7qpz - Revision history

OCA at 13:21, 1 February 2024

OCA — Thu, 01 Feb 2024 13:21:01 GMT

←Older revision		Revision as of 13:21, 1 February 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7qpz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7QPZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7QPZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[7qpz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7QPZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7QPZ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=F5I:cis-bis(mi2-acetato-O,+O)-tetraaquo-dirhodium(II)'>F5I</scene>, <scene name='pdbligand=F5T:cis-bis(mi2-acetato-O,+O)-(mi2-trifluoroacetato-O,+O)-diaquo-dirhodium+(II)'>F5T</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]] 1.45Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Pancreatic_ribonuclease Pancreatic ribonuclease], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.6.1.18 4.6.1.18] </span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=F5I:cis-bis(mi2-acetato-O,+O)-tetraaquo-dirhodium(II)'>F5I</scene>, <scene name='pdbligand=F5T:cis-bis(mi2-acetato-O,+O)-(mi2-trifluoroacetato-O,+O)-diaquo-dirhodium+(II)'>F5T</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=7qpz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7qpz OCA], [https://pdbe.org/7qpz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7qpz RCSB], [https://www.ebi.ac.uk/pdbsum/7qpz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7qpz 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=7qpz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7qpz OCA], [https://pdbe.org/7qpz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7qpz RCSB], [https://www.ebi.ac.uk/pdbsum/7qpz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7qpz ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/RNAS1_BOVIN RNAS1_BOVIN]] Endonuclease that catalyzes the cleavage of RNA on the 3' side of pyrimidine nucleotides. Acts on single stranded and double stranded RNA.<ref>PMID:7479688</ref>	+	[https://www.uniprot.org/uniprot/RNAS1_BOVIN RNAS1_BOVIN] Endonuclease that catalyzes the cleavage of RNA on the 3' side of pyrimidine nucleotides. Acts on single stranded and double stranded RNA.<ref>PMID:7479688</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 7qpz" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7qpz" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ribonuclease 3D structures\|Ribonuclease 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	[[Category: Bos taurus]]		[[Category: Bos taurus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Pancreatic ribonuclease]]~~	+	[[Category: Loreto D]]
-	[[Category: Loreto, D]]	+	[[Category: Merlino A]]
-	[[Category: Merlino, A]]	+
-	~~[[Category: Dimetallic paddlewheel complex]]~~	+
-	~~[[Category: Dirhodium tetraacetate derivative]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Protein metalation~~]]	+

OCA at 07:25, 9 March 2022

OCA — Wed, 09 Mar 2022 07:25:12 GMT

←Older revision		Revision as of 07:25, 9 March 2022
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	==X-ray structure of the adduct obtained upon reaction of [cis-Rh2(OCOCH3)2(OCOCF3)2] with RNase A (4)==		==X-ray structure of the adduct obtained upon reaction of [cis-Rh2(OCOCH3)2(OCOCF3)2] with RNase A (4)==
-	<StructureSection load='7qpz' size='340' side='right'caption='[[7qpz]]' scene=''>	+	<StructureSection load='7qpz' size='340' side='right'caption='[[7qpz]], [[Resolution\|resolution]] 1.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7QPZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7QPZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7qpz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7QPZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7QPZ 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=7qpz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7qpz OCA], [https://pdbe.org/7qpz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7qpz RCSB], [https://www.ebi.ac.uk/pdbsum/7qpz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7qpz ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=F5I:cis-bis(mi2-acetato-O,+O)-tetraaquo-dirhodium(II)'>F5I</scene>, <scene name='pdbligand=F5T:cis-bis(mi2-acetato-O,+O)-(mi2-trifluoroacetato-O,+O)-diaquo-dirhodium+(II)'>F5T</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Pancreatic_ribonuclease Pancreatic ribonuclease], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.6.1.18 4.6.1.18] </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=7qpz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7qpz OCA], [https://pdbe.org/7qpz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7qpz RCSB], [https://www.ebi.ac.uk/pdbsum/7qpz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7qpz ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/RNAS1_BOVIN RNAS1_BOVIN]] Endonuclease that catalyzes the cleavage of RNA on the 3' side of pyrimidine nucleotides. Acts on single stranded and double stranded RNA.<ref>PMID:7479688</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Dirhodium complexes of general formula [Rh2(O2CR)4]L2 are a well-known class of bimetallic compounds that are used as efficient catalysts for a variety of reactions and have been shown to be potent antibacterial and anticancer agents. The catalytic and biological properties of these complexes largely depend on the nature of the bridging carboxylate ligands. Trifluoroacetate (tfa)-containing dirhodium compounds have been used to build artificial metalloenzymes upon reaction with peptides and have been shown to be more cytotoxic than dirhodium tetraacetate. However, there is no structural information on the interaction between these compounds and proteins. Here, cis-Rh2(mu-O2CCH3)2(mu-O2CCF3)2 ([cis-Rh2(OAc)2(tfa)2]) has been synthesized and its reaction with bovine pancreatic ribonuclease (RNase A) and hen egg white lysozyme (HEWL) was analyzed using a combination of different techniques, including Fluorine-19 nuclear magnetic resonance spectroscopy and macromolecular X-ray crystallography, with the aim to unveil the differences in the reactivity of tfa-containing dihrodium complexes with proteins when compared to [Rh2(OAc)4]. [cis-Rh2(OAc)2(tfa)2] and [Rh2(OAc)4] bind the N atoms of His side chains of RNase A at the axial position; however the fluorine-containing compound rapidly loses its tfa ligands, while [Rh2(OAc)4] can retain the acetate ligands upon protein binding. The reactivity of [cis-Rh2(OAc)2(tfa)2] with HEWL is slightly distinct when compared to that of [Rh2(OAc)4] under the same experimental conditions; however, both [cis-Rh2(OAc)2(tfa)2] and [Rh2(OAc)4] degrade when soaked within HEWL crystals. These results provide a structural-based guide for the design of new heterogenous chiral dirhodium/peptide and dirhodium/protein adducts with application in the fields of organic synthesis and asymmetric catalysis.
		+
		+	Reactivity of a fluorine-containing dirhodium tetracarboxylate compound with proteins.,Loreto D, Esposito A, Demitri N, Guaragna A, Merlino A Dalton Trans. 2022 Mar 1;51(9):3695-3705. doi: 10.1039/d2dt00082b. PMID:35166290<ref>PMID:35166290</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7qpz" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bos taurus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Loreto D]]	+	[[Category: Pancreatic ribonuclease]]
-	[[Category: Merlino A]]	+	[[Category: Loreto, D]]
		+	[[Category: Merlino, A]]
		+	[[Category: Dimetallic paddlewheel complex]]
		+	[[Category: Dirhodium tetraacetate derivative]]
		+	[[Category: Hydrolase]]
		+	[[Category: Protein metalation]]

OCA at 06:20, 2 March 2022

OCA — Wed, 02 Mar 2022 06:20:43 GMT

←Older revision		Revision as of 06:20, 2 March 2022
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-	'''Unreleased structure'''

-	~~The entry 7qpz is ON HOLD~~	+	==X-ray structure of the adduct obtained upon reaction of [cis-Rh2(OCOCH3)2(OCOCF3)2] with RNase A (4)==
-		+	<StructureSection load='7qpz' size='340' side='right'caption='[[7qpz]]' scene=''>
-	~~Authors: Loreto, D., Merlino, A.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7QPZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7QPZ FirstGlance]. <br>
-	~~Description:~~ X-ray structure of the adduct obtained upon reaction of [cis-Rh2(OCOCH3)2(OCOCF3)2] with RNase A (4)	+	</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=7qpz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7qpz OCA], [https://pdbe.org/7qpz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7qpz RCSB], [https://www.ebi.ac.uk/pdbsum/7qpz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7qpz ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: Loreto, D]]	+	__TOC__
-	[[Category: Merlino, A]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Loreto D]]
		+	[[Category: Merlino A]]

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

OCA — Wed, 12 Jan 2022 08:32:19 GMT

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

←Older revision

Revision as of 08:32, 12 January 2022

OCA: New page: '''Unreleased structure''' The entry 7qpz is ON HOLD Authors: Loreto, D., Merlino, A. Description: X-ray structure of the adduct obtained upon reaction of [cis-Rh2(OCOCH3)2(OCOCF3)2] w...

OCA — Wed, 12 Jan 2022 08:32:18 GMT

New page: '''Unreleased structure''' The entry 7qpz is ON HOLD Authors: Loreto, D., Merlino, A. Description: X-ray structure of the adduct obtained upon reaction of [cis-Rh2(OCOCH3)2(OCOCF3)2] w...

New page

'''Unreleased structure'''

The entry 7qpz is ON HOLD

Authors: Loreto, D., Merlino, A.

Description: X-ray structure of the adduct obtained upon reaction of [cis-Rh2(OCOCH3)2(OCOCF3)2] with RNase A (4)
[[Category: Unreleased Structures]]
[[Category: Loreto, D]]
[[Category: Merlino, A]]