Using Common Spatial Distributions of Atoms to Relate Functionally Divergent Influenza Virus N10 and N11 Protein Structures to Functionally Characterized Neuraminidase Structures, Toxin Cell Entry Domains, and Non-Influenza Virus Cell Entry Domains
Identifieur interne : 000501 ( Main/Exploration ); précédent : 000500; suivant : 000502Using Common Spatial Distributions of Atoms to Relate Functionally Divergent Influenza Virus N10 and N11 Protein Structures to Functionally Characterized Neuraminidase Structures, Toxin Cell Entry Domains, and Non-Influenza Virus Cell Entry Domains
Auteurs : Arthur Weininger ; Susan WeiningerSource :
- PLoS ONE [ 1932-6203 ] ; 2015.
Abstract
The ability to identify the functional correlates of structural and sequence variation in proteins is a critical capability. We related structures of influenza A N10 and N11 proteins that have no established function to structures of proteins with known function by identifying spatially conserved atoms. We identified atoms with common distributed spatial occupancy in PDB structures of N10 protein, N11 protein, an influenza A neuraminidase, an influenza B neuraminidase, and a bacterial neuraminidase. By superposing these spatially conserved atoms, we aligned the structures and associated molecules. We report spatially and sequence invariant residues in the aligned structures. Spatially invariant residues in the N6 and influenza B neuraminidase active sites were found in previously unidentified spatially equivalent sites in the N10 and N11 proteins. We found the corresponding secondary and tertiary structures of the aligned proteins to be largely identical despite significant sequence divergence. We found structural precedent in known non-neuraminidase structures for residues exhibiting structural and sequence divergence in the aligned structures. In N10 protein, we identified staphylococcal enterotoxin I-like domains. In N11 protein, we identified hepatitis E E2S-like domains, SARS spike protein-like domains, and toxin components shared by alpha-bungarotoxin, staphylococcal enterotoxin I, anthrax lethal factor, clostridium botulinum neurotoxin, and clostridium tetanus toxin. The presence of active site components common to the N6, influenza B, and S.
Url:
DOI: 10.1371/journal.pone.0117499
PubMed: 25706124
PubMed Central: 4337911
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Using Common Spatial Distributions of Atoms to Relate Functionally Divergent Influenza Virus N10 and N11 Protein Structures to Functionally Characterized Neuraminidase Structures, Toxin Cell Entry Domains, and Non-Influenza Virus Cell Entry Domains</title><author><name sortKey="Weininger, Arthur" sort="Weininger, Arthur" uniqKey="Weininger A" first="Arthur" last="Weininger">Arthur Weininger</name><affiliation><nlm:aff id="aff001"></nlm:aff></affiliation></author><author><name sortKey="Weininger, Susan" sort="Weininger, Susan" uniqKey="Weininger S" first="Susan" last="Weininger">Susan Weininger</name><affiliation><nlm:aff id="aff001"></nlm:aff></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">25706124</idno><idno type="pmc">4337911</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4337911</idno><idno type="RBID">PMC:4337911</idno><idno type="doi">10.1371/journal.pone.0117499</idno><date when="2015">2015</date><idno type="wicri:Area/Pmc/Corpus">000A56</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000A56</idno><idno type="wicri:Area/Pmc/Curation">000A56</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000A56</idno><idno type="wicri:Area/Pmc/Checkpoint">000345</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">000345</idno><idno type="wicri:Area/Ncbi/Merge">000B39</idno><idno type="wicri:Area/Ncbi/Curation">000B39</idno><idno type="wicri:Area/Ncbi/Checkpoint">000B39</idno><idno type="wicri:Area/Main/Merge">000502</idno><idno type="wicri:Area/Main/Curation">000501</idno><idno type="wicri:Area/Main/Exploration">000501</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Using Common Spatial Distributions of Atoms to Relate Functionally Divergent Influenza Virus N10 and N11 Protein Structures to Functionally Characterized Neuraminidase Structures, Toxin Cell Entry Domains, and Non-Influenza Virus Cell Entry Domains</title><author><name sortKey="Weininger, Arthur" sort="Weininger, Arthur" uniqKey="Weininger A" first="Arthur" last="Weininger">Arthur Weininger</name><affiliation><nlm:aff id="aff001"></nlm:aff></affiliation></author><author><name sortKey="Weininger, Susan" sort="Weininger, Susan" uniqKey="Weininger S" first="Susan" last="Weininger">Susan Weininger</name><affiliation><nlm:aff id="aff001"></nlm:aff></affiliation></author></analytic><series><title level="j">PLoS ONE</title><idno type="eISSN">1932-6203</idno><imprint><date when="2015">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>The ability to identify the functional correlates of structural and sequence variation in proteins is a critical capability. We related structures of influenza A N10 and N11 proteins that have no established function to structures of proteins with known function by identifying spatially conserved atoms. We identified atoms with common distributed spatial occupancy in PDB structures of N10 protein, N11 protein, an influenza A neuraminidase, an influenza B neuraminidase, and a bacterial neuraminidase. By superposing these spatially conserved atoms, we aligned the structures and associated molecules. We report spatially and sequence invariant residues in the aligned structures. Spatially invariant residues in the N6 and influenza B neuraminidase active sites were found in previously unidentified spatially equivalent sites in the N10 and N11 proteins. We found the corresponding secondary and tertiary structures of the aligned proteins to be largely identical despite significant sequence divergence. We found structural precedent in known non-neuraminidase structures for residues exhibiting structural and sequence divergence in the aligned structures. In N10 protein, we identified staphylococcal enterotoxin I-like domains. In N11 protein, we identified hepatitis E E2S-like domains, SARS spike protein-like domains, and toxin components shared by alpha-bungarotoxin, staphylococcal enterotoxin I, anthrax lethal factor, clostridium botulinum neurotoxin, and clostridium tetanus toxin. The presence of active site components common to the N6, influenza B, and S. <italic>pneumoniae</italic> neuraminidases in the N10 and N11 proteins, combined with the absence of apparent neuraminidase function, suggests that the role of neuraminidases in H17N10 and H18N11 emerging influenza A viruses may have changed. The presentation of E2S-like, SARS spike protein-like, or toxin-like domains by the N10 and N11 proteins in these emerging viruses may indicate that H17N10 and H18N11 sialidase-facilitated cell entry has been supplemented or replaced by sialidase-independent receptor binding to an expanded cell population that may include neurons and T-cells.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Chan, Mcw" uniqKey="Chan M">MCW Chan</name></author><author><name sortKey="Chan, Rwy" uniqKey="Chan R">RWY Chan</name></author><author><name sortKey="Chan, Lly" uniqKey="Chan L">LLY Chan</name></author><author><name sortKey="Mok, Ckp" uniqKey="Mok C">CKP Mok</name></author><author><name sortKey="Hui, Kpy" uniqKey="Hui K">KPY Hui</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Wibawa, H" uniqKey="Wibawa H">H Wibawa</name></author><author><name sortKey="Bingham, J" uniqKey="Bingham J">J Bingham</name></author><author><name sortKey="Nuradji, H" uniqKey="Nuradji H">H Nuradji</name></author><author><name sortKey="Lowther, S" uniqKey="Lowther S">S Lowther</name></author><author><name sortKey="Payne, J" uniqKey="Payne J">J Payne</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Nishikawa, T" uniqKey="Nishikawa T">T Nishikawa</name></author><author><name sortKey="Shimizu, K" uniqKey="Shimizu K">K Shimizu</name></author><author><name sortKey="Tanaka, T" uniqKey="Tanaka T">T Tanaka</name></author><author><name sortKey="Kuroda, K" uniqKey="Kuroda K">K Kuroda</name></author><author><name sortKey="Takayama, T" uniqKey="Takayama T">T Takayama</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Schrauwen, Eja" uniqKey="Schrauwen E">EJA Schrauwen</name></author><author><name sortKey="Bestebroer, Tm" uniqKey="Bestebroer T">TM Bestebroer</name></author><author><name sortKey="Rimmelzwaan, Gf" uniqKey="Rimmelzwaan G">GF Rimmelzwaan</name></author><author><name sortKey="Osterhaus, Adme" uniqKey="Osterhaus A">ADME Osterhaus</name></author><author><name sortKey="Fouchier, Ram" uniqKey="Fouchier R">RAM Fouchier</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Li, Q" uniqKey="Li Q">Q Li</name></author><author><name sortKey="Sun, Xm" uniqKey="Sun X">XM Sun</name></author><author><name sortKey="Li, Zx" uniqKey="Li Z">ZX Li</name></author><author><name sortKey="Liu, Y" uniqKey="Liu Y">Y Liu</name></author><author><name sortKey="Vavricka, Cj" uniqKey="Vavricka C">CJ Vavricka</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Zhu, X" uniqKey="Zhu X">X Zhu</name></author><author><name sortKey="Yang, H" uniqKey="Yang H">H Yang</name></author><author><name sortKey="Guo, Z" uniqKey="Guo Z">Z Guo</name></author><author><name sortKey="Yu, W" uniqKey="Yu W">W Yu</name></author><author><name sortKey="Carney, Pj" uniqKey="Carney P">PJ Carney</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Tong, S" uniqKey="Tong S">S Tong</name></author><author><name sortKey="Zhu, X" uniqKey="Zhu X">X Zhu</name></author><author><name sortKey="Li, Y" uniqKey="Li Y">Y Li</name></author><author><name sortKey="Shi, M" uniqKey="Shi M">M Shi</name></author><author><name sortKey="Zhang, J" uniqKey="Zhang J">J Zhang</name></author></analytic></biblStruct><biblStruct></biblStruct><biblStruct><analytic><author><name sortKey="Taylor, Nr" uniqKey="Taylor N">NR Taylor</name></author><author><name sortKey="Cleasby, A" uniqKey="Cleasby A">A Cleasby</name></author><author><name sortKey="Singh, O" uniqKey="Singh O">O Singh</name></author><author><name sortKey="Skarzynski, T" uniqKey="Skarzynski T">T Skarzynski</name></author><author><name sortKey="Wonacott, Aj" uniqKey="Wonacott A">AJ Wonacott</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Hsiao, Ys" uniqKey="Hsiao Y">YS Hsiao</name></author><author><name sortKey="Parker, D" uniqKey="Parker D">D Parker</name></author><author><name sortKey="Ratner, Aj A" uniqKey="Ratner A">AJ A Ratner</name></author><author><name sortKey="Tong, L" uniqKey="Tong L">L Tong</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Ottmann, M" uniqKey="Ottmann M">M Ottmann</name></author><author><name sortKey="Duchamp, Mb" uniqKey="Duchamp M">MB Duchamp</name></author><author><name sortKey="Casalegno, Js" uniqKey="Casalegno J">JS Casalegno</name></author><author><name sortKey="Frobert, E" uniqKey="Frobert E">E Frobert</name></author><author><name sortKey="Moules, V" uniqKey="Moules V">V Moulés</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="He, H" uniqKey="He H">H He</name></author><author><name sortKey="Wu, Y" uniqKey="Wu Y">Y Wu</name></author><author><name sortKey="Wang, C" uniqKey="Wang C">C Wang</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Guan, Y" uniqKey="Guan Y">Y Guan</name></author><author><name sortKey="Peiris, Jsm" uniqKey="Peiris J">JSM Peiris</name></author><author><name sortKey="Lipatov, As" uniqKey="Lipatov A">AS Lipatov</name></author><author><name sortKey="Ellis, Tm" uniqKey="Ellis T">TM Ellis</name></author><author><name sortKey="Dyrting, Kc" uniqKey="Dyrting K">KC Dyrting</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Dapat, Ic" uniqKey="Dapat I">IC Dapat</name></author><author><name sortKey="Dapat, C" uniqKey="Dapat C">C Dapat</name></author><author><name sortKey="Baranovich, T" uniqKey="Baranovich T">T Baranovich</name></author><author><name sortKey="Suzuki, Y" uniqKey="Suzuki Y">Y Suzuki</name></author><author><name sortKey="Kondo, H" uniqKey="Kondo H">H Kondo</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Pappas, C" uniqKey="Pappas C">C Pappas</name></author><author><name sortKey="Viswanathan, K" uniqKey="Viswanathan K">K Viswanathan</name></author><author><name sortKey="Chandrasekaran, A" uniqKey="Chandrasekaran A">A Chandrasekaran</name></author><author><name sortKey="Raman, R" uniqKey="Raman R">R Raman</name></author><author><name sortKey="Katz, Jm" uniqKey="Katz J">JM Katz</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Cosby, Mt" uniqKey="Cosby M">MT Cosby</name></author><author><name sortKey="Pimentel, G" uniqKey="Pimentel G">G Pimentel</name></author><author><name sortKey="Nevin, Rl" uniqKey="Nevin R">RL Nevin</name></author><author><name sortKey="Ahmed, Sf" uniqKey="Ahmed S">SF Ahmed</name></author><author><name sortKey="Klena, Jd" uniqKey="Klena J">JD Klena</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Webby, Rj" uniqKey="Webby R">RJ Webby</name></author><author><name sortKey="Humberd, Jl" uniqKey="Humberd J">JL Humberd</name></author><author><name sortKey="Krauss, Sl" uniqKey="Krauss S">SL Krauss</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Webby, Rj" uniqKey="Webby R">RJ Webby</name></author><author><name sortKey="Humberd, Jl" uniqKey="Humberd J">JL Humberd</name></author><author><name sortKey="Krauss, Sl" uniqKey="Krauss S">SL Krauss</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Chen, Y" uniqKey="Chen Y">Y Chen</name></author><author><name sortKey="Cui, Dw" uniqKey="Cui D">DW Cui</name></author><author><name sortKey="Zheng, Sf" uniqKey="Zheng S">SF Zheng</name></author><author><name sortKey="Yu, F" uniqKey="Yu F">F Yu</name></author><author><name sortKey="Yang, Sg" uniqKey="Yang S">SG Yang</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Tong, S" uniqKey="Tong S">S Tong</name></author><author><name sortKey="Zhu, X" uniqKey="Zhu X">X Zhu</name></author><author><name sortKey="Li, Y" uniqKey="Li Y">Y Li</name></author><author><name sortKey="Shi, M" uniqKey="Shi M">M Shi</name></author><author><name sortKey="Zhang, J" uniqKey="Zhang J">J Zhang</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Parker, R" uniqKey="Parker R">R Parker</name></author><author><name sortKey="Mccombs, Je" uniqKey="Mccombs J">JE McCombs</name></author><author><name sortKey="Kohler, Jj" uniqKey="Kohler J">JJ Kohler</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Fernandez, Mm" uniqKey="Fernandez M">MM Fernández</name></author><author><name sortKey="Guan, R" uniqKey="Guan R">R Guan</name></author><author><name sortKey="Swaminathan, Cp" uniqKey="Swaminathan C">CP Swaminathan</name></author><author><name sortKey="Malchiodi, El" uniqKey="Malchiodi E">EL Malchiodi</name></author><author><name sortKey="Mariuzza, Ra" uniqKey="Mariuzza R">RA Mariuzza</name></author></analytic></biblStruct><biblStruct><analytic><author><name 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sortKey="Xiong, Y" uniqKey="Xiong Y">Y Xiong</name></author><author><name sortKey="Wiltsie, J" uniqKey="Wiltsie J">J Wiltsie</name></author><author><name sortKey="Woods, A" uniqKey="Woods A">A Woods</name></author><author><name sortKey="Guo, J" uniqKey="Guo J">J Guo</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Masuyer, G" uniqKey="Masuyer G">G Masuyer</name></author><author><name sortKey="Stancombe, P" uniqKey="Stancombe P">P Stancombe</name></author><author><name sortKey="Chaddock, Ja" uniqKey="Chaddock J">JA Chaddock</name></author><author><name sortKey="Acharya, Kr" uniqKey="Acharya K">KR Acharya</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Emsley, P" uniqKey="Emsley P">P Emsley</name></author><author><name sortKey="Fontinou, C" uniqKey="Fontinou C">C Fontinou</name></author><author><name sortKey="Black, I" uniqKey="Black I">I Black</name></author><author><name sortKey="Fairweather, Nf" 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