4UC1

High resolution crystal structure of translocator protein 18kDa (TSPO) from Rhodobacter sphaeroides (A139T Mutant) in C2 space group


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.201 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structures of translocator protein (TSPO) and mutant mimic of a human polymorphism.

Li, F.Liu, J.Zheng, Y.Garavito, R.M.Ferguson-Miller, S.

(2015) Science 347: 555-558

  • DOI: 10.1126/science.1260590
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The 18-kilodalton translocator protein (TSPO), proposed to be a key player in cholesterol transport into mitochondria, is highly expressed in steroidogenic tissues, metastatic cancer, and inflammatory and neurological diseases such as Alzheimer's and ...

    The 18-kilodalton translocator protein (TSPO), proposed to be a key player in cholesterol transport into mitochondria, is highly expressed in steroidogenic tissues, metastatic cancer, and inflammatory and neurological diseases such as Alzheimer's and Parkinson's. TSPO ligands, including benzodiazepine drugs, are implicated in regulating apoptosis and are extensively used in diagnostic imaging. We report crystal structures (at 1.8, 2.4, and 2.5 angstrom resolution) of TSPO from Rhodobacter sphaeroides and a mutant that mimics the human Ala(147)→Thr(147) polymorphism associated with psychiatric disorders and reduced pregnenolone production. Crystals obtained in the lipidic cubic phase reveal the binding site of an endogenous porphyrin ligand and conformational effects of the mutation. The three crystal structures show the same tightly interacting dimer and provide insights into the controversial physiological role of TSPO and how the mutation affects cholesterol binding.


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, MI 48824, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Translocator protein TspO
A, B, C
157Rhodobacter sphaeroidesMutation(s): 1 
Gene Names: tspO (crtK)
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
Translocator Protein (18 kDA) TSPO
Protein: 
Translocator protein (TSPO), A139T SeMet1 C121
Find proteins for Q9RFC8 (Rhodobacter sphaeroides)
Go to UniProtKB:  Q9RFC8
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MOE
Query on MOE

Download SDF File 
Download CCD File 
C
METHOXY-ETHOXYL
C3 H7 O2
ASQUQUOEFDHYGP-UHFFFAOYSA-N
 Ligand Interaction
OLC
Query on OLC

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Download CCD File 
A, B, C
(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate
1-Oleoyl-R-glycerol
C21 H40 O4
RZRNAYUHWVFMIP-GDCKJWNLSA-N
 Ligand Interaction
Z0P
Query on Z0P

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Download CCD File 
B
(2S)-1-(hexadecanoyloxy)-3-hydroxypropan-2-yl (11Z)-octadec-11-enoate
C37 H70 O5
IIEPDWHEGOSXLD-NMYQGLQJSA-N
 Ligand Interaction
PP9
Query on PP9

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Download CCD File 
A
PROTOPORPHYRIN IX
C34 H34 N4 O4
FEDYMSUPMFCVOD-UJJXFSCMSA-N
 Ligand Interaction
P4C
Query on P4C

Download SDF File 
Download CCD File 
C
O-ACETALDEHYDYL-HEXAETHYLENE GLYCOL
POLYETHYLENE 400
C14 H28 O8
CTLLATPOKUEFSQ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.201 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 58.632α = 90.00
b = 99.544β = 99.92
c = 95.210γ = 90.00
Software Package:
Software NamePurpose
SHARPphasing
PHENIXrefinement
PHASERphasing
JBluIce-EPICSdata collection
XSCALEdata scaling
XDSdata scaling
Blu-Icedata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited StatesGM26916
Michigan State University Strategic Partnership Grant, Mitochondrial Science & MedicineUnited States--

Revision History 

  • Version 1.0: 2015-02-04
    Type: Initial release
  • Version 1.1: 2015-02-11
    Type: Database references
  • Version 1.2: 2015-06-03
    Type: Database references, Structure summary
  • Version 1.3: 2017-09-13
    Type: Author supporting evidence, Database references, Derived calculations, Refinement description, Source and taxonomy