Steric Control of the Rate-Limiting Step of UDP-Galactopyranose Mutase

Autores
Pierdominici Sottile, Gustavo; Cossio Pérez, Rodrigo; Da Fonseca, Isabel; Kizjakina, Karina; Tanner, John J.; Sobrado, Pablo
Año de publicación
2018
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
Galactose is an abundant monosaccharide found exclusively in mammals as galactopyranose (Galp), the six-membered ring form of this sugar. In contrast, galactose appears in many pathogenic microorganisms as the five-membered ring form, galactofuranose (Galf). Galf biosynthesis begins with the conversion of UDP-Galp to UDP-Galf catalyzed by the flavoenzyme UDP-galactopyranose mutase (UGM). Because UGM is essential for the survival and proliferation of several pathogens, there is interest in understanding the catalytic mechanism to aid inhibitor development. Herein, we have used kinetic measurements and molecular dynamics simulations to explore the features of UGM that control the rate-limiting step (RLS). We show that UGM from the pathogenic fungus Aspergillus fumigatus also catalyzes the isomerization of UDP-arabinopyranose (UDP-Arap), which differs from UDP-Galp by lacking a -CH 2 -OH substituent at the C5 position of the hexose ring. Unexpectedly, the RLS changed from a chemical step for the natural substrate to product release with UDP-Arap. This result implicated residues that contact the -CH 2 -OH of UDP-Galp in controlling the mechanistic path. The mutation of one of these residues, Trp315, to Ala changed the RLS of the natural substrate to product release, similar to the wild-type enzyme with UDP-Arap. Molecular dynamics simulations suggest that steric complementarity in the Michaelis complex is responsible for this distinct behavior. These results provide new insight into the UGM mechanism and, more generally, how steric factors in the enzyme active site control the free energy barriers along the reaction path.
Fil: Pierdominici Sottile, Gustavo. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Cossio Pérez, Rodrigo. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Da Fonseca, Isabel. Virginia Polytechnic Institute And State University; Estados Unidos
Fil: Kizjakina, Karina. Virginia Polytechnic Institute And State University; Estados Unidos
Fil: Tanner, John J.. University of Missouri; Estados Unidos
Fil: Sobrado, Pablo. Virginia Polytechnic Institute And State University; Estados Unidos
Materia
Aspergillus fumigatus
UDP-galactopyranose mutase
Molecular dynamics
UGM
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/100129

id CONICETDig_738d8fc14510e572aab2e830b9ac76cd
oai_identifier_str oai:ri.conicet.gov.ar:11336/100129
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling Steric Control of the Rate-Limiting Step of UDP-Galactopyranose MutasePierdominici Sottile, GustavoCossio Pérez, RodrigoDa Fonseca, IsabelKizjakina, KarinaTanner, John J.Sobrado, PabloAspergillus fumigatusUDP-galactopyranose mutaseMolecular dynamicsUGMhttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1Galactose is an abundant monosaccharide found exclusively in mammals as galactopyranose (Galp), the six-membered ring form of this sugar. In contrast, galactose appears in many pathogenic microorganisms as the five-membered ring form, galactofuranose (Galf). Galf biosynthesis begins with the conversion of UDP-Galp to UDP-Galf catalyzed by the flavoenzyme UDP-galactopyranose mutase (UGM). Because UGM is essential for the survival and proliferation of several pathogens, there is interest in understanding the catalytic mechanism to aid inhibitor development. Herein, we have used kinetic measurements and molecular dynamics simulations to explore the features of UGM that control the rate-limiting step (RLS). We show that UGM from the pathogenic fungus Aspergillus fumigatus also catalyzes the isomerization of UDP-arabinopyranose (UDP-Arap), which differs from UDP-Galp by lacking a -CH 2 -OH substituent at the C5 position of the hexose ring. Unexpectedly, the RLS changed from a chemical step for the natural substrate to product release with UDP-Arap. This result implicated residues that contact the -CH 2 -OH of UDP-Galp in controlling the mechanistic path. The mutation of one of these residues, Trp315, to Ala changed the RLS of the natural substrate to product release, similar to the wild-type enzyme with UDP-Arap. Molecular dynamics simulations suggest that steric complementarity in the Michaelis complex is responsible for this distinct behavior. These results provide new insight into the UGM mechanism and, more generally, how steric factors in the enzyme active site control the free energy barriers along the reaction path.Fil: Pierdominici Sottile, Gustavo. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Cossio Pérez, Rodrigo. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Da Fonseca, Isabel. Virginia Polytechnic Institute And State University; Estados UnidosFil: Kizjakina, Karina. Virginia Polytechnic Institute And State University; Estados UnidosFil: Tanner, John J.. University of Missouri; Estados UnidosFil: Sobrado, Pablo. Virginia Polytechnic Institute And State University; Estados UnidosAmerican Chemical Society2018-07info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/100129Pierdominici Sottile, Gustavo; Cossio Pérez, Rodrigo; Da Fonseca, Isabel; Kizjakina, Karina; Tanner, John J.; et al.; Steric Control of the Rate-Limiting Step of UDP-Galactopyranose Mutase; American Chemical Society; Biochemistry; 57; 26; 7-2018; 3713-37210006-2960CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/https://pubs.acs.org/doi/10.1021/acs.biochem.8b00323info:eu-repo/semantics/altIdentifier/url/https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6492245/info:eu-repo/semantics/altIdentifier/doi/10.1021/acs.biochem.8b00323info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-29T09:45:28Zoai:ri.conicet.gov.ar:11336/100129instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-09-29 09:45:28.479CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Steric Control of the Rate-Limiting Step of UDP-Galactopyranose Mutase
title Steric Control of the Rate-Limiting Step of UDP-Galactopyranose Mutase
spellingShingle Steric Control of the Rate-Limiting Step of UDP-Galactopyranose Mutase
Pierdominici Sottile, Gustavo
Aspergillus fumigatus
UDP-galactopyranose mutase
Molecular dynamics
UGM
title_short Steric Control of the Rate-Limiting Step of UDP-Galactopyranose Mutase
title_full Steric Control of the Rate-Limiting Step of UDP-Galactopyranose Mutase
title_fullStr Steric Control of the Rate-Limiting Step of UDP-Galactopyranose Mutase
title_full_unstemmed Steric Control of the Rate-Limiting Step of UDP-Galactopyranose Mutase
title_sort Steric Control of the Rate-Limiting Step of UDP-Galactopyranose Mutase
dc.creator.none.fl_str_mv Pierdominici Sottile, Gustavo
Cossio Pérez, Rodrigo
Da Fonseca, Isabel
Kizjakina, Karina
Tanner, John J.
Sobrado, Pablo
author Pierdominici Sottile, Gustavo
author_facet Pierdominici Sottile, Gustavo
Cossio Pérez, Rodrigo
Da Fonseca, Isabel
Kizjakina, Karina
Tanner, John J.
Sobrado, Pablo
author_role author
author2 Cossio Pérez, Rodrigo
Da Fonseca, Isabel
Kizjakina, Karina
Tanner, John J.
Sobrado, Pablo
author2_role author
author
author
author
author
dc.subject.none.fl_str_mv Aspergillus fumigatus
UDP-galactopyranose mutase
Molecular dynamics
UGM
topic Aspergillus fumigatus
UDP-galactopyranose mutase
Molecular dynamics
UGM
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv Galactose is an abundant monosaccharide found exclusively in mammals as galactopyranose (Galp), the six-membered ring form of this sugar. In contrast, galactose appears in many pathogenic microorganisms as the five-membered ring form, galactofuranose (Galf). Galf biosynthesis begins with the conversion of UDP-Galp to UDP-Galf catalyzed by the flavoenzyme UDP-galactopyranose mutase (UGM). Because UGM is essential for the survival and proliferation of several pathogens, there is interest in understanding the catalytic mechanism to aid inhibitor development. Herein, we have used kinetic measurements and molecular dynamics simulations to explore the features of UGM that control the rate-limiting step (RLS). We show that UGM from the pathogenic fungus Aspergillus fumigatus also catalyzes the isomerization of UDP-arabinopyranose (UDP-Arap), which differs from UDP-Galp by lacking a -CH 2 -OH substituent at the C5 position of the hexose ring. Unexpectedly, the RLS changed from a chemical step for the natural substrate to product release with UDP-Arap. This result implicated residues that contact the -CH 2 -OH of UDP-Galp in controlling the mechanistic path. The mutation of one of these residues, Trp315, to Ala changed the RLS of the natural substrate to product release, similar to the wild-type enzyme with UDP-Arap. Molecular dynamics simulations suggest that steric complementarity in the Michaelis complex is responsible for this distinct behavior. These results provide new insight into the UGM mechanism and, more generally, how steric factors in the enzyme active site control the free energy barriers along the reaction path.
Fil: Pierdominici Sottile, Gustavo. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Cossio Pérez, Rodrigo. Universidad Nacional de Quilmes. Departamento de Ciencia y Tecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Da Fonseca, Isabel. Virginia Polytechnic Institute And State University; Estados Unidos
Fil: Kizjakina, Karina. Virginia Polytechnic Institute And State University; Estados Unidos
Fil: Tanner, John J.. University of Missouri; Estados Unidos
Fil: Sobrado, Pablo. Virginia Polytechnic Institute And State University; Estados Unidos
description Galactose is an abundant monosaccharide found exclusively in mammals as galactopyranose (Galp), the six-membered ring form of this sugar. In contrast, galactose appears in many pathogenic microorganisms as the five-membered ring form, galactofuranose (Galf). Galf biosynthesis begins with the conversion of UDP-Galp to UDP-Galf catalyzed by the flavoenzyme UDP-galactopyranose mutase (UGM). Because UGM is essential for the survival and proliferation of several pathogens, there is interest in understanding the catalytic mechanism to aid inhibitor development. Herein, we have used kinetic measurements and molecular dynamics simulations to explore the features of UGM that control the rate-limiting step (RLS). We show that UGM from the pathogenic fungus Aspergillus fumigatus also catalyzes the isomerization of UDP-arabinopyranose (UDP-Arap), which differs from UDP-Galp by lacking a -CH 2 -OH substituent at the C5 position of the hexose ring. Unexpectedly, the RLS changed from a chemical step for the natural substrate to product release with UDP-Arap. This result implicated residues that contact the -CH 2 -OH of UDP-Galp in controlling the mechanistic path. The mutation of one of these residues, Trp315, to Ala changed the RLS of the natural substrate to product release, similar to the wild-type enzyme with UDP-Arap. Molecular dynamics simulations suggest that steric complementarity in the Michaelis complex is responsible for this distinct behavior. These results provide new insight into the UGM mechanism and, more generally, how steric factors in the enzyme active site control the free energy barriers along the reaction path.
publishDate 2018
dc.date.none.fl_str_mv 2018-07
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/100129
Pierdominici Sottile, Gustavo; Cossio Pérez, Rodrigo; Da Fonseca, Isabel; Kizjakina, Karina; Tanner, John J.; et al.; Steric Control of the Rate-Limiting Step of UDP-Galactopyranose Mutase; American Chemical Society; Biochemistry; 57; 26; 7-2018; 3713-3721
0006-2960
CONICET Digital
CONICET
url http://hdl.handle.net/11336/100129
identifier_str_mv Pierdominici Sottile, Gustavo; Cossio Pérez, Rodrigo; Da Fonseca, Isabel; Kizjakina, Karina; Tanner, John J.; et al.; Steric Control of the Rate-Limiting Step of UDP-Galactopyranose Mutase; American Chemical Society; Biochemistry; 57; 26; 7-2018; 3713-3721
0006-2960
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/url/https://pubs.acs.org/doi/10.1021/acs.biochem.8b00323
info:eu-repo/semantics/altIdentifier/url/https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6492245/
info:eu-repo/semantics/altIdentifier/doi/10.1021/acs.biochem.8b00323
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
application/pdf
dc.publisher.none.fl_str_mv American Chemical Society
publisher.none.fl_str_mv American Chemical Society
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
_version_ 1844613425909465088
score 13.070432