4OE9

The crystal structure of the n-terminal domain of COMMD9


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.165 
  • R-Value Work: 0.134 

wwPDB Validation 3D Report Full Report


This is version 2.0 of the entry. See complete history

Literature

Structural insights into the architecture and membrane interactions of the conserved COMMD proteins.

Healy, M.D.Hospenthal, M.K.Hall, R.J.Chandra, M.Chilton, M.Tillu, V.Chen, K.E.Celligoi, D.J.McDonald, F.J.Cullen, P.J.Lott, J.S.Collins, B.M.Ghai, R.

(2018) Elife 7: --

  • DOI: 10.7554/eLife.35898
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The COMMD proteins are a conserved family of proteins with central roles in intracellular membrane trafficking and transcription. They form oligomeric complexes with each other and act as components of a larger assembly called the CCC complex, which ...

    The COMMD proteins are a conserved family of proteins with central roles in intracellular membrane trafficking and transcription. They form oligomeric complexes with each other and act as components of a larger assembly called the CCC complex, which is localized to endosomal compartments and mediates the transport of several transmembrane cargos. How these complexes are formed however is completely unknown. Here, we have systematically characterised the interactions between human COMMD proteins, and determined structures of COMMD proteins using X-ray crystallography and X-ray scattering to provide insights into the underlying mechanisms of homo- and heteromeric assembly. All COMMD proteins possess an α-helical N-terminal domain, and a highly conserved C-terminal domain that forms a tightly interlocked dimeric structure responsible for COMMD-COMMD interactions. The COMM domains also bind directly to components of CCC and mediate non-specific membrane association. Overall these studies show that COMMD proteins function as obligatory dimers with conserved domain architectures.


    Organizational Affiliation

    Institute for Molecular Bioscience, The University of Queensland, St. Lucia, Australia.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
COMM domain-containing protein 9
A, B
121Homo sapiensMutation(s): 2 
Gene Names: COMMD9
Find proteins for Q9P000 (Homo sapiens)
Go to Gene View: COMMD9
Go to UniProtKB:  Q9P000
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
K
Query on K

Download SDF File 
Download CCD File 
B
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
 Ligand Interaction
CIT
Query on CIT

Download SDF File 
Download CCD File 
A, B
CITRIC ACID
C6 H8 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.165 
  • R-Value Work: 0.134 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 28.490α = 104.03
b = 35.580β = 93.30
c = 54.300γ = 91.11
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
ADSCdata collection
SOLVEphasing
Aimlessdata scaling
MOSFLMdata reduction
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-03-04
    Type: Initial release
  • Version 2.0: 2018-08-22
    Type: Advisory, Atomic model, Data collection, Database references, Derived calculations, Structure summary