The physiological, functional, and structural properties of proteins and their pathogenic variants can be summarized using many tools. The information relating to a single protein is often spread among different sources requiring different programs for access. It is not always easy to select, simultaneously visualize, and compare specific properties of different proteins. On the other hand, comparing members of the same protein family could suggest conserved properties or highlight significant differences. We have thus developed a web interface, ALLIN (Annotation of sequence aLignment and structuraL proteIn visualizatioN) for the simultaneous visualization of multi-sequence protein alignments, including comments and annotations, and the related three-dimensional structures. This interface permits the inclusion of comments and coloring of residues in the alignment section, according to a user-defined color code, allowing a quick overview of specific properties. The interface does not require training or coding expertise, and the result is a unique "memo" web page that combines data from different sources, with the flexibility to highlight only the information of interest. The output provides an overview of the state of art of a protein family that is easily shared among researchers and new data can be conveniently added as it emerges. We believe the ALLIN tool can be useful for all scientists working on the structure-function analysis of proteins, in particular on those involved in human genetic diseases.
Download full-text PDF |
Source |
|---|---|
| http://dx.doi.org/10.1085/jgp.202413635 | DOI Listing |
| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC11687298 | PMC |
Publication Analysis
Top Keywords
Similar Publications
ALLIN: A tool for annotation of a protein alignment combined with structural visualization.
J Gen Physiol
March 2025
Institute of Biophysics, National Research Council , Genova, Italy.
The physiological, functional, and structural properties of proteins and their pathogenic variants can be summarized using many tools. The information relating to a single protein is often spread among different sources requiring different programs for access. It is not always easy to select, simultaneously visualize, and compare specific properties of different proteins.
View Article and Find Full Text PDFDevelopmental validation of a novel all-in one assay of X chromosomal multi-insertion/deletion loci for forensic genetics.
Sci Rep
December 2024
Department of Forensic Medicine, Guizhou Medical University, Guiyang, 550025, China.
Multi-insertion/deletion polymorphisms (Multi-InDels), as the novel genetic markers, show great potential in forensic research. Whereas, forensic researchers mainly focus on the multi-InDels on the autosomes, which can provide relatively limited information in some complex paternity cases. In this study, a novel X chromosomal multi-InDel multiplex amplification system was designed, containing 22 multi-InDels and one STR locus on the X chromosome.
View Article and Find Full Text PDFDevelopment and preliminary assessment of the iFIND TBR: all-in- one molecular diagnostic assay for rapid detection of and rifampicin resistance.
Front Cell Infect Microbiol
November 2024
National Key Laboratory of Intelligent Tracking and Forecasting for Infectious Diseases, National Center for Tuberculosis Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.
Introduction: Early and accurate diagnosis of tuberculosis (TB) is crucial for initiating timely treatment and preventing new infections. In this study, we introduced the iFIND TBR assay, an automated all-in-one tuberculosis detection approach that simultaneously detect (MTB) and rifampicin (RIF) resistance.
Methods: The limits of detection (LOD), sensitivity, specificity, and RIF-R rpoB mutation detection of the iFIND TBR were tested on Mycobacterium tuberculosis DNA or sputum samples spiked with known numbers of M.
Mitigating the regressivity of private mechanisms of financing healthcare: An Assessment of 29 countries.
Health Policy
May 2024
Department of Health Policy and Management, UCLA Fielding School of Public Health, Los Angeles, California, USA.
Progressive financing of health care can help advance the equity and financial protection goals of health systems. All countries' health systems are financed in part through private mechanisms, including out-of-pocket payments and voluntary health insurance. Yet little is known about how these financing schemes are structured, and the extent to which policies in place mitigate regressivity.
View Article and Find Full Text PDFPublic Officials' Engagement on Social Media During the Rollout of the COVID-19 Vaccine: Content Analysis of Tweets.
JMIR Infodemiology
July 2023
Institute of Health Policy, Management and Evaluation, Dalla Lana School of Public Health, University of Toronto, Toronto, ON, Canada.
Background: Social media is an important way for governments to communicate with the public. This is particularly true in times of crisis, such as the COVID-19 pandemic, during which government officials played a strong role in promoting public health measures such as vaccines.
Objective: In Canada, provincial COVID-19 vaccine rollout was delivered in 3 phases aligned with federal government COVID-19 vaccine guidance for priority populations.
Want AI Summaries of new PubMed Abstracts delivered to your In-box?
Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!