6wzz: Difference between revisions

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'''Unreleased structure'''


The entry 6wzz is ON HOLD
==GID4 in complex with VGLWKS peptide==
<StructureSection load='6wzz' size='340' side='right'caption='[[6wzz]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[6wzz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WZZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6WZZ FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.6&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</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=6wzz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wzz OCA], [https://pdbe.org/6wzz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6wzz RCSB], [https://www.ebi.ac.uk/pdbsum/6wzz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6wzz ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/GID4_HUMAN GID4_HUMAN]
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Eukaryotic N-degron pathways are proteolytic systems whose unifying feature is their ability to recognize proteins containing N-terminal (Nt) degradation signals called N-degrons, and to target these proteins for degradation by the 26S proteasome or autophagy. GID4, a subunit of the GID ubiquitin ligase, is the main recognition component of the proline (Pro)/N-degron pathway. GID4 targets proteins through their Nt-Pro residue or a Pro at position 2, in the presence of specific downstream sequence motifs. Here we show that human GID4 can also recognize hydrophobic Nt-residues other than Pro. One example is the sequence Nt-IGLW, bearing Nt-Ile. Nt-IGLW binds to wild-type human GID4 with a K d of 16 muM, whereas the otherwise identical Nt-Pro-bearing sequence PGLW binds to GID4 more tightly, with a K d of 1.9 muM. Despite this difference in affinities of GID4 for Nt-IGLW vs. Nt-PGLW, we found that the GID4-mediated Pro/N-degron pathway of the yeast Saccharomyces cerevisiae can target an Nt-IGLW-bearing protein for rapid degradation. We solved crystal structures of human GID4 bound to a peptide bearing Nt-Ile or Nt-Val. We also altered specific residues of human GID4 and measured the affinities of resulting mutant GID4s for Nt-IGLW and Nt-PGLW, thereby determining relative contributions of specific GID4 residues to the GID4-mediated recognition of Nt-Pro vs. Nt-residues other than Pro. These and related results advance the understanding of targeting by the Pro/N-degron pathway and greatly expand the substrate recognition range of the GID ubiquitin ligase in both human and yeast cells.


Authors: Dong, C., Tempel, W., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Min, J., Structural Genomics Consortium (SGC)
Recognition of nonproline N-terminal residues by the Pro/N-degron pathway.,Dong C, Chen SJ, Melnykov A, Weirich S, Sun K, Jeltsch A, Varshavsky A, Min J Proc Natl Acad Sci U S A. 2020 Jun 8. pii: 2007085117. doi:, 10.1073/pnas.2007085117. PMID:32513738<ref>PMID:32513738</ref>


Description: GID4 in complex with VGLWKS peptide
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
[[Category: Unreleased Structures]]
</div>
[[Category: Min, J]]
<div class="pdbe-citations 6wzz" style="background-color:#fffaf0;"></div>
[[Category: Edwards, A.M]]
== References ==
[[Category: Arrowsmith, C.H]]
<references/>
[[Category: Structural Genomics Consortium (Sgc)]]
__TOC__
[[Category: Dong, C]]
</StructureSection>
[[Category: Bountra, C]]
[[Category: Homo sapiens]]
[[Category: Tempel, W]]
[[Category: Large Structures]]
[[Category: Synthetic construct]]
[[Category: Arrowsmith CH]]
[[Category: Bountra C]]
[[Category: Dong C]]
[[Category: Edwards AM]]
[[Category: Min J]]
[[Category: Tempel W]]
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