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3n32

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Revision as of 06:54, 12 May 2022

The crystal structure of human Ubiquitin adduct with Zeise's salt

Structural highlights

3n32 is a 1 chain structure with sequence from Human. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Related:	1ubq, 3ehv, 3eec, 3efu
Gene:	RPS27A, UBA52, UBA80, UBB, UBC, UBCEP1, UBCEP2 (HUMAN)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Publication Abstract from PubMed

The metal-binding ability of human ubiquitin (hUb) towards a selection of biologically relevant metal ions and complexes has been probed. Different techniques have been used to obtain crystals suitable for crystallographic analysis. In the first type of experiments, crystals of hUb have been soaked in solutions containing copper(II) acetate and two metallodrugs, Zeise salt (K[PtCl(3) (eta(2) -C(2) H(4) )]H(2) O) and cisplatin (cis-[PtCl(2) (NH(3) )(2) ]). The Zeise salt is used in a test for hepatitis, whereas cisplatin is one of the most powerful anticancer drugs in clinical use. The Zeise salt readily reacts with hUb crystals to afford an adduct with three platinum residues per protein molecule, Pt(3) -hUb. In contrast, copper(II) acetate and cisplatin were found to be unreactive for contact times up to one hour and to cause degradation of the hUb crystals for longer times. In the second type of experiments, hUb was cocrystallized with a solution of copper(II) or zinc(II) acetate or cisplatin. Zinc(II) acetate gives, at low metal-to-protein molar ratios (8:1), crystals containing one metal ion per three molecules of protein, Zn-hUb(3) (already reported in previous work), whereas at high metal-to-protein ratios (70:1) gives crystals containing three Zn(II) ions per protein molecule, Zn(3) -hUb. In contrast, once again, copper(II) acetate and cisplatin, even at low metal-to-protein ratios, do not give crystalline material. In the soaking experiment, the Zeise anion leads to simultaneous platination of His68, Met1, and Lys6. Present and previous results of cocrystallization experiments performed with Zn(II) and other Group 12 metal ions allow a comprehensive understanding of the metal-ion binding properties of hUb with His68 as the main anchoring site, followed by Met1 and carboxylic groups of Glu16, Glu18, Glu64, Asp21, and Asp32, to be reached. In the case of platinum, Lys6 can also be a binding site. The amount of bound metal ion, with respect to that of the protein, appears to be a relevant parameter influencing crystal packing.

Crystallographic analysis of metal-ion binding to human ubiquitin.,Arnesano F, Belviso BD, Caliandro R, Falini G, Fermani S, Natile G, Siliqi D Chemistry. 2011 Feb 1;17(5):1569-78. doi: 10.1002/chem.201001617. Epub, 2010 Dec 10. PMID:21268159^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Arnesano F, Belviso BD, Caliandro R, Falini G, Fermani S, Natile G, Siliqi D. Crystallographic analysis of metal-ion binding to human ubiquitin. Chemistry. 2011 Feb 1;17(5):1569-78. doi: 10.1002/chem.201001617. Epub, 2010 Dec 10. PMID:21268159 doi:10.1002/chem.201001617

1 Structural highlights
2 Publication Abstract from PubMed
3 See Also
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3n32"

@@ Line 1: / Line 1: @@
 ==The crystal structure of human Ubiquitin adduct with Zeise's salt==
-<StructureSection load='3n32' size='340' side='right' caption='[[3n32]], [[Resolution|resolution]] 1.79&Aring;' scene=''>
+<StructureSection load='3n32' size='340' side='right'caption='[[3n32]], [[Resolution|resolution]] 1.79&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3n32]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N32 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3N32 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3n32]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N32 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3N32 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PT:PLATINUM+(II)+ION'>PT</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PT:PLATINUM+(II)+ION'>PT</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1ubq|1ubq]], [[3ehv|3ehv]], [[3eec|3eec]], [[3efu|3efu]]</td></tr>
+<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1ubq|1ubq]], [[3ehv|3ehv]], [[3eec|3eec]], [[3efu|3efu]]</div></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">RPS27A, UBA52, UBA80, UBB, UBC, UBCEP1, UBCEP2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">RPS27A, UBA52, UBA80, UBB, UBC, UBCEP1, UBCEP2 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=3n32 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3n32 OCA], [http://pdbe.org/3n32 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3n32 RCSB], [http://www.ebi.ac.uk/pdbsum/3n32 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3n32 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=3n32 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3n32 OCA], [https://pdbe.org/3n32 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3n32 RCSB], [https://www.ebi.ac.uk/pdbsum/3n32 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3n32 ProSAT]</span></td></tr>
 </table>
 <div style="background-color:#fffaf0;">
@@ Line 20: / Line 20: @@
 ==See Also==
-*[[Ubiquitin|Ubiquitin]]
+*[[3D structures of ubiquitin|3D structures of ubiquitin]]
 == References ==
 <references/>
@@ Line 26: / Line 26: @@
 </StructureSection>
 [[Category: Human]]
+[[Category: Large Structures]]
 [[Category: Arnesano, F]]
 [[Category: Belviso, B D]]

3n32

From Proteopedia

Revision as of 06:54, 12 May 2022

The crystal structure of human Ubiquitin adduct with Zeise's salt

Structural highlights

Publication Abstract from PubMed

See Also

References

Contents

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