4hmp - Revision history

OCA at 08:27, 3 November 2022

2022-11-03T08:27:23Z

←Older revision		Revision as of 08:27, 3 November 2022
Line 1:		Line 1:

	==Crystal structure of iron uptake ABC transporter substrate-binding protein PiaA from Streptococcus pneumoniae TIGR4==		==Crystal structure of iron uptake ABC transporter substrate-binding protein PiaA from Streptococcus pneumoniae TIGR4==
-	<StructureSection load='4hmp' size='340' side='right' caption='[[4hmp]], [[Resolution\|resolution]] 2.70Å' scene=''>	+	<StructureSection load='4hmp' size='340' side='right'caption='[[4hmp]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4hmp]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Strpn Strpn~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HMP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4HMP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4hmp]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_pneumoniae_TIGR4 Streptococcus pneumoniae TIGR4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HMP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HMP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=~~PG4~~:~~TETRAETHYLENE+GLYCOL~~'>~~PG4~~</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</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=4hmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hmp OCA], [https://pdbe.org/4hmp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hmp RCSB], [https://www.ebi.ac.uk/pdbsum/4hmp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hmp ProSAT]</span></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4hmo\|4hmo]], [[4hmq\|4hmq]]</td></tr>~~	+
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SP_1032 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=170187 STRPN])~~</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=4hmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hmp OCA], [~~http~~://pdbe.org/4hmp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4hmp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4hmp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4hmp ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A0H2UPT5_STRPN A0A0H2UPT5_STRPN]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 20:

	==See Also==		==See Also==
-	*[[ABC transporter\|ABC transporter]]	+	*[[ABC transporter 3D structures\|ABC transporter 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Strpn~~]]	+	[[Category: Large Structures]]
-	[[Category: Chen, Y]]	+	[[Category: Streptococcus pneumoniae TIGR4]]
-	[[Category: Cheng, W]]	+	[[Category: Chen Y]]
-	[[Category: Jiang, Y L]]	+	[[Category: Cheng W]]
-	[[Category: Li, Q]]	+	[[Category: Jiang Y-L]]
-	[[Category: Zhou, C Z]]	+	[[Category: Li Q]]
-	~~[[Category: Alpha and beta protein]]~~	+	[[Category: Zhou C-Z]]
-	~~[[Category: Class iii substrate binding protein]]~~	+
-	~~[[Category: Hydroxamate siderophore]]~~	+
-	~~[[Category: Iron uptake abc transporter system substrate-binding protein]]~~	+
-	~~[[Category: Membrane-anchored lipoprotein]]~~	+
-	~~[[Category: Periplasmic binding protein type iii fold]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 09:34, 11 August 2016

2016-08-11T09:34:39Z

←Older revision		Revision as of 09:34, 11 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of iron uptake ABC transporter substrate-binding protein PiaA from Streptococcus pneumoniae TIGR4==		==Crystal structure of iron uptake ABC transporter substrate-binding protein PiaA from Streptococcus pneumoniae TIGR4==
	<StructureSection load='4hmp' size='340' side='right' caption='[[4hmp]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='4hmp' size='340' side='right' caption='[[4hmp]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4hmp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Streptococcus_pneumoniae_tigr4 Streptococcus pneumoniae tigr4~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HMP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HMP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4hmp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Strpn Strpn]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HMP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HMP FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4hmo\|4hmo]], [[4hmq\|4hmq]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4hmo\|4hmo]], [[4hmq\|4hmq]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SP_1032 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=170187 ~~Streptococcus pneumoniae TIGR4~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SP_1032 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=170187 STRPN])</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=4hmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hmp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4hmp RCSB], [http://www.ebi.ac.uk/pdbsum/4hmp 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=4hmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hmp OCA], [http://pdbe.org/4hmp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4hmp RCSB], [http://www.ebi.ac.uk/pdbsum/4hmp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4hmp ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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 4hmp" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[ABC transporter\|ABC transporter]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Streptococcus pneumoniae tigr4~~]]	+	[[Category: Strpn]]
	[[Category: Chen, Y]]		[[Category: Chen, Y]]
	[[Category: Cheng, W]]		[[Category: Cheng, W]]

OCA at 12:59, 5 January 2015

2015-01-05T12:59:08Z

←Older revision		Revision as of 12:59, 5 January 2015
Line 1:		Line 1:
-	~~{{STRUCTURE_4hmp\| PDB=4hmp \| SCENE= }}~~	+	==Crystal structure of iron uptake ABC transporter substrate-binding protein PiaA from Streptococcus pneumoniae TIGR4==
-	===Crystal structure of iron uptake ABC transporter substrate-binding protein PiaA from Streptococcus pneumoniae TIGR4===	+	<StructureSection load='4hmp' size='340' side='right' caption='[[4hmp]], [[Resolution\|resolution]] 2.70Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23951167}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4hmp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae_tigr4 Streptococcus pneumoniae tigr4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HMP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HMP FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4hmo\|4hmo]], [[4hmq\|4hmq]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SP_1032 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=170187 Streptococcus pneumoniae TIGR4])</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=4hmp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hmp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4hmp RCSB], [http://www.ebi.ac.uk/pdbsum/4hmp PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Iron scarcity is one of the nutrition limitations that the Gram-positive infectious pathogens Streptococcus pneumoniae encounter in the human host. To guarantee sufficient iron supply, the ATP binding cassette (ABC) transporter Pia is employed to uptake iron chelated by hydroxamate siderophore, via the membrane-anchored substrate-binding protein PiaA. The high affinity towards ferrichrome enables PiaA to capture iron at a very low concentration in the host. We presented here the crystal structures of PiaA in both apo and ferrichrome-complexed forms at 2.7 and 2.1 A resolution, respectively. Similar to other class III substrate binding proteins, PiaA is composed of an N-terminal and a C-terminal domain bridged by an alpha-helix. At the inter-domain cleft, a molecule of ferrichrome is stabilized by a number of highly conserved residues. Upon ferrichrome binding, two highly flexible segments at the entrance of the cleft undergo significant conformational changes, indicating their contribution to the binding and/or release of ferrichrome. Superposition to the structure of Escherichia coli ABC transporter BtuF enabled us to define two conserved residues: Glu119 and Glu262, which were proposed to form salt bridges with two arginines of the permease subunits. Further structure-based sequence alignment revealed that the ferrichrome binding pattern is highly conserved in a series of PiaA homologs encoded by both Gram-positive and negative bacteria, which were predicted to be sensitive to albomycin, a sideromycin antibiotic derived from ferrichrome.

-	~~==About this Structure==~~	+	Structures of Streptococcus pneumoniae PiaA and Its Complex with Ferrichrome Reveal Insights into the Substrate Binding and Release of High Affinity Iron Transporters.,Cheng W, Li Q, Jiang YL, Zhou CZ, Chen Y PLoS One. 2013;8(8):e71451. doi: 10.1371/journal.pone.0071451. PMID:23951167<ref>PMID:23951167</ref>
-	~~[[4hmp]] is a 2 chain structure~~ with ~~sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Streptococcus_pneumoniae_tigr4 Streptococcus pneumoniae tigr4]~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=4HMP OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:023951167</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Streptococcus pneumoniae tigr4]]		[[Category: Streptococcus pneumoniae tigr4]]
-	[[Category: Chen, Y.]]	+	[[Category: Chen, Y]]
-	[[Category: Cheng, W.]]	+	[[Category: Cheng, W]]
-	[[Category: Jiang, Y L.]]	+	[[Category: Jiang, Y L]]
-	[[Category: Li, Q.]]	+	[[Category: Li, Q]]
-	[[Category: Zhou, C Z.]]	+	[[Category: Zhou, C Z]]
	[[Category: Alpha and beta protein]]		[[Category: Alpha and beta protein]]
	[[Category: Class iii substrate binding protein]]		[[Category: Class iii substrate binding protein]]

OCA at 10:48, 4 September 2013

2013-09-04T10:48:30Z

←Older revision		Revision as of 10:48, 4 September 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4hmp\| PDB=4hmp \| SCENE= }}
		+	===Crystal structure of iron uptake ABC transporter substrate-binding protein PiaA from Streptococcus pneumoniae TIGR4===
		+	{{ABSTRACT_PUBMED_23951167}}

-	~~The entry~~ 4hmp is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[4hmp]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae_tigr4 Streptococcus pneumoniae tigr4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HMP OCA].

-	~~Authors~~: Cheng, W.~~, Li, Q.,~~ Jiang, Y.-L., ~~Chen, Y~~., Zhou, C.-Z.	+	==Reference==
-		+	<ref group="xtra">PMID:023951167</ref><references group="xtra"/><references/>
-	~~Description~~: ~~Crystal structure of iron~~ uptake ~~ABC~~ transporter substrate-binding protein ~~PiaA from Streptococcus pneumoniae TIGR4~~	+	[[Category: Streptococcus pneumoniae tigr4]]
		+	[[Category: Chen, Y.]]
		+	[[Category: Cheng, W.]]
		+	[[Category: Jiang, Y L.]]
		+	[[Category: Li, Q.]]
		+	[[Category: Zhou, C Z.]]
		+	[[Category: Alpha and beta protein]]
		+	[[Category: Class iii substrate binding protein]]
		+	[[Category: Hydroxamate siderophore]]
		+	[[Category: Iron uptake abc transporter system substrate-binding protein]]
		+	[[Category: Membrane-anchored lipoprotein]]
		+	[[Category: Periplasmic binding protein type iii fold]]
		+	[[Category: Transport protein]]

OCA at 13:23, 8 November 2012

2012-11-08T13:23:20Z

←Older revision		Revision as of 13:23, 8 November 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4hmp is ON HOLD	+	The entry 4hmp is ON HOLD until Paper Publication

	Authors: Cheng, W., Li, Q., Jiang, Y.-L., Chen, Y., Zhou, C.-Z.		Authors: Cheng, W., Li, Q., Jiang, Y.-L., Chen, Y., Zhou, C.-Z.

	Description: Crystal structure of iron uptake ABC transporter substrate-binding protein PiaA from Streptococcus pneumoniae TIGR4		Description: Crystal structure of iron uptake ABC transporter substrate-binding protein PiaA from Streptococcus pneumoniae TIGR4

OCA at 08:41, 31 October 2012

2012-10-31T08:41:01Z

←Older revision		Revision as of 08:41, 31 October 2012
Line 3:		Line 3:
	The entry 4hmp is ON HOLD		The entry 4hmp is ON HOLD

-	Authors: ~~Wang~~ Cheng, ~~Qiong~~ Li, ~~Yong-Liang~~ Jiang, ~~Yuxing~~ Chen, ~~Cong-Zhao~~ Zhou	+	Authors: Cheng, W., Li, Q., Jiang, Y.-L., Chen, Y., Zhou, C.-Z.

	Description: Crystal structure of iron uptake ABC transporter substrate-binding protein PiaA from Streptococcus pneumoniae TIGR4		Description: Crystal structure of iron uptake ABC transporter substrate-binding protein PiaA from Streptococcus pneumoniae TIGR4

OCA: Protected "4hmp" [edit=sysop:move=sysop]

2012-10-24T07:15:21Z

Protected "4hmp" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:15, 24 October 2012

OCA: New page: '''Unreleased structure''' The entry 4hmp is ON HOLD Authors: Wang Cheng, Qiong Li, Yong-Liang Jiang, Yuxing Chen, Cong-Zhao Zhou Description: Crystal structure of iron uptake ABC tran...

2012-10-24T07:15:20Z

New page: '''Unreleased structure''' The entry 4hmp is ON HOLD Authors: Wang Cheng, Qiong Li, Yong-Liang Jiang, Yuxing Chen, Cong-Zhao Zhou Description: Crystal structure of iron uptake ABC tran...

New page

'''Unreleased structure'''

The entry 4hmp is ON HOLD

Authors: Wang Cheng, Qiong Li, Yong-Liang Jiang, Yuxing Chen, Cong-Zhao Zhou

Description: Crystal structure of iron uptake ABC transporter substrate-binding protein PiaA from Streptococcus pneumoniae TIGR4