4rl9 - Revision history

OCA at 12:53, 1 March 2024

2024-03-01T12:53:29Z

←Older revision		Revision as of 12:53, 1 March 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4rl9]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Acinetobacter_baumannii Acinetobacter baumannii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RL9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RL9 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4rl9]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Acinetobacter_baumannii Acinetobacter baumannii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RL9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RL9 FirstGlance]. <br>
-	</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=4rl9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rl9 OCA], [https://pdbe.org/4rl9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rl9 RCSB], [https://www.ebi.ac.uk/pdbsum/4rl9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rl9 ProSAT]</span></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]] 2.7Å</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=4rl9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rl9 OCA], [https://pdbe.org/4rl9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rl9 RCSB], [https://www.ebi.ac.uk/pdbsum/4rl9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rl9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/A6XB80_ACIBA A6XB80_ACIBA]		[https://www.uniprot.org/uniprot/A6XB80_ACIBA A6XB80_ACIBA]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Outer membrane (OM) beta-barrel proteins composed of 12-18 beta-strands mediate cellular entry of small molecules in Gram-negative bacteria. Small OM proteins with barrels of 10 strands or less are not known to transport small molecules. CarO (carbapenem-associated outer membrane protein) from Acinetobacter baumannii is a small OM protein that has been implicated in the uptake of ornithine and carbapenem antibiotics. Here we report crystal structures of three isoforms of CarO. The structures are very similar and show a monomeric eight-stranded barrel lacking an open channel. CarO has a substantial extracellular domain resembling a glove that contains all the divergent residues between the different isoforms. Liposome swelling experiments demonstrate that full-length CarO and a "loop-less" truncation mutant mediate small-molecule uptake at low levels but that they are unlikely to mediate passage of carbapenem antibiotics. These results are confirmed by biased molecular dynamics simulations that allowed us to quantitatively model the transport of selected small molecules.
-
-	Small-Molecule Transport by CarO, an Abundant Eight-Stranded beta-Barrel Outer Membrane Protein from Acinetobacterbaumannii.,Zahn M, D'Agostino T, Eren E, Basle A, Ceccarelli M, van den Berg B J Mol Biol. 2015 Apr 3. pii: S0022-2836(15)00201-6. doi:, 10.1016/j.jmb.2015.03.016. PMID:25846137<ref>PMID:25846137</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4rl9" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 07:02, 2 March 2023

2023-03-02T07:02:02Z

←Older revision		Revision as of 07:02, 2 March 2023
Line 3:		Line 3:
	<StructureSection load='4rl9' size='340' side='right'caption='[[4rl9]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='4rl9' size='340' side='right'caption='[[4rl9]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4rl9]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Aciba Aciba~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RL9 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4RL9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4rl9]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Acinetobacter_baumannii Acinetobacter baumannii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RL9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RL9 FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4fuv\|4fuv]], [[4rlb\|4rlb]], [[4rlc\|4rlc]]</td></tr>~~	+	</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=4rl9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rl9 OCA], [https://pdbe.org/4rl9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4rl9 RCSB], [https://www.ebi.ac.uk/pdbsum/4rl9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4rl9 ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">carO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=470 ACIBA])</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=4rl9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rl9 OCA], [~~http~~://pdbe.org/4rl9 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4rl9 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4rl9 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4rl9 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A6XB80_ACIBA A6XB80_ACIBA]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aciba~~]]	+	[[Category: Acinetobacter baumannii]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Basle, A]]	+	[[Category: Basle A]]
-	~~[[Category: Berg, B van den~~]]	+	[[Category: Zahn M]]
-	[[Category: Zahn, M]]	+	[[Category: Van den Berg B]]
-	[[Category: ~~Beta-barrel]]~~	+
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Outer membrane protein~~]]	+

OCA at 09:48, 1 May 2019

2019-05-01T09:48:36Z

←Older revision		Revision as of 09:48, 1 May 2019
Line 1:		Line 1:

	==Crystal structure of Acinetobacter baumannii CarO1==		==Crystal structure of Acinetobacter baumannii CarO1==
-	<StructureSection load='4rl9' size='340' side='right' caption='[[4rl9]], [[Resolution\|resolution]] 2.70Å' scene=''>	+	<StructureSection load='4rl9' size='340' side='right'caption='[[4rl9]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4rl9]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RL9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RL9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4rl9]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Aciba Aciba]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RL9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RL9 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4fuv\|4fuv]], [[4rlb\|4rlb]], [[4rlc\|4rlc]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4fuv\|4fuv]], [[4rlb\|4rlb]], [[4rlc\|4rlc]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">carO ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=470 ACIBA])</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=4rl9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rl9 OCA], [http://pdbe.org/4rl9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4rl9 RCSB], [http://www.ebi.ac.uk/pdbsum/4rl9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4rl9 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=4rl9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rl9 OCA], [http://pdbe.org/4rl9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4rl9 RCSB], [http://www.ebi.ac.uk/pdbsum/4rl9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4rl9 ProSAT]</span></td></tr>
	</table>		</table>
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Aciba]]
		+	[[Category: Large Structures]]
	[[Category: Basle, A]]		[[Category: Basle, A]]
	[[Category: Berg, B van den]]		[[Category: Berg, B van den]]

OCA at 14:25, 29 March 2017

2017-03-29T14:25:48Z

←Older revision		Revision as of 14:25, 29 March 2017
Line 1:		Line 1:
		+
	==Crystal structure of Acinetobacter baumannii CarO1==		==Crystal structure of Acinetobacter baumannii CarO1==
	<StructureSection load='4rl9' size='340' side='right' caption='[[4rl9]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='4rl9' size='340' side='right' caption='[[4rl9]], [[Resolution\|resolution]] 2.70Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[4rl9]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RL9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RL9 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4rl9]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RL9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RL9 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4fuv\|4fuv]], [[4rlb\|4rlb]], [[4rlc\|4rlc]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4fuv\|4fuv]], [[4rlb\|4rlb]], [[4rlc\|4rlc]]</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=4rl9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rl9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4rl9 RCSB], [http://www.ebi.ac.uk/pdbsum/4rl9 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=4rl9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rl9 OCA], [http://pdbe.org/4rl9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4rl9 RCSB], [http://www.ebi.ac.uk/pdbsum/4rl9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4rl9 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 14:		Line 15:
	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 4rl9" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 12:42, 22 April 2015

2015-04-22T12:42:16Z

←Older revision		Revision as of 12:42, 22 April 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Crystal structure of Acinetobacter baumannii CarO1==
		+	<StructureSection load='4rl9' size='340' side='right' caption='[[4rl9]], [[Resolution\|resolution]] 2.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4rl9]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RL9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RL9 FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4fuv\|4fuv]], [[4rlb\|4rlb]], [[4rlc\|4rlc]]</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=4rl9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4rl9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4rl9 RCSB], [http://www.ebi.ac.uk/pdbsum/4rl9 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Outer membrane (OM) beta-barrel proteins composed of 12-18 beta-strands mediate cellular entry of small molecules in Gram-negative bacteria. Small OM proteins with barrels of 10 strands or less are not known to transport small molecules. CarO (carbapenem-associated outer membrane protein) from Acinetobacter baumannii is a small OM protein that has been implicated in the uptake of ornithine and carbapenem antibiotics. Here we report crystal structures of three isoforms of CarO. The structures are very similar and show a monomeric eight-stranded barrel lacking an open channel. CarO has a substantial extracellular domain resembling a glove that contains all the divergent residues between the different isoforms. Liposome swelling experiments demonstrate that full-length CarO and a "loop-less" truncation mutant mediate small-molecule uptake at low levels but that they are unlikely to mediate passage of carbapenem antibiotics. These results are confirmed by biased molecular dynamics simulations that allowed us to quantitatively model the transport of selected small molecules.

-	~~The entry 4rl9 is ON HOLD~~	+	Small-Molecule Transport by CarO, an Abundant Eight-Stranded beta-Barrel Outer Membrane Protein from Acinetobacterbaumannii.,Zahn M, D'Agostino T, Eren E, Basle A, Ceccarelli M, van den Berg B J Mol Biol. 2015 Apr 3. pii: S0022-2836(15)00201-6. doi:, 10.1016/j.jmb.2015.03.016. PMID:25846137<ref>PMID:25846137</ref>

-	~~Authors: Zahn~~, M.~~, Basle, A~~.~~, van den Berg, B~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description: Crystal structure of Acinetobacter baumannii CarO1~~	+	== References ==
-	~~[[Category: Unreleased Structures]]~~	+	<references/>
-	~~[[Category: Van Den Berg, B]]~~	+	__TOC__
		+	</StructureSection>
	[[Category: Basle, A]]		[[Category: Basle, A]]
		+	[[Category: Berg, B van den]]
	[[Category: Zahn, M]]		[[Category: Zahn, M]]
		+	[[Category: Beta-barrel]]
		+	[[Category: Membrane protein]]
		+	[[Category: Outer membrane protein]]

OCA at 17:00, 24 December 2014

2014-12-24T17:00:13Z

←Older revision		Revision as of 17:00, 24 December 2014
Line 6:		Line 6:

	Description: Crystal structure of Acinetobacter baumannii CarO1		Description: Crystal structure of Acinetobacter baumannii CarO1
		+	[[Category: Unreleased Structures]]
		+	[[Category: Van Den Berg, B]]
		+	[[Category: Basle, A]]
		+	[[Category: Zahn, M]]

OCA: Protected "4rl9" [edit=sysop:move=sysop]

2014-10-22T09:46:23Z

Protected "4rl9" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:46, 22 October 2014

OCA: New page: '''Unreleased structure''' The entry 4rl9 is ON HOLD Authors: Zahn, M., Basle, A., van den Berg, B. Description: Crystal structure of Acinetobacter baumannii CarO1

2014-10-22T09:46:22Z

New page: '''Unreleased structure''' The entry 4rl9 is ON HOLD Authors: Zahn, M., Basle, A., van den Berg, B. Description: Crystal structure of Acinetobacter baumannii CarO1

New page

'''Unreleased structure'''

The entry 4rl9 is ON HOLD

Authors: Zahn, M., Basle, A., van den Berg, B.

Description: Crystal structure of Acinetobacter baumannii CarO1