4c6y: Difference between revisions

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<StructureSection load='4c6y' size='340' side='right'caption='[[4c6y]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
<StructureSection load='4c6y' size='340' side='right'caption='[[4c6y]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[4c6y]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Synthetic_construct_sequences Synthetic construct sequences]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4C6Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4C6Y FirstGlance]. <br>
<table><tr><td colspan='2'>[[4c6y]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4C6Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4C6Y FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></td></tr>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4c75|4c75]]</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=4c6y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4c6y OCA], [https://pdbe.org/4c6y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4c6y RCSB], [https://www.ebi.ac.uk/pdbsum/4c6y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4c6y ProSAT]</span></td></tr>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-lactamase Beta-lactamase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.2.6 3.5.2.6] </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=4c6y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4c6y OCA], [http://pdbe.org/4c6y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4c6y RCSB], [http://www.ebi.ac.uk/pdbsum/4c6y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4c6y ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Consensus-sequence engineering has generated protein variants with enhanced stability, and sometimes, with modulated biological function. Consensus mutations are often interpreted as the introduction of ancestral amino acid residues. However, the precise relationship between consensus engineering and ancestral protein resurrection is not fully understood. Here, we report the properties of proteins encoded by consensus sequences derived from a multiple sequence alignment of extant, class A beta-lactamases, as compared to the properties of ancient Precambrian beta-lactamases resurrected in the laboratory. These comparisons considered primary sequence, secondary and tertiary structure, as well as stability and catalysis against different antibiotics. Out of the three consensus variants generated, one could not be expressed and purified (likely due to misfolding and/or low stability) and only one displayed substantial stability having substrate promiscuity, although to a lower extent than ancient beta-lactamases. These results: i) highlight the phenotypic differences between consensus variants and laboratory resurrections of ancestral proteins; ii) question interpretations of consensus proteins as phenotypic proxies of ancestral proteins; and iii) support the notion that ancient proteins provide a robust approach towards the preparation of protein variants having large numbers of mutational changes while possessing unique biomolecular properties. (c) Proteins 2014;. (c) 2014 Wiley Periodicals, Inc.
Phenotypic comparisons of consensus variants versus laboratory resurrections of Precambrian proteins.,Risso VA, Gavira JA, Gaucher EA, Sanchez-Ruiz JM Proteins. 2014 Apr 8. doi: 10.1002/prot.24575. PMID:24710963<ref>PMID:24710963</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 4c6y" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
*[[Beta-lactamase 3D structures|Beta-lactamase 3D structures]]
*[[Beta-lactamase 3D structures|Beta-lactamase 3D structures]]
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Beta-lactamase]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Synthetic construct sequences]]
[[Category: Synthetic construct]]
[[Category: Gavira, J A]]
[[Category: Gavira JA]]
[[Category: Risso, V A]]
[[Category: Risso VA]]
[[Category: Sanchez-Ruiz, J M]]
[[Category: Sanchez-Ruiz JM]]
[[Category: Antibiotic resistance]]
[[Category: Hydrolase]]

Revision as of 20:29, 7 September 2022

Ancestral PNCA (last common ancestors of Gram-positive and Gram- negative bacteria) beta-lactamase class AAncestral PNCA (last common ancestors of Gram-positive and Gram- negative bacteria) beta-lactamase class A

Structural highlights

4c6y is a 2 chain structure with sequence from Synthetic construct. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:, , , , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

See Also

4c6y, resolution 1.80Å

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