5ZOI

Crystal Structure of alpha1,3-Fucosyltransferase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.19 Å
  • R-Value Free: 0.316 
  • R-Value Work: 0.287 
  • R-Value Observed: 0.288 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Directed evolution of an alpha 1,3-fucosyltransferase using a single-cell ultrahigh-throughput screening method.

Tan, Y.Zhang, Y.Han, Y.Liu, H.Chen, H.Ma, F.Withers, S.G.Feng, Y.Yang, G.

(2019) Sci Adv 5: eaaw8451-eaaw8451

  • DOI: 10.1126/sciadv.aaw8451
  • Primary Citation of Related Structures:  
    5ZOI

  • PubMed Abstract: 
  • Fucosylated glycoconjugates are involved in a variety of physiological and pathological processes. However, economical production of fucosylated drugs and prebiotic supplements has been hampered by the poor catalytic efficiency of fucosyltransferases. Here, we developed a fluorescence-activated cell sorting system that enables the ultrahigh-throughput screening (>10 7 mutants/hour) of such enzymes and designed a companion strategy to assess the screening performance of the system ...

    Fucosylated glycoconjugates are involved in a variety of physiological and pathological processes. However, economical production of fucosylated drugs and prebiotic supplements has been hampered by the poor catalytic efficiency of fucosyltransferases. Here, we developed a fluorescence-activated cell sorting system that enables the ultrahigh-throughput screening (>10 7 mutants/hour) of such enzymes and designed a companion strategy to assess the screening performance of the system. After three rounds of directed evolution, a mutant M32 of the α1,3-FucT from Helicobacter pylori was identified with 6- and 14-fold increases in catalytic efficiency ( k cat / K m ) for the synthesis of Lewis x and 3'-fucosyllactose, respectively. The structure of the M32 mutant revealed that the S45F mutation generates a clamp-like structure that appears to improve binding of the galactopyranose ring of the acceptor substrate. Moreover, molecular dynamic simulations reveal that helix α5, is more mobile in the M32 mutant, possibly explaining its high fucosylation activity.


    Organizational Affiliation

    State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic & Developmental Sciences, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Alpha-(1,3)-fucosyltransferase FucTA, B420Helicobacter pyloriMutation(s): 7 
Gene Names: fucT
EC: 2.4.1.152
UniProt
Find proteins for O30511 (Helicobacter pylori)
Explore O30511 
Go to UniProtKB:  O30511
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
C06 (Subject of Investigation/LOI)
Query on C06

Download Ideal Coordinates CCD File 
C [auth A], D [auth B][[(2S,3R,4S,5R)-5-(2-azanyl-6-oxidanylidene-1H-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2S,3S,4S,5R,6R)-6-methyl-3,4,5-tris(oxidanyl)oxan-2-yl] hydrogen phosphate
C16 H25 N5 O15 P2
LQEBEXMHBLQMDB-STHOTVMKSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.19 Å
  • R-Value Free: 0.316 
  • R-Value Work: 0.287 
  • R-Value Observed: 0.288 
  • Space Group: P 32
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 121.664α = 90
b = 121.664β = 90
c = 64.718γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment  



Entry History 

Deposition Data

  • Deposited Date: 2018-04-13 
  • Released Date: 2019-06-26 
  • Deposition Author(s): Tan, Y., Yang, G.

Revision History  (Full details and data files)

  • Version 1.0: 2019-06-26
    Type: Initial release
  • Version 1.1: 2020-01-22
    Changes: Database references