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Institutions of the University of Bayreuth
Chair Biochemistry - Univ.-Prof. Dr. Birte Höcker

University of Bayreuth (55803)
- Faculties (52335)
  - Faculty of Biology, Chemistry and Earth Sciences (15794)
    - Department of Chemistry (4631)
      - Chair Biochemistry (282)
        Chair Biochemistry - Univ.-Prof. Dr. Birte Höcker (64)

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Number of items at this level: 64.

2023

Noske, Jakob ; Kynast, Josef ; Lemm, Dominik ; Schmidt, Steffen ; Höcker, Birte:
PocketOptimizer 2.0 : A modular framework for computer‐aided ligand‐binding design.
In: Protein Science. Vol. 32 (2023) Issue 1 . - e4516.
DOI: https://doi.org/10.1002/pro.4516

Kordes, Sina:
TIM Barrels 2.0 – Stabilizing and Diversifying a De Novo Designed Protein.
Bayreuth , 2023 . - ii, 190 p.
( Doctoral thesis, 2022 , Universität Bayreuth, Fakultät für Biologie, Chemie und Geowissenschaften)
DOI: https://doi.org/10.15495/EPub_UBT_00006859

2022

Weigert, Sebastian ; Perez‐Garcia, Pablo ; Gisdon, Florian J. ; Gagsteiger, Andreas ; Schweinshaut, Kristine ; Ullmann, G. Matthias ; Chow, Jennifer ; Streit, Wolfgang R. ; Höcker, Birte:
Investigation of the halophilic PET hydrolase PET6 from Vibrio gazogenes.
In: Protein Science. Vol. 31 (1 December 2022) Issue 12 . - e4500.
DOI: https://doi.org/10.1002/pro.4500

Kynast, Josef ; Schwägerl, Felix ; Höcker, Birte:
ATLIGATOR : editing protein interactions with an atlas-based approach.
In: Bioinformatics. Vol. 38 (2022) Issue 23 . - pp. 5199-5205.
DOI: https://doi.org/10.1093/bioinformatics/btac685

Rhys, Guto G. ; Cross, Jessica A. ; Dawson, William M. ; Thompson, Harry F. ; Shanmugaratnam, Sooruban ; Savery, Nigel J. ; Dodding, Mark P. ; Höcker, Birte ; Woolfson, Derek N.:
De novo designed peptides for cellular delivery and subcellular localisation.
In: Nature Chemical Biology. Vol. 18 (2022) Issue 9 . - pp. 999-1004.
DOI: https://doi.org/10.1038/s41589-022-01076-6

Ferruz, Noelia ; Höcker, Birte:
Dreaming ideal protein structures.
In: Nature Biotechnology. Vol. 40 (2022) Issue 2 . - pp. 171-172.
DOI: https://doi.org/10.1038/s41587-021-01196-9

Gisdon, Florian J. ; Kynast, Josef ; Ayyildiz, Merve ; Hine, Anna V. ; Plückthun, Andreas ; Höcker, Birte:
Modular peptide binders : development of a predictive technology as alternative for reagent antibodies.
In: Biological Chemistry. Vol. 403 (2022) Issue 5-6 . - pp. 535-543.
DOI: https://doi.org/10.1515/hsz-2021-0384

Kordes, Sina ; Romero-Romero, Sergio ; Lutz, Leonie ; Höcker, Birte:
A newly introduced salt bridge cluster improves structural and biophysical properties of de novo TIM barrels.
In: Protein Science. Vol. 31 (2022) Issue 2 . - pp. 513-527.
DOI: https://doi.org/10.1002/pro.4249

Höcker, Birte ; Zielonka, Stefan:
Protein engineering & design : hitting new heights.
In: Biological Chemistry. Vol. 403 (2022) Issue 5-6 . - p. 453.
DOI: https://doi.org/10.1515/hsz-2022-0139

Ferruz, Noelia ; Schmidt, Steffen ; Höcker, Birte:
ProtGPT2 is a deep unsupervised language model for protein design.
In: Nature Communications. Vol. 13 (2022) Issue 1 . - No. 4348.
DOI: https://doi.org/10.1038/s41467-022-32007-7

2021

Lechner, Horst ; Emann, Vincent R. ; Breuning, Matthias ; Höcker, Birte:
An Artificial Cofactor Catalyzing the Baylis-Hillman Reaction with Designed Streptavidin as Protein Host.
In: ChemBioChem. Vol. 22 (2021) Issue 9 . - pp. 1573-1577.
DOI: https://doi.org/10.1002/cbic.202000880

Zhang, Hongli ; Perez-Garcia, Pablo ; Dierkes, Robert F. ; Applegate, Violetta ; Schumacher, Julia ; Chibani, Cynthia Maria ; Sternagel, Stefanie ; Preuss, Lena ; Weigert, Sebastian ; Schmeisser, Christel ; Danso, Dominik ; Pleiss, Juergen ; Almeida, Alexandre ; Höcker, Birte ; Hallam, Steven J. ; Schmitz, Ruth A. ; Smits, Sander H. J. ; Chow, Jennifer ; Streit, Wolfgang R.:
The Bacteroidetes Aequorivita sp. and Kaistella jeonii Produce Promiscuous Esterases With PET-Hydrolyzing Activity.
In: Frontiers in Microbiology. Vol. 12 (2021) . - 803896.
DOI: https://doi.org/10.3389/fmicb.2021.803896

Herud-Sikimić, Ole ; Stiel, André C. ; Kolb, Martina ; Shanmugaratnam, Sooruban ; Berendzen, Kenneth W. ; Feldhaus, Christian ; Höcker, Birte ; Jürgens, Gerd:
A biosensor for the direct visualization of auxin.
In: Nature. Vol. 592 (2021) Issue 7856 . - pp. 768-772.
DOI: https://doi.org/10.1038/s41586-021-03425-2

Romero-Romero, Sergio ; Kordes, Sina ; Michel, Florian ; Höcker, Birte:
Evolution, folding, and design of TIM barrels and related proteins.
In: Current Opinion in Structural Biology. Vol. 68 (2021) . - pp. 94-104.
DOI: https://doi.org/10.1016/j.sbi.2020.12.007

Wiese, Jonas Gregor ; Shanmugaratnam, Sooruban ; Höcker, Birte:
Extension of a de novo TIM barrel with a rationally designed secondary structure element.
In: Protein Science. Vol. 30 (2021) Issue 5 . - pp. 982-989.
DOI: https://doi.org/10.1002/pro.4064

Kröger, Pascal ; Shanmugaratnam, Sooruban ; Scheib, Ulrike ; Höcker, Birte:
Fine-tuning spermidine binding modes in the putrescine binding protein PotF.
In: The Journal of Biological Chemistry. Vol. 297 (2021) Issue 6 . - 101419.
DOI: https://doi.org/10.15495/EPub_UBT_00006574

Ferruz, Noelia ; Michel, Florian ; Lobos, Francisco ; Schmidt, Steffen ; Höcker, Birte:
Fuzzle 2.0 : Ligand Binding in Natural Protein Building Blocks.
In: Frontiers in Molecular Biosciences. Vol. 8 (2021) . - 715972.
DOI: https://doi.org/10.15495/EPub_UBT_00006453

Menzel, Teresa ; Weigert, Sebastian ; Gagsteiger, Andreas ; Eich, Yannik ; Sittl, Sebastian ; Papastavrou, Georg ; Ruckdäschel, Holger ; Altstädt, Volker ; Höcker, Birte:
Impact of Enzymatic Degradation on the Material Properties of Poly(Ethylene Terephthalate).
In: Polymers. Vol. 13 (2021) Issue 22 . - 3885.
DOI: https://doi.org/10.3390/polym13223885

Ferruz, Noelia ; Schmidt, Steffen ; Höcker, Birte:
ProteinTools : a toolkit to analyze protein structures.
In: Nucleic Acids Research. Vol. 49 (2021) Issue W1 . - W559-W566.
DOI: https://doi.org/10.15495/EPub_UBT_00006493

Weigert, Sebastian ; Gagsteiger, Andreas ; Menzel, Teresa ; Höcker, Birte:
A versatile assay platform for enzymatic poly(ethylene-terephthalate) degradation.
In: Protein Engineering, Design & Selection. Vol. 34 (2021) . - pp. 1-9.
DOI: https://doi.org/10.1093/protein/gzab022

Romero-Romero, Sergio ; Costas, Miguel ; Silva Manzano, Daniel-Adriano ; Kordes, Sina ; Rojas-Ortega, Erendira ; Tapia, Cinthya ; Guerra, Yasel ; Shanmugaratnam, Sooruban ; Rodríguez-Romero, Adela ; Baker, David ; Höcker, Birte ; Fernández-Velasco, D. Alejandro:
The Stability Landscape of de novo TIM Barrels Explored by a Modular Design Approach.
In: Journal of Molecular Biology. Vol. 433 (2021) Issue 18 . - 167153.
DOI: https://doi.org/10.1016/j.jmb.2021.167153

2020

Ferruz, Noelia ; Lobos, Francisco ; Lemm, Dominik ; Toledo-Patiño, Saacnicteh ; Farías-Rico, José Arcadio ; Schmidt, Steffen ; Höcker, Birte:
Identification and Analysis of Natural Building Blocks for Evolution-Guided Fragment-Based Protein Design.
In: Journal of Molecular Biology. Vol. 432 (2020) Issue 13 . - pp. 3898-3914.
DOI: https://doi.org/10.1016/j.jmb.2020.04.013

Linke, Heiner ; Höcker, Birte ; Furuta, Ken'ya ; Forde, Nancy R. ; Curmi, Paul M. G.:
Synthetic biology approaches to dissecting linear motor protein function : towards the design and synthesis of artificial autonomous protein walkers.
In: Biophysical Reviews. Vol. 12 (2020) Issue 4 . - pp. 1041-1054.
DOI: https://doi.org/10.1007/s12551-020-00717-1

2019

You, Weijie:
Activation and inhibition of Sirt6 by small molecules.
Bayreuth , 2019 . - 120 p.
( Doctoral thesis, 2019 , Universität Bayreuth, Fakultät für Biologie, Chemie und Geowissenschaften)
DOI: https://doi.org/10.15495/EPub_UBT_00004450

Toledo-Patiño, Saacnicteh ; Chaubey, Manish ; Coles, Murray ; Höcker, Birte:
Reconstructing the Remote Origins of a Fold Singleton from a Flavodoxin-Like Ancestor.
In: Biochemistry. Vol. 58 (2019) Issue 48 . - pp. 4790-4793.
DOI: https://doi.org/10.1021/acs.biochem.9b00900

2018

Höcker, Birte ; Winther, Jakob R.:
Editorial overview : A perspective on protein evolution.
In: Current Opinion in Structural Biology. Vol. 48 (2018) . - S. viii-ix.
DOI: https://doi.org/10.1016/j.sbi.2018.01.013

Lichtenstein, Bruce R. ; Höcker, Birte:
Engineering an AB₅ Protein Carrier.
In: Scientific Reports. Vol. 8 (2018) . - No. 12643.
DOI: https://doi.org/10.1038/s41598-018-30910-y

Banda-Vázquez, Jesús ; Shanmugaratnam, Sooruban ; Rodríguez-Sotres, Rogelio ; Torres-Larios, Alfredo ; Höcker, Birte ; Sosa-Peinado, Alejandro:
Redesign of LAOBP to bind novel l-amino acid ligands.
In: Protein Science. Vol. 27 (2018) Issue 5 . - pp. 957-968.
DOI: https://doi.org/10.1002/pro.3403

Lechner, Horst ; Ferruz, Noelia ; Höcker, Birte:
Strategies for designing non-natural enzymes and binders.
In: Current Opinion in Chemical Biology. Vol. 47 (2018) . - pp. 67-76.
DOI: https://doi.org/10.1016/j.cbpa.2018.07.022

2017

Toledo-Patiño, Saacnicteh ; Lobos, Francisco ; Höcker, Birte:
Baukasten der Natur : Neue Proteine aus konservierten Fragmenten.
In: BIOspektrum. Vol. 23 (2017) Issue 6 . - pp. 630-633.
DOI: https://doi.org/10.1007/s12268-017-0847-8

Sterner, Reinhard ; Höcker, Birte ; Kolmar, Harald:
Highlight issue: protein design.
In: Biological Chemistry. Vol. 398 (2017) Issue 1 . - pp. 1-2.
DOI: https://doi.org/10.1515/hsz-2016-0322

2016

Huang, Po-Ssu ; Feldmeier, Kaspar ; Parmeggiani, Fabio ; Velasco, D Alejandro Fernandez ; Höcker, Birte ; Baker, David:
De novo design of a four-fold symmetric TIM-barrel protein with atomic-level accuracy.
In: Nature Chemical Biology. Vol. 12 (2016) Issue 1 . - pp. 29-34.
DOI: https://doi.org/10.1038/nchembio.1966

Stiel, André C. ; Nellen, Mehdi ; Höcker, Birte:
PocketOptimizer and the Design of Ligand Binding Sites.
In: Stoddard, Barry L. (ed.): Computational Design of Ligand Binding Proteins. - New York : Humana Press, 2016 . - pp. 63-75 . - (Methods in Molecular Biology ; 1414 )
DOI: https://doi.org/10.1007/978-1-4939-3569-7_5

2014

Scheib, Ulrike ; Shanmugaratnam, Sooruban ; Farías-Rico, José Arcadio ; Höcker, Birte:
Change in protein-ligand specificity through binding pocket grafting.
In: Journal of Structural Biology. Vol. 185 (2014) Issue 2 . - pp. 186-192.
DOI: https://doi.org/10.1016/j.jsb.2013.06.002

Höcker, Birte:
Design of proteins from smaller fragments : learning from evolution.
In: Current Opinion in Structural Biology. Vol. 27 (2014) . - pp. 56-62.
DOI: https://doi.org/10.1016/j.sbi.2014.04.007

Höcker, Birte ; Midelfort, Katarina:
Designing protein function : macromolecular design.
In: Journal of Structural Biology. Vol. 185 (2014) Issue 2 . - p. 135.
DOI: https://doi.org/10.1016/j.jsb.2014.01.011

Farías-Rico, José Arcadio ; Schmidt, Steffen ; Höcker, Birte:
Evolutionary relationship of two ancient protein superfolds.
In: Nature Chemical Biology. Vol. 10 (2014) Issue 9 . - pp. 710-715.
DOI: https://doi.org/10.1038/nchembio.1579

Stiel, André C. ; Feldmeier, Kaspar ; Höcker, Birte:
Identification of protein scaffolds for enzyme design using scaffold selection.
In: Methods in Molecular Biology. Vol. 1216 (2014) . - pp. 183-196.
DOI: https://doi.org/10.1007/978-1-4939-1486-9_9

2013

Feldmeier, Kaspar ; Höcker, Birte:
Computational protein design of ligand binding and catalysis.
In: Current Opinion in Chemical Biology. Vol. 17 (2013) Issue 6 . - pp. 929-933.
DOI: https://doi.org/10.1016/j.cbpa.2013.10.002

Farías-Rico, José Arcadio ; Höcker, Birte:
Design of chimeric proteins by combination of subdomain-sized fragments.
In: Methods in Enzymology. Vol. 523 (2013) . - pp. 389-405.
DOI: https://doi.org/10.1016/B978-0-12-394292-0.00018-7

Höcker, Birte:
Engineering chimaeric proteins from fold fragments : "hopeful monsters" in protein design.
In: Biochemical Society Transactions. Vol. 41 (2013) Issue 5 . - pp. 1137-1140.
DOI: https://doi.org/10.1042/BST20130099

Meier, Monika M. ; Rajendran, Chitra ; Malisi, Christoph ; Fox, Nicholas G. ; Xu, Chengfu ; Schlee, Sandra ; Barondeau, David P. ; Höcker, Birte ; Sterner, Reinhard ; Raushel, Frank M.:
Molecular engineering of organophosphate hydrolysis activity from a weak promiscuous lactonase template.
In: Journal of the American Chemical Society. Vol. 135 (2013) Issue 31 . - pp. 11670-11677.
DOI: https://doi.org/10.1021/ja405911h

2012

Malisi, Christoph ; Schumann, Marcel ; Toussaint, Nora C ; Kageyama, Jorge ; Kohlbacher, Oliver ; Höcker, Birte:
Binding pocket optimization by computational protein design.
In: PLoS One. Vol. 7 (2012) Issue 12 . - No. e52505.
DOI: https://doi.org/10.1371/journal.pone.0052505

Shanmugaratnam, Sooruban ; Eisenbeis, Simone ; Höcker, Birte:
A highly stable protein chimera built from fragments of different folds.
In: Protein Engineering, Design & Selection. Vol. 25 (2012) Issue 11 . - pp. 699-703.
DOI: https://doi.org/10.1093/protein/gzs074

Eisenbeis, Simone ; Proffitt, William ; Coles, Murray ; Truffault, Vincent ; Shanmugaratnam, Sooruban ; Meiler, Jens ; Höcker, Birte:
Potential of fragment recombination for rational design of proteins.
In: Journal of the American Chemical Society. Vol. 134 (2012) Issue 9 . - pp. 4019-4022.
DOI: https://doi.org/10.1021/ja211657k

Höcker, Birte:
Protein design : A metalloenzyme reloaded.
In: Nature Chemical Biology. Vol. 8 (2012) Issue 3 . - pp. 224-225.
DOI: https://doi.org/10.1038/nchembio.800

Höcker, Birte:
Structural biology : A toolbox for protein design.
In: Nature. Vol. 491 (2012) Issue 7423 . - pp. 204-205.
DOI: https://doi.org/10.1038/491204a

2011

Malisi, Christoph ; Stiel, André C. ; Höcker, Birte:
Enzyme am Reißbrett.
In: BIOspektrum. Vol. 17 (2011) Issue 7 . - pp. 736-738.
DOI: https://doi.org/10.1007/s12268-011-0117-0

2010

Schreier, Bettina ; Höcker, Birte:
Engineering the enolase magnesium II binding site: implications for its evolution.
In: Biochemistry. Vol. 49 (2010) Issue 35 . - pp. 7582-7589.
DOI: https://doi.org/10.1021/bi100954f

Eisenbeis, Simone ; Höcker, Birte:
Evolutionary mechanism as a template for protein engineering.
In: Journal of Peptide Science. Vol. 16 (2010) Issue 10 . - pp. 538-544.
DOI: https://doi.org/10.1002/psc.1233

Höcker, Birte:
Metals make proteins stick.
In: Chemistry & Biology. Vol. 17 (2010) Issue 2 . - pp. 103-104.
DOI: https://doi.org/10.1016/j.chembiol.2010.02.002

2009

Malisi, Christoph ; Kohlbacher, Oliver ; Höcker, Birte:
Automated scaffold selection for enzyme design.
In: Proteins. Vol. 77 (2009) Issue 1 . - pp. 74-83.
DOI: https://doi.org/10.1002/prot.22418

Schreier, Bettina ; Stumpp, Christian ; Wiesner, Silke ; Höcker, Birte:
Computational design of ligand binding is not a solved problem.
In: Proceedings of the National Academy of Sciences of the United States of America. Vol. 106 (2009) Issue 44 . - pp. 18491-18496.
DOI: https://doi.org/10.1073/pnas.0907950106

Claren, Jörg ; Malisi, Christoph ; Höcker, Birte ; Sterner, Reinhard:
Establishing wild-type levels of catalytic activity on natural and artificial (βα)8-barrel protein scaffolds.
In: Proceedings of the National Academy of Sciences of the United States of America. Vol. 106 (2009) Issue 10 . - pp. 3704-3709.
DOI: https://doi.org/10.1073/pnas.0810342106

Höcker, Birte ; Lochner, Adriane ; Seitz, Tobias ; Claren, Jörg ; Sterner, Reinhard:
High-resolution crystal structure of an artificial (βα)₈-barrel protein designed from identical half-barrels.
In: Biochemistry. Vol. 48 (2009) Issue 6 . - pp. 1145-1147.
DOI: https://doi.org/10.1021/bi802125b

2008

Bharat, Tanmay A. M. ; Eisenbeis, Simone ; Zeth, Kornelius ; Höcker, Birte:
A βα-barrel built by the combination of fragments from different folds.
In: Proceedings of the National Academy of Sciences of the United States of America. Vol. 105 (2008) Issue 29 . - pp. 9942-9947.
DOI: https://doi.org/10.1073/pnas.0802202105

Reetz, Manfred T. ; Rentzsch, Martin ; Pletsch, Andreas ; Taglieber, Andreas ; Hollmann, Frank ; Mondière, Régis J. G. ; Dickmann, Norbert ; Höcker, Birte ; Cerrone, Simona ; Haeger, Michaela C. ; Sterner, Reinhard:
A robust protein host for anchoring chelating ligands and organocatalysts.
In: ChemBioChem. Vol. 9 (2008) Issue 4 . - pp. 552-564.
DOI: https://doi.org/10.1002/cbic.200700413

2005

Sterner, Reinhard ; Höcker, Birte:
Catalytic versatility, stability, and evolution of the (betaalpha)8-barrel enzyme fold.
In: Chemical Reviews. Vol. 105 (2005) Issue 11 . - pp. 4038-4055.
DOI: https://doi.org/10.1021/cr030191z

Höcker, Birte:
Directed evolution of (βα)₈-barrel enzymes.
In: Biomolecular Engineering. Vol. 22 (2005) Issue 1-3 . - pp. 31-38.
DOI: https://doi.org/10.1016/j.bioeng.2004.09.005

2002

Höcker, Birte ; Schmidt, Steffen ; Sterner, Reinhard:
A common evolutionary origin of two elementary enzyme folds.
In: FEBS Letters. Vol. 510 (2002) Issue 3 . - pp. 133-135.
DOI: https://doi.org/10.1016/S0014-5793(01)03232-X

Raasch, Carsten ; Armbrecht, Martin ; Streit, Wolfgang R. ; Höcker, Birte ; Sträter, Norbert ; Liebl, Wolfgang:
Identification of residues important for NAD+ binding by the Thermotoga maritima alpha-glucosidase AglA, a member of glycoside hydrolase family 4.
In: FEBS Letters. Vol. 517 (2002) Issue 1-3 . - pp. 267-271.
DOI: https://doi.org/10.1016/S0014-5793(02)02641-8

2001

Höcker, Birte ; Beismann-Driemeyer, Silke ; Hettwer, Stefan ; Lustig, Ariel ; Sterner, Reinhard:
Dissection of a (betaalpha)8-barrel enzyme into two folded halves.
In: Nature Structural Biology. Vol. 8 (2001) Issue 1 . - pp. 32-36.
DOI: https://doi.org/10.1038/83021

Henn-Sax, Martina ; Höcker, Birte ; Wilmanns, Matthias ; Sterner, Reinhard:
Divergent evolution of (β⍺)₈-barrel enzymes.
In: Biological Chemistry. Vol. 382 (2001) Issue 9 . - pp. 1315-1320.
DOI: https://doi.org/10.1515/BC.2001.163

Höcker, Birte ; Jürgens, Catharina ; Wilmanns, Matthias ; Sterner, Reinhard:
Stability, catalytic versatility and evolution of the (betaalpha)(8)-barrel fold.
In: Current Opinion in Biotechnology. Vol. 12 (2001) Issue 4 . - pp. 376-381.
DOI: https://doi.org/10.1016/S0958-1669(00)00230-5

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