Visualizing phosphodiester-bond hydrolysis by an endonuclease

A computational and experimental study of O-glycosylation. Catalysis by human UDP-GalNAc polypeptide:GalNAc transferase-T2

(2014) Hansel Gómez et al.   ORGANIC & BIOMOLECULAR CHEMISTRY

Comparative analysis of inner cavities and ligand migration in non-symbiotic AHb1 and AHb2

(2013) Francesca Spyrakis et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Single vs. multiple ligand pathways in globins

(2013) M. Fátima Lucas et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Observing a DNA Polymerase Choose Right from Wrong

(2013) Bret D. Freudenthal et al.   CELL

Substrate-Assisted and Nucleophilically Assisted Catalysis in Bovine α1,3-Galactosyltransferase. Mechanistic Implications for Retaining Glycosyltransferases

(2013) Hansel Gómez et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Density functional study of the phosphate diester hydrolysis of RNA in RNA/DNA hybrid by RNase HI

(2013) Makoto Kita et al.   MOLECULAR PHYSICS

An Atomistic View on Human Hemoglobin Carbon Monoxide Migration Processes

(2012) M. Fátima Lucas et al.   BIOPHYSICAL JOURNAL

Retaining Glycosyltransferase Mechanism Studied by QM/MM Methods: Lipopolysaccharyl-α-1,4-galactosyltransferase C Transfers α-Galactose via an Oxocarbenium Ion-like Transition State

(2012) Hansel Gómez et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Watching DNA polymerase η make a phosphodiester bond

(2012) Teruya Nakamura et al.   NATURE

H++ 3.0: automating pK prediction and the preparation of biomolecular structures for atomistic molecular modeling and simulations

(2012) R. Anandakrishnan et al.   NUCLEIC ACIDS RESEARCH

Substrate diffusion and oxidation in GMC oxidoreductases: an experimental and computational study on fungal aryl-alcohol oxidase

(2011) Aitor Hernández-Ortega et al.   BIOCHEMICAL JOURNAL

Catalytic Mechanism of RNA Backbone Cleavage by Ribonuclease H from Quantum Mechanics/Molecular Mechanics Simulations

(2011) Edina Rosta et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Tapping natural reservoirs of homing endonucleases for targeted gene modification

(2011) Ryo Takeuchi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

XDS

(2010) Wolfgang Kabsch   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

PHENIX: a comprehensive Python-based system for macromolecular structure solution

(2010) Paul D. Adams et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Phosphate Mono- and Diesterase Activities of the Trinuclear Zinc Enzyme Nuclease P1—Insights from Quantum Chemical Calculations

(2010) Rong-Zhen Liao et al.   INORGANIC CHEMISTRY

Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus

(2010) Inés G. Muñoz et al.   NUCLEIC ACIDS RESEARCH

Atomistic details of the associative phosphodiester cleavage in human ribonuclease H

(2010) Brigitta Elsässer et al.   PHYSICAL CHEMISTRY CHEMICAL PHYSICS

Nucleases: diversity of structure, function and mechanism

(2010) Wei Yang   QUARTERLY REVIEWS OF BIOPHYSICS

Homing endonucleases: from basics to therapeutic applications

(2009) Maria J. Marcaida et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

On the Divalent Metal Ion Dependence of DNA Cleavage by Restriction Endonucleases of the EcoRI Family

(2009) Vera Pingoud et al.   JOURNAL OF MOLECULAR BIOLOGY

Directed evolution of homing endonuclease I-SceI with altered sequence specificity

(2009) Z. Chen et al.   PROTEIN ENGINEERING DESIGN & SELECTION

Phosphodiester Cleavage in Ribonuclease H Occurs via an Associative Two-Metal-Aided Catalytic Mechanism

(2008) Marco De Vivo et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Molecular basis of xeroderma pigmentosum group C DNA recognition by engineered meganucleases

(2008) Pilar Redondo et al.   NATURE

Crystal structures of I-SceI complexed to nicked DNA substrates: snapshots of intermediates along the DNA cleavage reaction pathway

(2008) C. M. Moure et al.   NUCLEIC ACIDS RESEARCH

Crystal structure of I-DmoI in complex with its target DNA provides new insights into meganuclease engineering

(2008) M. J. Marcaida et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA