Calcium in PDB 1d2s: Crystal Structure of the N-Terminal Laminin G-Like Domain of Shbg in Complex with Dihydrotestosterone

The structure of Crystal Structure of the N-Terminal Laminin G-Like Domain of Shbg in Complex with Dihydrotestosterone, PDB code: 1d2s was solved by I.Grishkovskaya, G.V.Avvakumov, G.Sklenar, D.Dales, G.L.Hammond, Y.A.Muller, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.00 / 1.55
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	104.040, 104.040, 84.430, 90.00, 90.00, 120.00
R / Rfree (%)	20.5 / 25.1

The binding sites of Calcium atom in the Crystal Structure of the N-Terminal Laminin G-Like Domain of Shbg in Complex with Dihydrotestosterone (pdb code 1d2s). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of the N-Terminal Laminin G-Like Domain of Shbg in Complex with Dihydrotestosterone, PDB code: 1d2s:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of the N-Terminal Laminin G-Like Domain of Shbg in Complex with Dihydrotestosterone


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of the N-Terminal Laminin G-Like Domain of Shbg in Complex with Dihydrotestosterone within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:25.3 occ:1.00 O A:HOH629 2.2 26.7 1.0 O A:GLU52 2.3 22.4 1.0 O A:ALA160 2.3 24.9 1.0 OD2 A:ASP50 2.3 28.6 1.0 O A:HOH623 2.4 29.3 1.0 O A:HOH649 2.4 33.5 1.0 OD1 A:ASP50 2.6 27.0 1.0 CG A:ASP50 2.9 23.2 1.0 C A:ALA160 3.5 23.4 1.0 C A:GLU52 3.5 23.2 1.0 CA A:LEU161 4.2 27.0 1.0 N A:LEU161 4.3 25.2 1.0 CA A:GLU52 4.3 20.3 1.0 CB A:ASP50 4.3 21.9 1.0 O A:HOH651 4.3 37.9 1.0 N A:GLU52 4.4 21.5 1.0 O A:HOH713 4.4 48.9 1.0 CA A:GLY53 4.5 20.0 1.0 N A:GLY53 4.5 19.8 1.0 CB A:GLU52 4.5 19.5 1.0 O A:VAL158 4.5 21.8 1.0 CA A:ALA160 4.5 25.2 1.0 CD2 A:LEU161 4.5 23.0 0.5 OD2 A:ASP162 4.6 32.6 0.5 CB A:ALA160 4.6 23.5 1.0 N A:ASP162 4.7 27.8 1.0 N A:ALA160 4.9 22.6 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of the N-Terminal Laminin G-Like Domain of Shbg in Complex with Dihydrotestosterone


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of the N-Terminal Laminin G-Like Domain of Shbg in Complex with Dihydrotestosterone within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca501 b:28.6 occ:1.00 NE2 A:HIS136 2.0 47.4 1.0 NE2 A:HIS83 2.0 27.2 0.5 OD1 A:ASP65 2.4 29.4 0.5 CD2 A:HIS136 2.7 46.9 1.0 CD2 A:HIS83 2.8 27.3 0.5 CE1 A:HIS83 3.1 26.4 0.5 CE1 A:HIS136 3.1 47.3 1.0 CG A:ASP65 3.5 32.2 0.5 CG A:HIS136 4.0 46.5 1.0 CG A:HIS83 4.0 27.7 0.5 CB A:ASP65 4.0 22.6 0.5 ND1 A:HIS83 4.1 27.9 0.5 CB A:ASP65 4.1 26.9 0.5 ND1 A:HIS136 4.1 46.5 1.0 CG A:ASP65 4.2 20.4 0.5 OD2 A:ASP65 4.4 33.6 0.5 OD2 A:ASP65 4.5 20.6 0.5 CB A:ASP64 4.7 40.3 1.0 OD1 A:ASP65 4.7 21.7 0.5 OG1 A:THR60 4.7 38.1 1.0 O A:ASP64 4.9 24.6 1.0

I.Grishkovskaya, G.V.Avvakumov, G.Sklenar, D.Dales, G.L.Hammond, Y.A.Muller. Crystal Structure of Human Sex Hormone-Binding Globulin: Steroid Transport By A Laminin G-Like Domain. Embo J. V. 19 504 2000.
ISSN: ISSN 0261-4189
PubMed: 10675319
DOI: 10.1093/EMBOJ/19.4.504