4edv - Revision history

OCA at 11:03, 1 March 2024

OCA — Fri, 01 Mar 2024 11:03:16 GMT

←Older revision		Revision as of 11:03, 1 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4edv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EDV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4EDV FirstGlance]. <br>		<table><tr><td colspan='2'>[[4edv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EDV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4EDV FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0O2:GUANOSINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)+3-(TRIHYDROGEN+DIPHOSPHATE)'>0O2</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.01Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0O2:GUANOSINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)+3-(TRIHYDROGEN+DIPHOSPHATE)'>0O2</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></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=4edv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4edv OCA], [https://pdbe.org/4edv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4edv RCSB], [https://www.ebi.ac.uk/pdbsum/4edv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4edv 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=4edv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4edv OCA], [https://pdbe.org/4edv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4edv RCSB], [https://www.ebi.ac.uk/pdbsum/4edv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4edv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/DNAG_STAAU DNAG_STAAU]] RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication.[HAMAP-Rule:MF_00974]	+	[https://www.uniprot.org/uniprot/DNAG_STAAU DNAG_STAAU] RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication.[HAMAP-Rule:MF_00974]
-	~~<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.	+
-		+
-	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>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 4edv" style="background-color:#fffaf0;"></div>~~	+

	==See Also==		==See Also==
	*[[RNA polymerase 3D structures\|RNA polymerase 3D structures]]		*[[RNA polymerase 3D structures\|RNA polymerase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 07:06, 28 September 2022

OCA — Wed, 28 Sep 2022 07:06:41 GMT

←Older revision		Revision as of 07:06, 28 September 2022
Line 1:		Line 1:

	==The structure of the S. aureus DnaG RNA Polymerase Domain bound to pppGpp and Manganese==		==The structure of the S. aureus DnaG RNA Polymerase Domain bound to pppGpp and Manganese==
-	<StructureSection load='4edv' size='340' side='right' caption='[[4edv]], [[Resolution\|resolution]] 2.01Å' scene=''>	+	<StructureSection load='4edv' size='340' side='right'caption='[[4edv]], [[Resolution\|resolution]] 2.01Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4edv]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus~~ aureus~~" (rosenbach 1884) zopf 1885~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EDV OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4EDV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4edv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EDV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4EDV FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0O2:GUANOSINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)+3-(TRIHYDROGEN+DIPHOSPHATE)'>0O2</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0O2:GUANOSINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)+3-(TRIHYDROGEN+DIPHOSPHATE)'>0O2</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</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]], [[4edz\|4edz]], [[4edy\|4edy]], [[4edt\|4edt]], [[4edr\|4edr]]</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=4edv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4edv OCA], [https://pdbe.org/4edv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4edv RCSB], [https://www.ebi.ac.uk/pdbsum/4edv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4edv ProSAT]</span></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 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</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=4edv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4edv OCA], [~~http~~://pdbe.org/4edv PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4edv RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4edv PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4edv ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== 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~~.	+	[[https://www.uniprot.org/uniprot/DNAG_STAAU DNAG_STAAU]] RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication.[HAMAP-Rule:MF_00974]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 20:

	==See Also==		==See Also==
-	*[[RNA polymerase\|RNA polymerase]]	+	*[[RNA polymerase 3D structures\|RNA polymerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Berger, J M~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Chu, C~~]]	+	[[Category: Staphylococcus aureus]]
-	[[Category: ~~Corn, J E~~]]	+	[[Category: Berger JM]]
-	[[Category: ~~Rymer, R U~~]]	+	[[Category: Chu C]]
-	[[Category: ~~Solorio, F A~~]]	+	[[Category: Corn JE]]
-	[[Category: ~~Wang, J D~~]]	+	[[Category: Rymer RU]]
-	[[Category: ~~Bacterial~~]]	+	[[Category: Solorio FA]]
-	[[Category: ~~Catalytic domain]]~~	+	[[Category: Wang JD]]
-	~~[[Category: Nucleoside polyphosphate]]~~	+
-	~~[[Category: Nucleoside triphosphate]]~~	+
-	~~[[Category: Nucleotide]]~~	+
-	~~[[Category: Protein-ligand complex]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Transferase-transferase inhibitor complex~~]]	+

OCA at 17:18, 4 August 2016

OCA — Thu, 04 Aug 2016 17:18:47 GMT

←Older revision		Revision as of 17:18, 4 August 2016
Line 1:		Line 1:
		+
	==The structure of the S. aureus DnaG RNA Polymerase Domain bound to pppGpp and Manganese==		==The structure of the S. aureus DnaG RNA Polymerase Domain bound to pppGpp and Manganese==
	<StructureSection load='4edv' size='340' side='right' caption='[[4edv]], [[Resolution\|resolution]] 2.01Å' scene=''>		<StructureSection load='4edv' size='340' side='right' caption='[[4edv]], [[Resolution\|resolution]] 2.01Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4e2k\|4e2k]], [[4ee1\|4ee1]], [[4edz\|4edz]], [[4edy\|4edy]], [[4edt\|4edt]], [[4edr\|4edr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4e2k\|4e2k]], [[4ee1\|4ee1]], [[4edz\|4edz]], [[4edy\|4edy]], [[4edt\|4edt]], [[4edr\|4edr]]</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 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</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 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</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=4edv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4edv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4edv RCSB], [http://www.ebi.ac.uk/pdbsum/4edv 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=4edv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4edv OCA], [http://pdbe.org/4edv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4edv RCSB], [http://www.ebi.ac.uk/pdbsum/4edv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4edv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4edv" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==

OCA at 11:20, 25 December 2014

OCA — Thu, 25 Dec 2014 11:20:44 GMT

←Older revision		Revision as of 11:20, 25 December 2014
Line 2:		Line 2:
	<StructureSection load='4edv' size='340' side='right' caption='[[4edv]], [[Resolution\|resolution]] 2.01Å' scene=''>		<StructureSection load='4edv' size='340' side='right' caption='[[4edv]], [[Resolution\|resolution]] 2.01Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4edv]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EDV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4EDV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4edv]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"micrococcus_aureus"_(rosenbach_1884)_zopf_1885 "micrococcus aureus" (rosenbach 1884) zopf 1885]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EDV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4EDV FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0O2:GUANOSINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)+3-(TRIHYDROGEN+DIPHOSPHATE)'>0O2</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0O2:GUANOSINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)+3-(TRIHYDROGEN+DIPHOSPHATE)'>0O2</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</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]], [[4edz\|4edz]], [[4edy\|4edy]], [[4edt\|4edt]], [[4edr\|4edr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4e2k\|4e2k]], [[4ee1\|4ee1]], [[4edz\|4edz]], [[4edy\|4edy]], [[4edt\|4edt]], [[4edr\|4edr]]</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 "Micrococcus aureus" (Rosenbach 1884) Zopf 1885])</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=4edv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4edv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4edv RCSB], [http://www.ebi.ac.uk/pdbsum/4edv 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=4edv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4edv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4edv RCSB], [http://www.ebi.ac.uk/pdbsum/4edv PDBsum]</span></td></tr>
	</table>		</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;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 07:34, 12 November 2014

OCA — Wed, 12 Nov 2014 07:34:05 GMT

←Older revision		Revision as of 07:34, 12 November 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4edv\| PDB=4edv \| SCENE= }}~~	+	==The structure of the S. aureus DnaG RNA Polymerase Domain bound to pppGpp and Manganese==
-	===The structure of the S. aureus DnaG RNA Polymerase Domain bound to pppGpp and Manganese===	+	<StructureSection load='4edv' size='340' side='right' caption='[[4edv]], [[Resolution\|resolution]] 2.01Å' scene=''>
-	~~{{ABSTRACT_PUBMED_22795082}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4edv]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EDV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4EDV FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0O2:GUANOSINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)+3-(TRIHYDROGEN+DIPHOSPHATE)'>0O2</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</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]], [[4edz\|4edz]], [[4edy\|4edy]], [[4edt\|4edt]], [[4edr\|4edr]]</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=4edv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4edv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4edv RCSB], [http://www.ebi.ac.uk/pdbsum/4edv PDBsum]</span></td></tr>
		+	</table>
		+	<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®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[4edv]] 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=4EDV OCA].~~	+	</div>

	==See Also==		==See Also==
	*[[RNA polymerase\|RNA polymerase]]		*[[RNA polymerase\|RNA polymerase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:022795082</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
-	~~[[Category: Staphylococcus aureus]]~~	+	</StructureSection>
-	[[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: Bacterial]]		[[Category: Bacterial]]
	[[Category: Catalytic domain]]		[[Category: Catalytic domain]]

OCA at 14:30, 10 July 2013

OCA — Wed, 10 Jul 2013 14:30:18 GMT

←Older revision		Revision as of 14:30, 10 July 2013
Line 1:		Line 1:
-	[[Image:4edv.png\|left\|200px]]
-
	{{STRUCTURE_4edv\| PDB=4edv \| SCENE= }}		{{STRUCTURE_4edv\| PDB=4edv \| SCENE= }}
-
	===The structure of the S. aureus DnaG RNA Polymerase Domain bound to pppGpp and Manganese===		===The structure of the S. aureus DnaG RNA Polymerase Domain bound to pppGpp and Manganese===
-
	{{ABSTRACT_PUBMED_22795082}}		{{ABSTRACT_PUBMED_22795082}}
		+
		+	==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.

	==About this Structure==		==About this Structure==
	[[4edv]] 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=4EDV OCA].		[[4edv]] 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=4EDV OCA].
		+
		+	==See Also==
		+	*[[RNA polymerase\|RNA polymerase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:022795082</ref><references group="xtra"/>	+	<ref group="xtra">PMID:022795082</ref><references group="xtra"/><references/>
	[[Category: Staphylococcus aureus]]		[[Category: Staphylococcus aureus]]
	[[Category: Berger, J M.]]		[[Category: Berger, J M.]]

OCA at 05:02, 1 August 2012

OCA — Wed, 01 Aug 2012 05:02:50 GMT

←Older revision		Revision as of 05:02, 1 August 2012
Line 1:		Line 1:
-	[[Image:4edv.~~jpg~~\|left\|200px]]	+	[[Image:4edv.png\|left\|200px]]

	{{STRUCTURE_4edv\| PDB=4edv \| SCENE= }}		{{STRUCTURE_4edv\| PDB=4edv \| SCENE= }}

-	===~~Structure~~ of ~~a DNA Replication protein~~===	+	===The structure of the S. aureus DnaG RNA Polymerase Domain bound to pppGpp and Manganese===

	{{ABSTRACT_PUBMED_22795082}}		{{ABSTRACT_PUBMED_22795082}}

OCA at 07:10, 25 July 2012

OCA — Wed, 25 Jul 2012 07:10:30 GMT

←Older revision		Revision as of 07:10, 25 July 2012
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:4edv.jpg\|left\|200px]]

-	~~The entry~~ 4edv ~~is ON HOLD~~ ~~until Paper Publication~~	+	{{STRUCTURE_4edv\| PDB=4edv \| SCENE= }}

-	~~Authors: Rymer, R.U., Solorio, F.A., Chu, C., Corn, J.E., Wang, J.D., Berger, J.M.~~	+	===Structure of a DNA Replication protein===

-	~~Description:~~ Structure of a ~~DNA Replication protein~~	+	{{ABSTRACT_PUBMED_22795082}}
		+
		+	==About this Structure==
		+	[[4edv]] 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=4EDV OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:022795082</ref><references group="xtra"/>
		+	[[Category: Staphylococcus aureus]]
		+	[[Category: Berger, J M.]]
		+	[[Category: Chu, C.]]
		+	[[Category: Corn, J E.]]
		+	[[Category: Rymer, R U.]]
		+	[[Category: Solorio, F A.]]
		+	[[Category: Wang, J D.]]
		+	[[Category: Bacterial]]
		+	[[Category: Catalytic domain]]
		+	[[Category: Nucleoside polyphosphate]]
		+	[[Category: Nucleoside triphosphate]]
		+	[[Category: Nucleotide]]
		+	[[Category: Protein-ligand complex]]
		+	[[Category: Transferase]]
		+	[[Category: Transferase-transferase inhibitor complex]]

OCA at 06:41, 11 April 2012

OCA — Wed, 11 Apr 2012 06:41:08 GMT

←Older revision		Revision as of 06:41, 11 April 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4edv is ON HOLD	+	The entry 4edv is ON HOLD until Paper Publication

	Authors: Rymer, R.U., Solorio, F.A., Chu, C., Corn, J.E., Wang, J.D., Berger, J.M.		Authors: Rymer, R.U., Solorio, F.A., Chu, C., Corn, J.E., Wang, J.D., Berger, J.M.

	Description: Structure of a DNA Replication protein		Description: Structure of a DNA Replication protein

OCA: Protected "4edv" [edit=sysop:move=sysop]

OCA — Wed, 04 Apr 2012 05:49:47 GMT

Protected "4edv" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:49, 4 April 2012