4ng7 - Revision history

OCA at 16:56, 20 September 2023

OCA — Wed, 20 Sep 2023 16:56:17 GMT

←Older revision		Revision as of 16:56, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4ng7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Citrobacter_koseri_ATCC_BAA-895 Citrobacter koseri ATCC BAA-895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NG7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4NG7 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ng7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Citrobacter_koseri_ATCC_BAA-895 Citrobacter koseri ATCC BAA-895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NG7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4NG7 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=4ng7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ng7 OCA], [https://pdbe.org/4ng7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ng7 RCSB], [https://www.ebi.ac.uk/pdbsum/4ng7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ng7 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]] 2.3Å</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=4ng7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ng7 OCA], [https://pdbe.org/4ng7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ng7 RCSB], [https://www.ebi.ac.uk/pdbsum/4ng7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ng7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 08:27, 11 January 2023

OCA — Wed, 11 Jan 2023 08:27:20 GMT

←Older revision		Revision as of 08:27, 11 January 2023
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	==Crystal structure of a TRAP periplasmic solute binding protein from Citrobacter koseri (CKO_04899), Target EFI-510094, apo, open structure==		==Crystal structure of a TRAP periplasmic solute binding protein from Citrobacter koseri (CKO_04899), Target EFI-510094, apo, open structure==
-	<StructureSection load='4ng7' size='340' side='right' caption='[[4ng7]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='4ng7' size='340' side='right'caption='[[4ng7]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ng7]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Citk8 Citk8~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NG7 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4NG7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ng7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Citrobacter_koseri_ATCC_BAA-895 Citrobacter koseri ATCC BAA-895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NG7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4NG7 FirstGlance]. <br>
-	</td></tr>~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CKO_04899 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=290338 CITK8])</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=4ng7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ng7 OCA], [https://pdbe.org/4ng7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ng7 RCSB], [https://www.ebi.ac.uk/pdbsum/4ng7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ng7 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=4ng7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ng7 OCA], [~~http~~://pdbe.org/4ng7 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4ng7 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4ng7 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4ng7 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A8AR30_CITK8 A8AR30_CITK8]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Citk8~~]]	+	[[Category: Citrobacter koseri ATCC BAA-895]]
-	[[Category: ~~Almo, S C~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Attonito, J D~~]]	+	[[Category: Al Obaidi NF]]
-	[[Category: ~~Chowdhury, S~~]]	+	[[Category: Almo SC]]
-	[[Category: ~~EFI, Enzyme Function Initiative~~]]	+	[[Category: Attonito JD]]
-	[[Category: ~~Evans, B~~]]	+	[[Category: Chowdhury S]]
-	[[Category: ~~Gerlt, J A~~]]	+	[[Category: Evans B]]
-	[[Category: ~~Glenn, A Scott~~]]	+	[[Category: Gerlt JA]]
-	[[Category: Hillerich, B]]	+	[[Category: Hillerich B]]
-	[[Category: Imker~~, H J~~]]	+	[[Category: Imker HJ]]
-	[[Category: Love, J]]	+	[[Category: Love J]]
-	[[Category: Morisco~~, L L~~]]	+	[[Category: Morisco LL]]
-	[[Category: ~~Obaidi, N F.Al~~]]	+	[[Category: Scott Glenn A]]
-	[[Category: Seidel~~, R D~~]]	+	[[Category: Seidel RD]]
-	[[Category: Sojitra, S]]	+	[[Category: Sojitra S]]
-	[[Category: Stead, M]]	+	[[Category: Stead M]]
-	[[Category: Vetting~~, M W~~]]	+	[[Category: Vetting MW]]
-	[[Category: Wasserman~~, S R]]~~	+	[[Category: Wasserman SR]]
-	~~[[Category: Efi]]~~	+
-	~~[[Category: Enzyme function initiative]]~~	+
-	~~[[Category: Structural genomic]]~~	+
-	~~[[Category: Transport protein]]~~	+
-	~~[[Category: Trap periplasmic solute binding family~~]]	+

OCA at 17:06, 2 January 2017

OCA — Mon, 02 Jan 2017 17:06:28 GMT

←Older revision		Revision as of 17:06, 2 January 2017
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		+
	==Crystal structure of a TRAP periplasmic solute binding protein from Citrobacter koseri (CKO_04899), Target EFI-510094, apo, open structure==		==Crystal structure of a TRAP periplasmic solute binding protein from Citrobacter koseri (CKO_04899), Target EFI-510094, apo, open structure==
	<StructureSection load='4ng7' size='340' side='right' caption='[[4ng7]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='4ng7' size='340' side='right' caption='[[4ng7]], [[Resolution\|resolution]] 2.30Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[4ng7]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Citk8 Citk8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NG7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NG7 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ng7]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Citk8 Citk8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NG7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NG7 FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CKO_04899 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=290338 CITK8])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CKO_04899 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=290338 CITK8])</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=4ng7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ng7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ng7 RCSB], [http://www.ebi.ac.uk/pdbsum/4ng7 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=4ng7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ng7 OCA], [http://pdbe.org/4ng7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ng7 RCSB], [http://www.ebi.ac.uk/pdbsum/4ng7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ng7 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 4ng7" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 08:18, 25 February 2015

OCA — Wed, 25 Feb 2015 08:18:40 GMT

←Older revision		Revision as of 08:18, 25 February 2015
Line 6:		Line 6:
	<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=4ng7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ng7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ng7 RCSB], [http://www.ebi.ac.uk/pdbsum/4ng7 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=4ng7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ng7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ng7 RCSB], [http://www.ebi.ac.uk/pdbsum/4ng7 PDBsum]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The rate at which genome sequencing data is accruing demands enhanced methods for functional annotation and metabolism discovery. Solute binding proteins (SBPs) facilitate the transport of the first reactant in a metabolic pathway, thereby constraining the regions of chemical space and the chemistries that must be considered for pathway reconstruction. We describe high-throughput protein production and differential scanning fluorimetry platforms, which enabled the screening of 158 SBPs against a 189 component library specifically tailored for this class of proteins. Like all screening efforts, this approach is limited by the practical constraints imposed by construction of the library, i.e., we can study only those metabolites that are known to exist and which can be made in sufficient quantities for experimentation. To move beyond these inherent limitations, we illustrate the promise of crystallographic- and mass spectrometric-based approaches for the unbiased use of entire metabolomes as screening libraries. Together, our approaches identified 40 new SBP ligands, generated experiment-based annotations for 2084 SBPs in 71 isofunctional clusters, and defined numerous metabolic pathways, including novel catabolic pathways for the utilization of ethanolamine as sole nitrogen source and the use of d-Ala-d-Ala as sole carbon source. These efforts begin to define an integrated strategy for realizing the full value of amassing genome sequence data.
		+
		+	Experimental strategies for functional annotation and metabolism discovery: targeted screening of solute binding proteins and unbiased panning of metabolomes.,Vetting MW, Al-Obaidi N, Zhao S, San Francisco B, Kim J, Wichelecki DJ, Bouvier JT, Solbiati JO, Vu H, Zhang X, Rodionov DA, Love JD, Hillerich BS, Seidel RD, Quinn RJ, Osterman AL, Cronan JE, Jacobson MP, Gerlt JA, Almo SC Biochemistry. 2015 Jan 27;54(3):909-31. doi: 10.1021/bi501388y. Epub 2015 Jan 16. PMID:25540822<ref>PMID:25540822</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 08:46, 5 January 2015

OCA — Mon, 05 Jan 2015 08:46:11 GMT

←Older revision		Revision as of 08:46, 5 January 2015
Line 1:		Line 1:
-	~~{{STRUCTURE_4ng7\| PDB=4ng7 \| SCENE= }}~~	+	==Crystal structure of a TRAP periplasmic solute binding protein from Citrobacter koseri (CKO_04899), Target EFI-510094, apo, open structure==
-	===Crystal structure of a TRAP periplasmic solute binding protein from Citrobacter koseri (CKO_04899), Target EFI-510094, apo, open structure===	+	<StructureSection load='4ng7' size='340' side='right' caption='[[4ng7]], [[Resolution\|resolution]] 2.30Å' scene=''>
-		+	== Structural highlights ==
-	==~~About this Structure~~==	+	<table><tr><td colspan='2'>[[4ng7]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Citk8 Citk8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NG7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NG7 FirstGlance]. <br>
-	[[4ng7]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NG7 OCA].	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CKO_04899 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=290338 CITK8])</td></tr>
-	[[Category: Almo, S C.]]	+	<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=4ng7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ng7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ng7 RCSB], [http://www.ebi.ac.uk/pdbsum/4ng7 PDBsum]</span></td></tr>
-	[[Category: Attonito, J D.]]	+	</table>
-	[[Category: Chowdhury, S.]]	+	__TOC__
-	[[Category: EFI, Enzyme Function Initiative.]]	+	</StructureSection>
-	[[Category: Evans, B.]]	+	[[Category: Citk8]]
-	[[Category: Gerlt, J A.]]	+	[[Category: Almo, S C]]
-	[[Category: Glenn, A Scott.]]	+	[[Category: Attonito, J D]]
-	[[Category: Hillerich, B.]]	+	[[Category: Chowdhury, S]]
-	[[Category: Imker, H J.]]	+	[[Category: EFI, Enzyme Function Initiative]]
-	[[Category: Love, J.]]	+	[[Category: Evans, B]]
-	[[Category: Morisco, L L.]]	+	[[Category: Gerlt, J A]]
-	[[Category: Obaidi, N F.Al.]]	+	[[Category: Glenn, A Scott]]
-	[[Category: Seidel, R D.]]	+	[[Category: Hillerich, B]]
-	[[Category: Sojitra, S.]]	+	[[Category: Imker, H J]]
-	[[Category: Stead, M.]]	+	[[Category: Love, J]]
-	[[Category: Vetting, M W.]]	+	[[Category: Morisco, L L]]
-	[[Category: Wasserman, S R.]]	+	[[Category: Obaidi, N F.Al]]
		+	[[Category: Seidel, R D]]
		+	[[Category: Sojitra, S]]
		+	[[Category: Stead, M]]
		+	[[Category: Vetting, M W]]
		+	[[Category: Wasserman, S R]]
	[[Category: Efi]]		[[Category: Efi]]
	[[Category: Enzyme function initiative]]		[[Category: Enzyme function initiative]]

OCA at 13:48, 20 November 2013

OCA — Wed, 20 Nov 2013 13:48:10 GMT

←Older revision		Revision as of 13:48, 20 November 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4ng7\| PDB=4ng7 \| SCENE= }}
		+	===Crystal structure of a TRAP periplasmic solute binding protein from Citrobacter koseri (CKO_04899), Target EFI-510094, apo, open structure===

-	~~The entry~~ 4ng7 is ~~ON HOLD~~	+	==About this Structure==
-		+	[[4ng7]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NG7 OCA].
-	~~Authors~~: ~~Vetting, M~~.W.~~, Al Obaidi, N~~.F.~~, Morisco, L.L., Wasserman~~, S.~~R., Sojitra, S., Stead, M.,~~ Attonito, J.D.~~, Scott Glenn, A.,~~ Chowdhury, S., Evans, B., Hillerich, B., Love, J., Seidel, R.D., ~~Imker~~, ~~H.J~~., ~~Gerlt, J.A~~.~~, Almo~~, S.~~C.,~~ Enzyme ~~Function Initiative (EFI)~~	+	[[Category: Almo, S C.]]
-		+	[[Category: Attonito, J D.]]
-	~~Description~~: ~~Crystal structure of a TRAP~~ periplasmic solute binding ~~protein from Citrobacter koseri (CKO_04899), Target EFI-510094, apo, open structure~~	+	[[Category: Chowdhury, S.]]
		+	[[Category: EFI, Enzyme Function Initiative.]]
		+	[[Category: Evans, B.]]
		+	[[Category: Gerlt, J A.]]
		+	[[Category: Glenn, A Scott.]]
		+	[[Category: Hillerich, B.]]
		+	[[Category: Imker, H J.]]
		+	[[Category: Love, J.]]
		+	[[Category: Morisco, L L.]]
		+	[[Category: Obaidi, N F.Al.]]
		+	[[Category: Seidel, R D.]]
		+	[[Category: Sojitra, S.]]
		+	[[Category: Stead, M.]]
		+	[[Category: Vetting, M W.]]
		+	[[Category: Wasserman, S R.]]
		+	[[Category: Efi]]
		+	[[Category: Enzyme function initiative]]
		+	[[Category: Structural genomic]]
		+	[[Category: Transport protein]]
		+	[[Category: Trap periplasmic solute binding family]]

OCA: Protected "4ng7" [edit=sysop:move=sysop]

OCA — Wed, 13 Nov 2013 07:47:37 GMT

Protected "4ng7" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:47, 13 November 2013

OCA: New page: '''Unreleased structure''' The entry 4ng7 is ON HOLD Authors: Vetting, M.W., Al Obaidi, N.F., Morisco, L.L., Wasserman, S.R., Sojitra, S., Stead, M., Attonito, J.D., Scott Glenn, A., Ch...

OCA — Wed, 13 Nov 2013 07:47:35 GMT

New page: '''Unreleased structure''' The entry 4ng7 is ON HOLD Authors: Vetting, M.W., Al Obaidi, N.F., Morisco, L.L., Wasserman, S.R., Sojitra, S., Stead, M., Attonito, J.D., Scott Glenn, A., Ch...

New page

'''Unreleased structure'''

The entry 4ng7 is ON HOLD

Authors: Vetting, M.W., Al Obaidi, N.F., Morisco, L.L., Wasserman, S.R., Sojitra, S., Stead, M., Attonito, J.D., Scott Glenn, A., Chowdhury, S., Evans, B., Hillerich, B., Love, J., Seidel, R.D., Imker, H.J., Gerlt, J.A., Almo, S.C., Enzyme Function Initiative (EFI)

Description: Crystal structure of a TRAP periplasmic solute binding protein from Citrobacter koseri (CKO_04899), Target EFI-510094, apo, open structure