4a8k: Difference between revisions
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== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[4a8k]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_phage_phi6 Pseudomonas phage phi6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4A8K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4A8K FirstGlance]. <br> | <table><tr><td colspan='2'>[[4a8k]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_phage_phi6 Pseudomonas phage phi6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4A8K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4A8K FirstGlance]. <br> | ||
</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>< | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr> | ||
<tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2jlg|2jlg]], [[1uvn|1uvn]], [[1uvj|1uvj]], [[1hht|1hht]], [[2jl9|2jl9]], [[2jlf|2jlf]], [[1hi1|1hi1]], [[1uvm|1uvm]], [[1wac|1wac]], [[1uvk|1uvk]], [[1hhs|1hhs]], [[1hi0|1hi0]], [[1uvi|1uvi]], [[1uvl|1uvl]], [[1hi8|1hi8]], [[4a8f|4a8f]], [[4a8m|4a8m]], [[4a8o|4a8o]], [[4a8q|4a8q]], [[4a8w|4a8w]], [[4a8s|4a8s]], [[4a8y|4a8y]]</td></tr> | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2jlg|2jlg]], [[1uvn|1uvn]], [[1uvj|1uvj]], [[1hht|1hht]], [[2jl9|2jl9]], [[2jlf|2jlf]], [[1hi1|1hi1]], [[1uvm|1uvm]], [[1wac|1wac]], [[1uvk|1uvk]], [[1hhs|1hhs]], [[1hi0|1hi0]], [[1uvi|1uvi]], [[1uvl|1uvl]], [[1hi8|1hi8]], [[4a8f|4a8f]], [[4a8m|4a8m]], [[4a8o|4a8o]], [[4a8q|4a8q]], [[4a8w|4a8w]], [[4a8s|4a8s]], [[4a8y|4a8y]]</td></tr> | ||
<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-directed_RNA_polymerase RNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.48 2.7.7.48] </span></td></tr> | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-directed_RNA_polymerase RNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.48 2.7.7.48] </span></td></tr> | ||
<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4a8k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4a8k OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4a8k RCSB], [http://www.ebi.ac.uk/pdbsum/4a8k PDBsum]</span></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=4a8k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4a8k OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4a8k RCSB], [http://www.ebi.ac.uk/pdbsum/4a8k PDBsum]</span></td></tr> | ||
<table> | </table> | ||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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Noncatalytic ions direct the RNA-dependent RNA polymerase of bacterial double-stranded RNA virus varphi6 from de novo initiation to elongation.,Wright S, Poranen MM, Bamford DH, Stuart DI, Grimes JM J Virol. 2012 Mar;86(5):2837-49. Epub 2011 Dec 28. PMID:22205747<ref>PMID:22205747</ref> | Noncatalytic ions direct the RNA-dependent RNA polymerase of bacterial double-stranded RNA virus varphi6 from de novo initiation to elongation.,Wright S, Poranen MM, Bamford DH, Stuart DI, Grimes JM J Virol. 2012 Mar;86(5):2837-49. Epub 2011 Dec 28. PMID:22205747<ref>PMID:22205747</ref> | ||
From | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
</div> | </div> | ||
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[[Category: Pseudomonas phage phi6]] | [[Category: Pseudomonas phage phi6]] | ||
[[Category: RNA-directed RNA polymerase]] | [[Category: RNA-directed RNA polymerase]] | ||
[[Category: Bamford, D H | [[Category: Bamford, D H]] | ||
[[Category: Grimes, J M | [[Category: Grimes, J M]] | ||
[[Category: Poranen, M M | [[Category: Poranen, M M]] | ||
[[Category: Stuart, D I | [[Category: Stuart, D I]] | ||
[[Category: Wright, S | [[Category: Wright, S]] | ||
[[Category: Transferase]] | [[Category: Transferase]] | ||
[[Category: Transferase-dna complex]] | [[Category: Transferase-dna complex]] | ||
Revision as of 12:10, 4 January 2015
Non-Catalytic Ions Direct the RNA-Dependent RNA Polymerase of Bacterial dsRNA virus phi6 from De Novo Initiation to ElongationNon-Catalytic Ions Direct the RNA-Dependent RNA Polymerase of Bacterial dsRNA virus phi6 from De Novo Initiation to Elongation
Structural highlights
Publication Abstract from PubMedRNA-dependent RNA polymerases (RdRps) are key to the replication of RNA viruses. A common divalent cation binding site, distinct from the positions of catalytic ions, has been identified in many viral RdRps. We have applied biochemical, biophysical, and structural approaches to show how the RdRp from bacteriophage varphi6 uses the bound noncatalytic Mn(2+) to facilitate the displacement of the C-terminal domain during the transition from initiation to elongation. We find that this displacement releases the noncatalytic Mn(2+), which must be replaced for elongation to occur. By inserting a dysfunctional Mg(2+) at this site, we captured two nucleoside triphosphates within the active site in the absence of Watson-Crick base pairing with template and mapped movements of divalent cations during preinitiation. These structures refine the pathway from preinitiation through initiation to elongation for the RNA-dependent RNA polymerization reaction, explain the role of the noncatalytic divalent cation in 6 RdRp, and pinpoint the previously unresolved Mn(2+)-dependent step in replication. Noncatalytic ions direct the RNA-dependent RNA polymerase of bacterial double-stranded RNA virus varphi6 from de novo initiation to elongation.,Wright S, Poranen MM, Bamford DH, Stuart DI, Grimes JM J Virol. 2012 Mar;86(5):2837-49. Epub 2011 Dec 28. PMID:22205747[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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