3HVE

Structures of SPOP-Substrate Complexes: Insights into Molecular Architectures of BTB-Cul3 Ubiquitin Ligases: GigaxoninBTB/3-box


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.333 
  • R-Value Work: 0.302 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structures of SPOP-substrate complexes: insights into molecular architectures of BTB-Cul3 ubiquitin ligases.

Zhuang, M.Calabrese, M.F.Liu, J.Waddell, M.B.Nourse, A.Hammel, M.Miller, D.J.Walden, H.Duda, D.M.Seyedin, S.N.Hoggard, T.Harper, J.W.White, K.P.Schulman, B.A.

(2009) Mol.Cell 36: 39-50

  • DOI: 10.1016/j.molcel.2009.09.022
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • In the largest E3 ligase subfamily, Cul3 binds a BTB domain, and an associated protein-interaction domain such as MATH recruits substrates for ubiquitination. Here, we present biochemical and structural analyses of the MATH-BTB protein, SPOP. We defi ...

    In the largest E3 ligase subfamily, Cul3 binds a BTB domain, and an associated protein-interaction domain such as MATH recruits substrates for ubiquitination. Here, we present biochemical and structural analyses of the MATH-BTB protein, SPOP. We define a SPOP-binding consensus (SBC) and determine structures revealing recognition of SBCs from the phosphatase Puc, the transcriptional regulator Ci, and the chromatin component MacroH2A. We identify a dimeric SPOP-Cul3 assembly involving a conserved helical structure C-terminal of BTB domains, which we call "3-box" due to its facilitating Cul3 binding and its resemblance to F-/SOCS-boxes in other cullin-based E3s. Structural flexibility between the substrate-binding MATH and Cul3-binding BTB/3-box domains potentially allows a SPOP dimer to engage multiple SBCs found within a single substrate, such as Puc. These studies provide a molecular understanding of how MATH-BTB proteins recruit substrates to Cul3 and how their dimerization and conformational variability may facilitate avid interactions with diverse substrates.


    Organizational Affiliation

    Department of Structural Biology, St. Jude Children's Research Hospital, Memphis, TN 38105, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Gigaxonin
A
256Homo sapiensMutation(s): 0 
Gene Names: GAN (GAN1, KLHL16)
Find proteins for Q9H2C0 (Homo sapiens)
Go to Gene View: GAN
Go to UniProtKB:  Q9H2C0
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Gigaxonin
B
256Homo sapiensMutation(s): 0 
Gene Names: GAN (GAN1, KLHL16)
Find proteins for Q9H2C0 (Homo sapiens)
Go to Gene View: GAN
Go to UniProtKB:  Q9H2C0
Small Molecules
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
UNK
Query on UNK
B
L-PEPTIDE LINKINGC4 H9 N O2

--

MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.333 
  • R-Value Work: 0.302 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 46.480α = 90.00
b = 55.600β = 91.10
c = 120.600γ = 90.00
Software Package:
Software NamePurpose
CNSrefinement
HKL-2000data scaling
SOLVEphasing
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-10-27
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2018-06-27
    Type: Data collection