Protein intrinsic disorder toolbox for comparative analysis of viral proteins

Kian-Meng Goh, Gerard; Dunker, A. Keith; Uversky, Vladimir N.
January 2008
BMC Genomics;2008 Supplement 2, Vol. 9, Special section p1
Academic Journal
To examine the usefulness of protein disorder predictions as a tool for the comparative analysis of viral proteins, a relational database has been constructed. The database includes proteins from influenza A and HIV-related viruses. Annotations include viral protein sequence, disorder prediction, structure, and function. Location of each protein within a virion, if known, is also denoted. Our analysis reveals a clear relationship between proximity to the RNA core and the percentage of predicted disordered residues for a set of influenza A virus proteins. Neuraminidases (NA) and hemagglutinin (HA) of major influenza A pandemics tend to pair in such a way that both proteins tend to be either ordered-ordered or disordered-disordered by prediction. This may be the result of these proteins evolving from being lipid-associated. High abundance of intrinsic disorder in envelope and matrix proteins from HIV-related viruses likely represents a mechanism where HIV virions can escape immune response despite the availability of antibodies for the HIV-related proteins. This exercise provides an example showing how the combined use of intrinsic disorder predictions and relational databases provides an improved understanding of the functional and structural behaviour of viral proteins.


Related Articles

  • Alterations of membrane curvature during influenza virus budding. Martyna, Agnieszka; Rossman, Jeremy // Biochemical Society Transactions;Oct2014, Vol. 42 Issue 5, p1425 

    Influenza A virus belongs to the Orthomyxoviridae family. It is an enveloped virus that contains a segmented and negative-sense RNA genome. Influenza A viruses cause annual epidemics and occasional major pandemics, are a major cause of morbidity and mortality worldwide, and have a significant...

  • Identification of Influenza A/PR/8/34 Donor Viruses Imparting High Hemagglutinin Yields to Candidate Vaccine Viruses in Eggs. Johnson, Adam; Chen, Li-Mei; Winne, Emily; Santana, Wanda; Metcalfe, Maureen G.; Mateu-Petit, Guaniri; Ridenour, Callie; Hossain, M. Jaber; Villanueva, Julie; Zaki, Sherif R.; Williams, Tracie L.; Cox, Nancy J.; Barr, John R.; Donis, Ruben O. // PLoS ONE;Jun2015, Vol. 10 Issue 6, p1 

    One of the important lessons learned from the 2009 H1N1 pandemic is that a high yield influenza vaccine virus is essential for efficient and timely production of pandemic vaccines in eggs. The current seasonal and pre-pandemic vaccine viruses are generated either by classical reassortment or...

  • Genome Stability of Pandemic Influenza A (H1N1) 2009 Based on Analysis of Hemagglutinin and Neuraminidase Genes. EspĂ­nola, Emilio E. // Open Virology Journal;2012, Vol. 6, p59 

    Influenza A virus (H1N1), which arose in 2009, constituted the fourth pandemic after the cases of 1918, 1957, and 1968. This new variant was formed by a triple reassortment, with genomic segments from swine, avian, and human influenza origins. The objective of this study was to analyze sequences...

  • Case 40-2009. Uyeki, Timothy M.; Sharma, Amita; Branda, John A. // New England Journal of Medicine;12/24/2009, Vol. 361 Issue 26, p2558 

    The article describes the case of a patient who was admitted in a hospital due to fever and respiratory failure and was diagnosed with pandemic influenza A (H1N1) virus infection. A medical history of the patient is provided. According to the authors, the critical care treatment of the patient...

  • Mapping Antibody Epitopes of the Avian H5N1 Influenza Virus. Hui-Ling Yen; Peiris, J. S. Malik // PLoS Medicine;Apr2009, Vol. 6 Issue 4, p1 

    In this article, the authors discuss the significance of antibody epitope mapping of the avian H5N1 influenza. They note that antibody epitopes on influenza viruses are important in triggering humoral response to neutralize the virus. They cite a study, which identified cross-reactive epitopes...

  • Evaluation of oseltamivir prophylaxis regimens for reducing influenza virus infection, transmission and disease severity in a ferret model of household contact. Oh, Ding Yuan; Lowther, Sue; McCaw, James M.; Sullivan, Sheena G.; Leang, Sook-Kwan; Haining, Jessica; Arkinstall, Rachel; Kelso, Anne; Mcvernon, Jodie; Barr, Ian G.; Middleton, Deborah; Hurt, Aeron C. // Journal of Antimicrobial Chemotherapy (JAC);Sep2014, Vol. 69 Issue 9, p2458 

    Objectives The emergence of the pandemic influenza A(H1N1)pdm09 virus in 2009 saw a significant increase in the therapeutic and prophylactic use of neuraminidase inhibitors (NAIs) to mitigate the impact of this highly transmissible virus. Prior to the pandemic, many countries stockpiled NAIs and...

  • Reassortant Pandemic (H1N1) 2009 Virus in Pigs, United Kingdom. Howard, Wendy A.; Essen, Steve C.; Strugnell, Benjamin W.; Russell, Christine; Barrass, Laura; Reid, Scott M.; Brown, Ian H. // Emerging Infectious Diseases;Jun2011, Vol. 17 Issue 6, p1049 

    Surveillance for influenza virus in pigs in the United Kingdom during spring 2010 detected a novel reassortant influenza virus. This virus had genes encoding internal proteins from pandemic (H1N1) 2009 virus and hemagglutinin and neuraminidase genes from swine influenza virus (H1N2). Our results...

  • Phylogenesis and Clinical Aspects of Pandemic 2009 Influenza A (H1N1) Virus Infection. Ciccozzi, Massimo; Babakir-Mina, Muhammed; Lo Presti, Alessandra; Marcuccilli, Fabbio; Perno, Carlo Federico; Ciotti, Marco // Open Virology Journal;2011, Vol. 5, p22 

    During the spring of 2009, a new influenza A (H1N1) virus of swine origin emerged and spread worldwide causing a pandemic influenza. Here, 329 naso-pharyngeal swabs collected from patients with flu-like symptoms were analyzed by realtime PCR for the presence of H1N1 2009 pandemic virus....

  • Targets for the Induction of Protective Immunity Against Influenza A Viruses. Bodewes, Rogier; Osterhaus, Albert D. M. E.; Rimmelzwaan, Guus F. // Viruses (1999-4915);Jan2010, Vol. 2 Issue 1, p166 

    The current pandemic caused by the new influenza A(H1N1) virus of swine origin and the current pandemic threat caused by the highly pathogenic avian influenza A viruses of the H5N1 subtype have renewed the interest in the development of vaccines that can induce broad protective immunity....


Read the Article


Sorry, but this item is not currently available from your library.

Try another library?
Sign out of this library

Other Topics