1jfu - Revision history

OCA at 07:51, 3 April 2024

OCA — Wed, 03 Apr 2024 07:51:54 GMT

←Older revision		Revision as of 07:51, 3 April 2024
Line 3:		Line 3:
	<StructureSection load='1jfu' size='340' side='right'caption='[[1jfu]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1jfu' size='340' side='right'caption='[[1jfu]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1jfu]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"rhizobacterium_japonicum"_kirchner_1896 "rhizobacterium~~ japonicum~~" kirchner 1896~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1JFU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1jfu]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bradyrhizobium_japonicum Bradyrhizobium japonicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JFU FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>TLPA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~375~~ "~~Rhizobacterium japonicum~~" ~~Kirchner 1896~~])</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]] 1.6Å</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=1jfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jfu OCA], [~~http~~://pdbe.org/1jfu PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1jfu RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1jfu PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1jfu 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=1jfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jfu OCA], [https://pdbe.org/1jfu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1jfu RCSB], [https://www.ebi.ac.uk/pdbsum/1jfu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1jfu ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/TLPA_BRADU TLPA_BRADU]] Involved in cytochrome aa3 assembly.	+	[https://www.uniprot.org/uniprot/TLPA_BRADU TLPA_BRADU] Involved in cytochrome aa3 assembly.
	== 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=1jfu 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=1jfu ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	TlpA is an unusual thioredoxin-like protein present in the nitrogen-fixing soil bacterium Bradyrhizobium japonicum. A hydrophobic N-terminal transmembrane domain anchors it to the cytoplasmic membrane, whereby the hydrophilic thioredoxin domain becomes exposed to the periplasmic space. There, TlpA catalyses an essential reaction, probably a reduction, in the biogenesis of cytochrome aa(3). The soluble thioredoxin domain (TlpA(sol)), devoid of the membrane anchor, was purified and crystallized. Oxidized TlpA(sol) crystallized as a non-covalent dimer in the space group P2(1)2(1)2(1). The X-ray structure analysis was carried out by isomorphous replacement using a xenon derivative. This resulted in a high-resolution (1.6 A) three-dimensional structure that displayed all of the features of a classical thioredoxin fold. A number of peculiar structural details were uncovered: (i) Only one of the two active-site-cysteine sulphurs (Cys72, the one closer to the N terminus) is exposed on the surface, making it the likely nucleophile for the reduction of target proteins. (ii) TlpA(sol) possesses a unique structural disulphide bond, formed between Cys10 and Cys155, which connects an unprecedented N-terminal alpha helix with a beta sheet near the C terminus. (iii) An insertion of about 25 amino acid residues, not found in the thioredoxin prototype of Escherichia coli, contributes only marginally to the thioredoxin fold, but forms an extra, surface-exposed alpha helix. This region plus another surface-exposed stretch (-Ile-Gly-Arg-Ala-), which is absent even in the closest TlpA relatives, might be considered as specificity determinants for the recognition of target proteins in the periplasm. The TlpA(sol) structure paves the way towards unraveling important structure-function relationships by rational mutagenesis.
-
-	Structure of the soluble domain of a membrane-anchored thioredoxin-like protein from Bradyrhizobium japonicum reveals unusual properties.,Capitani G, Rossmann R, Sargent DF, Grutter MG, Richmond TJ, Hennecke H J Mol Biol. 2001 Aug 31;311(5):1037-48. PMID:11531338<ref>PMID:11531338</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1jfu" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Rhizobacterium~~ japonicum ~~kirchner 1896~~]]	+	[[Category: Bradyrhizobium japonicum]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Capitani, G]]	+	[[Category: Capitani G]]
-	[[Category: Gruetter~~, M G~~]]	+	[[Category: Gruetter MG]]
-	[[Category: Hennecke, H]]	+	[[Category: Hennecke H]]
-	[[Category: Richmond~~, T J~~]]	+	[[Category: Richmond TJ]]
-	[[Category: Rossmann, R]]	+	[[Category: Rossmann R]]
-	[[Category: Sargent~~, D F]]~~	+	[[Category: Sargent DF]]
-	~~[[Category: Double disulfide bridge]]~~	+
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Thioredoxin-like~~]]	+

OCA at 07:31, 25 November 2020

OCA — Wed, 25 Nov 2020 07:31:11 GMT

←Older revision		Revision as of 07:31, 25 November 2020
Line 1:		Line 1:

	==CRYSTAL STRUCTURE OF THE SOLUBLE DOMAIN OF TLPA FROM BRADYRHIZOBIUM JAPONICUM==		==CRYSTAL STRUCTURE OF THE SOLUBLE DOMAIN OF TLPA FROM BRADYRHIZOBIUM JAPONICUM==
-	<StructureSection load='1jfu' size='340' side='right' caption='[[1jfu]], [[Resolution\|resolution]] 1.60Å' scene=''>	+	<StructureSection load='1jfu' size='340' side='right'caption='[[1jfu]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1jfu]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"rhizobacterium_japonicum"_kirchner_1896 "rhizobacterium japonicum" kirchner 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1JFU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1jfu]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"rhizobacterium_japonicum"_kirchner_1896 "rhizobacterium japonicum" kirchner 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1JFU FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TLPA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=375 "Rhizobacterium japonicum" Kirchner 1896])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TLPA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=375 "Rhizobacterium japonicum" Kirchner 1896])</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=1jfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jfu OCA], [http://pdbe.org/1jfu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1jfu RCSB], [http://www.ebi.ac.uk/pdbsum/1jfu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1jfu 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=1jfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jfu OCA], [http://pdbe.org/1jfu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1jfu RCSB], [http://www.ebi.ac.uk/pdbsum/1jfu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1jfu ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 33:		Line 33:
	</StructureSection>		</StructureSection>
	[[Category: Rhizobacterium japonicum kirchner 1896]]		[[Category: Rhizobacterium japonicum kirchner 1896]]
		+	[[Category: Large Structures]]
	[[Category: Capitani, G]]		[[Category: Capitani, G]]
	[[Category: Gruetter, M G]]		[[Category: Gruetter, M G]]

OCA at 09:23, 17 January 2018

OCA — Wed, 17 Jan 2018 09:23:47 GMT

←Older revision		Revision as of 09:23, 17 January 2018
Line 1:		Line 1:
		+
	==CRYSTAL STRUCTURE OF THE SOLUBLE DOMAIN OF TLPA FROM BRADYRHIZOBIUM JAPONICUM==		==CRYSTAL STRUCTURE OF THE SOLUBLE DOMAIN OF TLPA FROM BRADYRHIZOBIUM JAPONICUM==
	<StructureSection load='1jfu' size='340' side='right' caption='[[1jfu]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1jfu' size='340' side='right' caption='[[1jfu]], [[Resolution\|resolution]] 1.60Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1jfu]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"rhizobacterium_japonicum"_kirchner_1896 "rhizobacterium japonicum" kirchner 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JFU FirstGlance]. <br>		<table><tr><td colspan='2'>[[1jfu]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"rhizobacterium_japonicum"_kirchner_1896 "rhizobacterium japonicum" kirchner 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JFU FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TLPA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=375 "Rhizobacterium japonicum" Kirchner 1896])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TLPA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=375 "Rhizobacterium japonicum" Kirchner 1896])</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=1jfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jfu OCA], [http://pdbe.org/1jfu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1jfu RCSB], [http://www.ebi.ac.uk/pdbsum/1jfu 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=1jfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jfu OCA], [http://pdbe.org/1jfu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1jfu RCSB], [http://www.ebi.ac.uk/pdbsum/1jfu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1jfu ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 12:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jf/1jfu_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jf/1jfu_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 05:39, 10 February 2016

OCA — Wed, 10 Feb 2016 05:39:56 GMT

←Older revision		Revision as of 05:39, 10 February 2016
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	<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=1jfu ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 05:54, 11 September 2015

OCA — Fri, 11 Sep 2015 05:54:24 GMT

←Older revision		Revision as of 05:54, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1jfu' size='340' side='right' caption='[[1jfu]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1jfu' size='340' side='right' caption='[[1jfu]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1jfu]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Bradyrhizobium_japonicum Bradyrhizobium~~ japonicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JFU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1jfu]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"rhizobacterium_japonicum"_kirchner_1896 "rhizobacterium japonicum" kirchner 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JFU FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TLPA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=375 ~~Bradyrhizobium~~ japonicum])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TLPA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=375 "Rhizobacterium japonicum" Kirchner 1896])</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=1jfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jfu OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1jfu RCSB], [http://www.ebi.ac.uk/pdbsum/1jfu 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=1jfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jfu OCA], [http://pdbe.org/1jfu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1jfu RCSB], [http://www.ebi.ac.uk/pdbsum/1jfu PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~TLPA_BRAJA TLPA_BRAJA~~]] Involved in cytochrome aa3 assembly.	+	[[http://www.uniprot.org/uniprot/TLPA_BRADU TLPA_BRADU]] Involved in cytochrome aa3 assembly.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 26:		Line 26:
	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 1jfu" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bradyrhizobium~~ japonicum]]	+	[[Category: Rhizobacterium japonicum kirchner 1896]]
	[[Category: Capitani, G]]		[[Category: Capitani, G]]
	[[Category: Gruetter, M G]]		[[Category: Gruetter, M G]]

OCA at 12:11, 25 December 2014

OCA — Thu, 25 Dec 2014 12:11:48 GMT

←Older revision		Revision as of 12:11, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1jfu]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bradyrhizobium_japonicum Bradyrhizobium japonicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JFU FirstGlance]. <br>		<table><tr><td colspan='2'>[[1jfu]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bradyrhizobium_japonicum Bradyrhizobium japonicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JFU FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TLPA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=375 Bradyrhizobium japonicum])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TLPA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=375 Bradyrhizobium japonicum])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1jfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jfu OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1jfu RCSB], [http://www.ebi.ac.uk/pdbsum/1jfu 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=1jfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jfu OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1jfu RCSB], [http://www.ebi.ac.uk/pdbsum/1jfu PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TLPA_BRAJA TLPA_BRAJA]] Involved in cytochrome aa3 assembly.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Bradyrhizobium japonicum]]		[[Category: Bradyrhizobium japonicum]]
-	[[Category: Capitani, G.]]	+	[[Category: Capitani, G]]
-	[[Category: Gruetter, M G.]]	+	[[Category: Gruetter, M G]]
-	[[Category: Hennecke, H.]]	+	[[Category: Hennecke, H]]
-	[[Category: Richmond, T J.]]	+	[[Category: Richmond, T J]]
-	[[Category: Rossmann, R.]]	+	[[Category: Rossmann, R]]
-	[[Category: Sargent, D F.]]	+	[[Category: Sargent, D F]]
	[[Category: Double disulfide bridge]]		[[Category: Double disulfide bridge]]
	[[Category: Membrane protein]]		[[Category: Membrane protein]]
	[[Category: Thioredoxin-like]]		[[Category: Thioredoxin-like]]

OCA at 09:51, 28 September 2014

OCA — Sun, 28 Sep 2014 09:51:35 GMT

←Older revision		Revision as of 09:51, 28 September 2014
Line 1:		Line 1:
-	[[~~Image~~:1jfu.~~png\|left~~\|200px]]	+	==CRYSTAL STRUCTURE OF THE SOLUBLE DOMAIN OF TLPA FROM BRADYRHIZOBIUM JAPONICUM==
		+	<StructureSection load='1jfu' size='340' side='right' caption='[[1jfu]], [[Resolution\|resolution]] 1.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1jfu]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bradyrhizobium_japonicum Bradyrhizobium japonicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1JFU FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TLPA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=375 Bradyrhizobium japonicum])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1jfu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jfu OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1jfu RCSB], [http://www.ebi.ac.uk/pdbsum/1jfu 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/jf/1jfu_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 ==
		+	TlpA is an unusual thioredoxin-like protein present in the nitrogen-fixing soil bacterium Bradyrhizobium japonicum. A hydrophobic N-terminal transmembrane domain anchors it to the cytoplasmic membrane, whereby the hydrophilic thioredoxin domain becomes exposed to the periplasmic space. There, TlpA catalyses an essential reaction, probably a reduction, in the biogenesis of cytochrome aa(3). The soluble thioredoxin domain (TlpA(sol)), devoid of the membrane anchor, was purified and crystallized. Oxidized TlpA(sol) crystallized as a non-covalent dimer in the space group P2(1)2(1)2(1). The X-ray structure analysis was carried out by isomorphous replacement using a xenon derivative. This resulted in a high-resolution (1.6 A) three-dimensional structure that displayed all of the features of a classical thioredoxin fold. A number of peculiar structural details were uncovered: (i) Only one of the two active-site-cysteine sulphurs (Cys72, the one closer to the N terminus) is exposed on the surface, making it the likely nucleophile for the reduction of target proteins. (ii) TlpA(sol) possesses a unique structural disulphide bond, formed between Cys10 and Cys155, which connects an unprecedented N-terminal alpha helix with a beta sheet near the C terminus. (iii) An insertion of about 25 amino acid residues, not found in the thioredoxin prototype of Escherichia coli, contributes only marginally to the thioredoxin fold, but forms an extra, surface-exposed alpha helix. This region plus another surface-exposed stretch (-Ile-Gly-Arg-Ala-), which is absent even in the closest TlpA relatives, might be considered as specificity determinants for the recognition of target proteins in the periplasm. The TlpA(sol) structure paves the way towards unraveling important structure-function relationships by rational mutagenesis.

-	~~{{STRUCTURE_1jfu\| PDB=1jfu \| SCENE= }}~~	+	Structure of the soluble domain of a membrane-anchored thioredoxin-like protein from Bradyrhizobium japonicum reveals unusual properties.,Capitani G, Rossmann R, Sargent DF, Grutter MG, Richmond TJ, Hennecke H J Mol Biol. 2001 Aug 31;311(5):1037-48. PMID:11531338<ref>PMID:11531338</ref>

-	~~===CRYSTAL STRUCTURE OF THE SOLUBLE DOMAIN OF TLPA FROM BRADYRHIZOBIUM JAPONICUM===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_11531338}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1jfu]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Bradyrhizobium_japonicum Bradyrhizobium japonicum]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:011531338<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Bradyrhizobium japonicum]]		[[Category: Bradyrhizobium japonicum]]
	[[Category: Capitani, G.]]		[[Category: Capitani, G.]]

OCA: Protected "1jfu" [edit=sysop:move=sysop]

OCA — Wed, 05 Dec 2012 11:38:13 GMT

Protected "1jfu" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:38, 5 December 2012

OCA at 11:38, 5 December 2012

OCA — Wed, 05 Dec 2012 11:38:11 GMT

←Older revision		Revision as of 11:38, 5 December 2012
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-	{{Seed}}
	[[Image:1jfu.png\|left\|200px]]		[[Image:1jfu.png\|left\|200px]]

-	<!--
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	{{STRUCTURE_1jfu\| PDB=1jfu \| SCENE= }}		{{STRUCTURE_1jfu\| PDB=1jfu \| SCENE= }}

	===CRYSTAL STRUCTURE OF THE SOLUBLE DOMAIN OF TLPA FROM BRADYRHIZOBIUM JAPONICUM===		===CRYSTAL STRUCTURE OF THE SOLUBLE DOMAIN OF TLPA FROM BRADYRHIZOBIUM JAPONICUM===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_11531338}}, adds the Publication Abstract to the page
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	{{ABSTRACT_PUBMED_11531338}}		{{ABSTRACT_PUBMED_11531338}}

	==About this Structure==		==About this Structure==
-	~~1JFU~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Bradyrhizobium_japonicum Bradyrhizobium japonicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA].	+	[[1jfu]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bradyrhizobium_japonicum Bradyrhizobium japonicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~11531338~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:011531338</ref><references group="xtra"/>
	[[Category: Bradyrhizobium japonicum]]		[[Category: Bradyrhizobium japonicum]]
	[[Category: Capitani, G.]]		[[Category: Capitani, G.]]
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	[[Category: Sargent, D F.]]		[[Category: Sargent, D F.]]
	[[Category: Double disulfide bridge]]		[[Category: Double disulfide bridge]]
		+	[[Category: Membrane protein]]
	[[Category: Thioredoxin-like]]		[[Category: Thioredoxin-like]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 15:51:37 2009''

OCA at 13:51, 17 February 2009

OCA — Tue, 17 Feb 2009 13:51:39 GMT

←Older revision		Revision as of 13:51, 17 February 2009
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	==About this Structure==		==About this Structure==
-	1JFU is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Bradyrhizobium_japonicum Bradyrhizobium japonicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA].	+	1JFU is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Bradyrhizobium_japonicum Bradyrhizobium japonicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JFU OCA].

	==Reference==		==Reference==
-	Structure of the soluble domain of a membrane-anchored thioredoxin-like protein from Bradyrhizobium japonicum reveals unusual properties., Capitani G, Rossmann R, Sargent DF, Grutter MG, Richmond TJ, Hennecke H, J Mol Biol. 2001 Aug 31;311(5):1037-48. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/11531338 11531338]~~	+	<ref group="xtra">PMID:11531338</ref><references group="xtra"/>
	[[Category: Bradyrhizobium japonicum]]		[[Category: Bradyrhizobium japonicum]]
-	[[Category: Single protein]]
	[[Category: Capitani, G.]]		[[Category: Capitani, G.]]
	[[Category: Gruetter, M G.]]		[[Category: Gruetter, M G.]]
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	[[Category: Thioredoxin-like]]		[[Category: Thioredoxin-like]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue ~~Jul 1 20~~:11:~~09 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 15:51:37 2009''