Results 21 to 30 of about 1,955,826 (316)

Why similar protein sequences encode similar three-dimensional structures? [PDF]

, 2010
Evolutionarily related proteins have similar sequences. Such similarity is called homology and can be described using substitution matrices such as Blosum 60.
Zielenkiewicz, Piotr, Kaczanowski, Szymon   +1 more
core  

The MPI Bioinformatics Toolkit for protein sequence analysis [PDF]

Nucleic Acids Research, 2006
The MPI Bioinformatics Toolkit is an interactive web service which offers access to a great variety of public and in-house bioinformatics tools. They are grouped into different sections that support sequence searches, multiple alignment, secondary and tertiary structure prediction and classification.
Andreas Biegert, Christian E. Mayer, Michael Remmert, Johannes Söding, Andrei N. Lupas   +4 more
openaire   +5 more sources

Protein pyrophosphorylation by inositol pyrophosphates — detection, function, and regulation

FEBS Letters, EarlyView.
Protein pyrophosphorylation is an unusual signaling mechanism that was discovered two decades ago. It can be driven by inositol pyrophosphate messengers and influences various cellular processes. Herein, we summarize the research progress and challenges of this field, covering pathways found to be regulated by this posttranslational modification as ...
Sarah Lampe, Tanmay Kumar Mohanty, Rashna Bhandari, Dorothea Fiedler   +3 more
wiley   +1 more source

Integrative visual analysis of protein sequence mutations [PDF]

BMC Proceedings, 2014
An important aspect of studying the relationship between protein sequence, structure and function is the molecular characterization of the effect of protein mutations. To understand the functional impact of amino acid changes, the multiple biological properties of protein residues have to be considered together.Here, we present a novel visual approach ...
Doncheva, Nadezhda, Klein, Karsten, Morris, John, Wybrow, Michael, Domingues, Francisco, Albrecht, Mario   +5 more
openaire   +4 more sources

An upstream open reading frame regulates expression of the mitochondrial protein Slm35 and mitophagy flux

FEBS Letters, EarlyView.
This study reveals how the mitochondrial protein Slm35 is regulated in Saccharomyces cerevisiae. The authors identify stress‐responsive DNA elements and two upstream open reading frames (uORFs) in the 5′ untranslated region of SLM35. One uORF restricts translation, and its mutation increases Slm35 protein levels and mitophagy.
Hernán Romo‐Casanueva, Ariann E. Mendoza‐Martínez, P. Abril Medina‐Flores, Carlos Campero‐Basaldua, Alexander DeLuna, Soledad Funes   +5 more
wiley   +1 more source

CLIPS-1D: Analysis of multiple sequence alignments to deduce for residue-positions a role in catalysis, ligand-binding, or protein structure

, 2012
Background: One aim of the in silico characterization of proteins is to identify all residue-positions, which are crucial for function or structure. Several sequence-based algorithms exist, which predict functionally important sites.
Kück, Fabian, Rainer Merkl, Merkl, Rainer, Fabian Kück, Busch, Markus, Porfenenko, Mikhail, Mikhail Porfenenko, Merkl Rainer, Jan-Oliver Janda, Kück Fabian, Janda, Jan-Oliver, Porfenenko Mikhail, Janda Jan-Oliver, Busch Markus, Markus Busch   +14 more
core   +1 more source

Protein alignment HW/SW optimizations [PDF]

, 2012
Biosequence alignment recently received an amazing support from both commodity and dedicated hardware platforms. The limitless requirements of this application motivate the search for improved implementations to boost processing time and capabilities. We
M. Zamboni, Graziano, Mariagrazia, S. Frache, M. Awais, M. Vacca, Zamboni, Maurizio, Urgese, Gianvito, Vacca, Marco, Awais, Muhammad, Frache, Stefano, G. Urgese, M. Graziano   +11 more
core   +1 more source

Structural instability impairs function of the UDP‐xylose synthase 1 Ile181Asn variant associated with short‐stature genetic syndrome in humans

FEBS Letters, EarlyView.
The Ile181Asn variant of human UDP‐xylose synthase (hUXS1), associated with a short‐stature genetic syndrome, has previously been reported as inactive. Our findings demonstrate that Ile181Asn‐hUXS1 retains catalytic activity similar to the wild‐type but exhibits reduced stability, a looser oligomeric state, and an increased tendency to precipitate ...
Tuo Li, Pedro A. Sánchez‐Murcia, Bernd Nidetzky   +2 more
wiley   +1 more source

The (Glg)ABCs of cyanobacteria: modelling of glycogen synthesis and functional divergence of glycogen synthases in Synechocystis sp. PCC 6803

FEBS Letters, EarlyView.
We reconstituted Synechocystis glycogen synthesis in vitro from purified enzymes and showed that two GlgA isoenzymes produce glycogen with different architectures: GlgA1 yields denser, highly branched glycogen, whereas GlgA2 synthesizes longer, less‐branched chains.
Kenric Lee, Dimitrios Bekiari, Sofia Doello, Karl Forchhammer   +3 more
wiley   +1 more source

Structural analysis of Salmonella enterica effector protein SopD

, 2004
Salmonella outer protein D (SopD) is a type III secreted virulence effector protein from Salmonella enterica. Full-length SopD and SopD lacking 16 amino acids at the N-terminus (SopDDeltaN) have been expressed as fusions with GST in Escherichia coli ...
Williams, C, Gill, A C, Galyov, E E, van den Elsen, J M H, Upadhyay, A, Bagby, S, Wood, M W, Philippe, D L   +7 more
core   +1 more source