Calcium in PDB 3eki: Structural Insights of the Mycoplasma Hyorhinis Protein Mh-P37: A Putative Thiamine Pyrophosphate Transporter

The structure of Structural Insights of the Mycoplasma Hyorhinis Protein Mh-P37: A Putative Thiamine Pyrophosphate Transporter, PDB code: 3eki was solved by K.H.Sippel, A.H.Robbins, R.Reutzel, R.Mckenna, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.00 / 1.60
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	49.457, 67.586, 59.838, 90.00, 106.28, 90.00
R / Rfree (%)	n/a / 22.7

The structure of Structural Insights of the Mycoplasma Hyorhinis Protein Mh-P37: A Putative Thiamine Pyrophosphate Transporter also contains other interesting chemical elements:

Bromine

(Br)

7 atoms

The binding sites of Calcium atom in the Structural Insights of the Mycoplasma Hyorhinis Protein Mh-P37: A Putative Thiamine Pyrophosphate Transporter (pdb code 3eki). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Structural Insights of the Mycoplasma Hyorhinis Protein Mh-P37: A Putative Thiamine Pyrophosphate Transporter, PDB code: 3eki:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Structural Insights of the Mycoplasma Hyorhinis Protein Mh-P37: A Putative Thiamine Pyrophosphate Transporter


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structural Insights of the Mycoplasma Hyorhinis Protein Mh-P37: A Putative Thiamine Pyrophosphate Transporter within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca601 b:11.6 occ:1.00 OD1 A:ASP121 2.3 8.7 1.0 O A:PRO118 2.3 10.2 1.0 O A:SER45 2.4 9.9 1.0 OD2 A:ASP43 2.4 9.2 1.0 O A:HOH1011 2.5 15.5 1.0 O A:HOH1074 2.6 11.5 1.0 OD2 A:ASP121 2.7 13.1 1.0 CG A:ASP121 2.8 10.6 1.0 CG A:ASP43 3.3 8.1 1.0 C A:PRO118 3.4 10.1 1.0 C A:SER45 3.5 12.4 1.0 OD1 A:ASP43 3.6 9.6 1.0 CA A:PRO118 3.9 11.9 1.0 CB A:PRO118 3.9 14.2 1.0 CA A:ILE46 4.2 5.4 1.0 N A:ILE46 4.3 7.7 1.0 OG A:SER45 4.3 15.4 1.0 N A:THR47 4.3 7.0 1.0 CB A:ASP121 4.3 7.7 1.0 CB A:SER45 4.4 11.8 1.0 NH2 A:ARG349 4.5 12.7 1.0 CA A:SER45 4.5 8.1 1.0 N A:GLU119 4.5 11.7 1.0 O A:HOH1238 4.5 26.9 1.0 CB A:ASP43 4.5 10.6 1.0 C A:ILE46 4.7 8.6 1.0 OG1 A:THR47 4.7 8.8 1.0 CA A:GLU119 4.8 11.7 1.0 N A:SER45 4.9 7.2 1.0 C A:GLU119 5.0 11.0 1.0 NE A:ARG349 5.0 10.4 1.0

Calcium binding site 2 out of 2 in the Structural Insights of the Mycoplasma Hyorhinis Protein Mh-P37: A Putative Thiamine Pyrophosphate Transporter


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structural Insights of the Mycoplasma Hyorhinis Protein Mh-P37: A Putative Thiamine Pyrophosphate Transporter within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca602 b:41.2 occ:1.00 O A:HOH1152 2.3 24.7 1.0 O A:GLU330 2.3 14.1 1.0 O A:HOH1151 2.3 32.4 1.0 OG1 A:THR326 2.4 17.8 1.0 O A:LYS327 2.5 13.2 1.0 C A:GLU330 3.5 11.2 1.0 CB A:THR326 3.5 18.3 1.0 C A:LYS327 3.6 11.7 1.0 O A:THR326 3.7 13.0 1.0 O A:ALA328 3.8 21.5 1.0 C A:THR326 3.8 13.4 1.0 N A:GLU330 4.1 10.8 1.0 C A:ALA328 4.1 14.4 1.0 O A:HOH1166 4.2 22.8 1.0 CA A:THR326 4.2 11.0 1.0 CA A:ALA328 4.3 16.2 1.0 CA A:GLU330 4.3 8.9 1.0 N A:LYS327 4.3 9.8 1.0 N A:ALA328 4.4 15.6 1.0 N A:LYS331 4.4 9.7 1.0 CA A:LYS331 4.5 9.9 1.0 O A:HOH1095 4.6 18.9 1.0 CG2 A:THR326 4.6 13.6 1.0 CA A:LYS327 4.6 14.4 1.0 N A:THR326 4.7 15.2 1.0 O A:HOH1001 4.8 33.0 1.0 O A:HOH1079 4.8 29.3 1.0 N A:ASN329 4.9 9.6 1.0 CB A:GLU330 4.9 10.4 1.0

K.H.Sippel, A.H.Robbins, R.Reutzel, S.K.Boehlein, K.Namiki, S.Goodison, M.Agbandje-Mckenna, C.J.Rosser, R.Mckenna. Structural Insights Into the Extracytoplasmic Thiamine-Binding Lipoprotein P37 of Mycoplasma Hyorhinis J.Bacteriol. V. 191 2585 2009.
ISSN: ISSN 0021-9193
PubMed: 19233924
DOI: 10.1128/JB.01680-08