3FP9 | pdb_00003fp9

Crystal structure of Intern Domain of proteasome-associated ATPase, Mycobacterium tuberculosis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 
    0.266 (Depositor), 0.267 (DCC) 
  • R-Value Work: 
    0.213 (Depositor), 0.214 (DCC) 
  • R-Value Observed: 
    0.216 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 3FP9

This is version 1.2 of the entry. See complete history

Literature

Structural Insights on the Mycobacterium tuberculosis Proteasomal ATPase Mpa.

Wang, T.Li, H.Lin, G.Tang, C.Li, D.Nathan, C.Darwin, K.H.Li, H.

(2009) Structure 17: 1377-1385

  • DOI: https://doi.org/10.1016/j.str.2009.08.010
  • Primary Citation Related Structures: 
    3FP9

  • PubMed Abstract: 

    Proteasome-mediated protein turnover in all domains of life is an energy-dependent process that requires ATPase activity. Mycobacterium tuberculosis (Mtb) was recently shown to possess a ubiquitin-like proteasome pathway that plays an essential role in Mtb resistance to killing by products of host macrophages. Here we report our structural and biochemical investigation of Mpa, the presumptive Mtb proteasomal ATPase. We demonstrate that Mpa binds to the Mtb proteasome in the presence of ATPgammaS, providing the physical evidence that Mpa is the proteasomal ATPase. X-ray crystallographic determination of the conserved interdomain showed a five stranded double beta barrel structure containing a Greek key motif. Structure and mutational analysis indicate a major role of the interdomain for Mpa hexamerization. Our mutational and functional studies further suggest that the central channel in the Mpa hexamer is involved in protein substrate translocation and degradation. These studies provide insights into how a bacterial proteasomal ATPase interacts with and facilitates protein degradation by the proteasome.


  • Organizational Affiliation
    • Biology Department, Brookhaven National Laboratory, Upton, NY 11973-5000, USA.

Macromolecule Content 

  • Total Structure Weight: 200.13 kDa 
  • Atom Count: 13,735 
  • Modeled Residue Count: 1,684 
  • Deposited Residue Count: 1,836 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Proteasome-associated ATPase
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L
153Mycobacterium tuberculosisMutation(s): 0 
UniProt
Find proteins for P9WQN4 (Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh))
Explore P9WQN4 
Go to UniProtKB:  P9WQN4
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP9WQN4
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free:  0.266 (Depositor), 0.267 (DCC) 
  • R-Value Work:  0.213 (Depositor), 0.214 (DCC) 
  • R-Value Observed: 0.216 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 74.86α = 90
b = 74.994β = 90.32
c = 200.846γ = 90
Software Package:
Software NamePurpose
CBASSdata collection
PHENIXmodel building
SHELXmodel building
SOLVEphasing
PHASERphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing
SHELXphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2009-10-27
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2024-02-21
    Changes: Data collection, Database references