5LH9

Amine transaminase crystal structure from an uncultivated Pseudomonas species in the PLP-bound (internal aldimine) form

• PDB DOI: https://doi.org/10.2210/pdb5LH9/pdb

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


• Deposited: 2016-07-10 Released: 2017-03-22 
• Deposition Author(s): Reddem, E., Thunnissen, A.M.W.H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.188 
• R-Value Work: 0.161 
• R-Value Observed: 0.164 

Literature

Explaining Operational Instability of Amine Transaminases: Substrate-Induced Inactivation Mechanism and Influence of Quaternary Structure on Enzyme-Cofactor Intermediate Stability.

Borner, T., Ramisch, S., Reddem, E., Bartsch, S., Vogel, A., Thunnissen, A.M.W.H., Adlercreutz, P., Grey, C.

(2017) ACS Catal 7: 1259-1269

• DOI: https://doi.org/10.1021/acscatal.6b02100

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 199.27 kDa 
• Atom Count: 14,301 
• Modelled Residue Count: 1,787 
• Deposited Residue Count: 1,832 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
OMEGA TRANSAMINASE	A, B, C, D	458	Pseudomonas sp.	Mutation(s): 0  EC: 2.6.1.18
UniProt
Find proteins for A0A1W2VMW5 (Pseudomonas sp) Explore A0A1W2VMW5  Go to UniProtKB:  A0A1W2VMW5

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.188 
• R-Value Work: 0.161 
• R-Value Observed: 0.164 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 94.791	α = 90
b = 95.061	β = 90
c = 151.108	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-03-22 
Deposition Author(s): Reddem, E., Thunnissen, A.M.W.H.

Revision History  

• Version 1.0: 2017-03-22
  Type: Initial release
  
• Version 1.1: 2018-03-07
  Changes: Data collection
• Version 1.2: 2024-01-10
  Changes: Data collection, Database references, Refinement description