6F5D

Trypanosoma brucei F1-ATPase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.272 

wwPDB Validation 3D Report Full Report


This is version 2.0 of the entry. See complete history

Literature

ATP synthase fromTrypanosoma bruceihas an elaborated canonical F1-domain and conventional catalytic sites.

Montgomery, M.G.Gahura, O.Leslie, A.G.W.Zikova, A.Walker, J.E.

(2018) Proc. Natl. Acad. Sci. U.S.A. 115: 2102-2107


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ATP synthase subunit alpha, mitochondrial
A, B, C
560Trypanosoma brucei brucei (strain 927/4 GUTat10.1)Mutation(s): 0 
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
F-type ATPase
Protein: 
F1-ATPase
Find proteins for Q57TX9 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
Go to UniProtKB:  Q57TX9
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
ATP synthase subunit beta, mitochondrial
D, E, F
498Trypanosoma brucei brucei (strain 927/4 GUTat10.1)Mutation(s): 0 
EC: 7.1.2.2
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
F-type ATPase
Protein: 
F1-ATPase
Find proteins for Q57XX1 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
Go to UniProtKB:  Q57XX1
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
ATP synthase gamma subunit
G
304Trypanosoma brucei brucei (strain 927/4 GUTat10.1)Mutation(s): 0 
EC: 3.6.3.14
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
F-type ATPase
Protein: 
F1-ATPase
Find proteins for Q38CM0 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
Go to UniProtKB:  Q38CM0
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
ATP synthase subunit delta, mitochondrial
H
165Trypanosoma brucei brucei (strain 927/4 GUTat10.1)Mutation(s): 0 
EC: 3.6.3.-
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
F-type ATPase
Protein: 
F1-ATPase
Find proteins for Q586H1 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
Go to UniProtKB:  Q586H1
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
ATP synthase subunit epsilon, mitochondrial
I
66Trypanosoma brucei brucei (strain 927/4 GUTat10.1)Mutation(s): 0 
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
F-type ATPase
Protein: 
F1-ATPase
Find proteins for Q38B96 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
Go to UniProtKB:  Q38B96
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
ATP synthase subunit p18, mitochondrial
J, K, L
170Trypanosoma brucei brucei (strain 927/4 GUTat10.1)Mutation(s): 0 
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
F-type ATPase
Protein: 
F1-ATPase
Find proteins for Q57ZP0 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
Go to UniProtKB:  Q57ZP0
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

Download SDF File 
Download CCD File 
A, B, C, D, E, F
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A, B, C, D, F
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.272 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 124.218α = 90.00
b = 206.350β = 104.85
c = 130.210γ = 90.00
Software Package:
Software NamePurpose
Aimlessdata scaling
PHASERphasing
MOSFLMdata reduction
REFMACrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (United Kingdom)United KingdomMR/M009858/1
Medical Research Council (United Kingdom)United KingdomMC_U105663150
Medical Research Council (United Kingdom)United KingdomMC_U105184325
Ministry of Education ERC CZCzech RepublicLL1205
Postdok_BIOGLOBECzech RepublicCZ.1.07/2.3.00/30.0032
European Molecular Biology OrganizationASTF 81-2016

Revision History 

  • Version 1.0: 2018-02-21
    Type: Initial release
  • Version 1.1: 2018-03-28
    Type: Data collection, Database references
  • Version 2.0: 2018-08-15
    Type: Data collection, Database references, Non-polymer description, Structure summary