› 6yso

X-ray diffraction
3.13Å resolution

Crystal structure of the (SR) Ca2+-ATPase solved by vanadium SAD phasing

Released:
DOI: 10.2210/pdb6yso/pdb
PDB entry 6yso coloured by chain, front view.
PDB entry 6yso coloured by chain, side view.
PDB entry 6yso coloured by chain, top view.
Source organism: Oryctolagus cuniculus
Primary publication:
Experimental phasing with vanadium and application to nucleotide-binding membrane proteins.
El Omari K, Mohamad N, Bountra K, Duman R, Romano M, Schlegel K, Kwong HS, Mykhaylyk V, Olesen C, Moller JV, Bublitz M, Beis K, Wagner A
OpenAccess logo IUCrJ 7 1092-1101 (2020)
PMID: 33209320

Function and Biology Details

Reaction catalysed: 
ATP + H(2)O + Ca(2+)(Side 1) = ADP + phosphate + Ca(2+)(Side 2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-137501 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Sarcoplasmic/endoplasmic reticulum calcium ATPase 1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 994 amino acids
Theoretical weight: 109.6 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: P04191 (Residues: 1-993; Coverage: 99%)
  • Best match: P04191-2 (Residues: 1-994)
Gene name: ATP2A1
Sequence domains:

Ligands and Environments

6 bound ligands:
Ligand 128 2 x 128
Ligand TG1 2 x TG1
Ligand VN4 2 x VN4
Ligand MG 4 x MG
Ligand CL 2 x CL
Ligand K 2 x K
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I23
Spacegroup: P21
Unit cell:
a: 131.14Å b: 94.39Å c: 135.11Å
α: 90° β: 107.05° γ: 90°
R-values:
R R work R free
0.204 0.201 0.259

Quick links

Citations

1 citations in other articles

Experimental phasing opportunities for macromolecular crystallography at very long wavelengths.
El Omari et al. (2023)

2 mentions without citation

Interaction of Vanadium Complexes with Proteins: Revisiting the Reported Structures in the Protein Data Bank (PDB) since 2015.
Santos et al. (2023)
1 more