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Sodium in PDB 6tvy: Structure of Hen Egg White Lysozyme Crystallized in the Presence of Tb-XO4 Crystallophore in the Xtalcontroller Device

Enzymatic activity of Structure of Hen Egg White Lysozyme Crystallized in the Presence of Tb-XO4 Crystallophore in the Xtalcontroller Device

All present enzymatic activity of Structure of Hen Egg White Lysozyme Crystallized in the Presence of Tb-XO4 Crystallophore in the Xtalcontroller Device:
3.2.1.17;

Protein crystallography data

The structure of Structure of Hen Egg White Lysozyme Crystallized in the Presence of Tb-XO4 Crystallophore in the Xtalcontroller Device, PDB code: 6tvy was solved by R.De Wijn, K.Rollet, L.Coudray, A.G.Mcewen, B.Lorber, C.Sauter, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.24 / 1.51
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.810, 78.810, 38.332, 90.00, 90.00, 90.00
R / Rfree (%) 14.2 / 17.5

Other elements in 6tvy:

The structure of Structure of Hen Egg White Lysozyme Crystallized in the Presence of Tb-XO4 Crystallophore in the Xtalcontroller Device also contains other interesting chemical elements:

Terbium (Tb) 3 atoms
Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Hen Egg White Lysozyme Crystallized in the Presence of Tb-XO4 Crystallophore in the Xtalcontroller Device (pdb code 6tvy). 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 Structure of Hen Egg White Lysozyme Crystallized in the Presence of Tb-XO4 Crystallophore in the Xtalcontroller Device, PDB code: 6tvy:

Sodium binding site 1 out of 1 in 6tvy

Go back to Sodium Binding Sites List in 6tvy
Sodium binding site 1 out of 1 in the Structure of Hen Egg White Lysozyme Crystallized in the Presence of Tb-XO4 Crystallophore in the Xtalcontroller Device


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Hen Egg White Lysozyme Crystallized in the Presence of Tb-XO4 Crystallophore in the Xtalcontroller Device within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na301

b:71.4
occ:1.00
 OG A:SER72 2.2 50.5 1.0
O A:HOH431 2.6 29.7 1.0
O A:ARG73 2.7 47.3 1.0
CB A:SER72 2.8 49.6 1.0
O A:CYS64 2.9 24.7 1.0
O A:SER60 3.1 24.3 1.0
C A:ARG73 3.4 43.1 1.0
C A:SER72 3.6 46.8 1.0
C A:CYS64 3.7 22.8 1.0
CA A:ASN65 3.7 23.4 1.0
N A:ARG73 3.8 43.2 1.0
CA A:SER72 3.8 49.8 1.0
O A:SER72 3.9 46.8 1.0
N A:ASN65 4.1 21.5 1.0
N A:ASN74 4.1 39.3 1.0
OD1 A:ASN65 4.2 35.5 1.0
CA A:ARG73 4.2 42.0 1.0
C A:SER60 4.3 24.0 1.0
CB A:ASN65 4.3 27.8 1.0
CA A:ASN74 4.3 32.0 1.0
CB A:ASN74 4.3 30.8 1.0
O A:HOH443 4.4 36.7 1.0
O A:ARG61 4.5 31.7 1.0
CG A:ASN65 4.7 34.2 1.0
N A:ASP66 4.8 21.5 1.0
N A:CYS64 4.8 21.0 1.0
C A:ASN65 4.8 21.8 1.0
C A:ARG61 4.8 29.4 1.0
N A:SER72 4.8 51.8 1.0
O A:THR69 4.9 36.4 1.0
CA A:CYS64 4.9 21.1 1.0
CA A:SER60 5.0 20.5 1.0

Reference:

R.De Wijn, K.Rollet, S.Engilberge, A.G.Mcewen, O.Hennig, H.Betat, M.Moerl, F.Riobe, O.Maury, E.Girard, P.Benas, B.Lorber, C.Sauter. Monitoring the Production of High Diffraction-Quality Crystals of Two Enzymes in Real Time Using in Situ Dynamic Light Scattering Crystals 2020.
ISSN: ESSN 2073-4352
DOI: 10.3390/CRYST10020065
Page generated: Tue Oct 8 14:05:39 2024

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