4V39

Apo-structure of alpha2,3-sialyltransferase variant 2 from Pasteurella dagmatis

• PDB DOI: https://doi.org/10.2210/pdb4V39/pdb

• Classification: TRANSFERASE
• Organism(s): Pasteurella dagmatis
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2014-10-17 Released: 2015-04-08 
• Deposition Author(s): Pavkov-Keller, T., Schmoelzer, K., Czabany, T., Luley-Goedl, C., Ribitsch, D., Schwab, H., Nidetzky, B., Gruber, K.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.263 
• R-Value Work: 0.191 
• R-Value Observed: 0.195 

Starting Model: experimental

Literature

Complete Switch from Alpha2,3- to Alpha2,6-Regioselectivity in Pasteurella Dagmatis Beta-D-Galactoside Sialyltransferase by Active-Site Redesign

Schmoelzer, K., Czabany, T., Pavkov-Keller, T., Luley-Goedl, C., Ribitsch, D., Schwab, H., Gruber, K., Nidetzky, B.

(2015) Chem Commun (Camb) 51: 3083

• PubMed: 25619424 
• DOI: https://doi.org/10.1039/c4cc09772f
• Primary Citation of Related Structures:  
  4V2U, 4V38, 4V39, 4V3B, 4V3C


• PubMed Abstract: 
  

  Structure-guided active-site redesign of a family GT-80 β-D-galactoside sialyltransferase (from Pasteurella dagmatis) to change enzyme regioselectivity from α-2,3 in the wild type to α-2,6 in a P7H-M117A double mutant is reported. Biochemical data for sialylation of lactose together with protein crystal structures demonstrate highly precise enzyme engineering.

---

Organizational Affiliation: 

Austrian Centre of Industrial Biotechnology, Petersgasse 14, 8010 Graz, Austria.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 45.64 kDa 
• Atom Count: 3,277 
• Modelled Residue Count: 388 
• Deposited Residue Count: 388 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SIALYLTRANSFERASE	A	388	Pasteurella dagmatis	Mutation(s): 2
UniProt
Find proteins for K9UUI6 (Pasteurella dagmatis) Explore K9UUI6  Go to UniProtKB:  K9UUI6

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.263 
• R-Value Work: 0.191 
• R-Value Observed: 0.195 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 111.19	α = 90
b = 56.85	β = 111.35
c = 79.68	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-04-08 
Deposition Author(s): Pavkov-Keller, T., Schmoelzer, K., Czabany, T., Luley-Goedl, C., Ribitsch, D., Schwab, H., Nidetzky, B., Gruber, K.

Revision History  

• Version 1.0: 2015-04-08
  Type: Initial release
  
• Version 1.1: 2017-09-27
  Changes: Data collection
• Version 1.2: 2024-01-10
  Changes: Data collection, Database references, Other, Refinement description