7RJA

Complex III2 from Candida albicans, inhibitor free


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Rieske head domain dynamics and indazole-derivative inhibition of Candida albicans complex III.

Di Trani, J.M.Liu, Z.Whitesell, L.Brzezinski, P.Cowen, L.E.Rubinstein, J.L.

(2022) Structure 30: 129

  • DOI: 10.1016/j.str.2021.08.006
  • Primary Citation of Related Structures:  
    7RJA, 7RJB, 7RJC, 7RJD, 7RJE

  • PubMed Abstract: 
  • Electron transfer between respiratory complexes drives transmembrane proton translocation, which powers ATP synthesis and membrane transport. The homodimeric respiratory complex III (CIII 2 ) oxidizes ubiquinol to ubiquinone, transferring electrons to cytochrome c and translocating protons through a mechanism known as the Q cycle ...

    Electron transfer between respiratory complexes drives transmembrane proton translocation, which powers ATP synthesis and membrane transport. The homodimeric respiratory complex III (CIII 2 ) oxidizes ubiquinol to ubiquinone, transferring electrons to cytochrome c and translocating protons through a mechanism known as the Q cycle. The Q cycle involves ubiquinol oxidation and ubiquinone reduction at two different sites within each CIII monomer, as well as movement of the head domain of the Rieske subunit. We determined structures of Candida albicans CIII 2 by cryoelectron microscopy (cryo-EM), revealing endogenous ubiquinone and visualizing the continuum of Rieske head domain conformations. Analysis of these conformations does not indicate cooperativity in the Rieske head domain position or ligand binding in the two CIIIs of the CIII 2 dimer. Cryo-EM with the indazole derivative Inz-5, which inhibits fungal CIII 2 and is fungicidal when administered with fungistatic azole drugs, showed that Inz-5 inhibition alters the equilibrium of Rieske head domain positions.


    Organizational Affiliation

    Molecular Medicine Program, The Hospital for Sick Children, Toronto, ON, Canada; Department of Biochemistry, University of Toronto, Toronto, ON, Canada; Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada. Electronic address: john.rubinstein@utoronto.ca.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Ubiquinol--cytochrome-c reductase subunitA, J439Candida albicans SC5314Mutation(s): 0 
Gene Names: orf19.11499CAALFM_C505230CA
UniProt
Find proteins for A0A1D8PP59 (Candida albicans (strain SC5314 / ATCC MYA-2876))
Explore A0A1D8PP59 
Go to UniProtKB:  A0A1D8PP59
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1D8PP59
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Cytochrome bB [auth K],
K [auth T]
387Candida albicans SC5314Mutation(s): 0 
Gene Names: COBCYTBCM_00330WCaalfMp11
Membrane Entity: Yes 
UniProt
Find proteins for P0C8L0 (Candida albicans (strain SC5314 / ATCC MYA-2876))
Explore P0C8L0 
Go to UniProtKB:  P0C8L0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0C8L0
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Ubiquinol--cytochrome-c reductase catalytic subunitC [auth D],
L [auth N]
288Candida albicans SC5314Mutation(s): 0 
Gene Names: CYT1orf19.11011CAALFM_C204950CA
Membrane Entity: Yes 
UniProt
Find proteins for A0A1D8PHA3 (Candida albicans (strain SC5314 / ATCC MYA-2876))
Explore A0A1D8PHA3 
Go to UniProtKB:  A0A1D8PHA3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1D8PHA3
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Cytochrome b-c1 complex subunit 7D [auth G],
M [auth Q]
127Candida albicans SC5314Mutation(s): 0 
Gene Names: QCR7orf19.13074CAALFM_C603400CA
Membrane Entity: Yes 
UniProt
Find proteins for Q5ABS1 (Candida albicans (strain SC5314 / ATCC MYA-2876))
Explore Q5ABS1 
Go to UniProtKB:  Q5ABS1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5ABS1
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Ubiquinol--cytochrome-c reductase subunit 8E [auth F],
N [auth P]
95Candida albicans SC5314Mutation(s): 0 
Gene Names: QCR8orf19.4490.2CAALFM_C204590CA
Membrane Entity: Yes 
UniProt
Find proteins for A0A1D8PHA2 (Candida albicans (strain SC5314 / ATCC MYA-2876))
Explore A0A1D8PHA2 
Go to UniProtKB:  A0A1D8PHA2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1D8PHA2
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Ubiquinol--cytochrome-c reductase subunit 6F [auth H],
O [auth R]
135Candida albicans SC5314Mutation(s): 0 
Gene Names: orf19.913.2CAALFM_C304080WA
Membrane Entity: Yes 
UniProt
Find proteins for A0A1D8PJT8 (Candida albicans (strain SC5314 / ATCC MYA-2876))
Explore A0A1D8PJT8 
Go to UniProtKB:  A0A1D8PJT8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1D8PJT8
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
Ubiquinol--cytochrome-c reductase subunit 9G [auth I],
P [auth S]
65Candida albicans SC5314Mutation(s): 0 
Gene Names: QCR9orf19.2707.1CAALFM_C402890CA
Membrane Entity: Yes 
UniProt
Find proteins for A0A1D8PLP3 (Candida albicans (strain SC5314 / ATCC MYA-2876))
Explore A0A1D8PLP3 
Go to UniProtKB:  A0A1D8PLP3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1D8PLP3
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
Cytochrome b-c1 complex subunit Rieske, mitochondrialH [auth C],
Q [auth M]
213Candida albicans SC5314Mutation(s): 0 
Gene Names: RIP1orf19.13314CAALFM_C304430WA
EC: 7.1.1.8
Membrane Entity: Yes 
UniProt
Find proteins for A0A1D8PJX3 (Candida albicans (strain SC5314 / ATCC MYA-2876))
Explore A0A1D8PJX3 
Go to UniProtKB:  A0A1D8PJX3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1D8PJX3
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
Cytochrome b-c1 complex subunit 2, mitochondrialI [auth B],
R [auth L]
374Candida albicans SC5314Mutation(s): 0 
Gene Names: QCR2CAALFM_C503350WACaO19.10167CaO19.2644
Membrane Entity: Yes 
UniProt
Find proteins for P83782 (Candida albicans (strain SC5314 / ATCC MYA-2876))
Explore P83782 
Go to UniProtKB:  P83782
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP83782
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
U10
Query on U10

Download Ideal Coordinates CCD File 
AA [auth T],
BA [auth T],
U [auth K],
V [auth K]
UBIQUINONE-10
C59 H90 O4
ACTIUHUUMQJHFO-UPTCCGCDSA-N
 Ligand Interaction
HEC
Query on HEC

Download Ideal Coordinates CCD File 
CA [auth N],
W [auth D]
HEME C
C34 H34 Fe N4 O4
HXQIYSLZKNYNMH-LJNAALQVSA-N
 Ligand Interaction
HEM
Query on HEM

Download Ideal Coordinates CCD File 
S [auth K],
T [auth K],
Y [auth T],
Z [auth T]
PROTOPORPHYRIN IX CONTAINING FE
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
 Ligand Interaction
FES
Query on FES

Download Ideal Coordinates CCD File 
DA [auth M],
X [auth C]
FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Canadian Institutes of Health Research (CIHR)CanadaPJT162186
Canadian Institutes of Health Research (CIHR)CanadaFDN154288
Knut and Alice Wallenberg FoundationSweden2019.0043
Swedish Research CouncilSweden2018-04619
Canada Research ChairsCanada--

Revision History  (Full details and data files)

  • Version 1.0: 2021-09-15
    Type: Initial release
  • Version 1.1: 2021-09-29
    Changes: Database references
  • Version 1.2: 2022-01-19
    Changes: Database references