4.0 Article

Computational design and experimental characterisation of a stable human heparanase variant

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Biochemistry & Molecular Biology

Ancestral sequence reconstruction for protein engineers

Matthew A. Spence et al.

Summary: Ancestral sequence reconstruction (ASR) is valuable in both the study of molecular evolution and protein engineering, as proteins generated by ASR often exhibit improved properties that are valued by protein engineers. By comparing extant proteins with evolutionary intermediates generated by ASR, protein engineers can identify substitutions that have contributed to functional innovation within protein families. Understanding the applications, limitations, and recent developments of ASR is crucial as it becomes more widely adopted in protein engineering.

CURRENT OPINION IN STRUCTURAL BIOLOGY (2021)

Review Oncology

Role of heparanase in tumor progression: Molecular aspects and therapeutic options

Valentina Masola et al.

SEMINARS IN CANCER BIOLOGY (2020)

Article Multidisciplinary Sciences

Consensus sequence design as a general strategy to create hyperstable, biologically active proteins

Matt Sternke et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2019)

Review Multidisciplinary Sciences

Targeting Heparanase in Cancer: Inhibition by Synthetic, Chemically Modified, and Natural Compounds

Chakrabhavi Dhananjaya Mohan et al.

ISCIENCE (2019)

Article Biochemistry & Molecular Biology

Improvements to the APBS biomolecular solvation software suite

Elizabeth Jurrus et al.

PROTEIN SCIENCE (2018)

Article Biochemistry & Molecular Biology

Automated Design of Efficient and Functionally Diverse Enzyme Repertoires

Olga Khersonsky et al.

MOLECULAR CELL (2018)

Article Biochemistry & Molecular Biology

Bacterial Expression of Human Butyrylcholinesterase as a Tool for Nerve Agent Bioscavengers Development

Xavier Brazzolotto et al.

MOLECULES (2017)

Article Biochemistry & Molecular Biology

A ctivity-based probes for functional interrogation of retaining β-glucuronidases

Liang Wu et al.

NATURE CHEMICAL BIOLOGY (2017)

Article Multidisciplinary Sciences

One-step design of a stable variant of the malaria invasion protein RH5 for use as a vaccine immunogen

Ivan Campeotto et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2017)

Article Multidisciplinary Sciences

Trigger factor chaperone acts as a mechanical foldase

Shubhasis Haldar et al.

NATURE COMMUNICATIONS (2017)

Review Chemistry, Medicinal

Heparanase: a rainbow pharmacological target associated to multiple pathologies including rare diseases

Silvia Rivara et al.

FUTURE MEDICINAL CHEMISTRY (2016)

Article Biochemistry & Molecular Biology

Automated Structure- and Sequence-Based Design of Proteins for High Bacterial Expression and Stability

Adi Goldenzweig et al.

MOLECULAR CELL (2016)

Article Biochemistry & Molecular Biology

The role of protein dynamics in the evolution of new enzyme function

Eleanor Campbell et al.

NATURE CHEMICAL BIOLOGY (2016)

Article Multidisciplinary Sciences

Heparanase is required for activation and function of macrophages

Lilach Gutter-Kapon et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2016)

Article Biophysics

MDTraj: A Modern Open Library for the Analysis of Molecular Dynamics Trajectories

Robert T. McGibbon et al.

BIOPHYSICAL JOURNAL (2015)

Article Biochemistry & Molecular Biology

Structural characterization of human heparanase reveals insights into substrate recognition

Liang Wu et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2015)

Article Biochemistry & Molecular Biology

Construction of a robust and sensitive arginine biosensor through ancestral protein reconstruction

Jason H. Whitfield et al.

PROTEIN SCIENCE (2015)

Article Biochemistry & Molecular Biology

Structural characterization of human heparanase reveals insights into substrate recognition

Liang Wu et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2015)

Article Biochemistry & Molecular Biology

Bacterial expression and functional reconstitution of human heparanase

Sophie Winkler et al.

CARBOHYDRATE RESEARCH (2014)

Article Biochemistry & Molecular Biology

GroEL/ES Chaperonin Modulates the Mechanism and Accelerates the Rate of TIM-Barrel Domain Folding

Florian Georgescauld et al.

Article Medicine, Research & Experimental

Lysine and Arginine Content of Proteins: Computational Analysis Suggests a New Tool for Solubility Design

Jim Warwicker et al.

MOLECULAR PHARMACEUTICS (2014)

Article Biotechnology & Applied Microbiology

Engineering Escherichia coli for soluble expression and single step purification of active human lysozyme

John W. Lamppa et al.

JOURNAL OF BIOTECHNOLOGY (2013)

Review Biochemistry & Molecular Biology

Heparanase: Multiple functions in inflammation, diabetes and atherosclerosis

Israel Vlodavsky et al.

MATRIX BIOLOGY (2013)

Article Multidisciplinary Sciences

Soluble expression of proteins correlates with a lack of positively-charged surface

Pedro Chan et al.

SCIENTIFIC REPORTS (2013)

Article Biochemical Research Methods

Towards automated crystallographic structure refinement with phenix.refine

Pavel V. Afonine et al.

ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY (2012)

Article Biotechnology & Applied Microbiology

Optimization of affinity, specificity and function of designed influenza inhibitors using deep sequencing

Timothy A. Whitehead et al.

NATURE BIOTECHNOLOGY (2012)

Article Multidisciplinary Sciences

Automated selection of stabilizing mutations in designed and natural proteins

Benjamin Borgo et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)

Article Multidisciplinary Sciences

Linking Crystallographic Model and Data Quality

P. Andrew Karplus et al.

SCIENCE (2012)

Review Oncology

Significance of Heparanase in Cancer and Inflammation

Israel Vlodavsky et al.

CANCER MICROENVIRONMENT (2012)

Article Biochemical Research Methods

Overview of the CCP4 suite and current developments

Martyn D. Winn et al.

ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY (2011)

Article Biochemical Research Methods

MolProbity: all-atom structure validation for macromolecular crystallography

Vincent B. Chen et al.

ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY (2010)

Article Biochemical Research Methods

XDS

Wolfgang Kabsch

ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY (2010)

Article Biochemical Research Methods

Development of a colorimetric assay for heparanase activity suitable for kinetic analysis and inhibitor screening

Edward Hammond et al.

ANALYTICAL BIOCHEMISTRY (2010)

Article Chemistry, Multidisciplinary

phenix.model_vs_data: a high-level tool for the calculation of crystallographic model and data statistics

Pavel V. Afonine et al.

JOURNAL OF APPLIED CRYSTALLOGRAPHY (2010)

Article Chemistry, Physical

P-LINCS: A parallel linear constraint solver for molecular simulation

Berk Hess

JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2008)

Editorial Material Gastroenterology & Hepatology

Role of cytokines in inflammatory bowel disease

Fausto Sanchez-Munoz et al.

WORLD JOURNAL OF GASTROENTEROLOGY (2008)

Review Pharmacology & Pharmacy

Heparanase: a target for drug discovery in cancer and inflammation

E. A. McKenzie

BRITISH JOURNAL OF PHARMACOLOGY (2007)

Review Multidisciplinary Sciences

Heparan sulphate proteoglycans fine-tune mammalian physiology

Joseph R. Bishop et al.

NATURE (2007)

Article Chemistry, Physical

Canonical sampling through velocity rescaling

Giovanni Bussi et al.

JOURNAL OF CHEMICAL PHYSICS (2007)

Article Pathology

Heparanase upregulation by colonic epithelium in inflammatory bowel disease

Matti Waterman et al.

MODERN PATHOLOGY (2007)

Article Biochemistry & Molecular Biology

The FoldX web server: an online force field

J Schymkowitz et al.

NUCLEIC ACIDS RESEARCH (2005)

Article Biochemistry & Molecular Biology

Secretion of heparanase protein is regulated by glycosylation in human tumor cell lines

S Simizu et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2004)

Article Biochemical Research Methods

Coot:: model-building tools for molecular graphics

P Emsley et al.

ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY (2004)

Article Biochemistry & Molecular Biology

Construction of stabilized proteins by combinatorial consensus mutagenesis

N Amin et al.

PROTEIN ENGINEERING DESIGN & SELECTION (2004)

Article Biochemistry & Molecular Biology

Heterodimer formation is essential for heparanase enzymatic activity

F Levy-Adam et al.

BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS (2003)