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Holmium in PDB 1w6z: High Energy Tetragonal Lysozyme X-Ray Structure

Enzymatic activity of High Energy Tetragonal Lysozyme X-Ray Structure

All present enzymatic activity of High Energy Tetragonal Lysozyme X-Ray Structure:
3.2.1.17;

Protein crystallography data

The structure of High Energy Tetragonal Lysozyme X-Ray Structure, PDB code: 1w6z was solved by J.Jakoncic, M.Aslantas, V.Honkimaki, M.Di Michiel, V.Stojanoff, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.49 / 1.65
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 77.453, 77.453, 37.183, 90.00, 90.00, 90.00
R / Rfree (%) 19.7 / 22.6

Other elements in 1w6z:

The structure of High Energy Tetragonal Lysozyme X-Ray Structure also contains other interesting chemical elements:

Chlorine (Cl) 5 atoms

Holmium Binding Sites:

The binding sites of Holmium atom in the High Energy Tetragonal Lysozyme X-Ray Structure (pdb code 1w6z). This binding sites where shown within 5.0 Angstroms radius around Holmium atom.
In total 3 binding sites of Holmium where determined in the High Energy Tetragonal Lysozyme X-Ray Structure, PDB code: 1w6z:
Jump to Holmium binding site number: 1; 2; 3;

Holmium binding site 1 out of 3 in 1w6z

Go back to Holmium Binding Sites List in 1w6z
Holmium binding site 1 out of 3 in the High Energy Tetragonal Lysozyme X-Ray Structure


Mono view


Stereo pair view

A full contact list of Holmium with other atoms in the Ho binding site number 1 of High Energy Tetragonal Lysozyme X-Ray Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ho1130

b:24.1
occ:1.00
OD2 A:ASP52 2.1 13.5 1.0
O A:HOH2116 2.3 20.1 1.0
OD1 A:ASN46 2.4 14.2 1.0
O A:HOH2057 2.9 15.3 1.0
CG A:ASP52 3.3 12.0 1.0
CG A:ASN46 3.6 15.5 1.0
OD1 A:ASP52 3.9 13.3 1.0
ND2 A:ASN46 4.2 14.6 1.0
CB A:ASP52 4.3 11.7 1.0
O A:HOH2056 4.3 14.3 1.0
O A:HOH2032 4.5 16.2 1.0
CB A:ASN46 4.8 15.0 1.0
O A:HOH2052 5.0 13.0 1.0

Holmium binding site 2 out of 3 in 1w6z

Go back to Holmium Binding Sites List in 1w6z
Holmium binding site 2 out of 3 in the High Energy Tetragonal Lysozyme X-Ray Structure


Mono view


Stereo pair view

A full contact list of Holmium with other atoms in the Ho binding site number 2 of High Energy Tetragonal Lysozyme X-Ray Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ho1131

b:29.8
occ:1.00
OD2 A:ASP101 2.4 18.3 1.0
OD1 A:ASP101 2.4 17.7 1.0
CG A:ASP101 2.8 15.7 1.0
O A:HOH2117 2.8 27.9 1.0
CB A:ASP101 4.3 16.2 1.0
O A:ASP101 4.4 16.6 1.0

Holmium binding site 3 out of 3 in 1w6z

Go back to Holmium Binding Sites List in 1w6z
Holmium binding site 3 out of 3 in the High Energy Tetragonal Lysozyme X-Ray Structure


Mono view


Stereo pair view

A full contact list of Holmium with other atoms in the Ho binding site number 3 of High Energy Tetragonal Lysozyme X-Ray Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ho1132

b:33.0
occ:0.50
O A:LEU129 2.4 23.2 1.0
OXT A:LEU129 2.5 19.8 1.0
C A:LEU129 2.8 22.8 1.0
CA A:LEU129 4.3 23.3 1.0
CE A:LYS13 4.7 23.1 1.0
CB A:LEU129 5.0 25.2 1.0

Reference:

J.Jakoncic, M.Di Michiel, Z.Zhong, V.Honkimaki, Y.Jouanneau, V.Stojanoff. Anomalous Diffraction at Ultra-High Energy For Protein Crystallography. J.Appl.Crystallogr. V. 39 831 2006.
ISSN: ISSN 0021-8898
DOI: 10.1107/S0021889806036387
Page generated: Sun Dec 13 19:18:52 2020

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