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Items: 1 to 50 of 74

1.

Accurate prediction of protein beta-aggregation with generalized statistical potentials.

Orlando G, Silva A, Macedo-Ribeiro S, Raimondi D, Vranken W.

Bioinformatics. 2019 Dec 9. pii: btz912. doi: 10.1093/bioinformatics/btz912. [Epub ahead of print]

PMID:
31904854
2.

CLASP2 binding to curved microtubule tips promotes flux and stabilizes kinetochore attachments.

Girão H, Okada N, Rodrigues TA, Silva AO, Figueiredo AC, Garcia Z, Moutinho-Santos T, Hayashi I, Azevedo JE, Macedo-Ribeiro S, Maiato H.

J Cell Biol. 2020 Feb 3;219(2). pii: e201905080. doi: 10.1083/jcb.201905080.

PMID:
31757788
3.

DisProt: intrinsic protein disorder annotation in 2020.

Hatos A, Hajdu-Soltész B, Monzon AM, Palopoli N, Álvarez L, Aykac-Fas B, Bassot C, Benítez GI, Bevilacqua M, Chasapi A, Chemes L, Davey NE, Davidović R, Dunker AK, Elofsson A, Gobeill J, Foutel NSG, Sudha G, Guharoy M, Horvath T, Iglesias V, Kajava AV, Kovacs OP, Lamb J, Lambrughi M, Lazar T, Leclercq JY, Leonardi E, Macedo-Ribeiro S, Macossay-Castillo M, Maiani E, Manso JA, Marino-Buslje C, Martínez-Pérez E, Mészáros B, Mičetić I, Minervini G, Murvai N, Necci M, Ouzounis CA, Pajkos M, Paladin L, Pancsa R, Papaleo E, Parisi G, Pasche E, Barbosa Pereira PJ, Promponas VJ, Pujols J, Quaglia F, Ruch P, Salvatore M, Schad E, Szabo B, Szaniszló T, Tamana S, Tantos A, Veljkovic N, Ventura S, Vranken W, Dosztányi Z, Tompa P, Tosatto SCE, Piovesan D.

Nucleic Acids Res. 2020 Jan 8;48(D1):D269-D276. doi: 10.1093/nar/gkz975.

PMID:
31713636
4.

The structural characterization of a glucosylglycerate hydrolase provides insights into the molecular mechanism of mycobacterial recovery from nitrogen starvation.

Cereija TB, Alarico S, Lourenço EC, Manso JA, Ventura MR, Empadinhas N, Macedo-Ribeiro S, Pereira PJB.

IUCrJ. 2019 May 8;6(Pt 4):572-585. doi: 10.1107/S2052252519005372. eCollection 2019 Jul 1.

5.

Molecular Fingerprints for a Novel Enzyme Family in Actinobacteria with Glucosamine Kinase Activity.

Manso JA, Nunes-Costa D, Macedo-Ribeiro S, Empadinhas N, Pereira PJB.

mBio. 2019 May 14;10(3). pii: e00239-19. doi: 10.1128/mBio.00239-19.

6.

Genetic code ambiguity modulates the activity of a C. albicans MAP kinase linked to cell wall remodeling.

Fraga JS, Sárkány Z, Silva A, Correia I, Pereira PJB, Macedo-Ribeiro S.

Biochim Biophys Acta Proteins Proteom. 2019 Jun;1867(6):654-661. doi: 10.1016/j.bbapap.2019.02.004. Epub 2019 Feb 20.

PMID:
30797104
7.

Chemical Kinetic Strategies for High-Throughput Screening of Protein Aggregation Modulators.

Sárkány Z, Rocha F, Damas AM, Macedo-Ribeiro S, Martins PM.

Chem Asian J. 2019 Feb 15;14(4):500-508. doi: 10.1002/asia.201801703. Epub 2019 Feb 1. Review.

PMID:
30644650
8.

Biosynthesis of mycobacterial methylmannose polysaccharides requires a unique 1-O-methyltransferase specific for 3-O-methylated mannosides.

Ripoll-Rozada J, Costa M, Manso JA, Maranha A, Miranda V, Sequeira A, Ventura MR, Macedo-Ribeiro S, Pereira PJB, Empadinhas N.

Proc Natl Acad Sci U S A. 2019 Jan 15;116(3):835-844. doi: 10.1073/pnas.1813450116. Epub 2019 Jan 3.

9.

Anti-TTR Nanobodies Allow the Identification of TTR Neuritogenic Epitope Associated with TTR-Megalin Neurotrophic Activities.

Gomes JR, Sárkány Z, Teixeira A, Nogueira R, Cabrito I, Soares H, Wittelsberger A, Stortelers C, Macedo-Ribeiro S, Vanlandschoot P, Saraiva MJ.

ACS Chem Neurosci. 2019 Jan 16;10(1):704-715. doi: 10.1021/acschemneuro.8b00502. Epub 2018 Oct 23.

PMID:
30346709
10.

Probing the Occurrence of Soluble Oligomers through Amyloid Aggregation Scaling Laws.

Silva A, Sárkány Z, Fraga JS, Taboada P, Macedo-Ribeiro S, Martins PM.

Biomolecules. 2018 Oct 4;8(4). pii: E108. doi: 10.3390/biom8040108.

11.

Polyglutamine-Independent Features in Ataxin-3 Aggregation and Pathogenesis of Machado-Joseph Disease.

Carvalho AL, Silva A, Macedo-Ribeiro S.

Adv Exp Med Biol. 2018;1049:275-288. doi: 10.1007/978-3-319-71779-1_14. Review.

PMID:
29427109
12.

Molecular motion regulates the activity of the Mitochondrial Serine Protease HtrA2.

Merski M, Moreira C, Abreu RM, Ramos MJ, Fernandes PA, Martins LM, Pereira PJB, Macedo-Ribeiro S.

Cell Death Dis. 2017 Oct 12;8(10):e3119. doi: 10.1038/cddis.2017.487.

13.

Polyglutamine expansion diseases: More than simple repeats.

Silva A, de Almeida AV, Macedo-Ribeiro S.

J Struct Biol. 2018 Feb;201(2):139-154. doi: 10.1016/j.jsb.2017.09.006. Epub 2017 Sep 18. Review.

PMID:
28928079
14.

Distribution of Amyloid-Like and Oligomeric Species from Protein Aggregation Kinetics.

Silva A, Almeida B, Fraga JS, Taboada P, Martins PM, Macedo-Ribeiro S.

Angew Chem Int Ed Engl. 2017 Nov 6;56(45):14042-14045. doi: 10.1002/anie.201707345. Epub 2017 Oct 4.

PMID:
28906069
15.

Corrigendum: DisProt 7.0: a major update of the database of disordered proteins.

Piovesan D, Tabaro F, Mičetić I, Necci M, Quaglia F, Oldfield CJ, Aspromonte MC, Davey NE, Davidović R, Dosztányi Z, Elofsson A, Gasparini A, Hatos A, Kajava AV, Kalmar L, Leonardi E, Lazar T, Macedo-Ribeiro S, Macossay-Castillo M, Meszaros A, Minervini G, Murvai N, Pujols J, Roche DB, Salladini E, Schad E, Schramm A, Szabo B, Tantos A, Tonello F, Tsirigos KD, Veljković N, Ventura S, Vranken W, Warholm P, Uversky VN, Dunker AK, Longhi S, Tompa P, Tosatto SC.

Nucleic Acids Res. 2017 Jan 4;45(D1):D1123-D1124. doi: 10.1093/nar/gkw1279. Epub 2016 Dec 13. No abstract available.

16.

DisProt 7.0: a major update of the database of disordered proteins.

Piovesan D, Tabaro F, Mičetić I, Necci M, Quaglia F, Oldfield CJ, Aspromonte MC, Davey NE, Davidović R, Dosztányi Z, Elofsson A, Gasparini A, Hatos A, Kajava AV, Kalmar L, Leonardi E, Lazar T, Macedo-Ribeiro S, Macossay-Castillo M, Meszaros A, Minervini G, Murvai N, Pujols J, Roche DB, Salladini E, Schad E, Schramm A, Szabo B, Tantos A, Tonello F, Tsirigos KD, Veljković N, Ventura S, Vranken W, Warholm P, Uversky VN, Dunker AK, Longhi S, Tompa P, Tosatto SC.

Nucleic Acids Res. 2017 Jan 4;45(D1):D219-D227. doi: 10.1093/nar/gkw1056. Epub 2016 Nov 28. Erratum in: Nucleic Acids Res. 2017 Jan 4;45(D1):D1123-D1124.

17.

Disclosing the essentiality of ribose-5-phosphate isomerase B in Trypanosomatids.

Faria J, Loureiro I, Santarém N, Cecílio P, Macedo-Ribeiro S, Tavares J, Cordeiro-da-Silva A.

Sci Rep. 2016 May 27;6:26937. doi: 10.1038/srep26937.

18.

Ataxin-3 phosphorylation decreases neuronal defects in spinocerebellar ataxia type 3 models.

Matos CA, Nóbrega C, Louros SR, Almeida B, Ferreiro E, Valero J, Pereira de Almeida L, Macedo-Ribeiro S, Carvalho AL.

J Cell Biol. 2016 Feb 15;212(4):465-80. doi: 10.1083/jcb.201506025.

19.

Leishmania infantum Asparagine Synthetase A Is Dispensable for Parasites Survival and Infectivity.

Faria J, Loureiro I, Santarém N, Macedo-Ribeiro S, Tavares J, Cordeiro-da-Silva A.

PLoS Negl Trop Dis. 2016 Jan 15;10(1):e0004365. doi: 10.1371/journal.pntd.0004365. eCollection 2016 Jan.

20.

Severe neonatal jaundice due to a de novo glucose-6-phosphate dehydrogenase deficient mutation.

Del Orbe Barreto R, Arrizabalaga B, de la Hoz AB, Aragües P, Garcia-Ruiz JC, Arrieta A, Adán R, Manco L, Macedo-Ribeiro S, Bento C, Ribeiro ML.

Int J Lab Hematol. 2016 Apr;38(2):e27-9. doi: 10.1111/ijlh.12455. Epub 2015 Dec 23. No abstract available.

PMID:
26693676
21.

Biophysical characterization of laforin-carbohydrate interaction.

Dias DM, Furtado J, Wasielewski E, Cruz R, Costello B, Cole L, Faria TQ, Baaske P, Brito RM, Ciulli A, Simões I, Macedo-Ribeiro S, Faro C, Geraldes CF, Castanheira P.

Biochem J. 2016 Feb 1;473(3):335-45. doi: 10.1042/BJ20141555. Epub 2015 Nov 17.

PMID:
26578817
22.

Octanoylation of early intermediates of mycobacterial methylglucose lipopolysaccharides.

Maranha A, Moynihan PJ, Miranda V, Correia Lourenço E, Nunes-Costa D, Fraga JS, José Barbosa Pereira P, Macedo-Ribeiro S, Ventura MR, Clarke AJ, Empadinhas N.

Sci Rep. 2015 Sep 1;5:13610. doi: 10.1038/srep13610.

23.

SUMOylation of the brain-predominant Ataxin-3 isoform modulates its interaction with p97.

Almeida B, Abreu IA, Matos CA, Fraga JS, Fernandes S, Macedo MG, Gutiérrez-Gallego R, Pereira PJ, Carvalho AL, Macedo-Ribeiro S.

Biochim Biophys Acta. 2015 Sep;1852(9):1950-9. doi: 10.1016/j.bbadis.2015.06.010. Epub 2015 Jun 11.

24.

Examination of Ataxin-3 (atx-3) Aggregation by Structural Mass Spectrometry Techniques: A Rationale for Expedited Aggregation upon Polyglutamine (polyQ) Expansion.

Scarff CA, Almeida B, Fraga J, Macedo-Ribeiro S, Radford SE, Ashcroft AE.

Mol Cell Proteomics. 2015 May;14(5):1241-53. doi: 10.1074/mcp.M114.044610. Epub 2015 Feb 19.

25.

What a difference a cluster makes: The multifaceted roles of IscR in gene regulation and DNA recognition.

Santos JA, Pereira PJ, Macedo-Ribeiro S.

Biochim Biophys Acta. 2015 Sep;1854(9):1101-12. doi: 10.1016/j.bbapap.2015.01.010. Epub 2015 Jan 30. Review.

PMID:
25641558
26.

Structure of mycobacterial maltokinase, the missing link in the essential GlgE-pathway.

Fraga J, Maranha A, Mendes V, Pereira PJ, Empadinhas N, Macedo-Ribeiro S.

Sci Rep. 2015 Jan 26;5:8026. doi: 10.1038/srep08026.

27.

Structural basis for host membrane remodeling induced by protein 2B of hepatitis A virus.

Vives-Adrián L, Garriga D, Buxaderas M, Fraga J, Pereira PJ, Macedo-Ribeiro S, Verdaguer N.

J Virol. 2015 Apr;89(7):3648-58. doi: 10.1128/JVI.02881-14. Epub 2015 Jan 14.

28.

Ribose 5-phosphate isomerase B knockdown compromises Trypanosoma brucei bloodstream form infectivity.

Loureiro I, Faria J, Clayton C, Macedo-Ribeiro S, Santarém N, Roy N, Cordeiro-da-Siva A, Tavares J.

PLoS Negl Trop Dis. 2015 Jan 8;9(1):e3430. doi: 10.1371/journal.pntd.0003430. eCollection 2015 Jan.

29.

Molecular and computational analyses of genes involved in mannose 6-phosphate independent trafficking.

Coutinho MF, Lacerda L, Pinto E, Ribeiro H, Macedo-Ribeiro S, Castro L, Prata MJ, Alves S.

Clin Genet. 2015 Aug;88(2):190-4. doi: 10.1111/cge.12469. Epub 2014 Sep 17.

PMID:
25088547
30.

The unique regulation of iron-sulfur cluster biogenesis in a Gram-positive bacterium.

Santos JA, Alonso-García N, Macedo-Ribeiro S, Pereira PJ.

Proc Natl Acad Sci U S A. 2014 Jun 3;111(22):E2251-60. doi: 10.1073/pnas.1322728111. Epub 2014 May 20.

31.

Ser or Leu: structural snapshots of mistranslation in Candida albicans.

Sárkány Z, Silva A, Pereira PJ, Macedo-Ribeiro S.

Front Mol Biosci. 2014 Dec 19;1:27. doi: 10.3389/fmolb.2014.00027. eCollection 2014. Review.

32.

A tale of a tail: Structural insights into the conformational properties of the polyglutamine protein ataxin-3.

Scarff CA, Sicorello A, Tomé RJ, Macedo-Ribeiro S, Ashcroft AE, Radford SE.

Int J Mass Spectrom. 2013 Jul 1;345-347:63-70.

33.

Trinucleotide repeats: a structural perspective.

Almeida B, Fernandes S, Abreu IA, Macedo-Ribeiro S.

Front Neurol. 2013 Jun 20;4:76. doi: 10.3389/fneur.2013.00076. eCollection 2013.

34.

The Drosophila melanogaster methuselah gene: a novel gene with ancient functions.

Araújo AR, Reis M, Rocha H, Aguiar B, Morales-Hojas R, Macedo-Ribeiro S, Fonseca NA, Reboiro-Jato D, Reboiro-Jato M, Fdez-Riverola F, Vieira CP, Vieira J.

PLoS One. 2013 May 16;8(5):e63747. doi: 10.1371/journal.pone.0063747. Print 2013.

35.

The apoptogenic toxin AIP56 is a metalloprotease A-B toxin that cleaves NF-κb P65.

Silva DS, Pereira LM, Moreira AR, Ferreira-da-Silva F, Brito RM, Faria TQ, Zornetta I, Montecucco C, Oliveira P, Azevedo JE, Pereira PJ, Macedo-Ribeiro S, do Vale A, dos Santos NM.

PLoS Pathog. 2013 Feb;9(2):e1003128. doi: 10.1371/journal.ppat.1003128. Epub 2013 Feb 28.

36.

Biochemical and biophysical characterization of recombinant yeast proteasome maturation factor ump1.

Sá-Moura B, Simões AM, Fraga J, Fernandes H, Abreu IA, Botelho HM, Gomes CM, Marques AJ, Dohmen RJ, Ramos PC, Macedo-Ribeiro S.

Comput Struct Biotechnol J. 2013 Sep 10;7:e201304006. doi: 10.5936/csbj.201304006. eCollection 2013.

37.

Unique thrombin inhibition mechanism by anophelin, an anticoagulant from the malaria vector.

Figueiredo AC, de Sanctis D, Gutiérrez-Gallego R, Cereija TB, Macedo-Ribeiro S, Fuentes-Prior P, Pereira PJ.

Proc Natl Acad Sci U S A. 2012 Dec 26;109(52):E3649-58. doi: 10.1073/pnas.1211614109. Epub 2012 Dec 5.

38.

Genome sequence of Mycobacterium hassiacum DSM 44199, a rare source of heat-stable mycobacterial proteins.

Tiago I, Maranha A, Mendes V, Alarico S, Moynihan PJ, Clarke AJ, Macedo-Ribeiro S, Pereira PJ, Empadinhas N.

J Bacteriol. 2012 Dec;194(24):7010-1. doi: 10.1128/JB.01880-12.

39.

Cdk1 and Plk1 mediate a CLASP2 phospho-switch that stabilizes kinetochore-microtubule attachments.

Maia AR, Garcia Z, Kabeche L, Barisic M, Maffini S, Macedo-Ribeiro S, Cheeseman IM, Compton DA, Kaverina I, Maiato H.

J Cell Biol. 2012 Oct 15;199(2):285-301. doi: 10.1083/jcb.201203091. Epub 2012 Oct 8.

40.

Cloning, purification and preliminary crystallographic studies of the 2AB protein from hepatitis A virus.

Garriga D, Vives-Adrián L, Buxaderas M, Ferreira-da-Silva F, Almeida B, Macedo-Ribeiro S, Pereira PJ, Verdaguer N.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Oct 1;67(Pt 10):1224-7. doi: 10.1107/S1744309111026261. Epub 2011 Sep 29.

41.

Unveiling the structural basis for translational ambiguity tolerance in a human fungal pathogen.

Rocha R, Pereira PJ, Santos MA, Macedo-Ribeiro S.

Proc Natl Acad Sci U S A. 2011 Aug 23;108(34):14091-6. doi: 10.1073/pnas.1102835108. Epub 2011 Aug 8.

42.

Polyglutamine diseases: the special case of ataxin-3 and Machado-Joseph disease.

Matos CA, de Macedo-Ribeiro S, Carvalho AL.

Prog Neurobiol. 2011 Sep 15;95(1):26-48. doi: 10.1016/j.pneurobio.2011.06.007. Epub 2011 Jun 28. Review.

PMID:
21740957
43.

Lysosomal multienzymatic complex-related diseases: a genetic study among Portuguese patients.

Coutinho MF, Lacerda L, Macedo-Ribeiro S, Baptista E, Ribeiro H, Prata MJ, Alves S.

Clin Genet. 2012 Apr;81(4):379-93. doi: 10.1111/j.1399-0004.2011.01625.x. Epub 2011 Mar 1.

PMID:
21214877
44.

Purification, crystallization and preliminary X-ray diffraction analysis of the seryl-tRNA synthetase from Candida albicans.

Rocha R, Barbosa Pereira PJ, Santos MA, Macedo-Ribeiro S.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Jan 1;67(Pt 1):153-6. doi: 10.1107/S1744309110048542. Epub 2010 Dec 24.

45.

Functional and structural characterization of a novel mannosyl-3-phosphoglycerate synthase from Rubrobacter xylanophilus reveals its dual substrate specificity.

Empadinhas N, Pereira PJ, Albuquerque L, Costa J, Sá-Moura B, Marques AT, Macedo-Ribeiro S, da Costa MS.

Mol Microbiol. 2011 Jan;79(1):76-93. doi: 10.1111/j.1365-2958.2010.07432.x. Epub 2010 Nov 2.

46.

Ataxin-3 plays a role in mouse myogenic differentiation through regulation of integrin subunit levels.

do Carmo Costa M, Bajanca F, Rodrigues AJ, Tomé RJ, Corthals G, Macedo-Ribeiro S, Paulson HL, Logarinho E, Maciel P.

PLoS One. 2010 Jul 23;5(7):e11728. doi: 10.1371/journal.pone.0011728.

47.

Leech-derived thrombin inhibitors: from structures to mechanisms to clinical applications.

Corral-Rodríguez MA, Macedo-Ribeiro S, Pereira PJ, Fuentes-Prior P.

J Med Chem. 2010 May 27;53(10):3847-61. doi: 10.1021/jm901743x. Review. No abstract available.

PMID:
20155915
48.

Tick-derived Kunitz-type inhibitors as antihemostatic factors.

Corral-Rodríguez MA, Macedo-Ribeiro S, Barbosa Pereira PJ, Fuentes-Prior P.

Insect Biochem Mol Biol. 2009 Sep;39(9):579-95. doi: 10.1016/j.ibmb.2009.07.003. Epub 2009 Jul 24. Review.

PMID:
19631744
49.

Nucleocytoplasmic shuttling activity of ataxin-3.

Macedo-Ribeiro S, Cortes L, Maciel P, Carvalho AL.

PLoS One. 2009 Jun 8;4(6):e5834. doi: 10.1371/journal.pone.0005834.

50.

Mycobacterium tuberculosis glucosyl-3-phosphoglycerate synthase: structure of a key enzyme in methylglucose lipopolysaccharide biosynthesis.

Pereira PJ, Empadinhas N, Albuquerque L, Sá-Moura B, da Costa MS, Macedo-Ribeiro S.

PLoS One. 2008;3(11):e3748. doi: 10.1371/journal.pone.0003748. Epub 2008 Nov 18.

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