7yo9: Difference between revisions

Latest revision as of 18:10, 29 November 2023

Crystal structure of fusion protein of human TP53INP2 LIR and human GABARAP

Structural highlights

7yo9 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 1.75Å
Ligands:	IPA, PO4
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

GBRAP_HUMAN May play a role in intracellular transport of GABA(A) receptors and its interaction with the cytoskeleton. Involved in apoptosis. Involved in autophagy (By similarity).^[1] T53I2_HUMAN Dual regulator of transcription and autophagy. Positively regulates autophagy and is required for autophagosome formation and processing. May act as a scaffold protein that recruits MAP1LC3A, GABARAP and GABARAPL2 and brings them to the autophagosome membrane by interacting with VMP1 where, in cooperation with the BECN1-PI3-kinase class III complex, they trigger autophagosome development. Acts as a transcriptional activator of THRA.^[2] ^[3] ^[4]

Publication Abstract from PubMed

ABBREVIATIONS: A:C autophagic membrane:cytosol; ALS amyotrophic lateral sclerosis; ATG4 autophagy related 4; Atg8 autophagy related 8; BafA1 bafilomycin A1; BNIP3L/Nix BCL2 interacting protein 3 like; CALCOCO2/NDP52 calcium binding and coiled-coil domain 2; EBSS Earle's balanced salt solution; GABARAP GABA type A receptor-associated protein; GST glutathione S transferase; HKO hexa knockout; Kd dissociation constant; LIR LC3-interacting region; MAP1LC3/LC3 microtubule associated protein 1 light chain 3; NLS nuclear localization signal/sequence; PE phosphatidylethanolamine; SpHfl1 Schizosaccharomyces pombeorganic solute transmembrane transporter; SQSTM1/p62 SQSTM1/p62; TARDBP/TDP-43 TAR DNA binding protein; TKO triple knockout.

Development of new tools to study membrane-anchored mammalian Atg8 proteins.,Park SW, Jeon P, Yamasaki A, Lee HE, Choi H, Mun JY, Jun YW, Park JH, Lee SH, Lee SK, Lee YK, Song HK, Lazarou M, Cho DH, Komatsu M, Noda NN, Jang DJ, Lee JA Autophagy. 2022 Oct 17:1-20. doi: 10.1080/15548627.2022.2132040. PMID:36250672^[5]

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

References

↑ Lee JH, Rho SB, Chun T. GABAA receptor-associated protein (GABARAP) induces apoptosis by interacting with DEAD (Asp-Glu-Ala-Asp/His) box polypeptide 47 (DDX 47). Biotechnol Lett. 2005 May;27(9):623-8. PMID:15977068 doi:https://dx.doi.org/10.1007/s10529-005-3628-2
↑ Baumgartner BG, Orpinell M, Duran J, Ribas V, Burghardt HE, Bach D, Villar AV, Paz JC, Gonzalez M, Camps M, Oriola J, Rivera F, Palacin M, Zorzano A. Identification of a novel modulator of thyroid hormone receptor-mediated action. PLoS One. 2007 Nov 21;2(11):e1183. doi: 10.1371/journal.pone.0001183. PMID:18030323 doi:https://dx.doi.org/10.1371/journal.pone.0001183
↑ Nowak J, Archange C, Tardivel-Lacombe J, Pontarotti P, Pebusque MJ, Vaccaro MI, Velasco G, Dagorn JC, Iovanna JL. The TP53INP2 protein is required for autophagy in mammalian cells. Mol Biol Cell. 2009 Feb;20(3):870-81. doi: 10.1091/mbc.e08-07-0671. Epub 2008 Dec, 3. PMID:19056683 doi:https://dx.doi.org/10.1091/mbc.e08-07-0671
↑ Sancho A, Duran J, Garcia-Espana A, Mauvezin C, Alemu EA, Lamark T, Macias MJ, DeSalle R, Royo M, Sala D, Chicote JU, Palacin M, Johansen T, Zorzano A. DOR/Tp53inp2 and Tp53inp1 constitute a metazoan gene family encoding dual regulators of autophagy and transcription. PLoS One. 2012;7(3):e34034. doi: 10.1371/journal.pone.0034034. Epub 2012 Mar 28. PMID:22470510 doi:https://dx.doi.org/10.1371/journal.pone.0034034
↑ Park SW, Jeon P, Yamasaki A, Lee HE, Choi H, Mun JY, Jun YW, Park JH, Lee SH, Lee SK, Lee YK, Song HK, Lazarou M, Cho DH, Komatsu M, Noda NN, Jang DJ, Lee JA. Development of new tools to study membrane-anchored mammalian Atg8 proteins. Autophagy. 2022 Oct 17:1-20. doi: 10.1080/15548627.2022.2132040. PMID:36250672 doi:https://dx.doi.org/10.1080/15548627.2022.2132040

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OCA

[1] Lee JH, Rho SB, Chun T. GABAA receptor-associated protein (GABARAP) induces apoptosis by interacting with DEAD (Asp-Glu-Ala-Asp/His) box polypeptide 47 (DDX 47). Biotechnol Lett. 2005 May;27(9):623-8. PMID:15977068 doi:https://dx.doi.org/10.1007/s10529-005-3628-2

[2] Baumgartner BG, Orpinell M, Duran J, Ribas V, Burghardt HE, Bach D, Villar AV, Paz JC, Gonzalez M, Camps M, Oriola J, Rivera F, Palacin M, Zorzano A. Identification of a novel modulator of thyroid hormone receptor-mediated action. PLoS One. 2007 Nov 21;2(11):e1183. doi: 10.1371/journal.pone.0001183. PMID:18030323 doi:https://dx.doi.org/10.1371/journal.pone.0001183

[3] Nowak J, Archange C, Tardivel-Lacombe J, Pontarotti P, Pebusque MJ, Vaccaro MI, Velasco G, Dagorn JC, Iovanna JL. The TP53INP2 protein is required for autophagy in mammalian cells. Mol Biol Cell. 2009 Feb;20(3):870-81. doi: 10.1091/mbc.e08-07-0671. Epub 2008 Dec, 3. PMID:19056683 doi:https://dx.doi.org/10.1091/mbc.e08-07-0671

[4] Sancho A, Duran J, Garcia-Espana A, Mauvezin C, Alemu EA, Lamark T, Macias MJ, DeSalle R, Royo M, Sala D, Chicote JU, Palacin M, Johansen T, Zorzano A. DOR/Tp53inp2 and Tp53inp1 constitute a metazoan gene family encoding dual regulators of autophagy and transcription. PLoS One. 2012;7(3):e34034. doi: 10.1371/journal.pone.0034034. Epub 2012 Mar 28. PMID:22470510 doi:https://dx.doi.org/10.1371/journal.pone.0034034

[5] Park SW, Jeon P, Yamasaki A, Lee HE, Choi H, Mun JY, Jun YW, Park JH, Lee SH, Lee SK, Lee YK, Song HK, Lazarou M, Cho DH, Komatsu M, Noda NN, Jang DJ, Lee JA. Development of new tools to study membrane-anchored mammalian Atg8 proteins. Autophagy. 2022 Oct 17:1-20. doi: 10.1080/15548627.2022.2132040. PMID:36250672 doi:https://dx.doi.org/10.1080/15548627.2022.2132040

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@@ Line 4: / Line 4: @@
 == Structural highlights ==
 <table><tr><td colspan='2'>[[7yo9]] 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=7YO9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YO9 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></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]] 1.75&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=7yo9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yo9 OCA], [https://pdbe.org/7yo9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yo9 RCSB], [https://www.ebi.ac.uk/pdbsum/7yo9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yo9 ProSAT]</span></td></tr>
 </table>

7yo9: Difference between revisions

Latest revision as of 18:10, 29 November 2023

Crystal structure of fusion protein of human TP53INP2 LIR and human GABARAP

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

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