6ptr - Revision history

OCA at 07:35, 11 October 2023

2023-10-11T07:35:40Z

←Older revision		Revision as of 07:35, 11 October 2023
Line 3:		Line 3:
	<StructureSection load='6ptr' size='340' side='right'caption='[[6ptr]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='6ptr' size='340' side='right'caption='[[6ptr]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ptr]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PTR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6PTR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ptr]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bartonella_birtlesii_LL-WM9 Bartonella birtlesii LL-WM9] and [https://en.wikipedia.org/wiki/Streptomyces_griseus Streptomyces griseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PTR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6PTR FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=EDO:1,2~~-~~ETHANEDIOL'>EDO</scene>~~, ~~<scene name='pdbligand=IOD:IODIDE+ION'>IOD</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]] 1.75Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=MLU:N-METHYL-D-LEUCINE'>MLU</scene>, <scene name='pdbligand=MP8:(4R)-4-METHYL-L-PROLINE'>MP8</scene>, <scene name='pdbligand=MVA:N-METHYLVALINE'>MVA</scene>, <scene name='pdbligand=NZC:N-METHYLIDENE-L-THREONINE'>NZC</scene>~~</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=MLU:N-METHYL-D-LEUCINE'>MLU</scene>, <scene name='pdbligand=MP8:(4R)-4-METHYL-L-PROLINE'>MP8</scene>, <scene name='pdbligand=MVA:N-METHYLVALINE'>MVA</scene>, <scene name='pdbligand=NZC:N-METHYLIDENE-L-THREONINE'>NZC</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6deg\|6deg]]~~</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=6ptr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ptr OCA], [https://pdbe.org/6ptr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ptr RCSB], [https://www.ebi.ac.uk/pdbsum/6ptr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ptr ProSAT]</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=6ptr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ptr OCA], [~~http~~://pdbe.org/6ptr PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ptr RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ptr PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ptr ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~J1IY24_9RHIZ J1IY24_9RHIZ]~~] Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP-independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of replication as well as for processivity of DNA replication.[PIRNR:PIRNR000804]	+	[https://www.uniprot.org/uniprot/J1IY24_9HYPH J1IY24_9HYPH] Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP-independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of replication as well as for processivity of DNA replication.[PIRNR:PIRNR000804]
		+
		+	==See Also==
		+	*[[DNA polymerase 3D structures\|DNA polymerase 3D structures]]
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bartonella birtlesii LL-WM9]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Structural genomic]]~~	+	[[Category: Streptomyces griseus]]
-	~~[[Category: Antibiotic]]~~	+
-	~~[[Category: Broad spectrum]]~~	+
-	~~[[Category: Infectious disease]]~~	+
-	~~[[Category: Mycobacterium]]~~	+
-	~~[[Category: Natural product]]~~	+
-	~~[[Category: Niaid]]~~	+
-	~~[[Category: Ssgcid]]~~	+
-	~~[[Category: Streptomyce]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Transferase-antibiotic complex~~]]	+

OCA at 06:02, 7 August 2019

2019-08-07T06:02:11Z

←Older revision		Revision as of 06:02, 7 August 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 6ptr is ON HOLD~~	+	==Crystal structure of a DnaN sliding clamp (DNA polymerase III subunit beta) from Bartonella birtlesii bound to griselimycin==
-		+	<StructureSection load='6ptr' size='340' side='right'caption='[[6ptr]], [[Resolution\|resolution]] 1.75Å' scene=''>
-	~~Authors: Seattle Structural Genomics Center for Infectious Disease (SSGCID)~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6ptr]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PTR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PTR FirstGlance]. <br>
-	~~Description:~~ Crystal structure of a DnaN sliding clamp (DNA polymerase III subunit beta) from Bartonella birtlesii bound to griselimycin	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=MLU:N-METHYL-D-LEUCINE'>MLU</scene>, <scene name='pdbligand=MP8:(4R)-4-METHYL-L-PROLINE'>MP8</scene>, <scene name='pdbligand=MVA:N-METHYLVALINE'>MVA</scene>, <scene name='pdbligand=NZC:N-METHYLIDENE-L-THREONINE'>NZC</scene></td></tr>
-	[[Category: ~~Seattle~~ Structural ~~Genomics Center For~~ Infectious ~~Disease (~~Ssgcid)]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6deg\|6deg]]</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=6ptr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ptr OCA], [http://pdbe.org/6ptr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ptr RCSB], [http://www.ebi.ac.uk/pdbsum/6ptr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ptr ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/J1IY24_9RHIZ J1IY24_9RHIZ]] Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP-independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of replication as well as for processivity of DNA replication.[PIRNR:PIRNR000804]
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Structural genomic]]
		+	[[Category: Antibiotic]]
		+	[[Category: Broad spectrum]]
		+	[[Category: Infectious disease]]
		+	[[Category: Mycobacterium]]
		+	[[Category: Natural product]]
		+	[[Category: Niaid]]
		+	[[Category: Ssgcid]]
		+	[[Category: Streptomyce]]
		+	[[Category: Transferase]]
		+	[[Category: Transferase-antibiotic complex]]

OCA at 04:44, 31 July 2019

2019-07-31T04:44:16Z

←Older revision		Revision as of 04:44, 31 July 2019
Line 3:		Line 3:
	The entry 6ptr is ON HOLD		The entry 6ptr is ON HOLD

-	Authors: ~~Seattle Structural Genomics Center for Infectious Disease,~~ Seattle Structural Genomics Center for Infectious Disease (SSGCID)	+	Authors: Seattle Structural Genomics Center for Infectious Disease (SSGCID)

	Description: Crystal structure of a DnaN sliding clamp (DNA polymerase III subunit beta) from Bartonella birtlesii bound to griselimycin		Description: Crystal structure of a DnaN sliding clamp (DNA polymerase III subunit beta) from Bartonella birtlesii bound to griselimycin
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: ~~Seattle Structural Genomics Center For Infectious Disease,~~ Seattle Structural Genomics Center For Infectious Disease (Ssgcid)]]	+	[[Category: Seattle Structural Genomics Center For Infectious Disease (Ssgcid)]]

OCA: Protected "6ptr" [edit=sysop:move=sysop]

2019-07-24T04:34:17Z

Protected "6ptr" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:34, 24 July 2019

OCA: New page: '''Unreleased structure''' The entry 6ptr is ON HOLD Authors: Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCI...

2019-07-24T04:34:16Z

New page: '''Unreleased structure''' The entry 6ptr is ON HOLD Authors: Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCI...

New page

'''Unreleased structure'''

The entry 6ptr is ON HOLD

Authors: Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Description: Crystal structure of a DnaN sliding clamp (DNA polymerase III subunit beta) from Bartonella birtlesii bound to griselimycin
[[Category: Unreleased Structures]]
[[Category: Seattle Structural Genomics Center For Infectious Disease, Seattle Structural Genomics Center For Infectious Disease (Ssgcid)]]