Lista de obras - Birgit Eisenhaber - Dominio Público Uruguay

A Reversible Association between Smc Coiled Coils Is Regulated by Lysine Acetylation and Is Required for Cohesin Association with the DNA.

artículo científico publicado en 2016

A sensitive predictor for potential GPI lipid modification sites in fungal protein sequences and its application to genome-wide studies for Aspergillus nidulans, Candida albicans, Neurospora crassa, Saccharomyces cerevisiae and Schizosaccharomyces p

artículo científico publicado en 2004

ANNIE: integrated de novo protein sequence annotation

scientific article published on 23 April 2009

Active site CP-loop dynamics modulate substrate binding, catalysis, oligomerization, stability, over-oxidation and recycling of 2-Cys Peroxiredoxins

artículo científico publicado en 2018

Automated annotation of GPI anchor sites: case study C. elegans

artículo científico publicado en 2000

Beware of moving targets: reference proteome content fluctuates substantially over the years

artículo científico publicado en 2012

Biomolecular pathway databases

scientific article published on January 2010

Charged residues next to transmembrane regions revisited: "Positive-inside rule" is complemented by the "negative inside depletion/outside enrichment rule"

artículo científico publicado en 2017

Crystallographic and solution studies of NAD(+)- and NADH-bound alkylhydroperoxide reductase subunit F (AhpF) from Escherichia coli provide insight into sequential enzymatic steps

artículo científico publicado en 2015

Darkness in the Human Gene and Protein Function Space: Widely Modest or Absent Illumination by the Life Science Literature and the Trend for Fewer Protein Function Discoveries Since 2000

artículo científico publicado en 2018

Databases of protein-protein interactions and complexes

artículo científico publicado en 2010

Discovery of a novel splice variant of Fcar (CD89) unravels sequence segments necessary for efficient secretion: A story of bad signal peptides and good ones that nevertheless do not make it.

artículo científico publicado en 2017

Effect of the additional cysteine 503 of vancomycin-resistant Enterococcus faecalis (V583) alkylhydroperoxide reductase subunit F (AhpF) and the mechanism of AhpF and subunit C assembling

scientific article published on 30 April 2019

Enzymes and auxiliary factors for GPI lipid anchor biosynthesis and post-translational transfer to proteins

artículo científico publicado en 2003

Erratum to: Charged residues next to transmembrane regions revisited: "Positive-inside rule" is complemented by the "negative inside depletion/outside enrichment rule".

artículo científico publicado en 2017

Essential role of the flexible linker on the conformational equilibrium of bacterial peroxiredoxin reductase for effective regeneration of peroxiredoxin

artículo científico publicado en 2017

Function of a membrane-embedded domain evolutionarily multiplied in the GPI lipid anchor pathway proteins PIG-B, PIG-M, PIG-U, PIG-W, PIG-V, and PIG-Z

artículo científico publicado en 2018

Functional Classification of Super-Large Families of Enzymes Based on Substrate Binding Pocket Residues for Biocatalysis and Enzyme Engineering Applications

artículo científico publicado en 2021

Genome-wide loss-of-function analysis of deubiquitylating enzymes for zebrafish development

artículo científico publicado en 2009

Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

article

Gitelman Syndrome

Glycosylphosphatidylinositol lipid anchoring of plant proteins. Sensitive prediction from sequence- and genome-wide studies for Arabidopsis and rice

artículo científico publicado en 2003

HPMV: human protein mutation viewer - relating sequence mutations to protein sequence architecture and function changes

artículo científico publicado en 2015

How bioinformatics influences health informatics: usage of biomolecular sequences, expression profiles and automated microscopic image analyses for clinical needs and public health

artículo científico publicado en 2013

Identification and engineering of 32 membered antifungal macrolactone notonesomycins

artículo científico publicado en 2020

Integrated tools for biomolecular sequence-based function prediction as exemplified by the ANNOTATOR software environment

artículo científico publicado en 2010

Isolation and Identification of an Anthracimycin Analogue from Nocardiopsis kunsanensis, a Halophile from a Saltern, by Genomic Mining Strategy.

artículo científico publicado en 2018

Key roles of the Escherichia coli AhpC C-terminus in assembly and catalysis of alkylhydroperoxide reductase, an enzyme essential for the alleviation of oxidative stress

artículo científico publicado en 2014

Low resolution solution structure of an enzymatic active AhpC10:AhpF2 ensemble of the Escherichia coli Alkyl hydroperoxide Reductase

artículo científico publicado en 2015

Low-resolution structure of the soluble domain GPAA1 (yGPAA170-247) of the glycosylphosphatidylinositol transamidase subunit GPAA1 from Saccharomyces cerevisiae

artículo científico publicado en 2013

Molecular mechanism of the Escherichia coli AhpC in the function of a chaperone under heat-shock conditions

scientific article published in Scientific Reports

Motif refinement of the peroxisomal targeting signal 1 and evaluation of taxon-specific differences

artículo científico publicado en 2003

N-terminal N-myristoylation of proteins: prediction of substrate proteins from amino acid sequence

artículo científico publicado en 2002

N-terminal N-myristoylation of proteins: refinement of the sequence motif and its taxon-specific differences

artículo científico publicado en 2002

NMR studies reveal a novel grab and release mechanism for efficient catalysis of the bacterial 2-Cys peroxiredoxin machinery

artículo científico publicado en 2015

Novel insights into the vancomycin-resistant Enterococcus faecalis (V583) alkylhydroperoxide reductase subunit F.

artículo científico publicado en 2017

Nuclear import of a lipid-modified transcription factor: mobilization of NFAT5 isoform a by osmotic stress

artículo científico publicado en 2011

On filtering false positive transmembrane protein predictions

artículo científico publicado en 2002

On the necessity of dissecting sequence similarity scores into segment-specific contributions for inferring protein homology, function prediction and annotation

artículo científico publicado en 2014

PSIC: profile extraction from sequence alignments with position-specific counts of independent observations

artículo científico publicado en 1999

Post-translational GPI lipid anchor modification of proteins in kingdoms of life: analysis of protein sequence data from complete genomes

artículo científico publicado en 2001

Post-translational Regulation of Radioactive Iodine Therapy Response in Papillary Thyroid Carcinoma

artículo científico publicado en 2017

Posttranslational modifications and subcellular localization signals: indicators of sequence regions without inherent 3D structure?

artículo científico publicado en 2007

Powerful sequence similarity search methods and in-depth manual analyses can identify remote homologs in many apparently "orphan" viral proteins

artículo científico publicado en 2013

Prediction of lipid posttranslational modifications and localization signals from protein sequences: big-Pi, NMT and PTS1

artículo científico publicado en 2003

Prediction of peroxisomal targeting signal 1 containing proteins from amino acid sequence

artículo científico publicado en 2003

Prediction of posttranslational modification of proteins from their amino acid sequence

artículo científico publicado en 2010

Prediction of potential GPI-modification sites in proprotein sequences

artículo científico publicado en 1999

Prediction of sequence signals for lipid post-translational modifications: insights from case studies

artículo científico publicado en 2004

Prenylation of viral proteins by enzymes of the host: Virus-driven rationale for therapy with statins and FT/GGT1 inhibitors

artículo científico publicado en 2017

Prenylation: From bacteria to eukaryotes

article by E. S. Marakasova et al published September 2013 in Molecular Biology

Prenylation: from bacteria to eukaryotes

artículo científico publicado en 2013

Protein function machinery: from basic structural units to modulation of activity.

artículo científico publicado en 2016

Proteins with two SUMO-like domains in chromatin-associated complexes: the RENi (Rad60-Esc2-NIP45) family

artículo científico publicado en 2005

Purification and crystallization of yeast glycosylphosphatidylinositol transamidase subunit PIG-S (PIG-S(71-467)).

artículo científico publicado en 2011

SPACER: Server for predicting allosteric communication and effects of regulation.

artículo científico publicado en 2013

Sequence properties of GPI-anchored proteins near the omega-site: constraints for the polypeptide binding site of the putative transamidase

scientific article published on 01 December 1998

Single-residue posttranslational modification sites at the N-terminus, C-terminus or in-between: To be or not to be exposed for enzyme access

artículo científico publicado en 2015

Species specific membrane anchoring of nyctalopin, a small leucine-rich repeat protein

artículo científico publicado en 2005

Structural insight into the glycosylphosphatidylinositol transamidase subunits PIG-K and PIG-S from yeast.

artículo científico publicado en 2010

Structural modelling of the lumenal domain of human GPAA1, the metallo-peptide synthetase subunit of the transamidase complex, reveals zinc-binding mode and two flaps surrounding the active site

scientific article published on 29 September 2020

Structure, mechanism and ensemble formation of the alkylhydroperoxide reductase subunits AhpC and AhpF from Escherichia coli

artículo científico publicado en 2014

TM or not TM: transmembrane protein prediction with low false positive rate using DAS-TMfilter.

artículo científico publicado en 2004

The 160K Natural Organism Library, a unique resource for natural products research

artículo científico publicado en 2018

The Recipe for Protein Sequence-Based Function Prediction and Its Implementation in the ANNOTATOR Software Environment

artículo científico publicado en 2016

The crystal structure of the NADH-bound form of the Escherichia coli Alkylhydroperoxide Reductase subunit AhpF and the basis for substrate specificity and alternating conformation during catalysis

artículo científico publicado en 2014

The ring between ring fingers (RBR) protein family

artículo científico publicado en 2007

To kill or to be killed: pangenome analysis of Escherichia coli strains reveals a tailocin specific for pandemic ST131

scientific article published on 01 January 2022

To kill or to be killed: pangenome analysis of Escherichia coli strains reveals a tailocin specific for pandemic ST131

artículo científico publicado en 2022

Transamidase subunit GAA1/GPAA1 is a M28 family metallo-peptide-synthetase that catalyzes the peptide bond formation between the substrate protein's omega-site and the GPI lipid anchor's phosphoethanolamine

artículo científico publicado en 2014

Transcriptional regulation of nitrate assimilation in Pseudomonas aeruginosa occurs via transcriptional antitermination within the nirBD-PA1779-cobA operon

scientific journal article

Transition steps in peroxide reduction and a molecular switch for peroxide robustness of prokaryotic peroxiredoxins

artículo científico publicado en 2016

dissectHMMER: a HMMER-based score dissection framework that statistically evaluates fold-critical sequence segments for domain fold similarity

artículo científico publicado en 2015

xHMMER3x2: Utilizing HMMER3's speed and HMMER2's sensitivity and specificity in the glocal alignment mode for improved large-scale protein domain annotation

artículo científico publicado en 2016

Lista de obras de Birgit Eisenhaber

A Reversible Association between Smc Coiled Coils Is Regulated by Lysine Acetylation and Is Required for Cohesin Association with the DNA.

A sensitive predictor for potential GPI lipid modification sites in fungal protein sequences and its application to genome-wide studies for Aspergillus nidulans, Candida albicans, Neurospora crassa, Saccharomyces cerevisiae and Schizosaccharomyces p

ANNIE: integrated de novo protein sequence annotation

Active site CP-loop dynamics modulate substrate binding, catalysis, oligomerization, stability, over-oxidation and recycling of 2-Cys Peroxiredoxins

Automated annotation of GPI anchor sites: case study C. elegans

Beware of moving targets: reference proteome content fluctuates substantially over the years

Biomolecular pathway databases

Charged residues next to transmembrane regions revisited: "Positive-inside rule" is complemented by the "negative inside depletion/outside enrichment rule"

Crystallographic and solution studies of NAD(+)- and NADH-bound alkylhydroperoxide reductase subunit F (AhpF) from Escherichia coli provide insight into sequential enzymatic steps

Darkness in the Human Gene and Protein Function Space: Widely Modest or Absent Illumination by the Life Science Literature and the Trend for Fewer Protein Function Discoveries Since 2000

Databases of protein-protein interactions and complexes

Discovery of a novel splice variant of Fcar (CD89) unravels sequence segments necessary for efficient secretion: A story of bad signal peptides and good ones that nevertheless do not make it.

Effect of the additional cysteine 503 of vancomycin-resistant Enterococcus faecalis (V583) alkylhydroperoxide reductase subunit F (AhpF) and the mechanism of AhpF and subunit C assembling

Enzymes and auxiliary factors for GPI lipid anchor biosynthesis and post-translational transfer to proteins

Erratum to: Charged residues next to transmembrane regions revisited: "Positive-inside rule" is complemented by the "negative inside depletion/outside enrichment rule".

Essential role of the flexible linker on the conformational equilibrium of bacterial peroxiredoxin reductase for effective regeneration of peroxiredoxin

Function of a membrane-embedded domain evolutionarily multiplied in the GPI lipid anchor pathway proteins PIG-B, PIG-M, PIG-U, PIG-W, PIG-V, and PIG-Z

Functional Classification of Super-Large Families of Enzymes Based on Substrate Binding Pocket Residues for Biocatalysis and Enzyme Engineering Applications

Genome-wide loss-of-function analysis of deubiquitylating enzymes for zebrafish development

Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Gitelman Syndrome

Glycosylphosphatidylinositol lipid anchoring of plant proteins. Sensitive prediction from sequence- and genome-wide studies for Arabidopsis and rice

HPMV: human protein mutation viewer - relating sequence mutations to protein sequence architecture and function changes

How bioinformatics influences health informatics: usage of biomolecular sequences, expression profiles and automated microscopic image analyses for clinical needs and public health

Identification and engineering of 32 membered antifungal macrolactone notonesomycins

Integrated tools for biomolecular sequence-based function prediction as exemplified by the ANNOTATOR software environment

Isolation and Identification of an Anthracimycin Analogue from Nocardiopsis kunsanensis, a Halophile from a Saltern, by Genomic Mining Strategy.

Key roles of the Escherichia coli AhpC C-terminus in assembly and catalysis of alkylhydroperoxide reductase, an enzyme essential for the alleviation of oxidative stress

Low resolution solution structure of an enzymatic active AhpC10:AhpF2 ensemble of the Escherichia coli Alkyl hydroperoxide Reductase

Low-resolution structure of the soluble domain GPAA1 (yGPAA170-247) of the glycosylphosphatidylinositol transamidase subunit GPAA1 from Saccharomyces cerevisiae

Molecular mechanism of the Escherichia coli AhpC in the function of a chaperone under heat-shock conditions

Motif refinement of the peroxisomal targeting signal 1 and evaluation of taxon-specific differences

N-terminal N-myristoylation of proteins: prediction of substrate proteins from amino acid sequence

N-terminal N-myristoylation of proteins: refinement of the sequence motif and its taxon-specific differences

NMR studies reveal a novel grab and release mechanism for efficient catalysis of the bacterial 2-Cys peroxiredoxin machinery

Novel insights into the vancomycin-resistant Enterococcus faecalis (V583) alkylhydroperoxide reductase subunit F.

Nuclear import of a lipid-modified transcription factor: mobilization of NFAT5 isoform a by osmotic stress

On filtering false positive transmembrane protein predictions

On the necessity of dissecting sequence similarity scores into segment-specific contributions for inferring protein homology, function prediction and annotation

PSIC: profile extraction from sequence alignments with position-specific counts of independent observations

Post-translational GPI lipid anchor modification of proteins in kingdoms of life: analysis of protein sequence data from complete genomes

Post-translational Regulation of Radioactive Iodine Therapy Response in Papillary Thyroid Carcinoma

Posttranslational modifications and subcellular localization signals: indicators of sequence regions without inherent 3D structure?

Powerful sequence similarity search methods and in-depth manual analyses can identify remote homologs in many apparently "orphan" viral proteins

Prediction of lipid posttranslational modifications and localization signals from protein sequences: big-Pi, NMT and PTS1

Prediction of peroxisomal targeting signal 1 containing proteins from amino acid sequence

Prediction of posttranslational modification of proteins from their amino acid sequence

Prediction of potential GPI-modification sites in proprotein sequences

Prediction of sequence signals for lipid post-translational modifications: insights from case studies

Prenylation of viral proteins by enzymes of the host: Virus-driven rationale for therapy with statins and FT/GGT1 inhibitors

Prenylation: From bacteria to eukaryotes

Prenylation: from bacteria to eukaryotes

Protein function machinery: from basic structural units to modulation of activity.

Proteins with two SUMO-like domains in chromatin-associated complexes: the RENi (Rad60-Esc2-NIP45) family

Purification and crystallization of yeast glycosylphosphatidylinositol transamidase subunit PIG-S (PIG-S(71-467)).

SPACER: Server for predicting allosteric communication and effects of regulation.

Sequence properties of GPI-anchored proteins near the omega-site: constraints for the polypeptide binding site of the putative transamidase

Single-residue posttranslational modification sites at the N-terminus, C-terminus or in-between: To be or not to be exposed for enzyme access

Species specific membrane anchoring of nyctalopin, a small leucine-rich repeat protein

Structural insight into the glycosylphosphatidylinositol transamidase subunits PIG-K and PIG-S from yeast.

Structural modelling of the lumenal domain of human GPAA1, the metallo-peptide synthetase subunit of the transamidase complex, reveals zinc-binding mode and two flaps surrounding the active site

Structure, mechanism and ensemble formation of the alkylhydroperoxide reductase subunits AhpC and AhpF from Escherichia coli

TM or not TM: transmembrane protein prediction with low false positive rate using DAS-TMfilter.

The 160K Natural Organism Library, a unique resource for natural products research

The Recipe for Protein Sequence-Based Function Prediction and Its Implementation in the ANNOTATOR Software Environment

The crystal structure of the NADH-bound form of the Escherichia coli Alkylhydroperoxide Reductase subunit AhpF and the basis for substrate specificity and alternating conformation during catalysis

The ring between ring fingers (RBR) protein family

To kill or to be killed: pangenome analysis of Escherichia coli strains reveals a tailocin specific for pandemic ST131

To kill or to be killed: pangenome analysis of Escherichia coli strains reveals a tailocin specific for pandemic ST131

Transamidase subunit GAA1/GPAA1 is a M28 family metallo-peptide-synthetase that catalyzes the peptide bond formation between the substrate protein's omega-site and the GPI lipid anchor's phosphoethanolamine

Transcriptional regulation of nitrate assimilation in Pseudomonas aeruginosa occurs via transcriptional antitermination within the nirBD-PA1779-cobA operon

Transition steps in peroxide reduction and a molecular switch for peroxide robustness of prokaryotic peroxiredoxins

dissectHMMER: a HMMER-based score dissection framework that statistically evaluates fold-critical sequence segments for domain fold similarity

xHMMER3x2: Utilizing HMMER3's speed and HMMER2's sensitivity and specificity in the glocal alignment mode for improved large-scale protein domain annotation