7XRT | pdb_00007xrt

Bacteroides thetaiotaomicron ferulic acid esterase (BT_4077)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.01 Å
  • R-Value Free: 
    0.172 (Depositor), 0.172 (DCC) 
  • R-Value Work: 
    0.152 (Depositor), 0.152 (DCC) 
  • R-Value Observed: 
    0.153 (Depositor) 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural insights into the oligomeric effects on catalytic activity of a decameric feruloyl esterase and its application in ferulic acid production.

Du, G.Wang, Y.Zhang, Y.Yu, H.Liu, S.Ma, X.Cao, H.Wei, X.Wen, B.Li, Z.Fan, S.Zhou, H.Xin, F.

(2023) Int J Biol Macromol 253: 126540-126540

  • DOI: https://doi.org/10.1016/j.ijbiomac.2023.126540
  • Primary Citation of Related Structures:  
    7XRT

  • PubMed Abstract: 

    Oligomeric feruloyl esterase (FAE) has great application prospect in industry due to its potentially high stability and fine-tuned activity. However, the relationship between catalytic capability and oligomeric structure remains undetermined. Here we identified and characterized a novel, cold-adapted FAE (BtFae) derived from Bacteroides thetaiotaomicron. Structural studies unraveled that BtFae adopts a barrel-like decameric architecture unique in esterase families. By disrupting the interface, the monomeric variant exhibited significantly reduced catalytic activity and stability toward methyl ferulate, potentially due to its impact on the flexibility of the catalytic triad. Additionally, our results also showed that the monomerization of BtFae severely decreased the ferulic acid release from de-starched wheat bran and insoluble wheat arabinoxylan by 75 % and 80 %, respectively. Collectively, this study revealed novel connections between oligomerization and FAE catalytic function, which will benefit for further protein engineering of FAEs at the quaternary structure level for improved industrial applications.


  • Organizational Affiliation
    • Laboratory of Biomanufacturing and Food Engineering, Institute of Food Science and Technology, Chinese Academy of Agricultural Sciences, Beijing 100193, China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Ferulic acid esterase
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J
291Bacteroides thetaiotaomicron VPI-5482Mutation(s): 0 
Gene Names: BT_4077
UniProt
Find proteins for Q8A0E4 (Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / JCM 5827 / CCUG 10774 / NCTC 10582 / VPI-5482 / E50))
Explore Q8A0E4 
Go to UniProtKB:  Q8A0E4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8A0E4
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
MPD
Query on MPD

Download Ideal Coordinates CCD File 
AA [auth I]
CA [auth J]
L [auth A]
P [auth D]
R [auth E]
AA [auth I],
CA [auth J],
L [auth A],
P [auth D],
R [auth E],
T [auth F],
V [auth G],
W [auth G],
Y [auth H]
(4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
CA
Query on CA

Download Ideal Coordinates CCD File 
BA [auth J]
K [auth A]
M [auth B]
N [auth C]
O [auth D]
BA [auth J],
K [auth A],
M [auth B],
N [auth C],
O [auth D],
Q [auth E],
S [auth F],
U [auth G],
X [auth H],
Z [auth I]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.01 Å
  • R-Value Free:  0.172 (Depositor), 0.172 (DCC) 
  • R-Value Work:  0.152 (Depositor), 0.152 (DCC) 
  • R-Value Observed: 0.153 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 113.385α = 90
b = 160.164β = 90
c = 192.056γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other governmentChina--

Revision History  (Full details and data files)

  • Version 1.0: 2023-11-22
    Type: Initial release
  • Version 1.1: 2024-11-06
    Changes: Database references, Structure summary