3wap: Difference between revisions

Latest revision as of 13:01, 8 November 2023

Crystal structure of Atg13 LIR-fused human LC3C_8-125

Structural highlights

3wap is a 1 chain structure with sequence from Homo sapiens. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 3.1Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

MLP3C_HUMAN Ubiquitin-like modifier that plays a crucial role in antibacterial autophagy (xenophagy) through the selective binding of CALCOCO2. Recruites all ATG8 family members to infecting bacteria such as S.Typhimurium.^[1]

Publication Abstract from PubMed

Autophagy is a bulk degradation pathway that removes cytosolic materials to maintain cellular homeostasis. The autophagy-related gene 13 (Atg13) and microtubule associate protein 1 light chain 3 (LC3) proteins are required for autophagosome formation. We demonstrate that each of the human LC3 isoforms (LC3A, LC3B, and LC3C) interacts with Atg13 via the LC3 interacting region (LIR) of Atg13. Using X-ray crystallography, we solved the macromolecular structures of LC3A and LC3C, along with the complex structures of the LC3 isoforms with the Atg13 LIR. Together, our structural and binding analyses reveal that the side-chain of Lys49 of LC3 acts as a gatekeeper to regulate binding of the LIR. We verified this observation by mutation of Lys49 in LC3A, which significantly reduces LC3A positive puncta formation in cultured cells. Our results suggest that specific affinity of the LC3 isoforms to the Atg13 LIR is required for proper autophagosome formation.

Structural Basis of the Autophagy-Related LC3/Atg13 LIR Complex: Recognition and Interaction Mechanism.,Suzuki H, Tabata K, Morita E, Kawasaki M, Kato R, Dobson RC, Yoshimori T, Wakatsuki S Structure. 2013 Nov 25. pii: S0969-2126(13)00401-2. doi:, 10.1016/j.str.2013.09.023. PMID:24290141^[2]

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

References

↑ von Muhlinen N, Akutsu M, Ravenhill BJ, Foeglein A, Bloor S, Rutherford TJ, Freund SM, Komander D, Randow F. LC3C, bound selectively by a noncanonical LIR motif in NDP52, is required for antibacterial autophagy. Mol Cell. 2012 Nov 9;48(3):329-42. doi: 10.1016/j.molcel.2012.08.024. Epub 2012, Sep 27. PMID:23022382 doi:https://dx.doi.org/10.1016/j.molcel.2012.08.024
↑ Suzuki H, Tabata K, Morita E, Kawasaki M, Kato R, Dobson RC, Yoshimori T, Wakatsuki S. Structural Basis of the Autophagy-Related LC3/Atg13 LIR Complex: Recognition and Interaction Mechanism. Structure. 2013 Nov 25. pii: S0969-2126(13)00401-2. doi:, 10.1016/j.str.2013.09.023. PMID:24290141 doi:https://dx.doi.org/10.1016/j.str.2013.09.023

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] von Muhlinen N, Akutsu M, Ravenhill BJ, Foeglein A, Bloor S, Rutherford TJ, Freund SM, Komander D, Randow F. LC3C, bound selectively by a noncanonical LIR motif in NDP52, is required for antibacterial autophagy. Mol Cell. 2012 Nov 9;48(3):329-42. doi: 10.1016/j.molcel.2012.08.024. Epub 2012, Sep 27. PMID:23022382 doi:https://dx.doi.org/10.1016/j.molcel.2012.08.024

[2] Suzuki H, Tabata K, Morita E, Kawasaki M, Kato R, Dobson RC, Yoshimori T, Wakatsuki S. Structural Basis of the Autophagy-Related LC3/Atg13 LIR Complex: Recognition and Interaction Mechanism. Structure. 2013 Nov 25. pii: S0969-2126(13)00401-2. doi:, 10.1016/j.str.2013.09.023. PMID:24290141 doi:https://dx.doi.org/10.1016/j.str.2013.09.023

[1]

[2]

@@ Line 3: / Line 3: @@
 <StructureSection load='3wap' size='340' side='right'caption='[[3wap]], [[Resolution|resolution]] 3.10&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3wap]] 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=3WAP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3WAP FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3wap]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3WAP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3WAP FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3vtu|3vtu]], [[3vtv|3vtv]], [[3vtw|3vtw]], [[3wal|3wal]], [[3wam|3wam]], [[3wan|3wan]], [[3wao|3wao]]</div></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]] 3.1&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">MAP1LC3C ([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'>[https://proteopedia.org/fgij/fg.htm?mol=3wap FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3wap OCA], [https://pdbe.org/3wap PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3wap RCSB], [https://www.ebi.ac.uk/pdbsum/3wap PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3wap ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/ATG13_HUMAN ATG13_HUMAN]] Autophagy factor required for autophagosome formation and mitophagy. Target of the TOR kinase signaling pathway that regulates autophagy through the control of the phosphorylation status of ATG13 and ULK1, and the regulation of the ATG13-ULK1-RB1CC1 complex. Through its regulation of ULK1 activity, plays a role in the regulation of the kinase activity of mTORC1 and cell proliferation.<ref>PMID:19287211</ref> <ref>PMID:19211835</ref> <ref>PMID:19225151</ref> <ref>PMID:21855797</ref> <ref>PMID:18936157</ref> <ref>PMID:21795849</ref>
+[https://www.uniprot.org/uniprot/MLP3C_HUMAN MLP3C_HUMAN] Ubiquitin-like modifier that plays a crucial role in antibacterial autophagy (xenophagy) through the selective binding of CALCOCO2. Recruites all ATG8 family members to infecting bacteria such as S.Typhimurium.<ref>PMID:23022382</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 26: / Line 25: @@
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[Category: Homo sapiens]]
 [[Category: Large Structures]]
-[[Category: Dobson, R C.J]]
+[[Category: Dobson RCJ]]
-[[Category: Kato, R]]
+[[Category: Kato R]]
-[[Category: Kawasaki, M]]
+[[Category: Kawasaki M]]
-[[Category: Morita, E]]
+[[Category: Morita E]]
-[[Category: Suzuki, H]]
+[[Category: Suzuki H]]
-[[Category: Tabata, K]]
+[[Category: Tabata K]]
-[[Category: Wakatsuki, S]]
+[[Category: Wakatsuki S]]
-[[Category: Yoshimori, T]]
+[[Category: Yoshimori T]]
-[[Category: Autophagy]]
-[[Category: Protein transport]]
-[[Category: Ubiquitin-like fold]]

3wap: Difference between revisions

Latest revision as of 13:01, 8 November 2023

Crystal structure of Atg13 LIR-fused human LC3C_8-125

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools