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List of works by Stanislaw Dunin-Horkawicz

<i>localpdb—</i>a Python package to manage protein structures and their annotations

scientific article published in 2022

A coiled-coil motif that sequesters ions to the hydrophobic core

scientific article

A composite double-/single-stranded RNA-binding region in protein Prp3 supports tri-snRNP stability and splicing

scientific article

A library of coiled-coil domains: from regular bundles to peculiar twists

scientific article published on 16 December 2020

A soluble mutant of the transmembrane receptor Af1503 features strong changes in coiled-coil periodicity

scientific article

A transition from strong right-handed to canonical left-handed supercoiling in a conserved coiled-coil segment of trimeric autotransporter adhesins

scientific article

Axial helix rotation as a mechanism for signal regulation inferred from the crystallographic analysis of the E. coli serine chemoreceptor

scientific article

Combining Rosetta with molecular dynamics (MD): A benchmark of the MD-based ensemble protein design

scientific article published on 14 February 2018

Complete fiber structures of complex trimeric autotransporter adhesins conserved in enterobacteria

scientific article

Comprehensive analysis of HAMP domains: implications for transmembrane signal transduction

scientific article

Computational modeling of RNA 3D structures, with the aid of experimental restraints

scientific article published on 23 April 2014

Computational modeling of protein-RNA complex structures

scientific article published in February 2014

DeepCoil—a fast and accurate prediction of coiled-coil domains in protein sequences

scientific article published on 2 January 2019

Delineation of structural domains and identification of functionally important residues in DNA repair enzyme exonuclease VII.

scientific article published on 20 June 2012

Designability landscape reveals sequence features that define axial helix rotation in four-helical homo-oligomeric antiparallel coiled-coil structures

scientific article published on 30 September 2014

Functional and bioinformatics analysis of two Campylobacter jejuni homologs of the thiol-disulfide oxidoreductase, DsbA.

scientific article

Functional and evolutionary analyses of Helicobacter pylori HP0231 (DsbK) protein with strong oxidative and chaperone activity characterized by a highly diverged dimerization domain

scientific article

Genome-wide survey of codons under diversifying selection in a highly recombining bacterial species, Helicobacter pylori

scientific article published on 8 March 2016

Impact of selected amino acids of HP0377 (Helicobacter pylori thiol oxidoreductase) on its functioning as a CcmG (cytochrome c maturation) protein and Dsb (disulfide bond) isomerase.

scientific article published on 20 April 2018

Loss of Conserved Noncoding RNAs in Genomes of Bacterial Endosymbionts

scientific article published on 18 January 2016

MODOMICS: a database of RNA modification pathways

scientific article published in January 2006

MODOMICS: a database of RNA modification pathways--2013 update

scientific article

MODOMICS: a database of RNA modification pathways. 2008 update

scientific article published on 14 October 2008

Measuring the conformational space of square four-helical bundles with the program samCC.

scientific article published on 6 February 2010

Mechanism of regulation of receptor histidine kinases

scientific article

Novel highly thermostable endolysin from Thermus scotoductus MAT2119 bacteriophage Ph2119 with amino acid sequence similarity to eukaryotic peptidoglycan recognition proteins

scientific article

Phylogenomic analysis of the GIY-YIG nuclease superfamily

scientific article published on 28 April 2006

Phylogenomics and sequence-structure-function relationships in the GmrSD family of Type IV restriction enzymes

scientific article published on 23 October 2015

PiPred - a deep-learning method for prediction of π-helices in protein sequences

scientific article published on 03 May 2019

Prokaryotic ancestry of eukaryotic protein networks mediating innate immunity and apoptosis

scientific article published on 9 December 2013

RNA-Puzzles Round II: assessment of RNA structure prediction programs applied to three large RNA structures

scientific article published on 16 April 2015

RNA-Puzzles Round III: 3D RNA structure prediction of five riboswitches and one ribozyme

scientific article

RNArchitecture: a database and a classification system of RNA families, with a focus on structural information

scientific article published on 23 October 2017

RRMdb-an evolutionary-oriented database of RNA recognition motif sequences

Rational Design of Helical Nanotubes from Self-Assembly of Coiled-Coil Lock Washers

scientific article published on 03 October 2013

S6:S18 ribosomal protein complex interacts with a structural motif present in its own mRNA.

scientific article published on 26 August 2013

STAC--A New Domain Associated with Transmembrane Solute Transport and Two-Component Signal Transduction Systems

scientific article

Slipknotted and unknotted monovalent cation-proton antiporters evolved from a common ancestor

scientific article published on 14 October 2021

Structural and evolutionary bioinformatics of the SPOUT superfamily of methyltransferases

scientific article published on 5 March 2007

The GD box: a widespread noncontiguous supersecondary structural element

scientific article

The RNase H-like superfamily: new members, comparative structural analysis and evolutionary classification ⬇️

scientific article published on 23 January 2014

The Signature of the Five-Stranded vRRM Fold Defined by Functional, Structural and Computational Analysis of the hnRNP L Protein

scientific article

The Structure and Topology of α-Helical Coiled Coils

scientific article published on January 2017

The mechanisms of HAMP-mediated signaling in transmembrane receptors

scientific article

The yfhQ gene of Escherichia coli encodes a tRNA:Cm32/Um32 methyltransferase

scientific article

Two unique membrane-bound AAA proteins from Sulfolobus solfataricus

scientific article published in February 2009

Variability of the core geometry in parallel coiled-coil bundles

scientific article published in October 2018

tRNAmodpred: A computational method for predicting posttranscriptional modifications in tRNAs

scientific article published on 22 March 2016

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