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Sodium in PDB 7ov2: Crystal Structure of Pig Purple Acid Phosphatase in Complex with L- Glutamine, (Poly)Ethylene Glycol Fragments and Glycerol

Enzymatic activity of Crystal Structure of Pig Purple Acid Phosphatase in Complex with L- Glutamine, (Poly)Ethylene Glycol Fragments and Glycerol

All present enzymatic activity of Crystal Structure of Pig Purple Acid Phosphatase in Complex with L- Glutamine, (Poly)Ethylene Glycol Fragments and Glycerol:
3.1.3.2;

Protein crystallography data

The structure of Crystal Structure of Pig Purple Acid Phosphatase in Complex with L- Glutamine, (Poly)Ethylene Glycol Fragments and Glycerol, PDB code: 7ov2 was solved by D.Feder, R.P.Mcgeary, L.W.Guddat, G.Schenk, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 51.25 / 2.10
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 64.447, 68.668, 77.007, 90, 90, 90
R / Rfree (%) 14.2 / 19.6

Other elements in 7ov2:

The structure of Crystal Structure of Pig Purple Acid Phosphatase in Complex with L- Glutamine, (Poly)Ethylene Glycol Fragments and Glycerol also contains other interesting chemical elements:

Iron (Fe) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Pig Purple Acid Phosphatase in Complex with L- Glutamine, (Poly)Ethylene Glycol Fragments and Glycerol (pdb code 7ov2). 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 Crystal Structure of Pig Purple Acid Phosphatase in Complex with L- Glutamine, (Poly)Ethylene Glycol Fragments and Glycerol, PDB code: 7ov2:

Sodium binding site 1 out of 1 in 7ov2

Go back to Sodium Binding Sites List in 7ov2
Sodium binding site 1 out of 1 in the Crystal Structure of Pig Purple Acid Phosphatase in Complex with L- Glutamine, (Poly)Ethylene Glycol Fragments and Glycerol


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Pig Purple Acid Phosphatase in Complex with L- Glutamine, (Poly)Ethylene Glycol Fragments and Glycerol within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na662

b:19.6
occ:0.94
 O A:SER108 2.2 20.5 1.0
O A:TRP111 2.3 19.3 1.0
O A:SER105 2.4 14.8 1.0
OH2 A:1PE604 2.4 25.2 0.7
OH3 A:1PE604 2.5 33.7 0.7
O A:LYS109 2.5 20.7 1.0
C12 A:1PE604 3.1 24.3 0.7
C A:LYS109 3.1 20.1 1.0
C13 A:1PE604 3.2 30.1 0.7
C23 A:1PE604 3.2 25.1 0.7
C22 A:1PE604 3.3 29.9 0.7
C A:SER108 3.3 27.4 1.0
C A:TRP111 3.3 21.5 1.0
C A:SER105 3.4 22.1 1.0
CA A:LYS109 3.4 25.5 1.0
N A:TRP111 3.7 18.8 1.0
CA A:SER105 3.7 19.6 1.0
N A:LYS109 3.8 21.7 1.0
CA A:TRP111 4.0 15.5 1.0
CB A:SER105 4.2 12.4 1.0
N A:ARG110 4.2 18.2 1.0
OD1 A:ASN112 4.3 23.4 0.5
N A:ASN112 4.3 14.3 1.0
C A:ARG110 4.4 22.3 1.0
CB A:TRP111 4.4 17.0 1.0
CG A:ASN112 4.5 21.4 0.5
CA A:ASN112 4.6 16.2 0.5
CA A:ASN112 4.6 16.2 0.5
CA A:SER108 4.6 18.5 1.0
N A:LYS106 4.6 22.0 1.0
OH4 A:1PE604 4.6 45.1 0.7
ND2 A:ASN112 4.6 21.1 0.5
N A:SER108 4.8 21.3 1.0
CA A:ARG110 4.8 22.8 1.0
CB A:LYS109 4.8 22.1 1.0
O A:HOH819 4.9 38.5 1.0
ND2 A:ASN112 4.9 22.6 0.5
O A:TYR104 5.0 17.5 1.0

Reference:

D.Feder, S.H.Mohd-Pahmi, W.M.Hussein, L.W.Guddat, R.P.Mcgeary, G.Schenk. Rational Design of Potent Inhibitors of A Metallohydrolase Using A Fragment-Based Approach. Chemmedchem V. 16 3342 2021.
ISSN: ESSN 1860-7187
PubMed: 34331400
DOI: 10.1002/CMDC.202100486
Page generated: Fri Apr 7 15:28:24 2023

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