List of works - Shmuel Pietrokovski

A helix-turn-helix DNA-binding motif predicted for transposases of DNA transposons

scientific article published on 01 May 1997

A new intein in cyanobacteria and its significance for the spread of inteins

scientific article published in August 1996

A pair-to-pair amino acids substitution matrix and its applications for protein structure prediction.

scientific article

Activity, specificity and structure of I-Bth0305I: a representative of a new homing endonuclease family

scientific article

Algal viruses with distinct intraspecies host specificities include identical intein elements

scientific article

An atypical naturally split intein engineered for highly efficient protein labeling

scientific article

Atg8: an autophagy-related ubiquitin-like protein family

scientific article (publication date: 27 July 2011)

Automated construction and graphical presentation of protein blocks from unaligned sequences

scientific article published in October 1995

Bacterial intein-like domains of predatory bacteria: a new domain type characterized in Bdellovibrio bacteriovorus

scientific article

Blocks+: a non-redundant database of protein alignment blocks derived from multiple compilations

scientific article published in June 1999

Blocks-based methods for detecting protein homology

scientific article published in May 2000

Breaking up is hard to do.

scientific article published in January 1998

By their genes ye shall know them: genomic signatures of predatory bacteria

scientific article published on 29 November 2012

Comparing nucleotide and protein sequences by linguistic methods

scientific article published on June 1994

Configuration of the catalytic GIY-YIG domain of intron endonuclease I-TevI: coincidence of computational and molecular findings

scientific article published on May 1999

Consensus-degenerate hybrid oligonucleotide primers for amplification of distantly related sequences

scientific article published on April 1998

Conserved sequence features of inteins (protein introns) and their use in identifying new inteins and related proteins

scientific article published on December 1994

Consistency analysis of similarity between multiple alignments: prediction of protein function and fold structure from analysis of local sequence motifs

scientific article

Distinct molecular regulation of glycogen synthase kinase-3alpha isozyme controlled by its N-terminal region: functional role in calcium/calpain signaling

scientific article

Distribution and function of new bacterial intein-like protein domains

scientific article

Distribution of split DnaE inteins in cyanobacteria

scientific article

Doublecortin mutations cluster in evolutionarily conserved functional domains

scientific article (publication date: 22 March 2000)

Enhanced statistics for local alignment of multiple alignments improves prediction of protein function and structure

scientific article published on 3 May 2005

Exploring protein homology with the Blocks server

scientific article published on 01 April 1998

Fine-tuning an engineered intein

Fractured genes: a novel genomic arrangement involving new split inteins and a new homing endonuclease family

scientific article

GENOME MAPS 8: Building Gene Families

scientific article published in Science

Gene families: the taxonomy of protein paralogs and chimeras

scientific article

Hsp90 Recognizes a Common Surface on Client Kinases

scientific article published in Journal of Biological Chemistry

Identification of a virus intein and a possible variation in the protein-splicing reaction ⬇️

scientific article published on September 10, 1998

Identification of new signaling components in the Drosophila genome sequence

scientific article

Identification of plant RAD52 homologs and characterization of the Arabidopsis thaliana RAD52-like genes

article by Aviva Samach et al published December 2011 in The Plant Cell

Imported sequences in the mitochondrial yeast genome identified by nucleotide linguistics

scientific article published on December 1992

In and out: an analysis of epibiotic vs periplasmic bacterial predators

scientific article

Increased coverage of protein families with the blocks database servers

scientific article published on January 2000

Intein spread and extinction in evolution

scientific article

Isolation and characterization of a split B-type DNA polymerase from the archaeon Methanobacterium thermoautotrophicum deltaH.

scientific article

Linguistic Measure of Taxonomic and Functional Relatedness of Nucleotide Sequences

Meig1 deficiency causes a severe defect in mouse spermatogenesis

scientific article published on 30 December 2009

Mitochondrial carrier homolog 2 is a target of tBID in cells signaled to die by tumor necrosis factor alpha

scientific article

Modular organization of inteins and C‐terminal autocatalytic domains ⬇️

scientific article published on January 1, 1998

Mutation detection with next-generation resequencing through a mediator genome

scientific article

Myosin drives autophagy in a pathway linking Atg1 to Atg9.

scientific article published on February 2011

Network Analysis of Protein Structures Identifies Functional Residues

article

New features of the Blocks Database servers

scientific article published on January 1999

New insights into the autoinhibition mechanism of glycogen synthase kinase-3beta

scientific article published on 9 September 2008

New modularity of DAP-kinases: alternative splicing of the DRP-1 gene produces a ZIPk-like isoform

scientific article

New type of polyubiquitin-like genes with intein-like autoprocessing domains

scientific article

New types of conserved sequence domains in DNA-binding regions of homing endonucleases

scientific article

Nuclear import of ho endonuclease utilizes two nuclear localization signals and four importins of the ribosomal import system

scientific article

Occurrence of protein structure elements in conserved sequence regions.

scientific article

Omics data management and annotation

scientific article

One-Block CYRCA: an automated procedure for identifying multiple-block alignments from single block queries

scientific article

Oriented covalent immobilization of antibodies for measurement of intermolecular binding forces between zipper-like contact surfaces of split inteins

scientific article published on 31 May 2013

Protein splicing and auto-cleavage of bacterial intein-like domains lacking a C'-flanking nucleophilic residue

scientific article published on 18 May 2004

Protein splicing of inteins with atypical glutamine and aspartate C-terminal residues

scientific article published on 30 October 2003

Proteome-based comparative analyses of growth stages reveal new cell cycle-dependent functions in the predatory bacterium Bdellovibrio bacteriovorus

scientific article published on 3 October 2008

Rapid assessment of correlated amino acids from pair-to-pair (P2P) substitution matrices

scientific article

Recent enhancements to the Blocks Database servers

scientific article published on January 1997

Refining intra-protein contact prediction by graph analysis

scientific article

Searching databases of conserved sequence regions by aligning protein multiple-alignments

scientific article

Selective loss of glycogen synthase kinase-3α in birds reveals distinct roles for GSK-3 isozymes in tau phosphorylation

scholarly article by Lina Tsaadon Alon published in March 2011

Splicing of the mycobacteriophage Bethlehem DnaB intein: identification of a new mechanistic class of inteins that contain an obligate block F nucleophile.

scientific article published on 22 November 2009

Substrate competitive GSK-3 inhibitors - strategy and implications

scientific article published on 18 September 2009

Superior performance in protein homology detection with the Blocks Database servers

scientific article published on January 1998

Synergism of type I and type II Interferons in stimulating the activity of the same DNA enhancer

scientific article published on 01 June 1990

The Blocks database--a system for protein classification

scientific article published on January 1996

The autophagy-associated Atg8 gene family operates both under favourable growth conditions and under starvation stresses in Arabidopsis plants

scientific article

Trans protein splicing of cyanobacterial split inteins in endogenous and exogenous combinations.

scientific article

USH3A transcripts encode clarin-1, a four-transmembrane-domain protein with a possible role in sensory synapses

scientific article

Using the blocks database to recognize functional domains

scientific article published in August 2002

ZIPK: a unique case of murine-specific divergence of a conserved vertebrate gene

scientific article published in October 2007

List of works by Shmuel Pietrokovski

A helix-turn-helix DNA-binding motif predicted for transposases of DNA transposons

A new intein in cyanobacteria and its significance for the spread of inteins

A pair-to-pair amino acids substitution matrix and its applications for protein structure prediction.

Activity, specificity and structure of I-Bth0305I: a representative of a new homing endonuclease family

Algal viruses with distinct intraspecies host specificities include identical intein elements

An atypical naturally split intein engineered for highly efficient protein labeling

Atg8: an autophagy-related ubiquitin-like protein family

Automated construction and graphical presentation of protein blocks from unaligned sequences

Bacterial intein-like domains of predatory bacteria: a new domain type characterized in Bdellovibrio bacteriovorus

Blocks+: a non-redundant database of protein alignment blocks derived from multiple compilations

Blocks-based methods for detecting protein homology

Breaking up is hard to do.

By their genes ye shall know them: genomic signatures of predatory bacteria

Comparing nucleotide and protein sequences by linguistic methods

Configuration of the catalytic GIY-YIG domain of intron endonuclease I-TevI: coincidence of computational and molecular findings

Consensus-degenerate hybrid oligonucleotide primers for amplification of distantly related sequences

Conserved sequence features of inteins (protein introns) and their use in identifying new inteins and related proteins

Consistency analysis of similarity between multiple alignments: prediction of protein function and fold structure from analysis of local sequence motifs

Distinct molecular regulation of glycogen synthase kinase-3alpha isozyme controlled by its N-terminal region: functional role in calcium/calpain signaling

Distribution and function of new bacterial intein-like protein domains

Distribution of split DnaE inteins in cyanobacteria

Doublecortin mutations cluster in evolutionarily conserved functional domains

Enhanced statistics for local alignment of multiple alignments improves prediction of protein function and structure

Exploring protein homology with the Blocks server

Fine-tuning an engineered intein

Fractured genes: a novel genomic arrangement involving new split inteins and a new homing endonuclease family

GENOME MAPS 8: Building Gene Families

Gene families: the taxonomy of protein paralogs and chimeras

Hsp90 Recognizes a Common Surface on Client Kinases

Identification of a virus intein and a possible variation in the protein-splicing reaction ⬇️

Identification of new signaling components in the Drosophila genome sequence

Identification of plant RAD52 homologs and characterization of the Arabidopsis thaliana RAD52-like genes

Imported sequences in the mitochondrial yeast genome identified by nucleotide linguistics

In and out: an analysis of epibiotic vs periplasmic bacterial predators

Increased coverage of protein families with the blocks database servers

Intein spread and extinction in evolution

Isolation and characterization of a split B-type DNA polymerase from the archaeon Methanobacterium thermoautotrophicum deltaH.

Linguistic Measure of Taxonomic and Functional Relatedness of Nucleotide Sequences

Meig1 deficiency causes a severe defect in mouse spermatogenesis

Mitochondrial carrier homolog 2 is a target of tBID in cells signaled to die by tumor necrosis factor alpha

Modular organization of inteins and C‐terminal autocatalytic domains ⬇️

Mutation detection with next-generation resequencing through a mediator genome

Myosin drives autophagy in a pathway linking Atg1 to Atg9.

Network Analysis of Protein Structures Identifies Functional Residues

New features of the Blocks Database servers

New insights into the autoinhibition mechanism of glycogen synthase kinase-3beta

New modularity of DAP-kinases: alternative splicing of the DRP-1 gene produces a ZIPk-like isoform

New type of polyubiquitin-like genes with intein-like autoprocessing domains

New types of conserved sequence domains in DNA-binding regions of homing endonucleases

Nuclear import of ho endonuclease utilizes two nuclear localization signals and four importins of the ribosomal import system

Occurrence of protein structure elements in conserved sequence regions.

Omics data management and annotation

One-Block CYRCA: an automated procedure for identifying multiple-block alignments from single block queries

Oriented covalent immobilization of antibodies for measurement of intermolecular binding forces between zipper-like contact surfaces of split inteins

Protein splicing and auto-cleavage of bacterial intein-like domains lacking a C'-flanking nucleophilic residue

Protein splicing of inteins with atypical glutamine and aspartate C-terminal residues

Proteome-based comparative analyses of growth stages reveal new cell cycle-dependent functions in the predatory bacterium Bdellovibrio bacteriovorus

Rapid assessment of correlated amino acids from pair-to-pair (P2P) substitution matrices

Recent enhancements to the Blocks Database servers

Refining intra-protein contact prediction by graph analysis

Searching databases of conserved sequence regions by aligning protein multiple-alignments

Selective loss of glycogen synthase kinase-3α in birds reveals distinct roles for GSK-3 isozymes in tau phosphorylation

Splicing of the mycobacteriophage Bethlehem DnaB intein: identification of a new mechanistic class of inteins that contain an obligate block F nucleophile.

Substrate competitive GSK-3 inhibitors - strategy and implications

Superior performance in protein homology detection with the Blocks Database servers

Synergism of type I and type II Interferons in stimulating the activity of the same DNA enhancer

The Blocks database--a system for protein classification

The autophagy-associated Atg8 gene family operates both under favourable growth conditions and under starvation stresses in Arabidopsis plants

Trans protein splicing of cyanobacterial split inteins in endogenous and exogenous combinations.

USH3A transcripts encode clarin-1, a four-transmembrane-domain protein with a possible role in sensory synapses

Using the blocks database to recognize functional domains

ZIPK: a unique case of murine-specific divergence of a conserved vertebrate gene