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Sodium in PDB 4lfp: X-Ray Structure of the Adduct Between Hen Egg White Lysozyme and A Homoleptic Gold(I) Complex with the Saccharynate Ligand

Enzymatic activity of X-Ray Structure of the Adduct Between Hen Egg White Lysozyme and A Homoleptic Gold(I) Complex with the Saccharynate Ligand

All present enzymatic activity of X-Ray Structure of the Adduct Between Hen Egg White Lysozyme and A Homoleptic Gold(I) Complex with the Saccharynate Ligand:
3.2.1.17;

Protein crystallography data

The structure of X-Ray Structure of the Adduct Between Hen Egg White Lysozyme and A Homoleptic Gold(I) Complex with the Saccharynate Ligand, PDB code: 4lfp was solved by A.Vergara, A.Merlino, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 21.65 / 1.72
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.046, 78.046, 37.317, 90.00, 90.00, 90.00
R / Rfree (%) 18 / 23.6

Other elements in 4lfp:

The structure of X-Ray Structure of the Adduct Between Hen Egg White Lysozyme and A Homoleptic Gold(I) Complex with the Saccharynate Ligand also contains other interesting chemical elements:

Gold (Au) 1 atom
Chlorine (Cl) 3 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the X-Ray Structure of the Adduct Between Hen Egg White Lysozyme and A Homoleptic Gold(I) Complex with the Saccharynate Ligand (pdb code 4lfp). 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 X-Ray Structure of the Adduct Between Hen Egg White Lysozyme and A Homoleptic Gold(I) Complex with the Saccharynate Ligand, PDB code: 4lfp:

Sodium binding site 1 out of 1 in 4lfp

Go back to Sodium Binding Sites List in 4lfp
Sodium binding site 1 out of 1 in the X-Ray Structure of the Adduct Between Hen Egg White Lysozyme and A Homoleptic Gold(I) Complex with the Saccharynate Ligand


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of X-Ray Structure of the Adduct Between Hen Egg White Lysozyme and A Homoleptic Gold(I) Complex with the Saccharynate Ligand within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na305

b:29.7
occ:1.00
 O A:SER60 2.3 19.0 1.0
O A:HOH414 2.4 17.7 1.0
O A:ARG73 2.6 24.8 1.0
O A:CYS64 2.6 20.1 1.0
O A:HOH419 2.6 23.3 1.0
OG A:SER72 2.7 29.8 1.0
CB A:SER72 3.4 31.7 1.0
C A:SER60 3.4 20.8 1.0
C A:CYS64 3.6 19.6 1.0
C A:ARG73 3.6 27.4 1.0
CA A:ASN65 3.9 20.5 1.0
N A:ARG73 4.0 30.2 1.0
CA A:SER60 4.0 19.8 1.0
CB A:SER60 4.1 20.3 1.0
C A:SER72 4.1 32.1 1.0
N A:ASN65 4.2 19.3 1.0
CA A:SER72 4.4 31.7 1.0
CA A:ARG73 4.4 28.0 1.0
N A:CYS64 4.4 19.7 1.0
O A:HOH469 4.4 42.4 1.0
N A:ASN74 4.5 23.6 1.0
N A:ARG61 4.5 22.6 0.5
N A:ARG61 4.5 22.9 0.5
C A:ARG61 4.5 23.9 0.5
C A:ARG61 4.6 24.3 0.5
O A:ARG61 4.6 24.7 0.5
O A:SER72 4.6 31.5 1.0
CA A:ASN74 4.6 21.9 1.0
CB A:THR69 4.6 18.9 1.0
OD1 A:ASN65 4.6 22.6 1.0
O A:ARG61 4.6 25.0 0.5
N A:ASP66 4.6 18.6 1.0
CA A:CYS64 4.7 20.9 1.0
CL A:CL304 4.7 28.8 1.0
CB A:ASN65 4.7 21.0 1.0
CA A:ARG61 4.8 24.2 0.5
CA A:ARG61 4.8 24.8 0.5
C A:ASN65 4.8 17.9 1.0
N A:TRP62 4.8 23.1 1.0
CB A:ASN74 4.9 21.9 1.0
OG A:SER60 4.9 19.6 1.0
O A:THR69 4.9 24.7 1.0
OG1 A:THR69 4.9 17.7 1.0

Reference:

L.Messori, F.Scaletti, L.Massai, M.A.Cinellu, C.Gabbiani, A.Vergara, A.Merlino. The Mode of Action of Anticancer Gold-Based Drugs: A Structural Perspective. Chem.Commun.(Camb.) V. 49 10100 2013.
ISSN: ISSN 1359-7345
PubMed: 24045294
DOI: 10.1039/C3CC46400H
Page generated: Tue Dec 15 06:51:43 2020

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