Lada Biedermannová (0000-0001-6504-6403)

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Combined in Vitro and Cell-based Selection Display Method Producing Specific Binders Against IL-9 Receptor in High Yields

The FEBS Journal

2023-01-22 | Journal article

DOI: 10.1111/febs.16726

Part of ISSN: 1742-464X

Part of ISSN: 1742-4658

Contributors: Maroš Huličiak; Lada Biedermanová; Daniel Berdár; Štěpán Herynek; Lucie Kolářová; Jakub Tomala; Pavel Mikulecký; Bohdan Schneider

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Lada Biedermannová

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Knowledge-based prediction of DNA hydration using hydrated dinucleotides as building blocks

Acta Crystallographica Section D Structural Biology

2022-08-01 | Journal article

DOI: 10.1107/S2059798322006234

Contributors: Lada Biedermannová; Jiří Černý; Michal Malý; Michaela Nekardová; Bohdan Schneider

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Continuous Diastereomeric Kinetic Resolution—Silybins A and B

Catalysts

2021-09-14 | Journal article

DOI: 10.3390/catal11091106

Part of ISSN: 2073-4344

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Lada Biedermannová

Flavonolignans from silymarin do not intercalate into DNA: Rebuttal of data published in the paper J. Mol. Recognit. e2812 (2019)

Journal of Molecular Recognition

2021-07 | Journal article

DOI: 10.1002/jmr.2888

Contributors: David Biedermann; Martina Hurtová; Lada Biedermannová; Kateřina Valentová; Vladimír Křen

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Protein Binder (ProBi) as a New Class of Structurally Robust Non-Antibody Protein Scaffold for Directed Evolution.

Viruses

2021-01-27 | Journal article

DOI: 10.3390/v13020190

PMID: 33514045

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Lada Biedermannová

Structural alphabets for conformational analysis of nucleic acids available at dnatco.datmos.org

Acta Crystallographica Section D Structural Biology

2020-09-01 | Journal article

DOI: 10.1107/S2059798320009389

Contributors: Jiří Černý; Paulína Božíková; Michal Malý; Michal Tykač; Lada Biedermannová; Bohdan Schneider

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Rutinosidase from Aspergillus niger: crystal structure and insight into the enzymatic activity.

The FEBS journal

2020-01-24 | Journal article

DOI: 10.1111/febs.15208

PMID: 31943739

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Lada Biedermannová

WatAA: Atlas of Protein Hydration. Exploring synergies between data mining and ab initio calculations

Physical Chemistry Chemical Physics

2017 | Journal article

DOI: 10.1039/C7CP00187H

Contributors: Jiří Černý; Bohdan Schneider; Lada Biedermannová

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Hydration of proteins and nucleic acids: Advances in experiment and theory. A review

Biochimica et Biophysica Acta - General Subjects

2016 | Journal article

DOI: 10.1016/j.bbagen.2016.05.036

EID:

2-s2.0-84973379946

Contributors: Biedermannová, L.; Schneider, B.

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Lada Biedermannová via Scopus - Elsevier

Redesigning Protein Cavities as a Strategy for Increasing Affinity in Protein-Protein Interaction: Interferon- γ Receptor 1 as a Model

BioMed Research International

2015 | Journal article

DOI: 10.1155/2015/716945

Contributors: Jiří Černý; Lada Biedermannová; Pavel Mikulecký; Jiří Zahradník; Tatsiana Charnavets; Peter Šebo; Bohdan Schneider

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Lada Biedermannová via Crossref Metadata Search

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Structure of the ordered hydration of amino acids in proteins: analysis of crystal structures

Acta Crystallographica Section D-Biological Crystallography

2015 | Journal article

DOI: 10.1107/s1399004715015679

WOSUID:

WOS:000364553500003

Contributors: Biedermannova, Lada; Schneider, Bohdan

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Lada Biedermannová via ResearcherID

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Increasing Affinity of Interferon- Receptor 1 to Interferon- by Computer-Aided Design

BioMed Research International

2013 | Journal article

DOI: 10.1155/2013/752514

Contributors: Mikulecký, Pavel; Černý, Jiří; Biedermannová, Lada; Petroková, Hana; Kuchař, Milan; Vondrášek, Jiří; Malý, Petr; Šebo, Peter; Schneider, Bohdan

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Lada Biedermannová via ResearcherID

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Software tools for identification, visualization and analysis of protein tunnels and channels

2013 | Journal article

DOI: 10.1016/j.biotechadv.2012.02.002

Part of ISSN: 0734-9750

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Lada Biedermannová via Crossref Metadata Search

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Mechanistic dichotomy in the asymmetric allylation of aldehydes with allyltrichlorosilanes catalyzed by chiral pyridine N-oxides.

2013-07 | Journal article

DOI: 10.1002/chem.201203817

PMID: 23744629

Contributors: Bell M; Biedermannová L; Castelluzzo F; Kočovský P; Langer V; Malkov AV; Ramírez-López P; Rulíšek L; Stončius S

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Lada Biedermannová via Europe PubMed Central

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A single mutation in a tunnel to the active site changes the mechanism and kinetics of product release in haloalkane dehalogenase LinB

Journal of Biological Chemistry

2012 | Journal article

DOI: 10.1074/jbc.M112.377853

Contributors: Biedermannová, L.; Chovancová, E.; Damborský, J.; Gora, A.; Kovács, M.; Prokop, Z.; Wade, R.C.

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Lada Biedermannová via Scopus - Elsevier

CAVER 3.0: A Tool for the Analysis of Transport Pathways in Dynamic Protein Structures

PLoS Computational Biology

2012 | Journal article

DOI: 10.1371/journal.pcbi.1002708

Contributors: Benes, P.; Biedermannova, L.; Brezovsky, J.; Chovancova, E.; Damborsky, J.; Gora, A.; Klvana, M.; Kozlikova, B.; Medek, P.; Pavelka, A. et al.

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Lada Biedermannová via Scopus - Elsevier

Novel high-affinity binders of human interferon gamma derived from albumin-binding domain of protein G

Proteins: Structure, Function and Bioinformatics

2012 | Journal article

DOI: 10.1002/prot.23234

Contributors: Ahmad, J.N.; Biedermannová, L.; Homola, J.; Kuchař, M.; Li, J.; Malý, J.; Malý, P.; Mikulecký, P.; Osička, R.; Petroková, H. et al.

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Lada Biedermannová via Scopus - Elsevier

Another role of proline: Stabilization interactions in proteins and protein complexes concerning proline and tryptophane

Physical Chemistry Chemical Physics

2008 | Journal article

DOI: 10.1039/b805087b

Contributors: Berka, K.; Biedermannova, L.; E. Riley, K.; Hobza, P.; Vondrasek, J.

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Lada Biedermannová via Scopus - Elsevier

MedusaScore: An accurate force field-based scoring function for virtual drug screening

Journal of Chemical Information and Modeling

2008 | Journal article

DOI: 10.1021/ci8001167

Contributors: Biedermannova, L.; Dokholyan, N.V.; Vondrasek, J.; Yin, S.

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Lada Biedermannová via Scopus - Elsevier

On the mechanism of asymmetric allylation of aldehydes with allyltrichlorosilanes catalyzed by QUINOX, a chiral isoquinoline N-oxide

Journal of the American Chemical Society

2008 | Journal article

DOI: 10.1021/ja711338q

Contributors: Biedermannová, L.; Dufková, L.; Kotora, M.; Kočovský, P.; Malkov, A.V.; Ramírez-López, P.; Rulíšek, L.; Zhu, F.

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Lada Biedermannová via Scopus - Elsevier

Identifying stabilizing key residues in proteins using interresidue interaction energy matrix.

2008-07 | Journal article

DOI: 10.1002/prot.21938

PMID: 18214960

Contributors: Bendová-Biedermannová L; Hobza P; Vondrásek J

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Lada Biedermannová via Europe PubMed Central

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Model of peptide bond-aromatic ring interaction: Correlated ab initio quantum chemical study

Journal of Physical Chemistry B

2007 | Journal article

DOI: 10.1021/jp072859

EID:

2-s2.0-34548593663

Contributors: Bendová, L.; Jurečka, P.; Hobza, P.; Vondrášek, J.

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Lada Biedermannová via Scopus - Elsevier

Remote chiral induction in the organocatalytic hydrosilylation of aromatic ketones and ketimines.

2006-02 | Journal article

DOI: 10.1002/anie.200503941

PMID: 16425324

Contributors: Bendová L; Haigh D; Kocovský P; Liddon AJ; Malkov AV; Ramírez-López P

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Lada Biedermannová via Europe PubMed Central

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Unexpectedly strong energy stabilization inside the hydrophobic core of small protein rubredoxin mediated by aromatic residues: correlated ab initio quantum chemical calculations.

2005-03 | Journal article

DOI: 10.1021/ja044607h

PMID: 15725017

Contributors: Bendová L; Hobza P; Klusák V; Vondrásek J

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Lada Biedermannová via Europe PubMed Central

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Review activity for Journal of chemical information and modeling. (1)

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Lada Biedermannová

https://orcid.org/0000-0001-6504-6403

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Works (24)

Combined in Vitro and Cell-based Selection Display Method Producing Specific Binders Against IL-9 Receptor in High Yields

Knowledge-based prediction of DNA hydration using hydrated dinucleotides as building blocks

Continuous Diastereomeric Kinetic Resolution—Silybins A and B

Flavonolignans from silymarin do not intercalate into DNA: Rebuttal of data published in the paper J. Mol. Recognit. e2812 (2019)

Protein Binder (ProBi) as a New Class of Structurally Robust Non-Antibody Protein Scaffold for Directed Evolution.

Structural alphabets for conformational analysis of nucleic acids available at dnatco.datmos.org

Rutinosidase from Aspergillus niger: crystal structure and insight into the enzymatic activity.

WatAA: Atlas of Protein Hydration. Exploring synergies between data mining and ab initio calculations

Hydration of proteins and nucleic acids: Advances in experiment and theory. A review

Redesigning Protein Cavities as a Strategy for Increasing Affinity in Protein-Protein Interaction: Interferon- γ Receptor 1 as a Model

Structure of the ordered hydration of amino acids in proteins: analysis of crystal structures

Increasing Affinity of Interferon- Receptor 1 to Interferon- by Computer-Aided Design

Software tools for identification, visualization and analysis of protein tunnels and channels

Mechanistic dichotomy in the asymmetric allylation of aldehydes with allyltrichlorosilanes catalyzed by chiral pyridine N-oxides.

A single mutation in a tunnel to the active site changes the mechanism and kinetics of product release in haloalkane dehalogenase LinB

CAVER 3.0: A Tool for the Analysis of Transport Pathways in Dynamic Protein Structures

Novel high-affinity binders of human interferon gamma derived from albumin-binding domain of protein G

Another role of proline: Stabilization interactions in proteins and protein complexes concerning proline and tryptophane

MedusaScore: An accurate force field-based scoring function for virtual drug screening

On the mechanism of asymmetric allylation of aldehydes with allyltrichlorosilanes catalyzed by QUINOX, a chiral isoquinoline N-oxide

Identifying stabilizing key residues in proteins using interresidue interaction energy matrix.

Model of peptide bond-aromatic ring interaction: Correlated ab initio quantum chemical study

Remote chiral induction in the organocatalytic hydrosilylation of aromatic ketones and ketimines.

Unexpectedly strong energy stabilization inside the hydrophobic core of small protein rubredoxin mediated by aromatic residues: correlated ab initio quantum chemical calculations.

Peer review (1 review for 1 publication/grant)