6R2R

Aspergillus niger ferulic acid decarboxylase (Fdc) in complex with prFMN (purified in dark) and alphafluorocinnamic acid

  • Classification: LYASE
  • Organism(s): Aspergillus niger
  • Expression System: Escherichia coli
  • Mutation(s): No 

  • Deposited: 2019-03-18 Released: 2019-08-28 
  • Deposition Author(s): Bailey, S.S., Leys, D.
  • Funding Organization(s): European Research Council, Biotechnology and Biological Sciences Research Council

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.13 Å
  • R-Value Free: 0.142 
  • R-Value Work: 0.119 
  • R-Value Observed: 0.120 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Atomic description of an enzyme reaction dependent on reversible 1,3-dipolar cycloaddition

Bailey, S.S.Payne, K.A.P.Saaret, A.Marshall, S.A.Gostimskaya, I.Kosov, I.Fisher, K.Hay, S.Leys, D.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Ferulic acid decarboxylase 1A508Aspergillus nigerMutation(s): 0 
Gene Names: fdc1An03g06590
EC: 4.1.1.102
UniProt
Find proteins for A2QHE5 (Aspergillus niger (strain CBS 513.88 / FGSC A1513))
Explore A2QHE5 
Go to UniProtKB:  A2QHE5
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BYN
Query on BYN

Download Ideal Coordinates CCD File 
E [auth A]hydroxylated prenyl-FMN
C22 H31 N4 O10 P
BDNVCRCOZIAGID-LWGWVAHUSA-N
 Ligand Interaction
4LW
Query on 4LW

Download Ideal Coordinates CCD File 
F [auth A](2Z)-2-fluoro-3-phenylprop-2-enoic acid
C9 H7 F O2
QONCEXMULRJPPY-VURMDHGXSA-N
 Ligand Interaction
MN
Query on MN

Download Ideal Coordinates CCD File 
B [auth A]MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
 Ligand Interaction
K
Query on K

Download Ideal Coordinates CCD File 
C [auth A], D [auth A]POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.13 Å
  • R-Value Free: 0.142 
  • R-Value Work: 0.119 
  • R-Value Observed: 0.120 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 95.681α = 90
b = 63.945β = 90
c = 87.573γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
xia2data reduction
xia2data scaling

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2019-03-18 
  • Released Date: 2019-08-28 
  • Deposition Author(s): Bailey, S.S., Leys, D.

Funding OrganizationLocationGrant Number
European Research CouncilUnited KingdompreFAB 695013
Biotechnology and Biological Sciences Research CouncilUnited KingdomBB/K017802

Revision History  (Full details and data files)

  • Version 1.0: 2019-08-28
    Type: Initial release