4edk: Difference between revisions

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-{{STRUCTURE_4edk|  PDB=4edk  |  SCENE=  }}
+==The structure of the S. aureus DnaG RNA Polymerase Domain bound to GTP and Manganese==
-===The structure of the S. aureus DnaG RNA Polymerase Domain bound to GTP and Manganese===
+<StructureSection load='4edk' size='340' side='right' caption='[[4edk]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
-{{ABSTRACT_PUBMED_22795082}}
+== Structural highlights ==
+<table><tr><td colspan='2'>[[4edk]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EDK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4EDK FirstGlance]. <br>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
+<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4e2k|4e2k]], [[4ee1|4ee1]], [[4edg|4edg]], [[4edr|4edr]], [[4edt|4edt]], [[4edv|4edv]]</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">dnaG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 Staphylococcus aureus])</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=4edk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4edk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4edk RCSB], [http://www.ebi.ac.uk/pdbsum/4edk PDBsum]</span></td></tr>
+</table>
+== Function ==
+[[http://www.uniprot.org/uniprot/PRIM_STAAU PRIM_STAAU]] DNA primase is the polymerase that synthesizes small RNA primers for the Okazaki fragments on both template strands at replication forks during chromosomal DNA synthesis.
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Primases are DNA-dependent RNA polymerases found in all cellular organisms. In bacteria, primer synthesis is carried out by DnaG, an essential enzyme that serves as a key component of DNA replication initiation, progression, and restart. How DnaG associates with nucleotide substrates and how certain naturally prevalent nucleotide analogs impair DnaG function are unknown. We have examined one of the earliest stages in primer synthesis and its control by solving crystal structures of the S. aureus DnaG catalytic core bound to metal ion cofactors and either individual nucleoside triphosphates or the nucleotidyl alarmones, pppGpp and ppGpp. These structures, together with both biochemical analyses and comparative studies of enzymes that use the same catalytic fold as DnaG, pinpoint the predominant nucleotide-binding site of DnaG and explain how the induction of the stringent response in bacteria interferes with primer synthesis.
-==Function==
+Binding Mechanism of MetalNTP Substrates and Stringent-Response Alarmones to Bacterial DnaG-Type Primases.,Rymer RU, Solorio FA, Tehranchi AK, Chu C, Corn JE, Keck JL, Wang JD, Berger JM Structure. 2012 Jul 10. PMID:22795082<ref>PMID:22795082</ref>
-[[http://www.uniprot.org/uniprot/PRIM_STAAU PRIM_STAAU]] DNA primase is the polymerase that synthesizes small RNA primers for the Okazaki fragments on both template strands at replication forks during chromosomal DNA synthesis.
-==About this Structure==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[4edk]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EDK OCA].
+</div>
 ==See Also==
 *[[RNA polymerase|RNA polymerase]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:022795082</ref><references group="xtra"/><references/>
+__TOC__
+</StructureSection>
 [[Category: Staphylococcus aureus]]
-[[Category: Berger, J M.]]
+[[Category: Berger, J M]]
-[[Category: Chu, C.]]
+[[Category: Chu, C]]
-[[Category: Corn, J E.]]
+[[Category: Corn, J E]]
-[[Category: Rymer, R U.]]
+[[Category: Rymer, R U]]
-[[Category: Solorio, F A.]]
+[[Category: Solorio, F A]]
-[[Category: Wang, J D.]]
+[[Category: Wang, J D]]
 [[Category: Catalytic domain]]
 [[Category: Nucleoside polyphosphate]]