2mr9: Difference between revisions

Revision as of 15:52, 7 February 2015

NMR structure of UBA domain of DNA-damage-inducible 1 protein (Ddi1)

Structural highlights

2mr9 is a 1 chain structure. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Resources:	FirstGlance, OCA, RCSB, PDBsum

Function

[DDI1_YEAST] Acts as a linker between the 19S proteasome and polyubiquitinated proteins like the HO endonuclease and UFO1 via UBA domain interactions with ubiquitin for their subsequent degradation. Required for S-phase checkpoint control. Appears to act as negative regulator of constitutive exocytosis. May act at the level of secretory vesicle docking and fusion as a competitive inhibitor of SNARE assembly.^[1] ^[2] ^[3] ^[4] ^[5] ^[6] ^[7]

References

↑ Lustgarten V, Gerst JE. Yeast VSM1 encodes a v-SNARE binding protein that may act as a negative regulator of constitutive exocytosis. Mol Cell Biol. 1999 Jun;19(6):4480-94. PMID:10330187
↑ Clarke DJ, Mondesert G, Segal M, Bertolaet BL, Jensen S, Wolff M, Henze M, Reed SI. Dosage suppressors of pds1 implicate ubiquitin-associated domains in checkpoint control. Mol Cell Biol. 2001 Mar;21(6):1997-2007. PMID:11238935 doi:https://dx.doi.org/10.1128/MCB.21.6.1997-2007.2001
↑ Saeki Y, Saitoh A, Toh-e A, Yokosawa H. Ubiquitin-like proteins and Rpn10 play cooperative roles in ubiquitin-dependent proteolysis. Biochem Biophys Res Commun. 2002 May 10;293(3):986-92. PMID:12051757 doi:https://dx.doi.org/10.1016/S0006-291X(02)00340-6
↑ Marash M, Gerst JE. Phosphorylation of the autoinhibitory domain of the Sso t-SNAREs promotes binding of the Vsm1 SNARE regulator in yeast. Mol Biol Cell. 2003 Aug;14(8):3114-25. Epub 2003 May 3. PMID:12925750 doi:https://dx.doi.org/10.1091/mbc.E02-12-0804
↑ Kaplun L, Tzirkin R, Bakhrat A, Shabek N, Ivantsiv Y, Raveh D. The DNA damage-inducible UbL-UbA protein Ddi1 participates in Mec1-mediated degradation of Ho endonuclease. Mol Cell Biol. 2005 Jul;25(13):5355-62. PMID:15964793 doi:https://dx.doi.org/25/13/5355
↑ Diaz-Martinez LA, Kang Y, Walters KJ, Clarke DJ. Yeast UBL-UBA proteins have partially redundant functions in cell cycle control. Cell Div. 2006 Dec 4;1:28. PMID:17144915 doi:https://dx.doi.org/1747-1028-1-28
↑ Ivantsiv Y, Kaplun L, Tzirkin-Goldin R, Shabek N, Raveh D. Unique role for the UbL-UbA protein Ddi1 in turnover of SCFUfo1 complexes. Mol Cell Biol. 2006 Mar;26(5):1579-88. PMID:16478980 doi:https://dx.doi.org/26/5/1579

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OCA

[1] Lustgarten V, Gerst JE. Yeast VSM1 encodes a v-SNARE binding protein that may act as a negative regulator of constitutive exocytosis. Mol Cell Biol. 1999 Jun;19(6):4480-94. PMID:10330187

[2] Clarke DJ, Mondesert G, Segal M, Bertolaet BL, Jensen S, Wolff M, Henze M, Reed SI. Dosage suppressors of pds1 implicate ubiquitin-associated domains in checkpoint control. Mol Cell Biol. 2001 Mar;21(6):1997-2007. PMID:11238935 doi:https://dx.doi.org/10.1128/MCB.21.6.1997-2007.2001

[3] Saeki Y, Saitoh A, Toh-e A, Yokosawa H. Ubiquitin-like proteins and Rpn10 play cooperative roles in ubiquitin-dependent proteolysis. Biochem Biophys Res Commun. 2002 May 10;293(3):986-92. PMID:12051757 doi:https://dx.doi.org/10.1016/S0006-291X(02)00340-6

[4] Marash M, Gerst JE. Phosphorylation of the autoinhibitory domain of the Sso t-SNAREs promotes binding of the Vsm1 SNARE regulator in yeast. Mol Biol Cell. 2003 Aug;14(8):3114-25. Epub 2003 May 3. PMID:12925750 doi:https://dx.doi.org/10.1091/mbc.E02-12-0804

[5] Kaplun L, Tzirkin R, Bakhrat A, Shabek N, Ivantsiv Y, Raveh D. The DNA damage-inducible UbL-UbA protein Ddi1 participates in Mec1-mediated degradation of Ho endonuclease. Mol Cell Biol. 2005 Jul;25(13):5355-62. PMID:15964793 doi:https://dx.doi.org/25/13/5355

[6] Diaz-Martinez LA, Kang Y, Walters KJ, Clarke DJ. Yeast UBL-UBA proteins have partially redundant functions in cell cycle control. Cell Div. 2006 Dec 4;1:28. PMID:17144915 doi:https://dx.doi.org/1747-1028-1-28

[7] Ivantsiv Y, Kaplun L, Tzirkin-Goldin R, Shabek N, Raveh D. Unique role for the UbL-UbA protein Ddi1 in turnover of SCFUfo1 complexes. Mol Cell Biol. 2006 Mar;26(5):1579-88. PMID:16478980 doi:https://dx.doi.org/26/5/1579

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@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+==NMR structure of UBA domain of DNA-damage-inducible 1 protein (Ddi1)==
+<StructureSection load='2mr9' size='340' side='right' caption='[[2mr9]], [[NMR_Ensembles_of_Models | 10 NMR models]]' scene=''>
-The entry 2mr9 is ON HOLD  until Paper Publication
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2mr9]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MR9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2MR9 FirstGlance]. <br>
-Authors: Zhang, D., Fushman, D.
+</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=2mr9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2mr9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2mr9 RCSB], [http://www.ebi.ac.uk/pdbsum/2mr9 PDBsum]</span></td></tr>
+</table>
-Description: NMR structure of UBA domain of DNA-damage-inducible 1 protein (Ddi1)
+== Function ==
-[[Category: Unreleased Structures]]
+[[http://www.uniprot.org/uniprot/DDI1_YEAST DDI1_YEAST]] Acts as a linker between the 19S proteasome and polyubiquitinated proteins like the HO endonuclease and UFO1 via UBA domain interactions with ubiquitin for their subsequent degradation. Required for S-phase checkpoint control. Appears to act as negative regulator of constitutive exocytosis. May act at the level of secretory vesicle docking and fusion as a competitive inhibitor of SNARE assembly.<ref>PMID:10330187</ref> <ref>PMID:11238935</ref> <ref>PMID:12051757</ref> <ref>PMID:12925750</ref> <ref>PMID:15964793</ref> <ref>PMID:17144915</ref> <ref>PMID:16478980</ref>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Fushman, D]]
 [[Category: Zhang, D]]
+[[Category: Ddi1]]
+[[Category: Dna-damage-inducible 1 protein]]
+[[Category: Hydrolase]]
+[[Category: Uba]]
+[[Category: Ubiquitin associated domain]]

2mr9: Difference between revisions

Revision as of 15:52, 7 February 2015

NMR structure of UBA domain of DNA-damage-inducible 1 protein (Ddi1)

Structural highlights

Function

References

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