3a6m - Revision history

OCA at 13:59, 13 March 2024

OCA — Wed, 13 Mar 2024 13:59:51 GMT

←Older revision		Revision as of 13:59, 13 March 2024
Line 3:		Line 3:
	<StructureSection load='3a6m' size='340' side='right'caption='[[3a6m]], [[Resolution\|resolution]] 3.23Å' scene=''>		<StructureSection load='3a6m' size='340' side='right'caption='[[3a6m]], [[Resolution\|resolution]] 3.23Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3a6m]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Thet8 Thet8~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3A6M FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3a6m]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3A6M FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~TTHA1490 (~~[~~https://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=300852 THET8])~~</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]] 3.23Å</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=3a6m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6m OCA], [https://pdbe.org/3a6m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3a6m RCSB], [https://www.ebi.ac.uk/pdbsum/3a6m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3a6m 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=3a6m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6m OCA], [https://pdbe.org/3a6m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3a6m RCSB], [https://www.ebi.ac.uk/pdbsum/3a6m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3a6m ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/GRPE_THET8 GRPE_THET8]] Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent interactions between DnaJ, DnaK and GrpE are required for fully efficient folding (By similarity).	+	[https://www.uniprot.org/uniprot/GRPE_THET8 GRPE_THET8] Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent interactions between DnaJ, DnaK and GrpE are required for fully efficient folding (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 19:		Line 19:
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3a6m ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3a6m ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	A homodimeric GrpE protein functions as a nucleotide exchange factor of the eubacterium DnaK molecular chaperone system. The co-chaperone GrpE accelerates ADP dissociation from, and promotes ATP binding to, DnaK, which cooperatively facilitates the DnaK chaperone cycle with another co-chaperone, DnaJ. GrpE characteristically undergoes two-step conformational changes in response to elevation of the environmental temperature. In the first transition at heat-shock temperatures, a fully reversible and functionally deficient structural alteration takes place in GrpE, and then the higher temperatures lead to the irreversible dissociation of the GrpE dimer into monomers as the second transition. GrpE is also thought to be a thermosensor of the DnaK system, since it is the only member of the DnaK system that changes its structure reversibly and loses its function at heat-shock temperatures of various organisms. We here report the crystal structure of GrpE from Thermus thermophilus HB8 (GrpE(Tth)) at 3.23 A resolution. The resolved structure is compared with that of GrpE from mesophilic Escherichia coli (GrpE(Eco)), revealing structural similarities, particularly in the DnaK interaction regions, and structural characteristics for the thermal stability of GrpE(Tth). In addition, the structure analysis raised the possibility that the polypeptide chain in the reported GrpE(Eco) structure was misinterpreted. Comparison of these two GrpE structures combined with the results of limited proteolysis experiments provides insight into the protein dynamics of GrpE(Tth) correlated with the shift of temperature, and also suggests that the localized and partial unfolding at the plausible DnaK interaction sites of GrpE(Tth) causes functional deficiency of nucleotide exchange factor in response to the heat shock.
-
-	Crystal structure of a thermophilic GrpE protein: insight into thermosensing function for the DnaK chaperone system.,Nakamura A, Takumi K, Miki K J Mol Biol. 2010 Mar 5;396(4):1000-11. Epub 2009 Dec 28. PMID:20036249<ref>PMID:20036249</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3a6m" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Thet8~~]]	+	[[Category: Thermus thermophilus HB8]]
-	[[Category: Miki, K]]	+	[[Category: Miki K]]
-	[[Category: Nakamura, A]]	+	[[Category: Nakamura A]]
-	[[Category: Takumi, K]]	+	[[Category: Takumi K]]
-	~~[[Category: Chaperone]]~~	+
-	~~[[Category: Coiled-coil]]~~	+
-	~~[[Category: Dimer]]~~	+
-	~~[[Category: Four-helix bundle]]~~	+
-	~~[[Category: Grpe]]~~	+
-	~~[[Category: Stress response~~]]	+

OCA at 16:18, 22 December 2021

OCA — Wed, 22 Dec 2021 16:18:16 GMT

←Older revision		Revision as of 16:18, 22 December 2021
Line 1:		Line 1:

	==Crystal structure of GrpE from Thermus thermophilus HB8==		==Crystal structure of GrpE from Thermus thermophilus HB8==
-	<StructureSection load='3a6m' size='340' side='right' caption='[[3a6m]], [[Resolution\|resolution]] 3.23Å' scene=''>	+	<StructureSection load='3a6m' size='340' side='right'caption='[[3a6m]], [[Resolution\|resolution]] 3.23Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3a6m]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6M OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3A6M FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3a6m]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3A6M FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TTHA1490 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TTHA1490 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</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=3a6m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6m OCA], [~~http~~://pdbe.org/3a6m PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3a6m RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3a6m PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3a6m 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=3a6m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6m OCA], [https://pdbe.org/3a6m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3a6m RCSB], [https://www.ebi.ac.uk/pdbsum/3a6m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3a6m ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/GRPE_THET8 GRPE_THET8]] Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent interactions between DnaJ, DnaK and GrpE are required for fully efficient folding (By similarity).	+	[[https://www.uniprot.org/uniprot/GRPE_THET8 GRPE_THET8]] Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent interactions between DnaJ, DnaK and GrpE are required for fully efficient folding (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Thet8]]		[[Category: Thet8]]
	[[Category: Miki, K]]		[[Category: Miki, K]]

OCA at 08:16, 24 October 2018

OCA — Wed, 24 Oct 2018 08:16:51 GMT

←Older revision		Revision as of 08:16, 24 October 2018
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/a6/3a6m_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/a6/3a6m_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 06:27, 5 August 2016

OCA — Fri, 05 Aug 2016 06:27:47 GMT

←Older revision		Revision as of 06:27, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of GrpE from Thermus thermophilus HB8==		==Crystal structure of GrpE from Thermus thermophilus HB8==
	<StructureSection load='3a6m' size='340' side='right' caption='[[3a6m]], [[Resolution\|resolution]] 3.23Å' scene=''>		<StructureSection load='3a6m' size='340' side='right' caption='[[3a6m]], [[Resolution\|resolution]] 3.23Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[3a6m]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3A6M FirstGlance]. <br>		<table><tr><td colspan='2'>[[3a6m]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3A6M FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TTHA1490 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TTHA1490 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</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=3a6m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6m OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a6m RCSB], [http://www.ebi.ac.uk/pdbsum/3a6m 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=3a6m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6m OCA], [http://pdbe.org/3a6m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3a6m RCSB], [http://www.ebi.ac.uk/pdbsum/3a6m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3a6m ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 16:		Line 17:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3a6m ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 26:		Line 27:
	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 3a6m" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 16:31, 25 December 2014

OCA — Thu, 25 Dec 2014 16:31:11 GMT

←Older revision		Revision as of 16:31, 25 December 2014
Line 6:		Line 6:
	<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=3a6m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6m OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a6m RCSB], [http://www.ebi.ac.uk/pdbsum/3a6m 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=3a6m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6m OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a6m RCSB], [http://www.ebi.ac.uk/pdbsum/3a6m PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/GRPE_THET8 GRPE_THET8]] Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent interactions between DnaJ, DnaK and GrpE are required for fully efficient folding (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 29:		Line 31:
	</StructureSection>		</StructureSection>
	[[Category: Thet8]]		[[Category: Thet8]]
-	[[Category: Miki, K.]]	+	[[Category: Miki, K]]
-	[[Category: Nakamura, A.]]	+	[[Category: Nakamura, A]]
-	[[Category: Takumi, K.]]	+	[[Category: Takumi, K]]
	[[Category: Chaperone]]		[[Category: Chaperone]]
	[[Category: Coiled-coil]]		[[Category: Coiled-coil]]

OCA at 06:18, 10 October 2014

OCA — Fri, 10 Oct 2014 06:18:32 GMT

←Older revision		Revision as of 06:18, 10 October 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3a6m~~\| ~~PDB~~=3a6m \| ~~SCENE~~= }}	+	==Crystal structure of GrpE from Thermus thermophilus HB8==
-	===~~Crystal~~ structure of ~~GrpE~~ from ~~Thermus thermophilus HB8~~===	+	<StructureSection load='3a6m' size='340' side='right' caption='[[3a6m]], [[Resolution\|resolution]] 3.23Å' scene=''>
-	~~{{ABSTRACT_PUBMED_20036249}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3a6m]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6M OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3A6M FirstGlance]. <br>
		+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TTHA1490 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</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=3a6m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a6m OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a6m RCSB], [http://www.ebi.ac.uk/pdbsum/3a6m PDBsum]</span></td></tr>
		+	</table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/a6/3a6m_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	A homodimeric GrpE protein functions as a nucleotide exchange factor of the eubacterium DnaK molecular chaperone system. The co-chaperone GrpE accelerates ADP dissociation from, and promotes ATP binding to, DnaK, which cooperatively facilitates the DnaK chaperone cycle with another co-chaperone, DnaJ. GrpE characteristically undergoes two-step conformational changes in response to elevation of the environmental temperature. In the first transition at heat-shock temperatures, a fully reversible and functionally deficient structural alteration takes place in GrpE, and then the higher temperatures lead to the irreversible dissociation of the GrpE dimer into monomers as the second transition. GrpE is also thought to be a thermosensor of the DnaK system, since it is the only member of the DnaK system that changes its structure reversibly and loses its function at heat-shock temperatures of various organisms. We here report the crystal structure of GrpE from Thermus thermophilus HB8 (GrpE(Tth)) at 3.23 A resolution. The resolved structure is compared with that of GrpE from mesophilic Escherichia coli (GrpE(Eco)), revealing structural similarities, particularly in the DnaK interaction regions, and structural characteristics for the thermal stability of GrpE(Tth). In addition, the structure analysis raised the possibility that the polypeptide chain in the reported GrpE(Eco) structure was misinterpreted. Comparison of these two GrpE structures combined with the results of limited proteolysis experiments provides insight into the protein dynamics of GrpE(Tth) correlated with the shift of temperature, and also suggests that the localized and partial unfolding at the plausible DnaK interaction sites of GrpE(Tth) causes functional deficiency of nucleotide exchange factor in response to the heat shock.

-	~~==Function==~~	+	Crystal structure of a thermophilic GrpE protein: insight into thermosensing function for the DnaK chaperone system.,Nakamura A, Takumi K, Miki K J Mol Biol. 2010 Mar 5;396(4):1000-11. Epub 2009 Dec 28. PMID:20036249<ref>PMID:20036249</ref>
-	~~[[http://www.uniprot.org/uniprot/GRPE_THET8 GRPE_THET8]] Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation~~ of ~~stress-denatured proteins, in association with DnaK and~~ GrpE~~. It is~~ the ~~nucleotide exchange factor for~~ DnaK ~~and may function as a thermosensor~~. ~~Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein~~, ~~DnaK hydrolyzes its bound ATP~~, ~~resulting in the formation of a stable complex~~. ~~GrpE releases ADP from DnaK~~; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent interactions between DnaJ, DnaK and GrpE are required for fully efficient folding (~~By similarity~~).	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3a6m]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Thet8 Thet8]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3A6M OCA].~~	+	</div>
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:020036249</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Thet8]]		[[Category: Thet8]]
	[[Category: Miki, K.]]		[[Category: Miki, K.]]

OCA at 06:29, 22 January 2014

OCA — Wed, 22 Jan 2014 06:29:24 GMT

←Older revision		Revision as of 06:29, 22 January 2014
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-	[[Image:3a6m.png\|left\|200px]]
-
	{{STRUCTURE_3a6m\| PDB=3a6m \| SCENE= }}		{{STRUCTURE_3a6m\| PDB=3a6m \| SCENE= }}
-
	===Crystal structure of GrpE from Thermus thermophilus HB8===		===Crystal structure of GrpE from Thermus thermophilus HB8===
		+	{{ABSTRACT_PUBMED_20036249}}

-	~~{{ABSTRACT_PUBMED_20036249}}~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/GRPE_THET8 GRPE_THET8]] Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent interactions between DnaJ, DnaK and GrpE are required for fully efficient folding (By similarity).

	==About this Structure==		==About this Structure==
-	[[3a6m]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermus_thermophilus Thermus thermophilus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6M OCA].	+	[[3a6m]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6M OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:020036249</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020036249</ref><references group="xtra"/><references/>
-	[[Category: ~~Thermus thermophilus~~]]	+	[[Category: Thet8]]
	[[Category: Miki, K.]]		[[Category: Miki, K.]]
	[[Category: Nakamura, A.]]		[[Category: Nakamura, A.]]

OCA: Protected "3a6m" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 19:48:51 GMT

Protected "3a6m" [edit=sysop:move=sysop]

←Older revision

Revision as of 19:48, 7 January 2013

OCA at 19:48, 7 January 2013

OCA — Mon, 07 Jan 2013 19:48:45 GMT

←Older revision		Revision as of 19:48, 7 January 2013
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-	~~{{Seed}}~~	+	[[Image:3a6m.png\|left\|200px]]
-	[[Image:3a6m.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3a6m", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3a6m\| PDB=3a6m \| SCENE= }}		{{STRUCTURE_3a6m\| PDB=3a6m \| SCENE= }}

	===Crystal structure of GrpE from Thermus thermophilus HB8===		===Crystal structure of GrpE from Thermus thermophilus HB8===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20036249}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 20036249 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_20036249}}		{{ABSTRACT_PUBMED_20036249}}

	==About this Structure==		==About this Structure==
-	~~3A6M~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/~~Thermus_thermophilus_hb8~~ Thermus thermophilus ~~hb8~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6M OCA].	+	[[3a6m]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6M OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20036249~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020036249</ref><references group="xtra"/>
-	[[Category: Thermus thermophilus ~~hb8~~]]	+	[[Category: Thermus thermophilus]]
	[[Category: Miki, K.]]		[[Category: Miki, K.]]
	[[Category: Nakamura, A.]]		[[Category: Nakamura, A.]]
Line 30:		Line 18:
	[[Category: Chaperone]]		[[Category: Chaperone]]
	[[Category: Coiled-coil]]		[[Category: Coiled-coil]]
-	[[Category: Cytoplasm]]
	[[Category: Dimer]]		[[Category: Dimer]]
	[[Category: Four-helix bundle]]		[[Category: Four-helix bundle]]
	[[Category: Grpe]]		[[Category: Grpe]]
	[[Category: Stress response]]		[[Category: Stress response]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 13 14:11:39 2010''

OCA at 12:11, 13 January 2010

OCA — Wed, 13 Jan 2010 12:11:39 GMT

←Older revision		Revision as of 12:11, 13 January 2010
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-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3a6m.jpg\|left\|200px]]

-	The ~~entry 3a6m~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3a6m", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3a6m\| PDB=3a6m \| SCENE= }}

-	~~Authors: Nakamura, A., Takumi, K., Miki, K.~~	+	===Crystal structure of GrpE from Thermus thermophilus HB8===

-	Description: Crystal structure of GrpE from Thermus thermophilus HB8

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Sep 16 08~~:40:~~22 2009~~''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_20036249}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 20036249 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_20036249}}
		+
		+	==About this Structure==
		+	3A6M is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Thermus_thermophilus_hb8 Thermus thermophilus hb8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A6M OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:20036249</ref><references group="xtra"/>
		+	[[Category: Thermus thermophilus hb8]]
		+	[[Category: Miki, K.]]
		+	[[Category: Nakamura, A.]]
		+	[[Category: Takumi, K.]]
		+	[[Category: Chaperone]]
		+	[[Category: Coiled-coil]]
		+	[[Category: Cytoplasm]]
		+	[[Category: Dimer]]
		+	[[Category: Four-helix bundle]]
		+	[[Category: Grpe]]
		+	[[Category: Stress response]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 13 14:11:39 2010''