Akbayrak, Ibrahim Yagiz Caglayan, Sule Irem Durdagi, Serdar Kurgan, Lukasz Uversky, Vladimir N Ulver, Burak Dervisoğlu, Havvanur Haklidir, Mehmet Hasekioglu, Orkun Coskuner-Weber, Orkid
...
Published in
Proteins
A novel virus, severe acute respiratory syndrome Coronavirus 2 (SARS-CoV-2), causing coronavirus disease 2019 (COVID-19) worldwide appeared in 2019. Detailed scientific knowledge of the members of the Coronaviridae family, including the Middle East Respiratory Syndrome Coronavirus (MERS-CoV) is currently lacking. Structural studies of the MERS-CoV ...
Beitz, Eric
Published in
Proteins
The number of available protein sequences covering virtually all known species is tremendous and ever growing due to the feasibility of the underlying nucleotide sequencing. The speed at which protein structures are being determined is increasing, and as a result of refined cryo-electron microscopy the proportion of solved membrane protein folds is...
Görmez, Yasin Sabzekar, Mostafa Aydın, Zafer
Published in
Proteins
There is a close relationship between the tertiary structure and the function of a protein. One of the important steps to determine the tertiary structure is protein secondary structure prediction (PSSP). For this reason, predicting secondary structure with higher accuracy will give valuable information about the tertiary structure. Recently, deep ...
Alli-Balogun, Ganiyu O Levine, Tim P
Published in
Proteins
Ice2p is an integral endoplasmic reticulum (ER) membrane protein in budding yeast S. cerevisiae named ICE because it is required for Inheritance of Cortical ER. Ice2p has also been reported to be involved in an ER metabolic branch-point that regulates the flux of lipid either to be stored in lipid droplets or to be used as membrane components. Alte...
Liao, Lijing Zhou, Yuanze Peng, Ting Guo, Yan Zhao, Yucheng Zeng, Zhixiong
Published in
Proteins
S-adenosyl-L-methionine (SAM)-dependent methyltransferases (MTases) are widely distributed among almost all organisms and often characterized with conserved Rossmann fold, TIM barrel, and D×G×G×G motif. However, some MTases show no methyltransferase activity. In the present study, the crystal structure of LepI, one MTase-like enzyme isolated from A...
Lohoff, Caroline Buchholz, Patrick C F Le Roes-Hill, Marilize Pleiss, Jürgen
Published in
Proteins
Expansins have the remarkable ability to loosen plant cell walls and cellulose material without showing catalytic activity and therefore have potential applications in biomass degradation. To support the study of sequence-structure-function relationships and the search for novel expansins, the Expansin Engineering Database (ExED, https://exed.bioca...
Barigye, Stephen J Gómez-Ganau, Sergi Serrano-Candelas, Eva Gozalbes, Rafael
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Proteins
We present a novel Java-based program denominated PeptiDesCalculator for computing peptide descriptors. These descriptors include: redefinitions of known protein parameters to suite the peptide domain, generalization schemes for the global descriptions of peptide characteristics, as well as empirical descriptors based on experimental evidence on pe...
Xu, Ying-Ying Zhou, Hang Murphy, Robert F Shen, Hong-Bin
Published in
Proteins
A major challenge for protein databases is reconciling information from diverse sources. This is especially difficult when some information consists of secondary, human-interpreted rather than primary data. For example, the Swiss-Prot database contains curated annotations of subcellular location that are based on predictions from protein sequence, ...
Ponce, Luis F García-Martínez, Karina León, Kalet Valiente, Pedro A
Published in
Proteins
Activation of T cells triggers the expression of regulatory molecules like the programmed cell death 1 (PD1) protein. The association of PD1 with the natural ligands PDL1 and PDL2 induces an inhibitory signal that prevents T cells from proliferating and exerting effector functions. However, little is known about how the binding of the ligands induc...
Gupta, Madhulika Ha, Khanh Agarwal, Rupesh Quarles, Leigh Darryl Smith, Jeremy C
Published in
Proteins
Human interleukin-6 (hIL-6) is a multifunctional cytokine that regulates immune and inflammatory responses in addition to metabolic and regenerative processes and cancer. hIL-6 binding to the IL-6 receptor (IL-6Rα) induces homodimerization and recruitment of the glycoprotein (gp130) to form a hexameric signaling complex. Anti-IL-6 and IL-6R antibod...
