List of works - Irena Roterman-Konieczna

"Fuzzy oil drop" model applied to individual small proteins built of 70 amino acids

scientific article published on 19 January 2010

"Fuzzy oil drop" model verified positively

scientific article

A tabular approach to the sequence-to-structure relation in proteins (tetrapeptide representation) for de novo protein design.

scientific article

Albumin binds self-assembling dyes as specific polymolecular ligands

scientific article published on 12 May 2006

Alternative Structures of α-Synuclein

scientific article published on 30 January 2020

Amyloids, Congo red and the apple-green effect

scientific article published on 01 March 2019

An approach to understand the complexation of supramolecular dye Congo red with immunoglobulin L chain lambda

scientific article published in February 2005

Analysis of correlated domain motions in IgG light chain reveals possible mechanisms of immunological signal transduction

scientific article

Antifreeze proteins

scientific article published on 31 December 2017

Catalytic residues in hydrolases: analysis of methods designed for ligand-binding site prediction ⬇️

scientific article published on November 21, 2010

Chaperonin structure: the large multi-subunit protein complex.

scientific article

Conformational subspace in simulation of early-stage protein folding

scientific article published in April 2004

Congo Red as a Supramolecular Carrier System for Doxorubicin: An Approach to Understanding the Mechanism of Action

scientific article published on 11 August 2022

Connexins and Pannexins-Similarities and Differences According to the FOD-M Model

scientific article published on 25 June 2022

Conservative secondary structure motifs already present in early-stage folding (in silico) as found in serpines family

scientific article published on 07 November 2007

Contingency Table Browser - prediction of early stage protein structure.

scientific article

Contribution to the Understanding of Protein–Protein Interface and Ligand Binding Site Based on Hydrophobicity Distribution—Application to Ferredoxin I and II Cases

scientific article published on 14 September 2021

Contribution to the prediction of the fold code: application to immunoglobulin and flavodoxin cases

scientific article published on 27 April 2015

Different Synergy in Amyloids and Biologically Active Forms of Proteins

scientific article published on 09 September 2019

Dispersion of single-wall carbon nanotubes with supramolecular Congo red - properties of the complexes and mechanism of the interaction

scientific article

Divergence Entropy-Based Evaluation of Hydrophobic Core in Aggressive and Resistant Forms of Transthyretin

scientific article published on 13 April 2021

Downhill, Ultrafast and Fast Folding Proteins Revised

scientific article published on 15 October 2020

E-infrastructure technologies triggering of Bioinformatics development ⬇️

scientific article published on 05 December 2007

Early-stage folding in proteins (in silico) sequence-to-structure relation

scientific article

Egg yolk platelet proteins from Xenopus laevis are amyloidogenic

scientific article

Evidence that supramolecular Congo red is the sole ligation form of this dye for L chain lambda derived amyloid proteins

Filamentous Aggregates of Tau Proteins Fulfil Standard Amyloid Criteria Provided by the Fuzzy Oil Drop (FOD) Model

scientific article published on 25 September 2018

Force-field parametrization and molecular dynamics simulations of Congo red.

scientific article published in January 2004

Functional characteristics of small proteins (70 amino acid residues) forming protein-nucleic acid complexes

scientific article published in June 2009

Fuzzy oil drop model to interpret the structure of antifreeze proteins and their mutants

scientific article published on 27 April 2011

Gauss-function-Based model of hydrophobicity density in proteins

scientific article published on 01 January 2006

Heat-induced formation of a specific binding site for self-assembled Congo Red in the V domain of immunoglobulin L chain lambda

article published in 2001

Hydrophobic collapse in (in silico) protein folding

scientific article

Hydrophobic core formation in protein complex of cathepsin

scientific article published on 5 July 2013

Hypothetical in silico model of the early-stage intermediate in protein folding.

scientific article published on 28 June 2013

Improving Diagnostic Accuracy of Dermoscopically Equivocal Pink Cutaneous Lesions with Reflectance Confocal Microscopy in Telemedicine Settings: Double Reader Concordance Evaluation of 316 Cases

scientific article

In Silico Modeling of the Influence of Environment on Amyloid Folding Using FOD-M Model

scientific article published on 30 September 2021

In silico structural study of random amino acid sequence proteins not present in nature.

scientific article

In vivo accumulation of self-assembling dye Congo red in an area marked by specific immune complexes: possible relevance to chemotherapy

scientific article published in January 2004

Influence of the electric field on supramolecular structure and properties of amyloid-specific reagent Congo red

scientific article published on 24 September 2011

Instability of monoclonal myeloma protein may be identified as susceptibility to penetration and binding by newly synthesized Congo red derivatives

scientific article published in June 2004

Interaction of Supramolecular Congo Red and Congo Red-Doxorubicin Complexes with Proteins for Drug Carrier Design

scientific article published on 28 November 2021

Intermediates in the Protein Folding Process: A Computational Model ⬇️

scientific article published on July 29, 2011

Internal force field in proteins seen by divergence entropy ⬇️

scientific article published on July 6, 2011

Intramolecular immunological signal hypothesis revived--structural background of signalling revealed by using Congo Red as a specific tool

scientific article

Intramolecular signaling in immunoglobulins -- new evidence emerging from the use of supramolecular protein ligands

scientific article published in September 2004

Is the hydrophobic core a universal structural element in proteins?

scientific article published on 16 June 2017

Is the protein folding an aim-oriented process? Human haemoglobin as example

scientific article published on 01 January 2007

Ligation site in proteins recognized in silico.

scientific article

Local and long-range structural effects caused by the removal of the N-terminal polypeptide fragment from immunoglobulin L chain lambda

scientific article published in June 2003

Localization of ligand binding site in proteins identified in silico.

scientific article published on 30 March 2007

Metal Ions Introduced to Proteins by Supramolecular Ligands

Model of Early Stage Intermediate in Respect to Its Final Structure

scientific article published on 12 December 2019

Model of Environmental Membrane Field for Transmembrane Proteins

scientific article published on 31 March 2021

Never born proteins as a test case for ab initio protein structures prediction.

scientific article

New telemedicine techniques in dermatology - evaluation with reflectance confocal microscopy via cloud-based platform.

scientific article published on January 2016

On the Dependence of Prion and Amyloid Structure on the Folding Environment

scientific article published on 16 December 2021

Prediction of functional sites based on the fuzzy oil drop model

scientific article

Prediction of ligand binding site and functionally important residues based on fuzzy-oil-drop model

scientific article published on 12 April 2007

Propagation of Fibrillar Structural Forms in Proteins Stopped by Naturally Occurring Short Polypeptide Chain Fragments

scientific article published on 16 November 2017

Protein Conditioning for Binding Congo Red and Other Supramolecular Ligands

Protein distorsion-derived mechanism of signal discrimination in monocytes revealed using Congo red to stain activated cells

scientific article published on January 2003

ProteinUnet-An efficient alternative to SPIDER3-single for sequence-based prediction of protein secondary structures

scientific article published on 15 October 2020

Recognition of protein complexation based on hydrophobicity distribution

scientific article published on 30 September 2009

SPI--structure predictability index for protein sequences.

scientific article

Search for structural similarity in proteins

scientific article published in January 2003

Sequence-structure-function relation characterized in silico

scientific article published on 01 October 2006

Serum albumin complexation of acetylsalicylic acid metabolites

scientific article published in June 2009

Silver ions as em marker of congo red ligation sites in amyloids and amyloid-like aggregates

scientific article

Solubility and Aggregation of Selected Proteins Interpreted on the Basis of Hydrophobicity Distribution

scientific article published on 8 May 2021

Statistical dictionaries for hypothetical in silico model of the early-stage intermediate in protein folding.

scientific article published on 26 March 2015

Structural Interface Forms and Their Involvement in Stabilization of Multidomain Proteins or Protein Complexes

scientific article published on 18 October 2016

Structural role of exon-coded fragment of polypeptide chains in selected enzymes

scientific article published on 26 July 2013

Supramolecular Systems as Protein Ligands

Supramolecularity creates nonstandard protein ligands.

scientific article

Symmetry and Dissymmetry in Protein Structure—System-Coding Its Biological Specificity

scientific article published on 30 September 2019

Tandemly repeated trinucleotides - comparative analysis

scientific article published on 29 May 2006

Telemedical database of Hodgkin's disease.

scientific article published on January 2004

The Amyloid as a Ribbon-Like Micelle in Contrast to Spherical Micelles Represented by Globular Proteins

scientific article published on 03 December 2019

The Functional Significance of Hydrophobic Residue Distribution in Bacterial Beta-Barrel Transmembrane Proteins

scientific article published on 30 July 2021

The Possible Mechanism of Amyloid Transformation Based on the Geometrical Parameters of Early-Stage Intermediate in Silico Model for Protein Folding

scientific article published in 2022

The Status of Edge Strands in Ferredoxin-Like Fold

scientific article published on 19 June 2020

The Structure of Amyloid Versus the Structure of Globular Proteins ⬇️

scientific article published on 30 June 2020

The conformational characteristics of Congo red, Evans blue and Trypan blue

scientific article published in May 2000

The fuzzy oil drop model, based on hydrophobicity density distribution, generalizes the influence of water environment on protein structure and function

scientific article

The increased flexibility of CDR loops generated in antibodies by Congo red complexation favors antigen binding

scientific article published in February 2006

The indirect generation of long-distance structural changes in antibodies upon their binding to antigen

scientific article

The structural abnormality of myeloma immunoglobulins tested by Congo red binding

scientific article published on April 1, 2003

The structure and protein binding of amyloid-specific dye reagents.

scientific article published in January 2003

The use of rigid, fibrillar Congo red nanostructures for scaffolding protein assemblies and inducing the formation of amyloid-like arrangement of molecules

scientific article published on 7 November 2007

The use of supramolecular structures as protein ligands.

scientific article published on 8 January 2013

The use of the Congo red-related dye DBACR to recognize the heavy chain-derived abnormality of myeloma immunoglobulins

scientific article published on 31 May 2006

Towards the design of anti-amyloid short peptide helices.

scientific article published on 31 January 2018

Why Congo red binding is specific for amyloid proteins - model studies and a computer analysis approach

scientific article published in July 2001

List of works by Irena Roterman-Konieczna

"Fuzzy oil drop" model applied to individual small proteins built of 70 amino acids

"Fuzzy oil drop" model verified positively

A tabular approach to the sequence-to-structure relation in proteins (tetrapeptide representation) for de novo protein design.

Albumin binds self-assembling dyes as specific polymolecular ligands

Alternative Structures of α-Synuclein

Amyloids, Congo red and the apple-green effect

An approach to understand the complexation of supramolecular dye Congo red with immunoglobulin L chain lambda

Analysis of correlated domain motions in IgG light chain reveals possible mechanisms of immunological signal transduction

Antifreeze proteins

Catalytic residues in hydrolases: analysis of methods designed for ligand-binding site prediction ⬇️

Chaperonin structure: the large multi-subunit protein complex.

Conformational subspace in simulation of early-stage protein folding

Congo Red as a Supramolecular Carrier System for Doxorubicin: An Approach to Understanding the Mechanism of Action

Connexins and Pannexins-Similarities and Differences According to the FOD-M Model

Conservative secondary structure motifs already present in early-stage folding (in silico) as found in serpines family

Contingency Table Browser - prediction of early stage protein structure.

Contribution to the Understanding of Protein–Protein Interface and Ligand Binding Site Based on Hydrophobicity Distribution—Application to Ferredoxin I and II Cases

Contribution to the prediction of the fold code: application to immunoglobulin and flavodoxin cases

Different Synergy in Amyloids and Biologically Active Forms of Proteins

Dispersion of single-wall carbon nanotubes with supramolecular Congo red - properties of the complexes and mechanism of the interaction

Divergence Entropy-Based Evaluation of Hydrophobic Core in Aggressive and Resistant Forms of Transthyretin

Downhill, Ultrafast and Fast Folding Proteins Revised

E-infrastructure technologies triggering of Bioinformatics development ⬇️

Early-stage folding in proteins (in silico) sequence-to-structure relation

Egg yolk platelet proteins from Xenopus laevis are amyloidogenic

Evidence that supramolecular Congo red is the sole ligation form of this dye for L chain lambda derived amyloid proteins

Filamentous Aggregates of Tau Proteins Fulfil Standard Amyloid Criteria Provided by the Fuzzy Oil Drop (FOD) Model

Force-field parametrization and molecular dynamics simulations of Congo red.

Functional characteristics of small proteins (70 amino acid residues) forming protein-nucleic acid complexes

Fuzzy oil drop model to interpret the structure of antifreeze proteins and their mutants

Gauss-function-Based model of hydrophobicity density in proteins

Heat-induced formation of a specific binding site for self-assembled Congo Red in the V domain of immunoglobulin L chain lambda

Hydrophobic collapse in (in silico) protein folding

Hydrophobic core formation in protein complex of cathepsin

Hypothetical in silico model of the early-stage intermediate in protein folding.

Improving Diagnostic Accuracy of Dermoscopically Equivocal Pink Cutaneous Lesions with Reflectance Confocal Microscopy in Telemedicine Settings: Double Reader Concordance Evaluation of 316 Cases

In Silico Modeling of the Influence of Environment on Amyloid Folding Using FOD-M Model

In silico structural study of random amino acid sequence proteins not present in nature.

In vivo accumulation of self-assembling dye Congo red in an area marked by specific immune complexes: possible relevance to chemotherapy

Influence of the electric field on supramolecular structure and properties of amyloid-specific reagent Congo red

Instability of monoclonal myeloma protein may be identified as susceptibility to penetration and binding by newly synthesized Congo red derivatives

Interaction of Supramolecular Congo Red and Congo Red-Doxorubicin Complexes with Proteins for Drug Carrier Design

Intermediates in the Protein Folding Process: A Computational Model ⬇️

Internal force field in proteins seen by divergence entropy ⬇️

Intramolecular immunological signal hypothesis revived--structural background of signalling revealed by using Congo Red as a specific tool

Intramolecular signaling in immunoglobulins -- new evidence emerging from the use of supramolecular protein ligands

Is the hydrophobic core a universal structural element in proteins?

Is the protein folding an aim-oriented process? Human haemoglobin as example

Ligation site in proteins recognized in silico.

Local and long-range structural effects caused by the removal of the N-terminal polypeptide fragment from immunoglobulin L chain lambda

Localization of ligand binding site in proteins identified in silico.

Metal Ions Introduced to Proteins by Supramolecular Ligands

Model of Early Stage Intermediate in Respect to Its Final Structure

Model of Environmental Membrane Field for Transmembrane Proteins

Never born proteins as a test case for ab initio protein structures prediction.

New telemedicine techniques in dermatology - evaluation with reflectance confocal microscopy via cloud-based platform.

On the Dependence of Prion and Amyloid Structure on the Folding Environment

Prediction of functional sites based on the fuzzy oil drop model

Prediction of ligand binding site and functionally important residues based on fuzzy-oil-drop model

Propagation of Fibrillar Structural Forms in Proteins Stopped by Naturally Occurring Short Polypeptide Chain Fragments

Protein Conditioning for Binding Congo Red and Other Supramolecular Ligands

Protein distorsion-derived mechanism of signal discrimination in monocytes revealed using Congo red to stain activated cells

ProteinUnet-An efficient alternative to SPIDER3-single for sequence-based prediction of protein secondary structures

Recognition of protein complexation based on hydrophobicity distribution

SPI--structure predictability index for protein sequences.

Search for structural similarity in proteins

Sequence-structure-function relation characterized in silico

Serum albumin complexation of acetylsalicylic acid metabolites

Silver ions as em marker of congo red ligation sites in amyloids and amyloid-like aggregates

Solubility and Aggregation of Selected Proteins Interpreted on the Basis of Hydrophobicity Distribution

Statistical dictionaries for hypothetical in silico model of the early-stage intermediate in protein folding.

Structural Interface Forms and Their Involvement in Stabilization of Multidomain Proteins or Protein Complexes

Structural role of exon-coded fragment of polypeptide chains in selected enzymes

Supramolecular Systems as Protein Ligands

Supramolecularity creates nonstandard protein ligands.

Symmetry and Dissymmetry in Protein Structure—System-Coding Its Biological Specificity

Tandemly repeated trinucleotides - comparative analysis

Telemedical database of Hodgkin's disease.

The Amyloid as a Ribbon-Like Micelle in Contrast to Spherical Micelles Represented by Globular Proteins