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Sodium in PDB 6hy8: Cu(II)-Substituted Wells-Dawson Binding to Hen Egg-White Lysozyme (Hewl)

Enzymatic activity of Cu(II)-Substituted Wells-Dawson Binding to Hen Egg-White Lysozyme (Hewl)

All present enzymatic activity of Cu(II)-Substituted Wells-Dawson Binding to Hen Egg-White Lysozyme (Hewl):
3.2.1.17;

Protein crystallography data

The structure of Cu(II)-Substituted Wells-Dawson Binding to Hen Egg-White Lysozyme (Hewl), PDB code: 6hy8 was solved by L.Vandebroek, L.Van Meervelt, T.N.Parac-Vogt, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.42 / 1.22
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.841, 78.841, 37.193, 90.00, 90.00, 90.00
R / Rfree (%) 13.8 / 15.5

Other elements in 6hy8:

The structure of Cu(II)-Substituted Wells-Dawson Binding to Hen Egg-White Lysozyme (Hewl) also contains other interesting chemical elements:

Tungsten (W) 17 atoms
Potassium (K) 1 atom
Chlorine (Cl) 4 atoms
Copper (Cu) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Cu(II)-Substituted Wells-Dawson Binding to Hen Egg-White Lysozyme (Hewl) (pdb code 6hy8). 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 Cu(II)-Substituted Wells-Dawson Binding to Hen Egg-White Lysozyme (Hewl), PDB code: 6hy8:

Sodium binding site 1 out of 1 in 6hy8

Go back to Sodium Binding Sites List in 6hy8
Sodium binding site 1 out of 1 in the Cu(II)-Substituted Wells-Dawson Binding to Hen Egg-White Lysozyme (Hewl)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Cu(II)-Substituted Wells-Dawson Binding to Hen Egg-White Lysozyme (Hewl) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na206

b:12.6
occ:1.00
 O A:SER60 2.3 12.5 1.0
O A:CYS64 2.4 11.4 1.0
O A:HOH364 2.4 14.8 1.0
O A:ARG73 2.4 14.9 1.0
O A:HOH347 2.5 12.2 1.0
OG A:SER72 2.5 14.9 1.0
HB2 A:SER72 2.9 17.7 1.0
HA A:ASN65 3.0 12.8 1.0
CB A:SER72 3.2 14.7 1.0
HG A:SER72 3.2 17.8 1.0
C A:CYS64 3.5 10.8 1.0
C A:SER60 3.5 11.6 1.0
C A:ARG73 3.5 14.8 1.0
HB2 A:SER60 3.5 12.8 1.0
HB A:THR69 3.8 14.1 1.0
HA A:SER60 3.8 12.6 1.0
HB3 A:SER72 3.9 17.7 1.0
CA A:ASN65 3.9 10.7 1.0
H A:CYS64 3.9 13.0 1.0
N A:ARG73 3.9 16.0 1.0
H A:ARG73 3.9 19.2 1.0
H A:ASP66 3.9 11.8 1.0
HB2 A:ASN74 4.0 17.3 1.0
N A:ASN65 4.1 10.6 1.0
CA A:SER60 4.1 10.5 1.0
HA A:ASN74 4.1 16.8 1.0
C A:SER72 4.1 16.1 1.0
CB A:SER60 4.3 10.7 1.0
CA A:ARG73 4.3 16.3 1.0
CA A:SER72 4.3 15.9 1.0
N A:ASN74 4.4 15.0 1.0
N A:CYS64 4.5 10.8 1.0
HA A:ARG61 4.5 17.6 1.0
C A:ARG61 4.5 14.3 1.0
O A:ARG61 4.5 15.6 1.0
HB2 A:ASN65 4.5 14.6 1.0
N A:ARG61 4.6 12.5 1.0
CA A:ASN74 4.6 14.0 1.0
N A:ASP66 4.6 9.8 1.0
CA A:CYS64 4.6 10.8 1.0
OD1 A:ASN65 4.6 13.6 1.0
O A:SER72 4.7 17.6 1.0
K A:K202 4.7 15.7 1.0
HA A:ARG73 4.7 19.6 1.0
O A:HOH429 4.7 31.8 1.0
CB A:THR69 4.7 11.8 1.0
CB A:ASN74 4.7 14.4 1.0
CB A:ASN65 4.8 12.2 1.0
CA A:ARG61 4.8 14.7 1.0
C A:ASN65 4.8 10.2 1.0
N A:TRP62 4.8 13.7 1.0
H A:TRP63 4.9 14.4 1.0
HA A:SER72 4.9 19.1 1.0
HG21 A:THR69 4.9 15.1 1.0
HB3 A:SER60 4.9 12.8 1.0
H A:ASN65 4.9 12.7 1.0

Reference:

L.Vandebroek, Y.Mampaey, S.Antonyuk, L.Van Meervelt, T.N.Parac-Vogt. Noncovalent Complexes Formed Between Metal-Substituted Polyoxometalates and Hen Egg White Lysozyme Eur J Inorg Chem 2019.
ISSN: ESSN 1099-0682
DOI: 10.1002/EJIC.201801113
Page generated: Tue Oct 8 09:26:01 2024

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