5x06 - Revision history

OCA at 07:52, 22 November 2023

OCA — Wed, 22 Nov 2023 07:52:21 GMT

←Older revision		Revision as of 07:52, 22 November 2023
Line 3:		Line 3:
	<StructureSection load='5x06' size='340' side='right'caption='[[5x06]], [[Resolution\|resolution]] 3.24Å' scene=''>		<StructureSection load='5x06' size='340' side='right'caption='[[5x06]], [[Resolution\|resolution]] 3.24Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5x06]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X06 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5X06 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5x06]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_O157:H7 Escherichia coli O157:H7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X06 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5X06 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 3.237Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5x06 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x06 OCA], [~~http~~://pdbe.org/5x06 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5x06 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5x06 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5x06 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=5x06 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x06 OCA], [https://pdbe.org/5x06 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5x06 RCSB], [https://www.ebi.ac.uk/pdbsum/5x06 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5x06 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~DPO3B_ECO57 DPO3B_ECO57~~]] 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.[UniProtKB:P0A988] [[http://www.uniprot.org/uniprot/HDA_ECO57 HDA_ECO57]] Mediates the interaction of DNA replication initiator protein DnaA with DNA polymerase subunit beta sliding clamp~~ (~~dnaN). Stimulates hydrolysis of~~ ATP-~~DnaA to ADP-DnaA, rendering DnaA inactive for reinitiation, a process called regulatory inhibition of DnaA or RIDA (By similarity~~).	+	[https://www.uniprot.org/uniprot/DPO3B_ECOLI DPO3B_ECOLI] DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity. The beta chain is required for initiation of replication once it is clamped onto DNA, it slides freely (bidirectional and ATP-independent) along duplex DNA.

	==See Also==		==See Also==
Line 15:		Line 15:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~DNA-directed DNA polymerase~~]]	+	[[Category: Escherichia coli O157:H7]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cho, Y]]	+	[[Category: Cho Y]]
-	[[Category: Kim, J]]	+	[[Category: Kim J]]
-	~~[[Category: Dna replication]]~~	+
-	~~[[Category: Replication]]~~	+
-	~~[[Category: Rida~~]]	+

OCA at 07:21, 7 October 2020

OCA — Wed, 07 Oct 2020 07:21:01 GMT

←Older revision		Revision as of 07:21, 7 October 2020
Line 1:		Line 1:

	==DNA replication regulation protein==		==DNA replication regulation protein==
-	<StructureSection load='5x06' size='340' side='right' caption='[[5x06]], [[Resolution\|resolution]] 3.24Å' scene=''>	+	<StructureSection load='5x06' size='340' side='right'caption='[[5x06]], [[Resolution\|resolution]] 3.24Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5x06]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X06 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5X06 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5x06]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X06 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5X06 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </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=5x06 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x06 OCA], [http://pdbe.org/5x06 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x06 RCSB], [http://www.ebi.ac.uk/pdbsum/5x06 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x06 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5x06 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x06 OCA], [http://pdbe.org/5x06 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x06 RCSB], [http://www.ebi.ac.uk/pdbsum/5x06 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x06 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/DPO3B_ECO57 DPO3B_ECO57]] 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.[UniProtKB:P0A988] [[http://www.uniprot.org/uniprot/HDA_ECO57 HDA_ECO57]] Mediates the interaction of DNA replication initiator protein DnaA with DNA polymerase subunit beta sliding clamp (dnaN). Stimulates hydrolysis of ATP-DnaA to ADP-DnaA, rendering DnaA inactive for reinitiation, a process called regulatory inhibition of DnaA or RIDA (By similarity).		[[http://www.uniprot.org/uniprot/DPO3B_ECO57 DPO3B_ECO57]] 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.[UniProtKB:P0A988] [[http://www.uniprot.org/uniprot/HDA_ECO57 HDA_ECO57]] Mediates the interaction of DNA replication initiator protein DnaA with DNA polymerase subunit beta sliding clamp (dnaN). Stimulates hydrolysis of ATP-DnaA to ADP-DnaA, rendering DnaA inactive for reinitiation, a process called regulatory inhibition of DnaA or RIDA (By similarity).
		+
		+	==See Also==
		+	*[[DNA polymerase 3D structures\|DNA polymerase 3D structures]]
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: DNA-directed DNA polymerase]]		[[Category: DNA-directed DNA polymerase]]
		+	[[Category: Large Structures]]
	[[Category: Cho, Y]]		[[Category: Cho, Y]]
	[[Category: Kim, J]]		[[Category: Kim, J]]

OCA at 18:25, 24 January 2018

OCA — Wed, 24 Jan 2018 18:25:33 GMT

←Older revision		Revision as of 18:25, 24 January 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5x06 is ~~ON HOLD until Paper Publication~~	+	==DNA replication regulation protein==
-		+	<StructureSection load='5x06' size='340' side='right' caption='[[5x06]], [[Resolution\|resolution]] 3.24Å' scene=''>
-	~~Authors~~: ~~Kim~~, J., ~~Cho~~, Y.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5x06]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X06 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5X06 FirstGlance]. <br>
-	~~Description~~: DNA replication ~~regulation~~ protein	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </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=5x06 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x06 OCA], [http://pdbe.org/5x06 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x06 RCSB], [http://www.ebi.ac.uk/pdbsum/5x06 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x06 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DPO3B_ECO57 DPO3B_ECO57]] 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.[UniProtKB:P0A988] [[http://www.uniprot.org/uniprot/HDA_ECO57 HDA_ECO57]] Mediates the interaction of DNA replication initiator protein DnaA with DNA polymerase subunit beta sliding clamp (dnaN). Stimulates hydrolysis of ATP-DnaA to ADP-DnaA, rendering DnaA inactive for reinitiation, a process called regulatory inhibition of DnaA or RIDA (By similarity).
		+	__TOC__
		+	</StructureSection>
		+	[[Category: DNA-directed DNA polymerase]]
		+	[[Category: Cho, Y]]
	[[Category: Kim, J]]		[[Category: Kim, J]]
-	[[Category: ~~Cho, Y~~]]	+	[[Category: Dna replication]]
		+	[[Category: Replication]]
		+	[[Category: Rida]]

OCA at 15:13, 27 September 2017

OCA — Wed, 27 Sep 2017 15:13:21 GMT

←Older revision		Revision as of 15:13, 27 September 2017
Line 7:		Line 7:
	Description: DNA replication regulation protein		Description: DNA replication regulation protein
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Cho, Y]]
	[[Category: Kim, J]]		[[Category: Kim, J]]
		+	[[Category: Cho, Y]]

OCA at 20:02, 15 March 2017

OCA — Wed, 15 Mar 2017 20:02:27 GMT

←Older revision		Revision as of 20:02, 15 March 2017
Line 7:		Line 7:
	Description: DNA replication regulation protein		Description: DNA replication regulation protein
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Kim, J]]
	[[Category: Cho, Y]]		[[Category: Cho, Y]]
		+	[[Category: Kim, J]]

OCA at 15:31, 9 March 2017

OCA — Thu, 09 Mar 2017 15:31:50 GMT

←Older revision		Revision as of 15:31, 9 March 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5x06 is ON HOLD	+	The entry 5x06 is ON HOLD until Paper Publication

	Authors: Kim, J., Cho, Y.		Authors: Kim, J., Cho, Y.

OCA at 17:07, 1 February 2017

OCA — Wed, 01 Feb 2017 17:07:57 GMT

←Older revision		Revision as of 17:07, 1 February 2017
Line 3:		Line 3:
	The entry 5x06 is ON HOLD		The entry 5x06 is ON HOLD

-	Authors: Kim ~~Jinseok~~, Cho ~~Yunje~~	+	Authors: Kim, J., Cho, Y.

	Description: DNA replication regulation protein		Description: DNA replication regulation protein
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Kim ~~Jinseok~~, Cho ~~Yunje~~]]	+	[[Category: Kim, J]]
		+	[[Category: Cho, Y]]

OCA: Protected "5x06" [edit=sysop:move=sysop]

OCA — Wed, 25 Jan 2017 22:39:48 GMT

Protected "5x06" [edit=sysop:move=sysop]

←Older revision

Revision as of 22:39, 25 January 2017

OCA: New page: '''Unreleased structure''' The entry 5x06 is ON HOLD Authors: Kim Jinseok, Cho Yunje Description: DNA replication regulation protein Category: Unreleased Structures [[Category: Kim...

OCA — Wed, 25 Jan 2017 22:39:47 GMT

New page: '''Unreleased structure''' The entry 5x06 is ON HOLD Authors: Kim Jinseok, Cho Yunje Description: DNA replication regulation protein Category: Unreleased Structures [[Category: Kim...

New page

'''Unreleased structure'''

The entry 5x06 is ON HOLD

Authors: Kim Jinseok, Cho Yunje

Description: DNA replication regulation protein
[[Category: Unreleased Structures]]
[[Category: Kim Jinseok, Cho Yunje]]