5MPM

SERCA2a from pig heart

  • Classification: HYDROLASE
  • Organism(s): Sus scrofa
  • Mutation(s): No 

  • Deposited: 2016-12-16 Released: 2018-01-17 
  • Deposition Author(s): Drachmann, N.D., Sitsel, A., Andersen, J.L., Nissen, P., Olesen, C.
  • Funding Organization(s): VLAIO, The Danish National Research Foundation - Center for Membrane Pumps in Cells and Disease (PUMPkin), European Research Council Advanced Research grant BIOMEMOS, Karen Elise Jensens Fond, IWT doctoral grant

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.208 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structures of the heart specific SERCA2a Ca2+-ATPase.

Sitsel, A.De Raeymaecker, J.Drachmann, N.D.Derua, R.Smaardijk, S.Andersen, J.L.Vandecaetsbeek, I.Chen, J.De Maeyer, M.Waelkens, E.Olesen, C.Vangheluwe, P.Nissen, P.

(2019) EMBO J 38

  • DOI: 10.15252/embj.2018100020
  • Primary Citation of Related Structures:  
    5MPM, 6HXB

  • PubMed Abstract: 
  • The sarcoplasmic/endoplasmic reticulum Ca 2+ -ATPase 2a (SERCA2a) performs active reuptake of cytoplasmic Ca 2+ and is a major regulator of cardiac muscle contractility. Dysfunction or dysregulation of SERCA2a is associated wit ...

    The sarcoplasmic/endoplasmic reticulum Ca 2+ -ATPase 2a (SERCA2a) performs active reuptake of cytoplasmic Ca 2+ and is a major regulator of cardiac muscle contractility. Dysfunction or dysregulation of SERCA2a is associated with heart failure, while restoring its function is considered as a therapeutic strategy to restore cardiac performance. However, its structure has not yet been determined. Based on native, active protein purified from pig ventricular muscle, we present the first crystal structures of SERCA2a, determined in the CPA-stabilized E2-AlF4- form (3.3 Å) and the Ca 2+ -occluded [Ca 2 ]E1-AMPPCP form (4.0 Å). The structures are similar to the skeletal muscle isoform SERCA1a pointing to a conserved mechanism. We seek to explain the kinetic differences between SERCA1a and SERCA2a. We find that several isoform-specific residues are acceptor sites for post-translational modifications. In addition, molecular dynamics simulations predict that isoform-specific residues support distinct intramolecular interactions in SERCA2a and SERCA1a. Our experimental observations further indicate that isoform-specific intramolecular interactions are functionally relevant, and may explain the kinetic differences between SERCA2a and SERCA1a.


    Organizational Affiliation

    Danish Research Institute of Translational Neuroscience - DANDRITE, Nordic-EMBL Partnership for Molecular Medicine, Aarhus C, Denmark.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Sarcoplasmic/endoplasmic reticulum calcium ATPase 2A997Sus scrofaMutation(s): 0 
Gene Names: ATP2A2
EC: 3.6.3.8 (PDB Primary Data), 7.2.2.10 (UniProt)
Membrane protein
Mpstruc
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
P-type ATPase
Protein: 
Calcium ATPase sarco/endoplasmic reticulum (SERCA2a), CPA-stabilized E2-AlF-4 form
Find proteins for P11607 (Sus scrofa)
Explore P11607 
Go to UniProtKB:  P11607
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CZA
Query on CZA

Download CCD File 
A
(6AR,11AS,11BR)-10-ACETYL-9-HYDROXY-7,7-DIMETHYL-2,6,6A,7,11A,11B-HEXAHYDRO-11H-PYRROLO[1',2':2,3]ISOINDOLO[4,5,6-CD]INDOL-11-ONE
C20 H20 N2 O3
RLOAZVAJNNPPDI-DQYPLSBCSA-N
 Ligand Interaction
MGF
Query on MGF

Download CCD File 
A
TRIFLUOROMAGNESATE
F3 Mg
GJOMWUHGUQLOAC-UHFFFAOYSA-K
 Ligand Interaction
K
Query on K

Download CCD File 
A
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download CCD File 
A
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.208 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 53.349α = 90
b = 253.287β = 100.86
c = 64.981γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
VLAIOBelgium--
The Danish National Research Foundation - Center for Membrane Pumps in Cells and Disease (PUMPkin)Denmark--
European Research Council Advanced Research grant BIOMEMOS--
Karen Elise Jensens Fond--
IWT doctoral grant--

Revision History 

  • Version 1.0: 2018-01-17
    Type: Initial release
  • Version 1.1: 2018-01-24
    Changes: Structure summary
  • Version 1.2: 2019-07-31
    Changes: Data collection, Database references