Gadolinium in PDB 1h87: Gadolinium Derivative of Tetragonal Hen Egg-White Lysozyme at 1.7 A Resolution

All present enzymatic activity of Gadolinium Derivative of Tetragonal Hen Egg-White Lysozyme at 1.7 A Resolution:
3.2.1.17;

The structure of Gadolinium Derivative of Tetragonal Hen Egg-White Lysozyme at 1.7 A Resolution, PDB code: 1h87 was solved by E.Girard, L.Chantalat, J.Vicat, R.Kahn, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	27.33 / 1.72
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	77.250, 77.250, 38.660, 90.00, 90.00, 90.00
R / Rfree (%)	18 / 21

The structure of Gadolinium Derivative of Tetragonal Hen Egg-White Lysozyme at 1.7 A Resolution also contains other interesting chemical elements:

Chlorine

(Cl)

4 atoms

The binding sites of Gadolinium atom in the Gadolinium Derivative of Tetragonal Hen Egg-White Lysozyme at 1.7 A Resolution (pdb code 1h87). This binding sites where shown within 5.0 Angstroms radius around Gadolinium atom.
In total 2 binding sites of Gadolinium where determined in the Gadolinium Derivative of Tetragonal Hen Egg-White Lysozyme at 1.7 A Resolution, PDB code: 1h87:
Jump to Gadolinium binding site number: 1; 2;

Gadolinium binding site 1 out of 2 in the Gadolinium Derivative of Tetragonal Hen Egg-White Lysozyme at 1.7 A Resolution


Mono view


Stereo pair view

A full contact list of Gadolinium with other atoms in the Gd binding site number 1 of Gadolinium Derivative of Tetragonal Hen Egg-White Lysozyme at 1.7 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Gd290 b:15.3 occ:0.81 O7 A:DO3284 2.2 17.0 0.8 O1 A:DO3284 2.2 21.4 0.8 O3 A:DO3284 2.3 14.6 0.8 O A:HOH2150 2.3 19.8 1.0 O5 A:DO3284 2.6 17.9 0.8 N4 A:DO3284 2.7 18.8 0.8 N1 A:DO3284 2.8 20.0 0.8 N3 A:DO3284 2.8 18.3 0.8 N2 A:DO3284 2.8 17.7 0.8 C9 A:DO3284 3.1 21.5 0.8 C16 A:DO3284 3.2 18.2 0.8 C15 A:DO3284 3.2 17.8 0.8 C11 A:DO3284 3.2 16.3 0.8 C10 A:DO3284 3.2 20.5 0.8 C12 A:DO3284 3.4 16.5 0.8 C13 A:DO3284 3.4 18.9 0.8 C14 A:DO3284 3.4 18.6 0.8 C7 A:DO3284 3.6 19.1 0.8 C5 A:DO3284 3.6 18.2 0.8 C8 A:DO3284 3.6 19.7 0.8 C3 A:DO3284 3.6 17.5 0.8 C6 A:DO3284 3.6 18.6 0.8 C4 A:DO3284 3.7 18.1 0.8 C1 A:DO3284 3.7 19.2 0.8 C2 A:DO3284 3.8 17.9 0.8 O A:HOH2152 4.1 28.9 1.0 C17 A:DO3284 4.1 17.2 0.8 O A:HOH2153 4.2 24.7 1.0 O2 A:DO3284 4.3 22.9 0.8 O4 A:DO3284 4.4 15.5 0.8 O1 A:DO3285 4.4 14.2 0.7 O2 A:DO3285 4.5 15.9 0.7 O6 A:DO3284 4.5 19.3 0.8 C9 A:DO3285 4.8 15.4 0.7

Gadolinium binding site 2 out of 2 in the Gadolinium Derivative of Tetragonal Hen Egg-White Lysozyme at 1.7 A Resolution


Mono view


Stereo pair view

A full contact list of Gadolinium with other atoms in the Gd binding site number 2 of Gadolinium Derivative of Tetragonal Hen Egg-White Lysozyme at 1.7 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Gd291 b:15.8 occ:0.73 O3 A:DO3285 2.3 17.2 0.7 O5 A:DO3285 2.3 17.7 0.7 O7 A:DO3285 2.4 15.9 0.7 O1 A:DO3285 2.5 14.2 0.7 O A:HOH2153 2.6 24.7 1.0 N3 A:DO3285 2.6 18.9 0.7 N4 A:DO3285 2.7 18.1 0.7 N2 A:DO3285 2.7 17.8 0.7 N1 A:DO3285 2.7 17.8 0.7 C13 A:DO3285 3.1 18.6 0.7 C14 A:DO3285 3.2 18.6 0.7 C11 A:DO3285 3.2 18.1 0.7 C10 A:DO3285 3.3 16.3 0.7 C16 A:DO3285 3.3 17.7 0.7 C9 A:DO3285 3.3 15.4 0.7 C12 A:DO3285 3.3 18.7 0.7 C15 A:DO3285 3.4 17.0 0.7 C5 A:DO3285 3.4 18.9 0.7 C4 A:DO3285 3.5 18.4 0.7 C6 A:DO3285 3.5 19.1 0.7 C3 A:DO3285 3.5 18.7 0.7 C7 A:DO3285 3.6 18.1 0.7 C8 A:DO3285 3.6 17.9 0.7 C1 A:DO3285 3.7 17.5 0.7 C2 A:DO3285 3.7 18.3 0.7 O6 A:DO3285 4.2 18.3 0.7 O A:HOH2152 4.2 28.9 1.0 O A:HOH2150 4.3 19.8 1.0 C17 A:DO3285 4.3 16.6 0.7 O4 A:DO3285 4.4 19.4 0.7 O4 A:DO3284 4.4 15.5 0.8 O3 A:DO3284 4.5 14.6 0.8 O2 A:DO3285 4.5 15.9 0.7 C11 A:DO3284 4.9 16.3 0.8

E.Girard, L.Chantalat, J.Vicat, R.Kahn. Gd-Hp-DO3A, A Complex to Obtain High-Phasing-Power Heavy Atom Derivatives For Sad and Mad Experiments. Results with Tetragonal Hen Egg-White Lysozyme Acta Crystallogr.,Sect.D V. 58 1 2001.
ISSN: ISSN 0907-4449
PubMed: 11752774
DOI: 10.1107/S0907444901016444