Bernhard Rupp


+43 512 9003 70570

Publications with the affiliation Genetic Epidemiology Innsbruck

2022 (5)

  1. Jaskolski M, Wlodawer A, Dauter Z, Minor W, Rupp B: Group depositions to the Protein Data Bank need adequate presentation and different archiving protocol. Protein Sci. 31:784-786, 2022. PMID: 35000237
  2. Heilmann E, Costacurta F, Geley S, Mogadashi SA, Volland A, Rupp B, Harris RS, von Laer D: A VSV-based assay quantifies coronavirus Mpro/3CLpro/Nsp5 main protease activity and chemical inhibition. Commun. Biol. 5:391, 2022. PMID: 35478219
  3. Waibl F, Liedl KR, Rupp B: Correcting cis-trans-transgressions in macromolecular structure models. FEBS J. 289:2793-2804, 2022. PMID: 33880875
  4. Heilmann E, Costacurta F, Moghadasi SA, Ye C, Pavan M, Bassani D, Volland A, Ascher C, Weiss AKH, Bante D, Harris RS, Moro S, Rupp B, Martinez-Sobrido L, von Laer D: SARS-CoV-2 3CLpro mutations selected in a VSV-based system confer resistance to nirmatrelvir, ensitrelvir, and GC376. Sci. Transl. Med. :eabq7360, 2022. PMID: 36194133
  5. Schäfer T, Kramer K, Werten S, Rupp B, Hoffmeister D: Characterization of the gateway decarboxylase for psilocybin biosynthesis. Chembiochem :, 2022. PMID: 36327140

2021 (4)

  1. Brzezinski D, Kowiel M, Cooper DR, Cymborowski M, Grabowski M, Wlodawer A, Dauter Z, Shabalin IG, Gilski M, Rupp B, Jaskolski M, Minor W: A web resource for SARS-CoV-2-related structural models. Protein Sci. 30:115-124, 2021. PMID: 32981130
  2. Jaskolski M, Dauter Z, Shabalin IG, Gilski M, Brzezinski D, Kowiel M, Rupp B, Wlodawer A: Crystallographic models of SARS-CoV-2 3CLpro: in-depth assessment of structure quality and validation. IUCrJ 8:238-256, 2021. PMID: 33708401
  3. Grabowski M, Macnar JM, Cymborowski M, Cooper DR, Shabalin IG, Gilski M, Brzezinski D, Kowiel M, Dauter Z, Rupp B, Wlodawer A, Jaskolski M, Minor W: Rapid response to emerging biomedical challenges and threats. IUCrJ 8:395-407, 2021. PMID: 33953926
  4. Naschberger A, Baradaran R, Rupp B, Carroni M: The structure of neurofibromin isoform 2 reveals different functional states. Nature 599:315-319, 2021. PMID: 34707296

2020 (3)

  1. Schöpf B, Weissensteiner H, Schäfer G, Fazzini F, Charoentong P, Naschberger A, Rupp B, Fendt L, Bukur V, Giese I, Sorn P, Sant'Anna-Silva AC, Iglesias-Gonzalez J, Sahin U, Kronenberg F, Gnaiger E, Klocker H: OXPHOS remodeling in high-grade prostate cancer involves mtDNA mutations and increased succinate oxidation. Nat. Commun. 11:1487, 2020. PMID: 32198407
  2. Weiss AKH, Naschberger A, Cappuccio E, Metzger C, Mottes L, Holzknecht M, von Velsen J, Bowler MW, Rupp B, Jansen-Dürr P: Structural and functional comparison of fumarylacetoacetate domain containing protein 1 in human and mouse. Biosci. Rep. 40:, 2020. PMID: 32068790
  3. Wlodawer A, Dauter Z, Shabalin IG, Gilski M, Brzezinski D, Kowiel M, Minor W, Rupp B, Jaskolski M: Ligand-centered assessment of SARS-CoV-2 drug target models in the Protein Data Bank. FEBS J. 287:3703-3718, 2020. PMID: 32418327

2019 (3)

  1. Weiss AKH, Holzknecht M, Cappuccio E, Dorigatti I, Kreidl K, Naschberger A, Rupp B, Gstach H, Jansen-Dürr P: Expression, purification, crystallization, and enzyme assays of fumarylacetoacetate hydrolase domain-containing proteins. J. Vis. Exp. :, 2019. PMID: 31282888
  2. Fricke J, Sherwood A, Kargbo R, Orry A, Blei F, Naschberger A, Rupp B, Hoffmeister D: Enzymatic route toward 6-methylated baeocystin and psilocybin. Chembiochem 20:2824-2829, 2019. PMID: 31150155
  3. Naschberger A, Juyoux P, von Velsen J, Rupp B, Bowler MW: Controlled dehydration, structural flexibility and gadolinium MRI contrast compound binding in the human plasma glycoprotein afamin. Acta Crystallogr. D Struct. Biol. 75:1071-1083, 2019. PMID: 31793901

2018 (3)

  1. Wlodawer A, Dauter Z, Porebski PJ, Minor W, Stanfield R, Jaskolski M, Pozharski E, Weichenberger CX, Rupp B: Detect, correct, retract: How to manage incorrect structural models. FEBS J. 285:444-466, 2018. PMID: 29113027
  2. Altamirano A, Naschberger A, Fürnrohr BG, Saldova R, Struwe WB, Jennings PM, Millán Martín S, Malic S, Plangger I, Lechner S, Pisano R, Peretti N, Linke B, Aguiar MM, Fresser F, Ritsch A, Lenac Rovis T, Goode C, Rudd PM, Scheffzek K, Rupp B, Dieplinger H: Expression, purification, and biochemical characterization of human afamin. J. Proteome Res. 17:1269-1277, 2018. PMID: 29441788
  3. Rupp B: Against method: Table 1-Cui Bono?. Structure 26:919-923, 2018. PMID: 29861344

2017 (3)

  1. Pozharski E, Deller MC, Rupp B: Validation of protein-ligand crystal structure models: Small molecule and peptide ligands. Methods Mol. Biol. 1607:611-625, 2017. PMID: 28573591
  2. Weichenberger CX, Pozharski E, Rupp B: Twilight reloaded: the peptide experience. Acta Crystallogr. D Struct. Biol. 73:211-222, 2017. PMID: 28291756
  3. Naschberger A, Orry A, Lechner S, Bowler MW, Nurizzo D, Novokmet M, Keller MA, Oemer G, Seppi D, Haslbeck M, Pansi K, Dieplinger H, Rupp B: Structural evidence for a role of the multi-functional human glycoprotein afamin in Wnt transport. Structure 25:1907-1915.e5, 2017. PMID: 29153507

2016 (6)

  1. Rupp B: Only seeing is believing - the power of evidence and reason. Postepy Biochem. 62:250-256, 2016. PMID: 28132478
  2. Stanfield R, Pozharski E, Rupp B: Additional comment on three X-ray crystal structure papers. J. Immunol. 196:528-530, 2016. PMID: 26747567
  3. Stanfield R, Pozharski E, Rupp B: Comment on three X-ray crystal structure papers. J. Immunol. 196:521-524, 2016. PMID: 26747564
  4. Deller MC, Kong L, Rupp B: Protein stability: a crystallographer's perspective. Acta Crystallogr. F Struct. Biol. Commun. 72:72-95, 2016. PMID: 26841758
  5. Rupp B, Wlodawer A, Minor W, Helliwell JR, Jaskolski M: Correcting the record of structural publications requires joint effort of the community and journal editors. FEBS J. 283:4452-4457, 2016. PMID: 27229767
  6. Naschberger A, Fürnrohr BG, Lenac Rovis T, Malic S, Scheffzek K, Dieplinger H, Rupp B: The N14 anti-afamin antibody Fab: a rare VL1 CDR glycosylation, crystallographic re-sequencing, molecular plasticity and conservative versus enthusiastic modelling. Acta Crystallogr. D Struct. Biol. 72:1267-1280, 2016. PMID: 27917827

2015 (5)

  1. Naschberger A, Fürnrohr BG, Dunzendorfer-Matt T, Bonagura CA, Wright D, Scheffzek K, Rupp B: Cleaning protocols for crystallization robots: preventing protease contamination. Acta Crystallogr. F Struct. Biol. Commun. 71:100-102, 2015. PMID: 25615978
  2. Rupp B: Origin and use of crystallization phase diagrams. Acta Crystallogr. F Struct. Biol. Commun. 71:247-260, 2015. PMID: 25760697
  3. Weichenberger CX, Afonine PV, Kantardjieff K, Rupp B: The solvent component of macromolecular crystals. Acta Crystallogr. D Biol. Crystallogr. 71:1023-1038, 2015. PMID: 25945568
  4. Rupp B: Reviewing biomolecular crystallography proposals: time for a paradigm change. Trends Biochem. Sci. 40:419-421, 2015. PMID: 26051321
  5. Deller MC, Rupp B: Models of protein-ligand crystal structures: trust, but verify. J. Comput. Aided Mol. Des. 29:817-836, 2015. PMID: 25665575

2014 (3)

  1. Deller MC, Rupp B: Approaches to automated protein crystal harvesting. Acta Crystallogr. F Struct. Biol. Commun. 70:133-155, 2014. PMID: 24637746
  2. Dauter Z, Wlodawer A, Minor W, Jaskolski M, Rupp B: Avoidable errors in deposited macromolecular structures: an impediment to efficient data mining. IUCrJ 1:179-193, 2014. PMID: 25075337
  3. Weichenberger CX, Rupp B: Ten years of probabilistic estimates of biocrystal solvent content: new insights via nonparametric kernel density estimate. Acta Crystallogr. D Biol. Crystallogr. 70:1579-1588, 2014. PMID: 24914969