initial release
  
• Version 1.1: 2019-01-30
  Changes: Data collection, Database references
• Version 1.2: 2023-10-04
  Changes: Data collection, Database references, Refinement description