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Sodium in PDB 6b7v: Structure of Hen Egg-White Lysozyme Pre-Treated with High-Pressure Homogenization at 120 Mpa

Enzymatic activity of Structure of Hen Egg-White Lysozyme Pre-Treated with High-Pressure Homogenization at 120 Mpa

All present enzymatic activity of Structure of Hen Egg-White Lysozyme Pre-Treated with High-Pressure Homogenization at 120 Mpa:
3.2.1.17;

Protein crystallography data

The structure of Structure of Hen Egg-White Lysozyme Pre-Treated with High-Pressure Homogenization at 120 Mpa, PDB code: 6b7v was solved by M.A.B.Morais, A.F.Z.Nascimento, C.Y.Tominaga, M.Cristianini, A.A.L.Tribst, M.T.Murakami, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 33.44 / 1.48
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.144, 78.144, 36.999, 90.00, 90.00, 90.00
R / Rfree (%) 16.8 / 20.3

Other elements in 6b7v:

The structure of Structure of Hen Egg-White Lysozyme Pre-Treated with High-Pressure Homogenization at 120 Mpa also contains other interesting chemical elements:

Chlorine (Cl) 6 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Hen Egg-White Lysozyme Pre-Treated with High-Pressure Homogenization at 120 Mpa (pdb code 6b7v). 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 Pre-Treated with High-Pressure Homogenization at 120 Mpa, PDB code: 6b7v:

Sodium binding site 1 out of 1 in 6b7v

Go back to Sodium Binding Sites List in 6b7v
Sodium binding site 1 out of 1 in the Structure of Hen Egg-White Lysozyme Pre-Treated with High-Pressure Homogenization at 120 Mpa


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 Pre-Treated with High-Pressure Homogenization at 120 Mpa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na207

b:19.7
occ:1.00
 O A:SER78 2.2 18.6 1.0
O A:HOH302 2.3 20.7 1.0
O A:HOH360 2.4 14.1 1.0
O A:ARG91 2.5 22.4 1.0
OG A:SER90 2.5 21.4 1.0
O A:CYS82 2.6 12.9 1.0
CB A:SER90 3.2 21.0 1.0
C A:SER78 3.3 16.2 1.0
C A:ARG91 3.5 21.0 1.0
C A:CYS82 3.6 10.6 1.0
N A:ARG91 3.9 19.5 1.0
CA A:ASN83 4.0 12.7 1.0
CA A:SER78 4.0 11.7 1.0
OXT A:ACT211 4.1 38.6 1.0
C A:SER90 4.2 27.5 1.0
CB A:SER78 4.2 13.7 1.0
N A:ASN83 4.3 13.4 1.0
CA A:ARG91 4.3 17.2 1.0
CA A:SER90 4.3 27.0 1.0
N A:ARG79 4.4 16.1 1.0
C A:ARG79 4.4 21.6 1.0
O A:ARG79 4.4 19.9 1.0
N A:ASN92 4.4 17.0 1.0
CB A:THR87 4.5 15.5 1.0
CL A:CL205 4.6 23.2 1.0
CA A:ARG79 4.6 17.7 1.0
N A:CYS82 4.6 14.8 1.0
N A:ASP84 4.7 11.1 1.0
CA A:ASN92 4.7 15.8 1.0
OD1 A:ASN83 4.7 16.8 1.0
CA A:CYS82 4.8 14.0 1.0
O A:THR87 4.8 18.6 1.0
O A:SER90 4.8 24.4 1.0
CB A:ASN92 4.8 16.7 1.0
CB A:ASN83 4.8 15.6 1.0
N A:TRP80 4.8 16.9 1.0
C A:ASN83 4.9 12.1 1.0
OG1 A:THR87 5.0 14.9 1.0

Reference:

M.A.B.Morais, A.F.Z.Nascimento, C.Y.Tominaga, M.Cristianini, A.A.L.Tribst, M.T.Murakami. How High Pressure Pre-Treatments Affect the Function and Structure of Hen Egg-White Lysozyme Innov Food Sci Emerg Technol V. 47 195 2018.
DOI: 10.1016/J.IFSET.2018.02.008
Page generated: Tue Oct 8 01:59:04 2024

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