This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.

4xjn

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Current revision

Structure of the parainfluenza virus 5 nucleocapsid-RNA complex: an insight into paramyxovirus polymerase activity

Structural highlights

4xjn is a 14 chain structure with sequence from Escherichia coli and Mammalian orthorubulavirus 5. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

NCAP_PIV5 Encapsidates the genome, protecting it from nucleases. The nucleocapsid (NC) has a helical structure. The encapsidated genomic RNA is termed the NC and serves as template for transcription and replication. During replication, encapsidation by N is coupled to RNA synthesis and all replicative products are resistant to nucleases.

Publication Abstract from PubMed

Parainfluenza virus 5 (PIV5) is a member of the Paramyxoviridae family of membrane-enveloped viruses with a negative-sense RNA genome that is packaged and protected by long filamentous nucleocapsid-helix structures (RNPs). These RNPs, consisting of approximately 2,600 protomers of nucleocapsid (N) protein, form the template for viral transcription and replication. We have determined the 3D X-ray crystal structure of the nucleoprotein (N)-RNA complex from PIV5 to 3.11-A resolution. The structure reveals a 13-mer nucleocapsid ring whose diameter, cavity, and pitch/height dimensions agree with EM data from early studies on the Paramyxovirinae subfamily of native RNPs, indicating that it closely represents one-turn in the building block of the RNP helices. The PIV5-N nucleocapsid ring encapsidates a nuclease resistant 78-nt RNA strand in its positively charged groove formed between the N-terminal (NTD) and C-terminal (CTD) domains of its successive N protomers. Six nucleotides precisely are associated with each N protomer, with alternating three-base-in three-base-out conformation. The binding of six nucleotides per protomer is consistent with the "rule of six" that governs the genome packaging of the Paramyxovirinae subfamily of viruses. PIV5-N protomer subdomains are very similar in structure to the previously solved Nipah-N structure, but with a difference in the angle between NTD/CTD at the RNA hinge region. Based on the Nipah-N structure we modeled a PIV5-N open conformation in which the CTD rotates away from the RNA strand into the inner spacious nucleocapsid-ring cavity. This rotation would expose the RNA for the viral polymerase activity without major disruption of the nucleocapsid structure.

Structure of the paramyxovirus parainfluenza virus 5 nucleoprotein-RNA complex.,Alayyoubi M, Leser GP, Kors CA, Lamb RA Proc Natl Acad Sci U S A. 2015 Apr 7;112(14):E1792-9. doi:, 10.1073/pnas.1503941112. Epub 2015 Mar 23. PMID:25831513^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Alayyoubi M, Leser GP, Kors CA, Lamb RA. Structure of the paramyxovirus parainfluenza virus 5 nucleoprotein-RNA complex. Proc Natl Acad Sci U S A. 2015 Apr 7;112(14):E1792-9. doi:, 10.1073/pnas.1503941112. Epub 2015 Mar 23. PMID:25831513 doi:http://dx.doi.org/10.1073/pnas.1503941112

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4xjn"

@@ Line 1: / Line 1: @@
 ==Structure of the parainfluenza virus 5 nucleocapsid-RNA complex: an insight into paramyxovirus polymerase activity==
-<StructureSection load='4xjn' size='340' side='right' caption='[[4xjn]], [[Resolution|resolution]] 3.11&Aring;' scene=''>
+<StructureSection load='4xjn' size='340' side='right'caption='[[4xjn]], [[Resolution|resolution]] 3.11&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4xjn]] is a 14 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XJN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XJN FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4xjn]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] and [https://en.wikipedia.org/wiki/Mammalian_orthorubulavirus_5 Mammalian orthorubulavirus 5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XJN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XJN FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PB:LEAD+(II)+ION'>PB</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PB:LEAD+(II)+ION'>PB</scene></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4xjn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xjn OCA], [http://pdbe.org/4xjn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xjn RCSB], [http://www.ebi.ac.uk/pdbsum/4xjn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4xjn ProSAT]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4xjn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xjn OCA], [https://pdbe.org/4xjn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xjn RCSB], [https://www.ebi.ac.uk/pdbsum/4xjn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xjn ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/W5QKM4_9PARA W5QKM4_9PARA]] Encapsidates the genome, protecting it from nucleases.[RuleBase:RU361245]
+[https://www.uniprot.org/uniprot/NCAP_PIV5 NCAP_PIV5] Encapsidates the genome, protecting it from nucleases. The nucleocapsid (NC) has a helical structure. The encapsidated genomic RNA is termed the NC and serves as template for transcription and replication. During replication, encapsidation by N is coupled to RNA synthesis and all replicative products are resistant to nucleases.
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 18: / Line 18: @@
 </div>
 <div class="pdbe-citations 4xjn" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Nucleoprotein 3D structures|Nucleoprotein 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Alayyoubi, M]]
+[[Category: Escherichia coli]]
-[[Category: Kors, C A]]
+[[Category: Large Structures]]
-[[Category: Lamb, R A]]
+[[Category: Mammalian orthorubulavirus 5]]
-[[Category: Leser, G P]]
+[[Category: Alayyoubi M]]
-[[Category: Complex]]
+[[Category: Kors CA]]
-[[Category: Nucleocapsid]]
+[[Category: Lamb RA]]
-[[Category: Piv5]]
+[[Category: Leser GP]]
-[[Category: Rna]]

4xjn

From Proteopedia

Current revision

Structure of the parainfluenza virus 5 nucleocapsid-RNA complex: an insight into paramyxovirus polymerase activity

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox