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Sodium in PDB 1yil: Structure of Hen Egg White Lysozyme Soaked with CU2- Xylylbicyclam

Enzymatic activity of Structure of Hen Egg White Lysozyme Soaked with CU2- Xylylbicyclam

All present enzymatic activity of Structure of Hen Egg White Lysozyme Soaked with CU2- Xylylbicyclam:
3.2.1.17;

Protein crystallography data

The structure of Structure of Hen Egg White Lysozyme Soaked with CU2- Xylylbicyclam, PDB code: 1yil was solved by T.M.Hunter, I.W.Mcnae, X.Liang, J.Bella, S.Parsons, M.D.Walkinshaw, P.J.Sadler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.22 / 1.60
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.258, 78.258, 37.901, 90.00, 90.00, 90.00
R / Rfree (%) 17.7 / 22.3

Other elements in 1yil:

The structure of Structure of Hen Egg White Lysozyme Soaked with CU2- Xylylbicyclam also contains other interesting chemical elements:

Copper (Cu) 2 atoms
Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Hen Egg White Lysozyme Soaked with CU2- Xylylbicyclam (pdb code 1yil). 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 CU2- Xylylbicyclam, PDB code: 1yil:

Sodium binding site 1 out of 1 in 1yil

Go back to Sodium Binding Sites List in 1yil
Sodium binding site 1 out of 1 in the Structure of Hen Egg White Lysozyme Soaked with CU2- 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 CU2- Xylylbicyclam within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na504

b:12.4
occ:1.00
O A:SER60 2.4 12.1 1.0
O A:HOH538 2.4 15.0 1.0
O A:CYS64 2.4 10.8 1.0
O A:HOH530 2.5 12.6 1.0
O A:ARG73 2.5 16.9 1.0
OG A:SER72 2.5 15.2 1.0
CB A:SER72 3.3 17.1 1.0
C A:CYS64 3.5 10.6 1.0
C A:ARG73 3.5 16.7 1.0
C A:SER60 3.5 11.4 1.0
CA A:ASN65 3.9 10.8 1.0
N A:ARG73 4.0 17.1 1.0
N A:ASN65 4.1 9.6 1.0
C A:SER72 4.1 18.4 1.0
CA A:SER60 4.2 10.3 1.0
CA A:ARG73 4.3 17.9 1.0
CB A:SER60 4.4 10.2 1.0
CA A:SER72 4.4 17.7 1.0
N A:CYS64 4.4 9.0 1.0
N A:ASN74 4.4 15.4 1.0
C A:ARG61 4.5 14.7 1.0
O A:ARG61 4.6 15.4 1.0
CA A:ASN74 4.6 13.6 1.0
N A:ASP66 4.6 9.1 1.0
O A:HOH617 4.6 23.5 1.0
CA A:CYS64 4.6 10.3 1.0
N A:ARG61 4.6 12.1 1.0
CL A:CL503 4.6 24.7 1.0
O A:SER72 4.7 18.7 1.0
OD1 A:ASN65 4.7 16.9 1.0
CB A:THR69 4.7 12.8 1.0
CB A:ASN74 4.8 13.7 1.0
C A:ASN65 4.8 9.1 1.0
CA A:ARG61 4.8 14.0 1.0
CB A:ASN65 4.8 9.3 1.0
N A:TRP62 4.9 14.4 1.0
O A:THR69 5.0 14.5 1.0

Reference:

T.M.Hunter, I.W.Mcnae, X.Liang, J.Bella, S.Parsons, M.D.Walkinshaw, P.J.Sadler. Protein Recognition of Macrocycles: Binding of Anti-Hiv Metallocyclams to Lysozyme Proc.Natl.Acad.Sci.Usa V. 102 2288 2005.
ISSN: ISSN 0027-8424
PubMed: 15701702
DOI: 10.1073/PNAS.0407595102
Page generated: Tue Dec 15 05:43:06 2020

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