5ZOL

Crystal structure of a three sites mutantion of FSAA complexed with HA and product


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.17 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.193 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

The engineering of decameric d-fructose-6-phosphate aldolase A by combinatorial modulation of inter- and intra-subunit interactions.

Yang, X.Wu, L.Li, A.Ye, L.Zhou, J.Yu, H.

(2020) Chem Commun (Camb) 56: 7561-7564

  • DOI: 10.1039/d0cc02437f
  • Primary Citation of Related Structures:  
    5ZOL

  • PubMed Abstract: 
  • The combinatorial modulation of inter- and intra-subunit interactions of decameric d-fructose-6-phosphate aldolase A (FSAA) generated a triple-site variant I31T/Q59T/I195Q FSAA with 27- to 278-fold improvement in activity towards target heteroaromatic aldehydes ...

    The combinatorial modulation of inter- and intra-subunit interactions of decameric d-fructose-6-phosphate aldolase A (FSAA) generated a triple-site variant I31T/Q59T/I195Q FSAA with 27- to 278-fold improvement in activity towards target heteroaromatic aldehydes. X-ray crystallographic data and molecular dynamics simulations ascribed the enhanced activity to the pronounced flexibility of the interface region between subunits, the expanded substrate entrance and binding pocket, and enhanced proton transfer, unambiguously demonstrating the efficiency of this strategy for engineering multimeric enzymes.


    Organizational Affiliation

    Key Laboratory of Biomass Chemical Engineering (Education Ministry), College of Chemical and Biological Engineering, Zhejiang University, Hangzhou 310027, China. yuhongwei@zju.edu.cn yelidan@zju.edu.cn.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Fructose-6-phosphate aldolase 1
A, B, C, D, E, F, G, H
A, B, C, D, E, F, G, H, I, J
255Escherichia coli K-12Mutation(s): 3 
Gene Names: fsaAfsamipBybiZb0825JW5109
EC: 4.1.2
UniProt
Find proteins for P78055 (Escherichia coli (strain K12))
Explore P78055 
Go to UniProtKB:  P78055
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
LW2 (Subject of Investigation/LOI)
Query on LW2

Download Ideal Coordinates CCD File 
BA [auth F] , IA [auth H] , L [auth A] , LA [auth I] , P [auth B] , PA [auth J] , S [auth C] , V [auth D] , 
BA [auth F], IA [auth H], L [auth A], LA [auth I], P [auth B], PA [auth J], S [auth C], V [auth D], Y [auth E]
(3S,4S)-3,4-dihydroxy-4-(thiophen-2-yl)butan-2-one
C8 H10 O3 S
IGRSBLNSJJCYEW-HTQZYQBOSA-N
 Ligand Interaction
LW1
Query on LW1

Download Ideal Coordinates CCD File 
FA [auth G]thiophene-2-carbaldehyde
C5 H4 O S
CNUDBTRUORMMPA-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download Ideal Coordinates CCD File 
DA [auth F] , GA [auth G] , JA [auth H] , N [auth A] , NA [auth I] , Q [auth B] , QA [auth J] , W [auth D] , 
DA [auth F], GA [auth G], JA [auth H], N [auth A], NA [auth I], Q [auth B], QA [auth J], W [auth D], Z [auth E]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
4Y8
Query on 4Y8

Download Ideal Coordinates CCD File 
AA [auth F] , EA [auth G] , HA [auth H] , K [auth A] , KA [auth I] , O [auth B] , OA [auth J] , R [auth C] , 
AA [auth F], EA [auth G], HA [auth H], K [auth A], KA [auth I], O [auth B], OA [auth J], R [auth C], U [auth D], X [auth E]
1-hydroxypropan-2-one
C3 H6 O2
XLSMFKSTNGKWQX-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

Download Ideal Coordinates CCD File 
CA [auth F], M [auth A], MA [auth I], T [auth C]CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.17 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.193 
  • Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 103.085α = 90
b = 103.085β = 90
c = 492.895γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-3000data reduction
SCALEPACKdata scaling
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment  



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-06-12
    Type: Initial release
  • Version 1.1: 2020-07-22
    Changes: Database references