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Sodium in PDB 5uq6: Pig Purple Acid Phosphatase Complexed with Phosphate in Two Coordination Modes Along with A Bridging Hydroxide Ion

Enzymatic activity of Pig Purple Acid Phosphatase Complexed with Phosphate in Two Coordination Modes Along with A Bridging Hydroxide Ion

All present enzymatic activity of Pig Purple Acid Phosphatase Complexed with Phosphate in Two Coordination Modes Along with A Bridging Hydroxide Ion:
3.1.3.2;

Protein crystallography data

The structure of Pig Purple Acid Phosphatase Complexed with Phosphate in Two Coordination Modes Along with A Bridging Hydroxide Ion, PDB code: 5uq6 was solved by C.Selleck, L.Guddat, G.Schenk, D.Clayton, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.60 / 1.18
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 63.124, 69.981, 75.052, 90.00, 90.00, 90.00
R / Rfree (%) 14.1 / 15.6

Other elements in 5uq6:

The structure of Pig Purple Acid Phosphatase Complexed with Phosphate in Two Coordination Modes Along with A Bridging Hydroxide Ion also contains other interesting chemical elements:

Iron (Fe) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Pig Purple Acid Phosphatase Complexed with Phosphate in Two Coordination Modes Along with A Bridging Hydroxide Ion (pdb code 5uq6). 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 Pig Purple Acid Phosphatase Complexed with Phosphate in Two Coordination Modes Along with A Bridging Hydroxide Ion, PDB code: 5uq6:

Sodium binding site 1 out of 1 in 5uq6

Go back to Sodium Binding Sites List in 5uq6
Sodium binding site 1 out of 1 in the Pig Purple Acid Phosphatase Complexed with Phosphate in Two Coordination Modes Along with A Bridging Hydroxide Ion


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Pig Purple Acid Phosphatase Complexed with Phosphate in Two Coordination Modes Along with A Bridging Hydroxide Ion within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na405

b:32.4
occ:1.00
 OD1 A:ASP77 1.9 20.1 0.4
HB3 A:SER79 2.5 27.8 1.0
H A:SER79 2.6 22.1 1.0
O A:HOH795 2.7 39.0 1.0
CG A:ASP77 2.8 17.3 0.4
OD2 A:ASP77 3.2 25.5 0.4
HD2 A:LYS40 3.2 32.6 1.0
HB3 A:ASP77 3.3 25.5 0.6
CB A:SER79 3.3 23.1 1.0
HB1 A:ALA36 3.3 16.9 1.0
N A:SER79 3.4 18.4 1.0
OG A:SER79 3.5 26.2 1.0
HG A:SER79 3.5 31.4 1.0
HD2 A:PRO78 3.6 26.1 1.0
HB2 A:LYS40 3.7 24.3 1.0
HB2 A:PRO78 3.9 28.8 1.0
CA A:SER79 3.9 19.2 1.0
HB2 A:SER79 4.0 27.8 1.0
CD A:LYS40 4.1 27.2 1.0
CB A:ASP77 4.1 13.9 0.4
HB3 A:ASP77 4.2 16.6 0.4
CB A:ASP77 4.2 21.2 0.6
N A:PRO78 4.2 19.1 1.0
CB A:ALA36 4.2 14.1 1.0
CD A:PRO78 4.3 21.8 1.0
HZ2 A:LYS40 4.3 68.0 1.0
HD3 A:LYS40 4.4 32.6 1.0
HB2 A:ASP77 4.4 25.5 0.6
O A:ALA36 4.4 15.2 1.0
C A:PRO78 4.4 17.3 1.0
HB3 A:ALA36 4.4 16.9 1.0
HA A:SER79 4.5 23.1 1.0
CB A:PRO78 4.6 24.0 1.0
CB A:LYS40 4.6 20.3 1.0
C A:ASP77 4.6 16.1 1.0
CA A:PRO78 4.6 18.9 1.0
O A:HOH662 4.7 26.9 1.0
C A:ALA36 4.7 13.4 1.0
HB2 A:ASP77 4.8 16.6 0.4
HG2 A:PRO78 4.8 27.6 1.0
HB2 A:ALA36 4.8 16.9 1.0
HB3 A:LYS40 4.8 24.3 1.0
CG A:PRO78 4.8 23.0 1.0
CG A:LYS40 4.9 24.1 1.0
O A:HOH745 4.9 51.5 1.0
CA A:ASP77 5.0 14.1 0.4
CA A:ASP77 5.0 16.7 0.6
H A:LEU80 5.0 20.2 1.0

Reference:

C.Selleck, D.Clayton, L.R.Gahan, N.Mitic, R.P.Mcgeary, M.M.Pedroso, L.W.Guddat, G.Schenk. Visualization of the Reaction Trajectory and Transition State in A Hydrolytic Reaction Catalyzed By A Metalloenzyme. Chemistry V. 23 4778 2017.
ISSN: ISSN 1521-3765
PubMed: 28261912
DOI: 10.1002/CHEM.201700866
Page generated: Tue Oct 8 00:38:11 2024

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