Results 141 to 150 of about 750,523 (310)

Mapping Hsp104 interactions using cross‐linking mass spectrometry

FEBS Open Bio, EarlyView.
This study examines how cross‐linking mass spectrometry can be utilized to analyze ATP‐induced conformational changes in Hsp104 and its interactions with substrates. We developed an analytical pipeline to distinguish between intra‐ and inter‐subunit contacts within the hexameric homo‐oligomer and discovered contacts between Hsp104 and a selected ...
Kinga Westphal, Karolina Michalska, Andrzej Joachimiak, Lukasz A. Joachimiak   +3 more
wiley   +1 more source

Bioengineering facets of the tumor microenvironment in 3D tumor models: insights into cellular, biophysical and biochemical interactions

FEBS Open Bio, EarlyView.
The tumor microenvironment is a dynamic, multifaceted complex system of interdependent cellular, biochemical, and biophysical components. Three‐dimensional in vitro models of the tumor microenvironment enable a better understanding of these interactions and their impact on cancer progression and therapeutic resistance.
Salma T. Rafik, Deniz Bakkalci, Alexander J. MacRobert, Umber Cheema   +3 more
wiley   +1 more source

Advances of Deep Learning in Protein Science: A Comprehensive Survey [PDF]

arXiv
Protein representation learning plays a crucial role in understanding the structure and function of proteins, which are essential biomolecules involved in various biological processes. In recent years, deep learning has emerged as a powerful tool for protein modeling due to its ability to learn complex patterns and representations from large-scale ...
arxiv  

mGPfusion: Predicting protein stability changes with Gaussian process kernel learning and data fusion [PDF]

arXiv, 2018
Proteins are commonly used by biochemical industry for numerous processes. Refining these proteins' properties via mutations causes stability effects as well. Accurate computational method to predict how mutations affect protein stability are necessary to facilitate efficient protein design.
arxiv  

Post-translational processing events in the secretion pathway of human protein C, a complex vitamin K-dependent antithrombotic factor.

Journal of Biological Chemistry, 1992
Human protein C (HPC) undergoes several post-translational modifications, including gamma-carboxylation, N-linked glycosylation, and internal proteolytic processing. We have utilized a recombinant human kidney cell line (293) secreting correctly modified HPC (rHPC) to study the processing reactions for the modification of this complex protein.
Mcclure Don B, J D Walls, B W Grinnell
openaire   +3 more sources

Hydrophobicity causes anomalous migration of cystine/glutamate antiporter SLC7A11 in SDS‐PAGE with low acrylamide concentration

FEBS Open Bio, EarlyView.
SLC7A11 frequently migrates faster in SDS‐PAGE. The present study found that the high hydrophobicity of SLC7A11 causes its anomalous migration in SDS‐PAGE with a low concentration of acrylamide gel. Replacing isoleucine with asparagine reduced hydrophobicity and restored its normal migration at 55 kDa, revealing the role of hydrophobicity and gel ...
Nsengiyumva Emmanuel, Qian He, Yixin Kang, Dianbao Zhang, Min Gao, Minglin Wang, Kexin Fan, Jingwen Xiong, Shaobo Wu, Botao Fa, Zhengtao Xiao, Yingfang Niu, Jun Yao, Yilei Zhang   +13 more
wiley   +1 more source

ProtT3: Protein-to-Text Generation for Text-based Protein Understanding [PDF]

arXiv
Language Models (LMs) excel in understanding textual descriptions of proteins, as evident in biomedical question-answering tasks. However, their capability falters with raw protein data, such as amino acid sequences, due to a deficit in pretraining on such data.
arxiv  

Post-translational processing of rac p21s is important both for their interaction with the GDP/GTP exchange proteins and for their activation of NADPH oxidase.

Journal of Biological Chemistry, 1992
rac1 and rac2 p21s are ras p21-like small GTP-binding proteins which are implicated in the NADPH oxidase-catalyzed superoxide generation in phagocytes. rac1 and rac2 p21s have a Cys-A-A-Leu (A = aliphatic amino acid) structure in their C-terminal region which may undergo post-translational processing including prenylation, proteolysis, and carboxyl ...
T Nishiyama, H Nunoi, K Kaibuchi, M Asada, T Mizuno, S Ando, K Hiraoka, Yoshiharu Matsuura, I Matsuda, Takuya Sasaki   +9 more
openaire   +3 more sources

METTL3 knockout accelerates hepatocarcinogenesis via inhibiting endoplasmic reticulum stress response

FEBS Open Bio, EarlyView.
Liver‐specific knockout of N6‐methyladenosine (m6A) methyltransferase METTL3 significantly accelerated hepatic tumor initiation under various oncogenic challenges, contrary to the previously reported oncogenic role of METTL3 in liver cancer cell lines or xenograft models. Mechanistically, METTL3 deficiency reduced m6A deposition on Manf transcripts and
Bo Cui, Silin Tu, Haibo Li, Zhancheng Zeng, Ruiqi Xiao, Jing Guo, Xiaoqi Liang, Chang Liu, Lijie Pan, Wenjie Chen, Mian Ge, Xiaofen Zhong, Linsen Ye, Huaxin Chen, Qi Zhang, Yan Xu   +15 more
wiley   +1 more source

A Structure-Centric View of Protein Evolution, Design and Adaptation [PDF]

arXiv, 2006
Proteins, by virtue of their central role in most biological processes, represent one of the key subjects of the study of molecular evolution. Inherent to the indispensability of proteins for living cells is the fact that a given protein can adopt a specific three-dimensional shape that is specified solely by the proteins sequence of amino acids.
arxiv