Structural basis for high-affinity adipate binding to AdpC (RPA4515), an orphan periplasmic-binding protein from the tripartite tricarboxylate transporter (TTT) family in Rhodopseudomonas palustris

The FEBS Journal
Leonardo T RosaDavid J Kelly

Abstract

The tripartite tricarboxylate transporter (TTT) family is a poorly characterised group of prokaryotic secondary solute transport systems, which employ a periplasmic substrate-binding protein (SBP) for initial ligand recognition. The substrates of only a small number of TTT systems are known and very few SBP structures have been solved, so the mechanisms of SBP-ligand interactions in this family are not well understood. The SBP RPA4515 (AdpC) from Rhodopseudomonas palustris was found by differential scanning fluorescence and isothermal titration calorimetry to bind aliphatic dicarboxylates of a chain length of six to nine carbons, with KDvalues in the μm range. The highest affinity was found for the C6-dicarboxylate adipate (1,6-hexanedioate). Crystal structures of AdpC, either adipate or 2-oxoadipate bound, revealed a lack of positively charged amino acids in the binding pocket and showed that water molecules are involved in bridging hydrogen bonds to the substrate, a conserved feature in the TTT SBP family that is distinct from other types of SBP. In AdpC, both of the ligand carboxylate groups and a linear chain conformation are needed for coordination in the binding pocket. RT-PCR showed that adpC expression is upregulated by...Continue Reading

References

Dec 1, 1975·European Journal of Biochemistry·N A Donoghue, P W Trudgill
Jan 1, 1996·Annual Review of Microbiology·C S Harwood, R E Parales
Feb 4, 2003·Journal of Bacteriology·Rudy AntoineCamille Locht
Sep 18, 2003·Bioconjugate Chemistry·Igor L MedintzJ Matthew Mauro
Sep 23, 2003·Research in Microbiology·Brit WinnenMilton H Saier
May 1, 1997·Acta Crystallographica. Section D, Biological Crystallography·G N MurshudovE J Dodson
Dec 2, 2004·Acta Crystallographica. Section D, Biological Crystallography·Paul Emsley, Kevin Cowtan
Jul 28, 2005·Journal of Molecular Biology·Rudy AntoineFrançoise Jacob-Dubuisson
Jan 18, 2006·Current Opinion in Biotechnology·Igor L Medintz, Jeffrey R Deschamps
Oct 13, 2006·Proceedings of the National Academy of Sciences of the United States of America·Masoud VedadiAled M Edwards
Oct 24, 2006·Acta Crystallographica. Section D, Biological Crystallography·Isabelle HuventVincent Villeret
Sep 18, 2007·Journal of Molecular Biology·J HerrouF Jacob-Dubuisson
Jul 2, 2008·Environmental Science & Technology·Defeng XingBruce E Logan
Jan 9, 2010·Acta Crystallographica. Section D, Biological Crystallography·Vincent B ChenDavid C Richardson
Mar 23, 2010·Current Opinion in Biotechnology·James B McKinlay, Caroline S Harwood
Jul 27, 2010·Trends in Microbiology·Marcus FischerGavin H Thomas
Mar 26, 2011·Molecular BioSystems·Steven Lin, John E Cronan
Apr 5, 2011·Acta Crystallographica. Section D, Biological Crystallography·Martyn D WinnKeith S Wilson
Aug 10, 2011·BMC Genomics·Sarah E GiulianiFrank R Collart
Sep 15, 2011·PloS One·Rohit GhaiFlavio Henrique-Silva
Sep 17, 2011·Journal of Chemical Information and Modeling·Roman A Laskowski, Mark B Swindells
Mar 31, 2012·The FEBS Journal·Vamsee S ReddyMilton H Saier
Jul 25, 2012·Journal of Biotechnology·Tino PolenMichael Bott
Nov 6, 2012·Current Opinion in Biotechnology·Eduardo DíazJuan Nogales
Aug 6, 2013·Applied and Environmental Microbiology·Masaru HosakaEiji Masai
Jun 30, 2015·Environmental Science & Technology·Samantha AustinDaniel R Noguera
Jan 29, 2016·International Journal of Molecular Sciences·Xing DuShu-Qun Liu
Feb 7, 2016·Journal of Molecular Biology·Jimena RinaldiFernando Alberto Goldbaum
Oct 25, 2016·FEBS Letters·Giel H ScheepersBert Poolman
Feb 6, 2017·Molecular Microbiology·Hannah PiepenbreierSusanne Gebhard

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Citations

May 18, 2019·International Microbiology : the Official Journal of the Spanish Society for Microbiology·Lukas SchäferAlexander Steinbüchel
Feb 27, 2018·Frontiers in Cellular and Infection Microbiology·Leonardo T RosaDavid J Kelly
Apr 27, 2021·Computational and Structural Biotechnology Journal·Miguel A MatillaTino Krell
Oct 31, 2021·Nature Communications·Trishnamoni GautomNeil Dixon

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