7v0f - Revision history

OCA at 10:44, 22 May 2024

OCA — Wed, 22 May 2024 10:44:34 GMT

←Older revision		Revision as of 10:44, 22 May 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7v0f]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Acinetobacter_baumannii_ATCC_17978 Acinetobacter baumannii ATCC 17978]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V0F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V0F FirstGlance]. <br>		<table><tr><td colspan='2'>[[7v0f]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Acinetobacter_baumannii_ATCC_17978 Acinetobacter baumannii ATCC 17978]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V0F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V0F FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.35Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=7v0f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v0f OCA], [https://pdbe.org/7v0f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v0f RCSB], [https://www.ebi.ac.uk/pdbsum/7v0f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v0f 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=7v0f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v0f OCA], [https://pdbe.org/7v0f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v0f RCSB], [https://www.ebi.ac.uk/pdbsum/7v0f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v0f ProSAT]</span></td></tr>
	</table>		</table>

OCA at 08:13, 7 December 2022

OCA — Wed, 07 Dec 2022 08:13:10 GMT

←Older revision		Revision as of 08:13, 7 December 2022
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7v0f is ~~ON HOLD until Paper~~ Publication	+	==Structure of 6-carboxy-5,6,7,8-tetrahydropterin synthase paralog QueD2 from Acinetobacter baumannii==
		+	<StructureSection load='7v0f' size='340' side='right'caption='[[7v0f]], [[Resolution\|resolution]] 2.35Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[7v0f]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Acinetobacter_baumannii_ATCC_17978 Acinetobacter baumannii ATCC 17978]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V0F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V0F FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=7v0f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v0f OCA], [https://pdbe.org/7v0f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v0f RCSB], [https://www.ebi.ac.uk/pdbsum/7v0f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v0f ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A081GYS3_ACIBA A0A081GYS3_ACIBA]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In response to bacterial infection, the vertebrate host employs the metal-sequestering protein calprotectin (CP) to withhold essential transition metals, notably Zn(II), to inhibit bacterial growth. Previous studies of the impact of CP-imposed transition-metal starvation in A. baumannii identified two enzymes in the de novo biosynthesis pathway of queuosine-transfer ribonucleic acid (Q-tRNA) that become cellularly abundant, one of which is QueD2, a 6-carboxy-5,6,7,8-tetrahydropterin (6-CPH(4)) synthase that catalyzes the initial, committed step of the pathway. Here, we show that CP strongly disrupts Q incorporation into tRNA. As such, we compare the AbQueD2 "low-zinc" paralog with a housekeeping, obligatory Zn(II)-dependent enzyme QueD. The crystallographic structure of Zn(II)-bound AbQueD2 reveals a distinct catalytic site coordination sphere and assembly state relative to QueD and possesses a dynamic loop, immediately adjacent to the catalytic site that coordinates a second Zn(II) in the structure. One of these loop-coordinating residues is an invariant Cys18, that protects QueD2 from dissociation of the catalytic Zn(II) while maintaining flux through the Q-tRNA biosynthesis pathway in cells. We propose a "metal retention" model where Cys18 introduces coordinative plasticity into the catalytic site which slows metal release, while also enhancing the metal promiscuity such that Fe(II) becomes an active cofactor. These studies reveal a complex, multipronged evolutionary adaptation to cellular Zn(II) limitation in a key Zn(II) metalloenzyme in an important human pathogen.

-	~~Authors~~:	+	Metal retention and replacement in QueD2 protect queuosine-tRNA biosynthesis in metal-starved Acinetobacter baumannii.,Jordan MR, Gonzalez-Gutierrez G, Trinidad JC, Giedroc DP Proc Natl Acad Sci U S A. 2022 Dec 6;119(49):e2213630119. doi: , 10.1073/pnas.2213630119. Epub 2022 Nov 29. PMID:36442121<ref>PMID:36442121</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 7v0f" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Acinetobacter baumannii ATCC 17978]]
		+	[[Category: Large Structures]]
		+	[[Category: Giedroc DP]]
		+	[[Category: Gonzalez-Gutierrez G]]
		+	[[Category: Jordan MR]]

OCA: Protected "7v0f" [edit=sysop:move=sysop]

OCA — Wed, 18 May 2022 09:06:31 GMT

Protected "7v0f" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:06, 18 May 2022

OCA: New page: '''Unreleased structure''' The entry 7v0f is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 18 May 2022 09:06:30 GMT

New page: '''Unreleased structure''' The entry 7v0f is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7v0f is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]