Structural and Biochemical Characterization of BdsA from Bacillus subtilis WU-S2B, a Key Enzyme in the "4S" Desulfurization Pathway

Frontiers in Microbiology
Tiantian SuLichuan Gu

Abstract

Dibenzothiophene (DBT) and their derivatives, accounting for the major part of the sulfur components in crude oil, make one of the most significant pollution sources. The DBT sulfone monooxygenase BdsA, one of the key enzymes in the "4S" desulfurization pathway, catalyzes the oxidation of DBT sulfone to 2'-hydroxybiphenyl 2-sulfonic acid (HBPSi). Here, we determined the crystal structure of BdsA from Bacillus subtilis WU-S2B, at the resolution of 2.2 Å, and the structure of the BdsA-FMN complex at 2.4 Å. BdsA and the BdsA-FMN complex exist as tetramers. DBT sulfone was placed into the active site by molecular docking. Seven residues (Phe12, His20, Phe56, Phe246, Val248, His316, and Val372) are found to be involved in the binding of DBT sulfone. The importance of these residues is supported by the study of the catalytic activity of the active site variants. Structural analysis and enzyme activity assay confirmed the importance of the right position and orientation of FMN and DBT sulfone, as well as the involvement of Ser139 as a nucleophile in catalysis. This work combined with our previous structure of DszC provides a systematic structural basis for the development of engineered desulfurization enzymes with higher efficiency an...Continue Reading

References

Apr 1, 1985·Applied and Environmental Microbiology·D J MonticelloW R Finnerty
Nov 1, 1994·Journal of Bacteriology·S A DenomeK D Young
Jul 27, 2000·The Journal of Biological Chemistry·A Kahnert, M A Kertesz
Sep 8, 2001·BMC Bioinformatics·S CristobalA Elofsson
Oct 24, 2002·Acta Crystallographica. Section D, Biological Crystallography·Paul D AdamsThomas C Terwilliger
Jul 2, 2003·Current Opinion in Microbiology·Kevin A GrayCharles H Squires
Jul 24, 2004·Acta Crystallographica. Section D, Biological Crystallography·Alexander W Schüttelkopf, Daan M F van Aalten
Dec 2, 2004·Acta Crystallographica. Section D, Biological Crystallography·Paul Emsley, Kevin Cowtan
Oct 20, 2005·Journal of Bioscience and Bioengineering·H YanO Yoshikawa
Aug 1, 1997·Applied and Environmental Microbiology·J KonishiM Suzuki
May 9, 2006·Current Opinion in Biotechnology·John J Kilbane
Aug 8, 2006·The Journal of Biological Chemistry·Woo Cheol LeeMasaru Tanokura
Oct 13, 2007·Proteins·Pascal BenkertDietmar Schomburg
Apr 29, 2009·Journal of Computational Chemistry·Garrett M MorrisArthur J Olson
Apr 8, 2010·Journal of the American Chemical Society·Tathagata MukherjeeTadhg P Begley
May 12, 2010·Nucleic Acids Research·Liisa Holm, Päivi Rosenström
Nov 6, 2010·Journal of Computer-aided Molecular Design·Markus A Lill, Matthew L Danielson
Apr 5, 2011·Acta Crystallographica. Section D, Biological Crystallography·Martyn D WinnKeith S Wilson
Nov 29, 2013·Biotechnology and Bioengineering·Andres Abin-FuentesKristala L J Prather
Dec 24, 2013·Archives of Biochemistry and Biophysics·Mieke M E HuijbersWillem J H van Berkel
Jan 29, 2014·Proteins·Shiheng LiuLichuan Gu
Jan 30, 2015·The FEBS Journal·Li-Jun GuanMasaru Tanokura
Apr 28, 2016·Journal of the American Chemical Society·Sanjoy Adak, Tadhg P Begley
Aug 31, 2016·Proceedings of the National Academy of Sciences of the United States of America·James T MacDonaldJames W Murray
Jan 1, 1997·Methods in Enzymology·Zbyszek Otwinowski, Wladek Minor

❮ Previous
Next ❯

Methods Mentioned

BETA
PCR
size-exclusion
gel-filtration
X-ray
PISA
circular dichroism

Software Mentioned

DALI
PROCHECK
BdsA
PyMOL
2000
ProQ
AutoDockTools
CCP4
Phaser
Autodock

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

© 2022 Meta ULC. All rights reserved