5jtm - Revision history

OCA at 07:24, 1 May 2024

2024-05-01T07:24:44Z

←Older revision		Revision as of 07:24, 1 May 2024
Line 9:		Line 9:
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/SECB_ECOLI SECB_ECOLI] One of the proteins required for the normal export of some preproteins out of the cell cytoplasm. It is a molecular chaperone that binds to a subset of precursor proteins, maintaining them in a translocation-competent state. It also specifically binds to its receptor SecA. Its substrates include AmpC, DegP, FhuA, FkpA, GBP, LamB, MalE (MBP), OmpA, OmpF, OmpT, OmpX, OppA, PhoE, TolB, TolC, YbgF, YcgK, YgiW and YncE.[HAMAP-Rule:MF_00821]		[https://www.uniprot.org/uniprot/SECB_ECOLI SECB_ECOLI] One of the proteins required for the normal export of some preproteins out of the cell cytoplasm. It is a molecular chaperone that binds to a subset of precursor proteins, maintaining them in a translocation-competent state. It also specifically binds to its receptor SecA. Its substrates include AmpC, DegP, FhuA, FkpA, GBP, LamB, MalE (MBP), OmpA, OmpF, OmpT, OmpX, OppA, PhoE, TolB, TolC, YbgF, YcgK, YgiW and YncE.[HAMAP-Rule:MF_00821]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Molecular chaperones act on non-native proteins in the cell to prevent their aggregation, premature folding or misfolding. Different chaperones often exert distinct effects, such as acceleration or delay of folding, on client proteins via mechanisms that are poorly understood. Here we report the solution structure of SecB, a chaperone that exhibits strong antifolding activity, in complex with alkaline phosphatase and maltose-binding protein captured in their unfolded states. SecB uses long hydrophobic grooves that run around its disk-like shape to recognize and bind to multiple hydrophobic segments across the length of non-native proteins. The multivalent binding mode results in proteins wrapping around SecB. This unique complex architecture alters the kinetics of protein binding to SecB and confers strong antifolding activity on the chaperone. The data show how the different architectures of chaperones result in distinct binding modes with non-native proteins that ultimately define the activity of the chaperone.
-
-	Structural basis for the antifolding activity of a molecular chaperone.,Huang C, Rossi P, Saio T, Kalodimos CG Nature. 2016 Aug 8. doi: 10.1038/nature18965. PMID:27501151<ref>PMID:27501151</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5jtm" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 19:06, 20 September 2023

2023-09-20T19:06:12Z

←Older revision		Revision as of 19:06, 20 September 2023
Line 1:		Line 1:

	==The structure of chaperone SecB in complex with unstructured PhoA binding site a==		==The structure of chaperone SecB in complex with unstructured PhoA binding site a==
-	<StructureSection load='5jtm' size='340' side='right'caption='[[5jtm~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='5jtm' size='340' side='right'caption='[[5jtm]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jtm]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Eco55 Eco55~~] and [~~http~~://en.wikipedia.org/wiki/~~Ecoli Ecoli~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JTM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5JTM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jtm]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_55989 Escherichia coli 55989] and [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JTM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5JTM FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5jtl\|5jtl]], [[5jtq\|5jtq]], [[5jtn\|5jtn]], [[5jto\|5jto]], [[5jtp\|5jtp]], [[5jtr\|5jtr]]</td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">secB, EC55989_4076 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=585055 ECO55]), phoA, b0383, JW0374 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=5jtm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jtm OCA], [https://pdbe.org/5jtm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5jtm RCSB], [https://www.ebi.ac.uk/pdbsum/5jtm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5jtm ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alkaline_phosphatase Alkaline phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.1 3.1.3.1] </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=5jtm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jtm OCA], [~~http~~://pdbe.org/5jtm PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5jtm RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5jtm PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5jtm ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~SECB_ECO55 SECB_ECO55]~~] One of the proteins required for the normal export of preproteins out of the cell cytoplasm. It is a molecular chaperone that binds to a subset of precursor proteins, maintaining them in a translocation-competent state. It also specifically binds to its receptor SecA.	+	[https://www.uniprot.org/uniprot/SECB_ECOLI SECB_ECOLI] One of the proteins required for the normal export of some preproteins out of the cell cytoplasm. It is a molecular chaperone that binds to a subset of precursor proteins, maintaining them in a translocation-competent state. It also specifically binds to its receptor SecA. Its substrates include AmpC, DegP, FhuA, FkpA, GBP, LamB, MalE (MBP), OmpA, OmpF, OmpT, OmpX, OppA, PhoE, TolB, TolC, YbgF, YcgK, YgiW and YncE.[HAMAP-Rule:MF_00821]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Alkaline phosphatase~~]]	+	[[Category: Escherichia coli 55989]]
-	[[Category: ~~Eco55]]~~	+	[[Category: Escherichia coli K-12]]
-	~~[[Category: Ecoli~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Huang, C]]	+	[[Category: Huang C]]
-	[[Category: Kalodimos~~, C G~~]]	+	[[Category: Kalodimos CG]]
-	[[Category: Rossi, P]]	+	[[Category: Rossi P]]
-	[[Category: Saio, T]]	+	[[Category: Saio T]]
-	~~[[Category: Chaperone-hydrolase complex]]~~	+
-	~~[[Category: Molecular chaperone~~]]	+

OCA at 11:38, 17 June 2020

2020-06-17T11:38:29Z

←Older revision		Revision as of 11:38, 17 June 2020
Line 1:		Line 1:
-	~~{{Large structure}}~~	+
	==The structure of chaperone SecB in complex with unstructured PhoA binding site a==		==The structure of chaperone SecB in complex with unstructured PhoA binding site a==
-	<StructureSection load='5jtm' size='340' side='right' caption='[[5jtm]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='5jtm' size='340' side='right'caption='[[5jtm]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jtm]] is a 8 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JTM OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5JTM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jtm]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco55 Eco55] and [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JTM OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5JTM FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5jtl\|5jtl]], [[5jtq\|5jtq]], [[5jtn\|5jtn]], [[5jto\|5jto]], [[5jtp\|5jtp]], [[5jtr\|5jtr]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5jtl\|5jtl]], [[5jtq\|5jtq]], [[5jtn\|5jtn]], [[5jto\|5jto]], [[5jtp\|5jtp]], [[5jtr\|5jtr]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">secB, EC55989_4076 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=585055 ECO55]), phoA, b0383, JW0374 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alkaline_phosphatase Alkaline phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.1 3.1.3.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alkaline_phosphatase Alkaline phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.1 3.1.3.1] </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=5jtm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jtm OCA], [http://pdbe.org/5jtm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jtm RCSB], [http://www.ebi.ac.uk/pdbsum/5jtm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jtm 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=5jtm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jtm OCA], [http://pdbe.org/5jtm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jtm RCSB], [http://www.ebi.ac.uk/pdbsum/5jtm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jtm ProSAT]</span></td></tr>
	</table>		</table>
-	{{Large structure}}
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/SECB_ECO55 SECB_ECO55]] One of the proteins required for the normal export of preproteins out of the cell cytoplasm. It is a molecular chaperone that binds to a subset of precursor proteins, maintaining them in a translocation-competent state. It also specifically binds to its receptor SecA.		[[http://www.uniprot.org/uniprot/SECB_ECO55 SECB_ECO55]] One of the proteins required for the normal export of preproteins out of the cell cytoplasm. It is a molecular chaperone that binds to a subset of precursor proteins, maintaining them in a translocation-competent state. It also specifically binds to its receptor SecA.
Line 25:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Alkaline phosphatase]]		[[Category: Alkaline phosphatase]]
		+	[[Category: Eco55]]
		+	[[Category: Ecoli]]
		+	[[Category: Large Structures]]
	[[Category: Huang, C]]		[[Category: Huang, C]]
	[[Category: Kalodimos, C G]]		[[Category: Kalodimos, C G]]

OCA at 06:52, 10 September 2016

2016-09-10T06:52:52Z

←Older revision		Revision as of 06:52, 10 September 2016
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	{{Large structure}}
		+	==The structure of chaperone SecB in complex with unstructured PhoA binding site a==
		+	<StructureSection load='5jtm' size='340' side='right' caption='[[5jtm]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5jtm]] is a 8 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JTM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JTM FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5jtl\|5jtl]], [[5jtq\|5jtq]], [[5jtn\|5jtn]], [[5jto\|5jto]], [[5jtp\|5jtp]], [[5jtr\|5jtr]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Alkaline_phosphatase Alkaline phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.1 3.1.3.1] </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=5jtm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jtm OCA], [http://pdbe.org/5jtm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jtm RCSB], [http://www.ebi.ac.uk/pdbsum/5jtm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jtm ProSAT]</span></td></tr>
		+	</table>
		+	{{Large structure}}
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SECB_ECO55 SECB_ECO55]] One of the proteins required for the normal export of preproteins out of the cell cytoplasm. It is a molecular chaperone that binds to a subset of precursor proteins, maintaining them in a translocation-competent state. It also specifically binds to its receptor SecA.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Molecular chaperones act on non-native proteins in the cell to prevent their aggregation, premature folding or misfolding. Different chaperones often exert distinct effects, such as acceleration or delay of folding, on client proteins via mechanisms that are poorly understood. Here we report the solution structure of SecB, a chaperone that exhibits strong antifolding activity, in complex with alkaline phosphatase and maltose-binding protein captured in their unfolded states. SecB uses long hydrophobic grooves that run around its disk-like shape to recognize and bind to multiple hydrophobic segments across the length of non-native proteins. The multivalent binding mode results in proteins wrapping around SecB. This unique complex architecture alters the kinetics of protein binding to SecB and confers strong antifolding activity on the chaperone. The data show how the different architectures of chaperones result in distinct binding modes with non-native proteins that ultimately define the activity of the chaperone.

-	~~The entry 5jtm is ON HOLD until Paper Publication~~	+	Structural basis for the antifolding activity of a molecular chaperone.,Huang C, Rossi P, Saio T, Kalodimos CG Nature. 2016 Aug 8. doi: 10.1038/nature18965. PMID:27501151<ref>PMID:27501151</ref>

-	~~Authors: Huang~~, C.~~, Saio, T~~.~~, Rossi, P., Kalodimos, C.G~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~The structure of chaperone SecB in complex with unstructured PhoA binding site a~~	+	<div class="pdbe-citations 5jtm" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Alkaline phosphatase]]
	[[Category: Huang, C]]		[[Category: Huang, C]]
		+	[[Category: Kalodimos, C G]]
	[[Category: Rossi, P]]		[[Category: Rossi, P]]
	[[Category: Saio, T]]		[[Category: Saio, T]]
-	[[Category: ~~Kalodimos, C.G~~]]	+	[[Category: Chaperone-hydrolase complex]]
		+	[[Category: Molecular chaperone]]

OCA at 13:06, 20 June 2016

2016-06-20T13:06:25Z

←Older revision		Revision as of 13:06, 20 June 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Huang, C., Saio, T., Rossi, P., Kalodimos, C.G.		Authors: Huang, C., Saio, T., Rossi, P., Kalodimos, C.G.

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

2016-06-01T13:49:12Z

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

←Older revision

Revision as of 13:49, 1 June 2016

OCA: New page: '''Unreleased structure''' The entry 5jtm is ON HOLD Authors: Huang, C., Saio, T., Rossi, P., Kalodimos, C.G. Description: The structure of chaperone SecB in complex with unstructured ...

2016-06-01T13:49:11Z

New page: '''Unreleased structure''' The entry 5jtm is ON HOLD Authors: Huang, C., Saio, T., Rossi, P., Kalodimos, C.G. Description: The structure of chaperone SecB in complex with unstructured ...

New page

'''Unreleased structure'''

The entry 5jtm is ON HOLD

Authors: Huang, C., Saio, T., Rossi, P., Kalodimos, C.G.

Description: The structure of chaperone SecB in complex with unstructured PhoA binding site a
[[Category: Unreleased Structures]]
[[Category: Huang, C]]
[[Category: Rossi, P]]
[[Category: Saio, T]]
[[Category: Kalodimos, C.G]]