3SHQ | pdb_00003shq

Crystal Structure of UBLCP1

• PDB DOI: https://doi.org/10.2210/pdb3SHQ/pdb

• Classification: HYDROLASE
• Organism(s): Drosophila melanogaster
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2011-06-16 Released: 2011-10-12 
• Deposition Author(s): Xiao, J., Engel, J.L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.96 Å
• R-Value Free: 
  0.207 (Depositor), 0.214 (DCC) 
• R-Value Work: 
  0.181 (Depositor) 
• R-Value Observed: 
  0.183 (Depositor) 

Literature

UBLCP1 is a 26S proteasome phosphatase that regulates nuclear proteasome activity.

Guo, X., Engel, J.L., Xiao, J., Tagliabracci, V.S., Wang, X., Huang, L., Dixon, J.E.

(2011) Proc Natl Acad Sci U S A 108: 18649-18654

• PubMed: 21949367 
• DOI: https://doi.org/10.1073/pnas.1113170108
• Primary Citation Related Structures: 
  3SHQ


• PubMed Abstract: 
  

  Protein degradation by the 26S proteasome is a fundamental process involved in a broad range of cellular activities, yet how proteasome activity is regulated remains poorly understood. We report here that ubiquitin-like domain-containing C-terminal domain phosphatase 1 (UBLCP1) is a 26S proteasome phosphatase that regulates nuclear proteasome activity. UBLCP1 directly interacts with the proteasome via its UBL domain and is exclusively localized in the nucleus. UBLCP1 dephosphorylates the 26S proteasome and inhibits proteasome activity in vitro. Knockdown of UBLCP1 in cells promotes 26S proteasome assembly and selectively enhances nuclear proteasome activity. Our results describe the first identified proteasome-specific phosphatase and uncover a unique mechanism for phosphoregulation of the proteasome.

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Organizational Affiliation: 
• Department of Pharmacology, University of California-San Diego, La Jolla, CA 92093-0721, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 37.35 kDa 
• Atom Count: 2,679 
• Modeled Residue Count: 299 
• Deposited Residue Count: 320 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UBLCP1	A	320	Drosophila melanogaster	Mutation(s): 1  Gene Names: CG6697, Dmel_CG6697, UBLCP1 EC: 3.1.3.16
UniProt
Find proteins for Q9XZ16 (Drosophila melanogaster) Explore Q9XZ16  Go to UniProtKB:  Q9XZ16

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MG	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.96 Å
• R-Value Free:  0.207 (Depositor), 0.214 (DCC) 
• R-Value Work:  0.181 (Depositor) 
• R-Value Observed: 0.183 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 101.813	α = 90
b = 101.813	β = 90
c = 90.936	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
SOLVE	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-10-12 
Deposition Author(s): Xiao, J., Engel, J.L.

Revision History  

• Version 1.0: 2011-10-12
  Type: Initial release
  
• Version 1.1: 2011-11-30
  Changes: Database references
• Version 1.2: 2024-02-28
  Changes: Data collection, Database references, Derived calculations