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Sodium in PDB 5xab: Complete Structure Factors and An Atomic Model of the Calcium Pump (SERCA1A) and Associated Phospholipids in the E2(Tg) Crystals

Enzymatic activity of Complete Structure Factors and An Atomic Model of the Calcium Pump (SERCA1A) and Associated Phospholipids in the E2(Tg) Crystals

All present enzymatic activity of Complete Structure Factors and An Atomic Model of the Calcium Pump (SERCA1A) and Associated Phospholipids in the E2(Tg) Crystals:
3.6.3.8;

Protein crystallography data

The structure of Complete Structure Factors and An Atomic Model of the Calcium Pump (SERCA1A) and Associated Phospholipids in the E2(Tg) Crystals, PDB code: 5xab was solved by Y.Norimatsu, K.Hasegawa, N.Shimizu, C.Toyoshima, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 73.35 / 3.20
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 71.358, 71.358, 586.790, 90.00, 90.00, 90.00
R / Rfree (%) 22.3 / 24.4

Sodium Binding Sites:

The binding sites of Sodium atom in the Complete Structure Factors and An Atomic Model of the Calcium Pump (SERCA1A) and Associated Phospholipids in the E2(Tg) Crystals (pdb code 5xab). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Complete Structure Factors and An Atomic Model of the Calcium Pump (SERCA1A) and Associated Phospholipids in the E2(Tg) Crystals, PDB code: 5xab:

Sodium binding site 1 out of 1 in 5xab

Go back to Sodium Binding Sites List in 5xab
Sodium binding site 1 out of 1 in the Complete Structure Factors and An Atomic Model of the Calcium Pump (SERCA1A) and Associated Phospholipids in the E2(Tg) Crystals


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Complete Structure Factors and An Atomic Model of the Calcium Pump (SERCA1A) and Associated Phospholipids in the E2(Tg) Crystals within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1001

b:21.7
occ:1.00
 O A:LEU711 2.5 18.5 1.0
O A:ALA714 2.5 19.8 1.0
O A:LYS712 2.6 23.6 1.0
O A:HOH1101 2.7 28.5 1.0
OE1 A:GLU732 2.8 22.6 1.0
O A:HOH1134 2.8 28.4 1.0
C A:LYS712 2.9 23.4 1.0
CA A:LYS712 3.2 23.5 1.0
OE2 A:GLU732 3.3 26.3 1.0
CD A:GLU732 3.3 23.4 1.0
OE1 A:GLN244 3.3 67.7 1.0
C A:LEU711 3.5 26.1 1.0
C A:ALA714 3.7 19.6 1.0
N A:LYS712 3.8 23.3 1.0
N A:LYS713 3.9 20.6 1.0
CD A:GLN244 4.1 64.3 1.0
N A:GLY717 4.1 17.4 1.0
N A:ALA714 4.1 19.1 1.0
C A:LYS713 4.2 20.5 1.0
O A:GLU715 4.4 19.1 1.0
CA A:ALA714 4.5 19.2 1.0
CB A:LYS712 4.5 23.6 1.0
O A:ALA730 4.5 21.9 1.0
C A:GLU715 4.5 18.7 1.0
CA A:LYS713 4.6 20.4 1.0
CA A:GLY717 4.6 17.2 1.0
O A:LYS713 4.6 20.6 1.0
CG A:GLU732 4.7 22.2 1.0
N A:GLU715 4.8 18.2 1.0
NE2 A:GLN244 4.8 68.7 1.0
CG A:LYS712 4.8 23.9 1.0
CG A:GLN244 4.8 56.4 1.0
CA A:LEU711 4.9 20.5 1.0
CA A:GLU715 4.9 18.5 1.0
N A:ILE716 4.9 18.2 1.0

Reference:

Y.Norimatsu, K.Hasegawa, N.Shimizu, C.Toyoshima. Protein-Phospholipid Interplay Revealed with Crystals of A Calcium Pump. Nature V. 545 193 2017.
ISSN: ESSN 1476-4687
PubMed: 28467821
DOI: 10.1038/NATURE22357
Page generated: Tue Oct 8 01:10:28 2024

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