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Sodium in PDB 2h9j: Structure of Hen Egg White Lysozyme Soaked with NI2- Xylylbicyclam

Enzymatic activity of Structure of Hen Egg White Lysozyme Soaked with NI2- Xylylbicyclam

All present enzymatic activity of Structure of Hen Egg White Lysozyme Soaked with NI2- Xylylbicyclam:
3.2.1.17;

Protein crystallography data

The structure of Structure of Hen Egg White Lysozyme Soaked with NI2- Xylylbicyclam, PDB code: 2h9j was solved by I.W.Mcnae, T.M.Hunter, P.J.Sadler, M.D.Walkinshaw, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.38 / 1.75
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 77.577, 77.577, 38.355, 90.00, 90.00, 90.00
R / Rfree (%) 18.4 / 23.2

Other elements in 2h9j:

The structure of Structure of Hen Egg White Lysozyme Soaked with NI2- Xylylbicyclam also contains other interesting chemical elements:

Nickel (Ni) 3 atoms
Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Hen Egg White Lysozyme Soaked with NI2- Xylylbicyclam (pdb code 2h9j). 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 Soaked with NI2- Xylylbicyclam, PDB code: 2h9j:

Sodium binding site 1 out of 1 in 2h9j

Go back to Sodium Binding Sites List in 2h9j
Sodium binding site 1 out of 1 in the Structure of Hen Egg White Lysozyme Soaked with NI2- Xylylbicyclam


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 Soaked with NI2- Xylylbicyclam within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na205

b:22.7
occ:1.00
 O A:SER60 2.3 21.5 1.0
O A:ARG73 2.4 25.5 1.0
O A:CYS64 2.4 18.1 1.0
O A:HOH211 2.5 19.7 1.0
O A:HOH221 2.5 21.1 1.0
OG A:SER72 2.5 29.8 1.0
CB A:SER72 3.2 29.7 1.0
C A:SER60 3.4 19.2 1.0
C A:CYS64 3.5 17.1 1.0
C A:ARG73 3.5 26.5 1.0
CA A:ASN65 3.9 17.6 1.0
N A:ARG73 3.9 28.4 1.0
CA A:SER60 4.1 17.1 1.0
C A:SER72 4.1 29.9 1.0
N A:ASN65 4.1 17.6 1.0
CA A:SER72 4.3 30.3 1.0
CB A:SER60 4.3 15.7 1.0
CA A:ARG73 4.4 27.7 1.0
N A:CYS64 4.5 18.1 1.0
N A:ASN74 4.5 24.8 1.0
C A:ARG61 4.5 23.1 1.0
O A:ARG61 4.5 25.0 1.0
N A:ARG61 4.5 19.9 1.0
CA A:CYS64 4.6 17.1 1.0
CB A:THR69 4.6 24.4 1.0
CA A:ASN74 4.7 24.6 1.0
O A:HOH275 4.7 37.8 1.0
O A:SER72 4.7 30.2 1.0
N A:ASP66 4.7 15.7 1.0
CB A:ASN65 4.7 19.1 1.0
CL A:CL204 4.7 33.5 1.0
CA A:ARG61 4.7 23.3 1.0
OD1 A:ASN65 4.7 24.3 1.0
CB A:ASN74 4.7 25.0 1.0
N A:TRP62 4.8 22.0 1.0
C A:ASN65 4.9 15.6 1.0
O A:THR69 5.0 25.4 1.0
N A:TRP63 5.0 20.3 1.0

Reference:

T.M.Hunter, I.W.Mcnae, D.P.Simpson, A.M.Smith, S.Moggach, F.White, M.D.Walkinshaw, S.Parsons, P.J.Sadler. Configurations of Nickel-Cyclam Antiviral Complexes and Protein Recognition. Chemistry V. 13 40 2007.
ISSN: ISSN 0947-6539
PubMed: 17120266
DOI: 10.1002/CHEM.200601334
Page generated: Mon Oct 7 02:44:43 2024

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