5EFZ

Monoclinic structure of the acetyl esterase MekB


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.82 Å
  • R-Value Free: 0.196 
  • R-Value Work: 0.163 
  • R-Value Observed: 0.163 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

A novel esterase subfamily with alpha / beta-hydrolase fold suggested by structures of two bacterial enzymes homologous to l-homoserine O-acetyl transferases.

Tolzer, C.Pal, S.Watzlawick, H.Altenbuchner, J.Niefind, K.

(2016) FEBS Lett 590: 174-184

  • DOI: https://doi.org/10.1002/1873-3468.12031
  • Primary Citation of Related Structures:  
    5D6O, 5D7B, 5E4Y, 5EFZ

  • PubMed Abstract: 

    MekB from Pseudomonas veronii and CgHle from Corynebacteriumglutamicum belong to the superfamily of α/β-hydrolase fold proteins. Based on sequence comparisons, they are annotated as homoserine transacetylases in popular databases like UNIPROT, PFAM or ESTHER. However, experimentally, MekB and CgHle were shown to be esterases that hydrolyse preferentially acetic acid esters. We describe the x-ray structures of these enzymes solved to high resolution. The overall structures confirm the close relatedness to experimentally validated homoserine acetyl transferases, but simultaneously the structures exclude the ability of MekB and CgHle to bind homoserine and acetyl-CoA. Insofar the MekB and CgHle structures suggest dividing the homoserine transacetylase family into subfamilies, namely genuine acetyl transferases and acetyl esterases with MekB and CgHle as constituting members of the latter.


  • Organizational Affiliation

    Department für Chemie, Institut für Biochemie, Universität zu Köln, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Homoserine O-acetyltransferase
A, B, C, D, E
A, B, C, D, E, F
361Pseudomonas veroniiMutation(s): 0 
Gene Names: mekB
EC: 2.3.1 (PDB Primary Data), 2.3.1.31 (PDB Primary Data)
UniProt
Find proteins for Q0MRG5 (Pseudomonas veronii)
Explore Q0MRG5 
Go to UniProtKB:  Q0MRG5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ0MRG5
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download Ideal Coordinates CCD File 
BA [auth C]
CA [auth C]
HA [auth D]
IA [auth D]
N [auth A]
BA [auth C],
CA [auth C],
HA [auth D],
IA [auth D],
N [auth A],
QA [auth F],
RA [auth F],
SA [auth F]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
EDO
Query on EDO

Download Ideal Coordinates CCD File 
AA [auth C]
EA [auth D]
FA [auth D]
G [auth A]
GA [auth D]
AA [auth C],
EA [auth D],
FA [auth D],
G [auth A],
GA [auth D],
H [auth A],
I [auth A],
J [auth A],
K [auth A],
KA [auth E],
L [auth A],
LA [auth E],
M [auth A],
OA [auth F],
P [auth B],
PA [auth F],
Q [auth B],
R [auth B],
S [auth B],
T [auth B],
V [auth C],
W [auth C],
X [auth C],
Y [auth C],
Z [auth C]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
ACT
Query on ACT

Download Ideal Coordinates CCD File 
DA [auth C]
JA [auth D]
MA [auth E]
NA [auth E]
O [auth A]
DA [auth C],
JA [auth D],
MA [auth E],
NA [auth E],
O [auth A],
TA [auth F],
U [auth B]
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.82 Å
  • R-Value Free: 0.196 
  • R-Value Work: 0.163 
  • R-Value Observed: 0.163 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 88.848α = 90
b = 110.342β = 106.89
c = 122.817γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-12-16
    Type: Initial release