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Sodium in PDB 3kam: Hen Egg White Lysozyme Derivatized with Rhenium(I) Diaquatricarbonyl Cation

Enzymatic activity of Hen Egg White Lysozyme Derivatized with Rhenium(I) Diaquatricarbonyl Cation

All present enzymatic activity of Hen Egg White Lysozyme Derivatized with Rhenium(I) Diaquatricarbonyl Cation:
3.2.1.17;

Protein crystallography data

The structure of Hen Egg White Lysozyme Derivatized with Rhenium(I) Diaquatricarbonyl Cation, PDB code: 3kam was solved by R.S.Rowlett, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 11.99 / 1.59
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.709, 78.709, 36.989, 90.00, 90.00, 90.00
R / Rfree (%) 18.1 / 21.5

Other elements in 3kam:

The structure of Hen Egg White Lysozyme Derivatized with Rhenium(I) Diaquatricarbonyl Cation also contains other interesting chemical elements:

Rhenium (Re) 1 atom
Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Hen Egg White Lysozyme Derivatized with Rhenium(I) Diaquatricarbonyl Cation (pdb code 3kam). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Hen Egg White Lysozyme Derivatized with Rhenium(I) Diaquatricarbonyl Cation, PDB code: 3kam:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 3kam

Go back to Sodium Binding Sites List in 3kam
Sodium binding site 1 out of 2 in the Hen Egg White Lysozyme Derivatized with Rhenium(I) Diaquatricarbonyl Cation


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Hen Egg White Lysozyme Derivatized with Rhenium(I) Diaquatricarbonyl Cation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na132

b:22.4
occ:1.00
N A:THR69 3.1 21.6 1.0
O A:HOH230 3.1 37.7 1.0
O A:HOH175 3.2 18.9 1.0
O A:THR69 3.2 22.8 1.0
O A:HOH268 3.4 40.2 1.0
N A:ARG68 3.5 20.6 1.0
C A:THR69 3.6 23.9 1.0
C A:GLY67 3.6 22.2 1.0
OD1 A:ASN65 3.6 23.6 1.0
CA A:GLY67 3.7 22.0 1.0
N A:GLY67 3.7 20.7 1.0
CA A:THR69 3.8 21.6 1.0
O A:HOH200 4.0 23.6 1.0
C A:ARG68 4.1 21.3 1.0
CB A:THR69 4.2 22.6 1.0
CB A:SER72 4.2 35.6 1.0
CA A:ARG68 4.2 21.1 1.0
OD1 A:ASP66 4.3 19.1 1.0
O A:GLY67 4.3 23.4 1.0
N A:PRO70 4.5 25.6 1.0
OG A:SER72 4.6 39.2 1.0
O A:HOH157 4.7 22.4 1.0
C A:ASP66 4.8 19.8 1.0
OG1 A:THR69 4.8 20.4 1.0
CG A:ASN65 4.8 20.8 1.0
N A:ASP66 4.9 18.7 1.0

Sodium binding site 2 out of 2 in 3kam

Go back to Sodium Binding Sites List in 3kam
Sodium binding site 2 out of 2 in the Hen Egg White Lysozyme Derivatized with Rhenium(I) Diaquatricarbonyl Cation


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Hen Egg White Lysozyme Derivatized with Rhenium(I) Diaquatricarbonyl Cation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na133

b:19.6
occ:1.00
ND2 A:ASN113 3.3 21.1 1.0
CB A:ASN113 3.6 21.6 1.0
CA A:ALA110 3.7 21.7 1.0
CG A:ASN113 4.0 23.0 1.0
N A:ALA110 4.1 22.9 1.0
CD A:ARG114 4.1 17.3 1.0
O A:VAL109 4.2 24.1 1.0
CB A:ALA110 4.2 22.3 1.0
C A:VAL109 4.3 22.6 1.0
CG A:ARG114 4.4 18.8 1.0
CG2 A:VAL109 4.5 27.3 1.0
O A:HOH166 4.6 36.9 1.0
C A:ALA110 4.8 21.0 1.0
O A:ALA110 4.9 20.0 1.0
CG1 A:VAL109 4.9 27.6 1.0
CA A:ASN113 4.9 21.3 1.0

Reference:

S.L.Binkley, C.J.Ziegler, R.S.Herrick, R.S.Rowlett. Specific Derivatization of Lysozyme in Aqueous Solution with Re(Co)3(H2O)3(+). Chem.Commun.(Camb.) V. 46 1203 2010.
ISSN: ISSN 1359-7345
PubMed: 20449250
DOI: 10.1039/B923688K
Page generated: Tue Dec 15 06:16:09 2020

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