Manganese in PDB 5cdl: Proline Dipeptidase From Deinococcus Radiodurans (Selenomethionine Derivative)

The structure of Proline Dipeptidase From Deinococcus Radiodurans (Selenomethionine Derivative), PDB code: 5cdl was solved by A.Kumar, V.Are, B.Ghosh, S.Jamdar, R.Makde, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.14 / 1.80
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	60.632, 60.632, 202.824, 90.00, 90.00, 90.00
R / Rfree (%)	17.7 / 20.1

The binding sites of Manganese atom in the Proline Dipeptidase From Deinococcus Radiodurans (Selenomethionine Derivative) (pdb code 5cdl). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total only one binding site of Manganese was determined in the Proline Dipeptidase From Deinococcus Radiodurans (Selenomethionine Derivative), PDB code: 5cdl:

Manganese binding site 1 out of 1 in the Proline Dipeptidase From Deinococcus Radiodurans (Selenomethionine Derivative)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Proline Dipeptidase From Deinococcus Radiodurans (Selenomethionine Derivative) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn401 b:20.5 occ:0.46 OD1 A:ASP210 2.2 21.4 1.0 O1 A:PO4402 2.3 29.4 1.0 OE1 A:GLU328 2.4 18.8 1.0 OD1 A:ASP221 2.4 13.7 1.0 OG1 A:THR223 2.6 14.8 1.0 O A:MSE222 2.7 15.7 1.0 CG A:ASP210 3.0 23.4 1.0 C A:MSE222 3.2 15.4 1.0 CD A:GLU328 3.3 18.8 1.0 CG A:ASP221 3.4 13.2 1.0 OD2 A:ASP210 3.5 28.6 1.0 P A:PO4402 3.5 27.9 1.0 O4 A:PO4402 3.6 29.4 1.0 N A:MSE222 3.6 14.0 1.0 OE2 A:GLU328 3.7 20.1 1.0 CA A:MSE222 3.8 15.2 1.0 OD2 A:ASP221 3.8 13.1 1.0 N A:THR223 3.9 14.5 1.0 CB A:THR223 3.9 15.0 1.0 OE2 A:GLU314 4.1 24.4 1.0 CZ A:PHE179 4.1 16.4 1.0 N A:MSE211 4.1 14.3 1.0 CB A:ASP210 4.2 20.1 1.0 O3 A:PO4402 4.2 31.4 1.0 CA A:THR223 4.2 14.8 1.0 CA A:ASP210 4.3 17.2 1.0 C A:ASP221 4.3 13.0 1.0 O A:MSE211 4.3 13.1 1.0 CG A:GLU328 4.4 16.5 1.0 C A:ASP210 4.5 16.0 1.0 CB A:GLU328 4.5 15.4 1.0 OE1 A:GLU314 4.5 26.4 1.0 CB A:ASP221 4.5 11.9 1.0 CD A:GLU314 4.6 24.4 1.0 CA A:ASP221 4.6 12.1 1.0 O2 A:PO4402 4.7 29.1 1.0 CE2 A:PHE179 4.8 17.2 1.0 CG2 A:THR223 4.9 16.0 1.0 C A:MSE211 4.9 14.0 1.0 CE1 A:PHE179 4.9 17.1 1.0

A.Kumar, V.Are, B.Ghosh, S.Jamdar, R.Makde. Proline Dipeptidase From Deinococcus Radiodurans (Selenomethionine Derivative) To Be Published.