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List of works by Virginijus Šikšnys

5' modifications to CRISPR-Cas9 gRNA can change the dynamics and size of R-loops and inhibit DNA cleavage

scientific article published on 04 June 2020

A catalogue of biochemically diverse CRISPR-Cas9 orthologs

scientific article published on 02 November 2020

A cyclic oligonucleotide signaling pathway in type III CRISPR-Cas systems

scientific article

A novel mechanism for the scission of double-stranded DNA: BfiI cuts both 3'-5' and 5'-3' strands by rotating a single active site

scientific article

A pipeline for characterization of novel Cas9 orthologs

scientific article published on 27 December 2018

Activity and structure of EcoKMcrA

Allosteric communication network in the tetrameric restriction endonuclease Bse634I.

scientific article published on 24 August 2006

Alternative arrangements of catalytic residues at the active sites of restriction enzymes

scientific article published on 01 May 2002

An Engineered SS Bridge Blocks the Conformational Change Required for the Nuclease Activity of BfiI.

scientific article published on 11 August 2015

Applications of the Versatile CRISPR-Cas Systems

Applications of the Versatile CRISPR-Cas Systems

Biochemical and mutational analysis of EcoRII functional domains reveals evolutionary links between restriction enzymes

scientific article published on 17 February 2006

CRISPR adaptation from a structural perspective

scientific article published on 19 June 2020

CRISPR-Cas9 Editing in Maize: Systematic Evaluation of Off-target Activity and Its Relevance in Crop Improvement

Cas3 is a single-stranded DNA nuclease and ATP-dependent helicase in the CRISPR/Cas immune system

scientific article

Cas3 nuclease-helicase activity assays

scientific article published in January 2015

Catalytic Activity Control of Restriction Endonuclease—Triplex Forming Oligonucleotide Conjugates ⬇️

scientific article published on January 30, 2012

Central base pair flipping and discrimination by PspGI.

scientific article published on October 2008

CgII cleaves DNA using a mechanism distinct from other ATP-dependent restriction endonucleases

scientific article published on August 2017

Crystal structure of the Bse634I restriction endonuclease: comparison of two enzymes recognizing the same DNA sequence

scientific article

Crystal structure of the R-protein of the multisubunit ATP-dependent restriction endonuclease NgoAVII.

scientific article published on 27 November 2014

DNA cleavage by CgII and NgoAVII requires interaction between N- and R-proteins and extensive nucleotide hydrolysis

scientific article published on 27 November 2014

DNA recognition by Arabidopsis transcription factors ABI3 and NGA1

scientific article published on 21 September 2018

DNA synapsis through transient tetramerization triggers cleavage by Ecl18kI restriction enzyme.

scientific article

Decision-Making in Cascade Complexes Harboring crRNAs of Altered Length

scientific article published on 01 September 2019

Degenerate sequence recognition by the monomeric restriction enzyme: single mutation converts BcnI into a strand-specific nicking endonuclease.

scientific article published on 11 January 2011

Direct observation of R-loop formation by single RNA-guided Cas9 and Cascade effector complexes.

scientific article

Direct visualization of the EcoRII-DNA triple synaptic complex by atomic force microscopy

scientific article

Directional R-Loop Formation by the CRISPR-Cas Surveillance Complex Cascade Provides Efficient Off-Target Site Rejection

scientific article published on 3 March 2015

DnaQ exonuclease-like domain of Cas2 promotes spacer integration in a type I-E CRISPR-Cas system

scientific article published on 11 June 2018

Evolutionary and functional classification of the CARF domain superfamily, key sensors in prokaryotic antivirus defense

scientific article published on 31 July 2020

Evolutionary classification of CRISPR-Cas systems: a burst of class 2 and derived variants

scientific article published on 19 December 2019

From Restriction Enzymes to CRISPR: An Interview with Virginijus Siksnys

scientific article published on 09 April 2018

Functional significance of protein assemblies predicted by the crystal structure of the restriction endonuclease BsaWI.

scientific article published on 3 August 2015

Generation of the BfiI restriction endonuclease from the fusion of a DNA recognition domain to a non-specific nuclease from the phospholipase D superfamily

scientific article published in February 2004

Genetic Dissection of the Type III-A CRISPR-Cas System Csm Complex Reveals Roles of Individual Subunits

scientific article published on 01 March 2019

Harnessing the natural diversity and in vitro evolution of Cas9 to expand the genome editing toolbox

scientific article

How PspGI, catalytic domain of EcoRII and Ecl18kI acquire specificities for different DNA targets

scientific article published on 27 September 2008

How the Bfi I restriction enzyme uses one active site to cut two DNA strands ⬇️

scientific article published on May 15, 2003

In vitro reconstitution of Cascade-mediated CRISPR immunity in Streptococcus thermophilus.

scientific article published on 18 January 2013

Lactase nonpersistence is directed by DNA-variation-dependent epigenetic aging

scientific article published on 09 May 2016

Methods for decoding Cas9 protospacer adjacent motif (PAM) sequences: A brief overview

scientific article published on 23 March 2017

Molecular mechanisms of CRISPR-mediated microbial immunity

scientific article

Molecular scissors under light control

scientific article

Monomeric restriction endonuclease BcnI in the apo form and in an asymmetric complex with target DNA

scientific article published on 8 June 2007

NotI is not boring

scientific article published on 01 April 2008

Nucleotide flipping by restriction enzymes analyzed by 2-aminopurine steady-state fluorescence

scientific article published on 07 July 2007

Nucleotide flips determine the specificity of the Ecl18kI restriction endonuclease.

scientific article published on 20 April 2006

Oligomeric structure diversity within the GIY-YIG nuclease family

scientific article published on 30 January 2009

PAM recognition by miniature CRISPR-Cas12f nucleases triggers programmable double-stranded DNA target cleavage

scientific article published on 04 April 2020

Photocaged variants of the MunI and PvuII restriction enzymes.

scientific article

Plasmid DNA Cleavage byMunI Restriction Enzyme: Single-Turnover and Steady-State Kinetic Analysis†

article

Programmable DNA cleavage in vitro by Cas9.

scientific article published on December 2013

Programmable RNA shredding by the type III-A CRISPR-Cas system of Streptococcus thermophilus.

scientific article

RNA-dependent DNA endonuclease Cas9 of the CRISPR system: Holy Grail of genome editing?

scientific article

Rapid characterization of CRISPR-Cas9 protospacer adjacent motif sequence elements

scientific article published on 19 November 2015

Restriction endonuclease AgeI is a monomer which dimerizes to cleave DNA

scientific article published on 29 December 2016

Restriction endonuclease BpuJI specific for the 5'-CCCGT sequence is related to the archaeal Holliday junction resolvase family

scientific article

Restriction endonuclease MvaI is a monomer that recognizes its target sequence asymmetrically

scientific article

Restriction enzyme Ecl18kI-induced DNA looping dynamics by single-molecule FRET.

scientific article published on 14 July 2014

Rewiring Cas9 to Target New PAM Sequences

scientific article published in March 2016

Ribosomal stalk-captured CARF-RelE ribonuclease inhibits translation following CRISPR signaling

scientific article published on 30 November 2023

Simultaneous binding of three recognition sites is necessary for a concerted plasmid DNA cleavage by EcoRII restriction endonuclease

scientific article published on 28 February 2006

Single-molecule dynamics of the DNA-EcoRII protein complexes revealed with high-speed atomic force microscopy.

scientific article

Site-specific DNA transesterification catalyzed by a restriction enzyme

scholarly article

Spatiotemporal Control of Type III-A CRISPR-Cas Immunity: Coupling DNA Degradation with the Target RNA Recognition.

scientific article published on April 2016

Streptococcus thermophilus CRISPR-Cas9 Systems Enable Specific Editing of the Human Genome

scientific article published on 14 December 2015

Structural basis of DNA target recognition by the B3 domain of Arabidopsis epigenome reader VAL1.

scientific article published in May 2018

Structural insight into the specificity of the B3 DNA-binding domains provided by the co-crystal structure of the C-terminal fragment of BfiI restriction enzyme

scientific article

Structural mechanisms for the 5'-CCWGG sequence recognition by the N- and C-terminal domains of EcoRII

scientific article

Structural mechanisms of the degenerate sequence recognition by Bse634I restriction endonuclease

scientific article

Structure of the DNA-Bound Spacer Capture Complex of a Type II CRISPR-Cas System

scientific article published on 09 May 2019

Structure of the metal-independent restriction enzyme BfiI reveals fusion of a specific DNA-binding domain with a nonspecific nuclease

scientific article

Structure-guided sequence specificity engineering of the modification-dependent restriction endonuclease LpnPI.

scientific article published on 22 May 2015

Target site cleavage by the monomeric restriction enzyme BcnI requires translocation to a random DNA sequence and a switch in enzyme orientation

scientific article published on 19 July 2011

Targeted RNA Knockdown by a Type III CRISPR-Cas Complex in Zebrafish

scientific article published on 01 August 2020

Targeted gene editing by transfection of in vitro reconstituted Streptococcus thermophilus Cas9 nuclease complex

scientific article published on January 2015

Template-directed addition of nucleosides to DNA by the BfiI restriction enzyme

scientific article

Tetrameric restriction enzymes: expansion to the GIY-YIG nuclease family

scientific article published on 17 December 2007

The H-subunit of the restriction endonuclease CglI contains a prototype DEAD-Z1 helicase-like motor.

scientific article published on 20 February 2018

The Streptococcus thermophilus CRISPR/Cas system provides immunity in Escherichia coli

scientific article

The crystal structure of the rare-cutting restriction enzyme SdaI reveals unexpected domain architecture.

scientific article published on September 2006

The dynamics of the monomeric restriction endonuclease BcnI during its interaction with DNA

scientific article

The link between restriction endonuclease fidelity and oligomeric state: A study with Bse634I ⬇️

scientific article published on July 22, 2012

The metal-independent type IIs restriction enzyme BfiI is a dimer that binds two DNA sites but has only one catalytic centre

scientific article

The recognition domain of the BpuJI restriction endonuclease in complex with cognate DNA at 1.3-A resolution

scientific article

The recognition domain of the methyl-specific endonuclease McrBC flips out 5-methylcytosine

scientific article

Time-resolved fluorescence studies of nucleotide flipping by restriction enzymes.

scientific article

Type III CRISPR-Cas Immunity: Major Differences Brushed Aside

scientific article

Type III-A CRISPR-associated protein Csm6 degrades cyclic hexa-adenylate activator using both CARF and HEPN domains

scientific article published on 07 August 2020

UbaLAI is a monomeric Type IIE restriction enzyme.

scientific article

Unique mechanism of target recognition by PfoI restriction endonuclease of the CCGG-family

scientific article published on 01 January 2019

crRNA and tracrRNA guide Cas9-mediated DNA interference in Streptococcus thermophilus

scientific article published on 27 March 2013

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