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Copper 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

Copper Binding Sites:

The binding sites of Copper 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 Copper atom.
In total 2 binding sites of Copper where determined in the Structure of Hen Egg White Lysozyme Soaked with CU2- Xylylbicyclam, PDB code: 1yil:
Jump to Copper binding site number: 1; 2;

Copper binding site 1 out of 2 in 1yil

Go back to Copper Binding Sites List in 1yil
Copper binding site 1 out of 2 in the Structure of Hen Egg White Lysozyme Soaked with CU2- Xylylbicyclam


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu 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:Cu500

b:35.2
occ:1.00
CU1 A:MM2500 0.0 35.2 1.0
N7 A:MM2500 2.0 36.1 1.0
N14 A:MM2500 2.0 34.5 1.0
N11 A:MM2500 2.0 36.5 1.0
N4 A:MM2500 2.0 35.3 1.0
OD1 A:ASP101 2.7 26.1 1.0
C6 A:MM2500 2.8 36.0 1.0
C13 A:MM2500 2.8 33.6 1.0
C12 A:MM2500 2.8 34.0 1.0
C5 A:MM2500 2.9 35.8 1.0
C1 A:MM2500 3.0 34.9 1.0
C8 A:MM2500 3.0 36.6 1.0
C10 A:MM2500 3.0 36.6 1.0
C3 A:MM2500 3.0 35.8 1.0
O A:HOH505 3.1 37.1 1.0
C9 A:MM2500 3.3 37.5 1.0
C2 A:MM2500 3.4 35.4 1.0
CG A:ASP101 3.6 23.5 1.0
OD2 A:ASP101 3.7 25.3 1.0
O A:HOH578 4.5 33.5 1.0

Copper binding site 2 out of 2 in 1yil

Go back to Copper Binding Sites List in 1yil
Copper binding site 2 out of 2 in the Structure of Hen Egg White Lysozyme Soaked with CU2- Xylylbicyclam


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Structure of Hen Egg White Lysozyme Soaked with CU2- Xylylbicyclam within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu501

b:47.6
occ:1.00
CU1 A:MM2501 0.0 47.6 1.0
N14 A:MM2501 2.0 49.2 1.0
N7 A:MM2501 2.0 48.3 1.0
N4 A:MM2501 2.0 48.6 1.0
N11 A:MM2501 2.0 48.8 1.0
C5 A:MM2501 2.8 48.9 1.0
C13 A:MM2501 2.8 49.1 1.0
C6 A:MM2501 2.9 48.1 1.0
C12 A:MM2501 2.9 48.5 1.0
C8 A:MM2501 3.0 47.4 1.0
C3 A:MM2501 3.0 48.1 1.0
C1 A:MM2501 3.0 48.5 1.0
C10 A:MM2501 3.0 47.8 1.0
C9 A:MM2501 3.3 48.0 1.0
C2 A:MM2501 3.4 48.7 1.0
O A:HOH506 4.1 35.6 1.0
O A:HOH565 4.4 41.6 1.0
NH2 A:ARG125 4.8 46.2 1.0
CH2 A:TRP123 4.8 17.2 1.0
CZ2 A:TRP123 4.9 16.8 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: Thu Sep 3 16:26:38 2020
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