4W4U image
Deposition Date 2014-08-15
Release Date 2015-07-01
Last Version Date 2023-09-27
Entry Detail
PDB ID:
4W4U
Title:
Structure of yeast SAGA DUBm with Sgf73 Y57A mutant at 2.8 angstroms resolution
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.80 Å
R-Value Free:
0.24
R-Value Work:
0.18
R-Value Observed:
0.18
Space Group:
P 1 21 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ubiquitin carboxyl-terminal hydrolase
Gene (Uniprot):CENPK1137D_262
Chain IDs:A, E (auth: D)
Chain Length:476
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Transcription and mRNA export factor SUS1
Gene (Uniprot):SUS1
Chain IDs:B, F
Chain Length:96
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:SAGA-associated factor 11
Gene (Uniprot):SGF11
Chain IDs:C, G
Chain Length:99
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:SAGA-associated factor 73
Gene (Uniprot):SGF73
Mutagens:Y57A
Chain IDs:D (auth: E), H
Chain Length:96
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae
Ligand Molecules
Primary Citation
Uncovering the role of Sgf73 in maintaining SAGA deubiquitinating module structure and activity.
J.Mol.Biol. 427 1765 1778 (2015)
PMID: 25526805 DOI: 10.1016/j.jmb.2014.12.004

Abstact

The SAGA (Spt-Ada-Gcn5 acetyltransferase) complex performs multiple functions in transcription activation including deubiquitinating histone H2B, which is mediated by a subcomplex called the deubiquitinating module (DUBm). The yeast DUBm comprises a catalytic subunit, Ubp8, and three additional subunits, Sgf11, Sus1 and Sgf73, all of which are required for DUBm activity. A portion of the non-globular Sgf73 subunit lies between the Ubp8 catalytic domain and the ZnF-UBP domain and has been proposed to contribute to deubiquitinating activity by maintaining the catalytic domain in an active conformation. We report structural and solution studies of the DUBm containing two different Sgf73 point mutations that disrupt deubiquitinating activity. We find that the Sgf73 mutations abrogate deubiquitinating activity by impacting the Ubp8 ubiquitin-binding fingers region and they have an unexpected effect on the overall folding and stability of the DUBm complex. Taken together, our data suggest a role for Sgf73 in maintaining both the organization and the ubiquitin-binding conformation of Ubp8, thereby contributing to overall DUBm activity.

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Primary Citation of related structures
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