3OF1 | pdb_00003of1

Crystal Structure of Bcy1, the Yeast Regulatory Subunit of PKA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free: 
    0.263 (Depositor) 
  • R-Value Work: 
    0.200 (Depositor), 0.200 (DCC) 
  • R-Value Observed: 
    0.200 (Depositor) 

Starting Model: experimental
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This is version 1.2 of the entry. See complete history

Literature

Structure of Yeast Regulatory Subunit: A Glimpse into the Evolution of PKA Signaling.

Rinaldi, J.Wu, J.Yang, J.Ralston, C.Y.Sankaran, B.Moreno, S.Taylor, S.S.

(2010) Structure 18: 1471-1482

  • DOI: https://doi.org/10.1016/j.str.2010.08.013
  • Primary Citation Related Structures: 
    3OF1

  • PubMed Abstract: 

    The major cAMP receptors in eukaryotes are the regulatory (R) subunits of PKA, an allosteric enzyme conserved in fungi through mammals. While mammals have four R-subunit genes, Saccharomyces cerevisiae has only one, Bcy1. To achieve a molecular understanding of PKA activation in yeast and to explore the evolution of cyclic-nucleotide binding (CNB) domains, we solved the structure of cAMP-bound Bcy1(168-416). Surprisingly, the relative orientation of the two CNB domains in Bcy1 is very different from mammalian R-subunits. This quaternary structure is defined primarily by a fungi-specific sequence in the hinge between the αB/αC helices of the CNB-A domain. The unique interface between the two CNB domains in Bcy1 defines the allosteric mechanism for cooperative activation of PKA by cAMP. Some interface motifs are isoform-specific while others, although conserved, play surprisingly different roles in each R-subunit. Phylogenetic analysis shows that structural differences in Bcy1 are shared by fungi of the subphylum Saccharomycotina.


  • Organizational Affiliation
    • Department of Biological Chemistry, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Ciudad Universitaria, Pabellón 2, 1428 Buenos Aires, Argentina.

Macromolecule Content 

  • Total Structure Weight: 28.18 kDa 
  • Atom Count: 1,957 
  • Modeled Residue Count: 246 
  • Deposited Residue Count: 246 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
cAMP-dependent protein kinase regulatory subunit246Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: BCY1REG1SRA1YIL033C
UniProt
Find proteins for P07278 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P07278 
Go to UniProtKB:  P07278
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP07278
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free:  0.263 (Depositor) 
  • R-Value Work:  0.200 (Depositor), 0.200 (DCC) 
  • R-Value Observed: 0.200 (Depositor) 
Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 146.425α = 90
b = 45.042β = 92.51
c = 39.103γ = 90
Software Package:
Software NamePurpose
ADSCdata collection
AMoREphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-12-01
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2023-09-06
    Changes: Data collection, Database references, Derived calculations, Refinement description