5a2o - Revision history

OCA at 11:35, 9 May 2024

2024-05-09T11:35:31Z

←Older revision		Revision as of 11:35, 9 May 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5a2o]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4cl5 4cl5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5A2O FirstGlance]. <br>		<table><tr><td colspan='2'>[[5a2o]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4cl5 4cl5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5A2O FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</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]] 3.71Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></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=5a2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5a2o OCA], [https://pdbe.org/5a2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5a2o RCSB], [https://www.ebi.ac.uk/pdbsum/5a2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5a2o 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=5a2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5a2o OCA], [https://pdbe.org/5a2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5a2o RCSB], [https://www.ebi.ac.uk/pdbsum/5a2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5a2o ProSAT]</span></td></tr>
	</table>		</table>

OCA at 04:35, 25 May 2023

2023-05-25T04:35:49Z

←Older revision		Revision as of 04:35, 25 May 2023
Line 3:		Line 3:
	<StructureSection load='5a2o' size='340' side='right'caption='[[5a2o]], [[Resolution\|resolution]] 3.71Å' scene=''>		<StructureSection load='5a2o' size='340' side='right'caption='[[5a2o]], [[Resolution\|resolution]] 3.71Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5a2o]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Arath Arath~~]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4cl5 4cl5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A2O OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5A2O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5a2o]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4cl5 4cl5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5A2O FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5a2n\|5a2n]]~~</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=5a2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5a2o OCA], [https://pdbe.org/5a2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5a2o RCSB], [https://www.ebi.ac.uk/pdbsum/5a2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5a2o ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5a2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5a2o OCA], [~~http~~://pdbe.org/5a2o PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5a2o RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5a2o PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5a2o ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PTR7_ARATH PTR7_ARATH]] Dual affinity nitrate transporter. Involved in proton-dependent nitrate uptake and in the regulation of the nitrate transporter NRT2.1. Acts also as a nitrate sensor that trigger a specific signaling pathway stimulating lateral root growth and seed germination. The uptake activity is not required for sensor function. Displays an auxin transport facilitation inhibited by high nitrate concentration. Required to prevent auxin accumulation in preemerged lateral root primordia and young lateral roots when external nitrate concentration is low or null. May be involved in the basipetal transport of auxin out of the lateral root tips. Acts as a bidirectional transporter involved in root-to-shoot nitrate translocation.<ref>PMID:8453665</ref> <ref>PMID:9844028</ref> <ref>PMID:12606566</ref> <ref>PMID:12509525</ref> <ref>PMID:15319483</ref> <ref>PMID:17148611</ref> <ref>PMID:19766570</ref> <ref>PMID:19633234</ref> <ref>PMID:20627075</ref>	+	[https://www.uniprot.org/uniprot/PTR7_ARATH PTR7_ARATH] Dual affinity nitrate transporter. Involved in proton-dependent nitrate uptake and in the regulation of the nitrate transporter NRT2.1. Acts also as a nitrate sensor that trigger a specific signaling pathway stimulating lateral root growth and seed germination. The uptake activity is not required for sensor function. Displays an auxin transport facilitation inhibited by high nitrate concentration. Required to prevent auxin accumulation in preemerged lateral root primordia and young lateral roots when external nitrate concentration is low or null. May be involved in the basipetal transport of auxin out of the lateral root tips. Acts as a bidirectional transporter involved in root-to-shoot nitrate translocation.<ref>PMID:8453665</ref> <ref>PMID:9844028</ref> <ref>PMID:12606566</ref> <ref>PMID:12509525</ref> <ref>PMID:15319483</ref> <ref>PMID:17148611</ref> <ref>PMID:19766570</ref> <ref>PMID:19633234</ref> <ref>PMID:20627075</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Arath~~]]	+	[[Category: Arabidopsis thaliana]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Newstead, S]]	+	[[Category: Newstead S]]
-	[[Category: Parker~~, J L]]~~	+	[[Category: Parker JL]]
-	~~[[Category: Mf]]~~	+
-	~~[[Category: Mfs transporter]]~~	+
-	~~[[Category: Nitrate]]~~	+
-	~~[[Category: Npf family]]~~	+
-	~~[[Category: Nrt1/ptr family]]~~	+
-	~~[[Category: Pot family]]~~	+
-	~~[[Category: Transport protein]]~~	+
-	~~[[Category: Transporter~~]]	+

OCA at 06:08, 10 July 2019

2019-07-10T06:08:18Z

←Older revision		Revision as of 06:08, 10 July 2019
Line 1:		Line 1:

	==Crystal structure of the nitrate transporter NRT1.1 from Arabidopsis thaliana in complex with nitrate.==		==Crystal structure of the nitrate transporter NRT1.1 from Arabidopsis thaliana in complex with nitrate.==
-	<StructureSection load='5a2o' size='340' side='right' caption='[[5a2o]], [[Resolution\|resolution]] 3.71Å' scene=''>	+	<StructureSection load='5a2o' size='340' side='right'caption='[[5a2o]], [[Resolution\|resolution]] 3.71Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5a2o]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4cl5 4cl5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5A2O FirstGlance]. <br>		<table><tr><td colspan='2'>[[5a2o]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4cl5 4cl5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5A2O FirstGlance]. <br>
Line 24:		Line 24:
	</StructureSection>		</StructureSection>
	[[Category: Arath]]		[[Category: Arath]]
		+	[[Category: Large Structures]]
	[[Category: Newstead, S]]		[[Category: Newstead, S]]
	[[Category: Parker, J L]]		[[Category: Parker, J L]]

OCA at 15:47, 27 February 2019

2019-02-27T15:47:20Z

←Older revision		Revision as of 15:47, 27 February 2019
Line 3:		Line 3:
	<StructureSection load='5a2o' size='340' side='right' caption='[[5a2o]], [[Resolution\|resolution]] 3.71Å' scene=''>		<StructureSection load='5a2o' size='340' side='right' caption='[[5a2o]], [[Resolution\|resolution]] 3.71Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5a2o]] is a 2 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4cl5 4cl5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5A2O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5a2o]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4cl5 4cl5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5A2O FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5a2n\|5a2n]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5a2n\|5a2n]]</td></tr>
Line 23:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Arath]]
	[[Category: Newstead, S]]		[[Category: Newstead, S]]
	[[Category: Parker, J L]]		[[Category: Parker, J L]]

OCA at 17:07, 22 March 2017

2017-03-22T17:07:35Z

←Older revision		Revision as of 17:07, 22 March 2017
Line 1:		Line 1:
		+
	==Crystal structure of the nitrate transporter NRT1.1 from Arabidopsis thaliana in complex with nitrate.==		==Crystal structure of the nitrate transporter NRT1.1 from Arabidopsis thaliana in complex with nitrate.==
	<StructureSection load='5a2o' size='340' side='right' caption='[[5a2o]], [[Resolution\|resolution]] 3.71Å' scene=''>		<StructureSection load='5a2o' size='340' side='right' caption='[[5a2o]], [[Resolution\|resolution]] 3.71Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5a2n\|5a2n]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5a2n\|5a2n]]</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=5a2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5a2o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=5a2o RCSB], [http://www.ebi.ac.uk/pdbsum/5a2o 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=5a2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5a2o OCA], [http://pdbe.org/5a2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5a2o RCSB], [http://www.ebi.ac.uk/pdbsum/5a2o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5a2o ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	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 5a2o" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 14:51, 17 June 2015

2015-06-17T14:51:31Z

←Older revision		Revision as of 14:51, 17 June 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Crystal structure of the nitrate transporter NRT1.1 from Arabidopsis thaliana in complex with nitrate.==
		+	<StructureSection load='5a2o' size='340' side='right' caption='[[5a2o]], [[Resolution\|resolution]] 3.71Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5a2o]] is a 2 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4cl5 4cl5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5A2O FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5a2n\|5a2n]]</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=5a2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5a2o OCA], [http://www.rcsb.org/pdb/explore.do?structureId=5a2o RCSB], [http://www.ebi.ac.uk/pdbsum/5a2o PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PTR7_ARATH PTR7_ARATH]] Dual affinity nitrate transporter. Involved in proton-dependent nitrate uptake and in the regulation of the nitrate transporter NRT2.1. Acts also as a nitrate sensor that trigger a specific signaling pathway stimulating lateral root growth and seed germination. The uptake activity is not required for sensor function. Displays an auxin transport facilitation inhibited by high nitrate concentration. Required to prevent auxin accumulation in preemerged lateral root primordia and young lateral roots when external nitrate concentration is low or null. May be involved in the basipetal transport of auxin out of the lateral root tips. Acts as a bidirectional transporter involved in root-to-shoot nitrate translocation.<ref>PMID:8453665</ref> <ref>PMID:9844028</ref> <ref>PMID:12606566</ref> <ref>PMID:12509525</ref> <ref>PMID:15319483</ref> <ref>PMID:17148611</ref> <ref>PMID:19766570</ref> <ref>PMID:19633234</ref> <ref>PMID:20627075</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The NRT1/PTR family of proton-coupled transporters are responsible for nitrogen assimilation in eukaryotes and bacteria through the uptake of peptides. However, in most plant species members of this family have evolved to transport nitrate as well as additional secondary metabolites and hormones. In response to falling nitrate levels, NRT1.1 is phosphorylated on an intracellular threonine that switches the transporter from a low-affinity to high-affinity state. Here we present both the apo and nitrate-bound crystal structures of Arabidopsis thaliana NRT1.1, which together with in vitro binding and transport data identify a key role for His 356 in nitrate binding. Our data support a model whereby phosphorylation increases structural flexibility and in turn the rate of transport. Comparison with peptide transporters further reveals how the NRT1/PTR family has evolved to recognize diverse nitrogenous ligands, while maintaining elements of a conserved coupling mechanism within this superfamily of nutrient transporters.

-	~~The entry 5a2o is ON HOLD~~	+	Molecular basis of nitrate uptake by the plant nitrate transporter NRT1.1.,Parker JL, Newstead S Nature. 2014 Mar 6;507(7490):68-72. doi: 10.1038/nature13116. Epub 2014 Feb 26. PMID:24572366<ref>PMID:24572366</ref>

-	~~Authors: Parker~~, J.~~L., Newstead,~~ S.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description: Crystal structure of the nitrate transporter NRT1.1 from Arabidopsis thaliana in complex with nitrate.~~	+	== References ==
-	~~[[Category: Unreleased Structures]]~~	+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Newstead, S]]		[[Category: Newstead, S]]
-	[[Category: Parker, J.L]]	+	[[Category: Parker, J L]]
		+	[[Category: Mf]]
		+	[[Category: Mfs transporter]]
		+	[[Category: Nitrate]]
		+	[[Category: Npf family]]
		+	[[Category: Nrt1/ptr family]]
		+	[[Category: Pot family]]
		+	[[Category: Transport protein]]
		+	[[Category: Transporter]]

OCA: Protected "5a2o" [edit=sysop:move=sysop]

2015-05-27T15:03:42Z

Protected "5a2o" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:03, 27 May 2015

OCA: New page: '''Unreleased structure''' The entry 5a2o is ON HOLD Authors: Parker, J.L., Newstead, S. Description: Crystal structure of the nitrate transporter NRT1.1 from Arabidopsis thaliana in c...

2015-05-27T15:03:41Z

New page: '''Unreleased structure''' The entry 5a2o is ON HOLD Authors: Parker, J.L., Newstead, S. Description: Crystal structure of the nitrate transporter NRT1.1 from Arabidopsis thaliana in c...

New page

'''Unreleased structure'''

The entry 5a2o is ON HOLD

Authors: Parker, J.L., Newstead, S.

Description: Crystal structure of the nitrate transporter NRT1.1 from Arabidopsis thaliana in complex with nitrate.
[[Category: Unreleased Structures]]
[[Category: Newstead, S]]
[[Category: Parker, J.L]]