4xm2: Difference between revisions
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<StructureSection load='4xm2' size='340' side='right'caption='[[4xm2]], [[Resolution|resolution]] 2.30Å' scene=''> | <StructureSection load='4xm2' size='340' side='right'caption='[[4xm2]], [[Resolution|resolution]] 2.30Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[4xm2]] is a 6 chain structure with sequence from [ | <table><tr><td colspan='2'>[[4xm2]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus_DSM_3638 Pyrococcus furiosus DSM 3638]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XM2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XM2 FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=4xm2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xm2 OCA], [https://pdbe.org/4xm2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xm2 RCSB], [https://www.ebi.ac.uk/pdbsum/4xm2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xm2 ProSAT]</span></td></tr> | |||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | |||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/Q8U3V1_PYRFU Q8U3V1_PYRFU] | |||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: | [[Category: Pyrococcus furiosus DSM 3638]] | ||
[[Category: Hashimoto | [[Category: Hashimoto W]] | ||
[[Category: Ida | [[Category: Ida K]] | ||
[[Category: Nakamura | [[Category: Nakamura T]] | ||
[[Category: Niiyama | [[Category: Niiyama M]] | ||
[[Category: Uegaki | [[Category: Uegaki K]] | ||
Revision as of 20:42, 26 April 2023
N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus in the absence of cadmiumN,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus in the absence of cadmium
Structural highlights
FunctionPublication Abstract from PubMedNative N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus (Pf-Dac) and its selenomethionine derivative (Se-Pf-Dac) were crystallized and analyzed in the presence and absence of cadmium ion. The four crystal structures fell into three different crystal-packing groups, with the cadmium-free Pf-Dac and Se-Pf-Dac belonging to the same space group, with homologous unit-cell parameters. The crystal structures in the presence of cadmium contained distorted octahedral cadmium complexes coordinated by three chlorides, two O atoms and an S or Se atom from the N-terminal methionine or selenomethionine, respectively. The N-terminal cadmium complex was involved in crystal contacts between symmetry-related molecules through hydrogen bonding to the N-termini. While all six N-termini of Se-Pf-Dac were involved in cadmium-complex formation, only two of the Pf-Dac N-termini participated in complex formation in the Cd-containing crystal, resulting in different crystal forms. These differences are discussed in light of the higher stability of the Cd-Se bond than the Cd-S bond. This work provides an example of the contribution of cadmium towards determining protein crystal quality and packing depending on the use of the native protein or the selenomethionine derivative. Multiple crystal forms of N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus.,Nakamura T, Niiyama M, Hashimoto W, Ida K, Abe M, Morita J, Uegaki K Acta Crystallogr F Struct Biol Commun. 2015 Jun;71(Pt 6):657-62. doi:, 10.1107/S2053230X15005695. Epub 2015 May 20. PMID:26057790[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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