Magnesium in PDB 5uvd: Crystal Structure of An Antigenic Nucleotidyltransferase-Like Protein From Paracoccidioides Brasiliensis

The structure of Crystal Structure of An Antigenic Nucleotidyltransferase-Like Protein From Paracoccidioides Brasiliensis, PDB code: 5uvd was solved by R.A.P.Nagem, M.A.F.Costa, F.T.G.Rodrigues, J.B.C.Coitinho, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.09 / 1.86
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	33.649, 51.105, 121.190, 90.00, 90.00, 90.00
R / Rfree (%)	15.9 / 22.2

The binding sites of Magnesium atom in the Crystal Structure of An Antigenic Nucleotidyltransferase-Like Protein From Paracoccidioides Brasiliensis (pdb code 5uvd). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Crystal Structure of An Antigenic Nucleotidyltransferase-Like Protein From Paracoccidioides Brasiliensis, PDB code: 5uvd:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Crystal Structure of An Antigenic Nucleotidyltransferase-Like Protein From Paracoccidioides Brasiliensis


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of An Antigenic Nucleotidyltransferase-Like Protein From Paracoccidioides Brasiliensis within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg301 b:9.0 occ:1.00 OG1 A:THR98 2.9 16.2 1.0 N A:THR98 3.4 13.1 1.0 C A:GLY96 3.5 12.4 1.0 CA A:GLY96 3.5 14.0 1.0 CG2 A:THR98 3.6 16.5 1.0 N A:GLY97 3.6 11.9 1.0 CB A:THR98 3.6 14.8 1.0 N A:GLY96 3.7 13.2 1.0 CB A:ARG94 3.8 15.8 1.0 O A:GLY96 3.9 12.0 1.0 CD A:ARG94 4.0 20.9 1.0 CA A:THR98 4.1 15.0 1.0 CG A:ARG94 4.4 18.6 1.0 C A:GLY97 4.4 12.8 1.0 CA A:GLY97 4.5 12.2 1.0 O A:THR98 4.7 13.6 1.0 C A:ARG94 4.8 13.7 1.0 C A:THR98 4.8 14.5 1.0 CA A:ARG94 4.9 13.5 1.0 NH1 A:ARG94 4.9 21.4 1.0 O A:ARG94 4.9 11.2 1.0 C A:PRO95 4.9 14.6 1.0

Magnesium binding site 2 out of 3 in the Crystal Structure of An Antigenic Nucleotidyltransferase-Like Protein From Paracoccidioides Brasiliensis


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of An Antigenic Nucleotidyltransferase-Like Protein From Paracoccidioides Brasiliensis within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:12.7 occ:1.00 OD1 A:ASP48 2.0 12.5 1.0 OD1 A:ASP50 2.1 11.5 1.0 O A:HOH470 2.1 10.8 1.0 O A:HOH537 2.2 15.3 1.0 O A:HOH437 2.2 19.1 1.0 O A:HOH422 2.2 17.6 1.0 CG A:ASP50 3.1 12.9 1.0 CG A:ASP48 3.1 13.2 1.0 OD2 A:ASP50 3.4 14.3 1.0 OD2 A:ASP48 3.4 16.6 1.0 O A:HOH433 3.8 9.9 1.0 O A:ASP48 4.0 10.5 1.0 OG1 A:THR46 4.2 12.2 1.0 O A:HOH632 4.2 42.9 1.0 N A:GLY32 4.2 12.8 1.0 C A:ASP48 4.3 10.9 1.0 OE1 A:GLU47 4.4 26.6 1.0 O A:HOH608 4.4 31.9 1.0 CB A:ASP50 4.4 11.7 1.0 CB A:ASP48 4.5 12.6 1.0 O A:HOH624 4.5 47.5 1.0 N A:ASP48 4.7 12.9 1.0 CA A:ASP48 4.7 12.1 1.0 N A:ASP50 4.7 10.1 1.0 CA A:GLY32 4.8 12.4 1.0 OE2 A:GLU47 4.8 26.8 1.0 N A:VAL49 4.8 10.9 1.0 CD A:GLU47 4.9 25.8 1.0

Magnesium binding site 3 out of 3 in the Crystal Structure of An Antigenic Nucleotidyltransferase-Like Protein From Paracoccidioides Brasiliensis


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of An Antigenic Nucleotidyltransferase-Like Protein From Paracoccidioides Brasiliensis within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg303 b:37.3 occ:1.00 O A:HOH600 2.1 29.4 1.0 O A:HOH411 2.1 29.5 1.0 O A:HOH516 2.4 29.7 1.0 O A:HOH471 4.0 20.7 1.0 OD1 A:ASP63 4.1 18.2 1.0 O A:HOH578 4.3 31.7 1.0 OD2 A:ASP63 4.3 26.0 1.0 CG A:ASP63 4.5 20.0 1.0 O A:HOH419 4.5 21.6 1.0 OG1 A:THR67 4.6 16.9 1.0 O A:ASP63 4.6 14.3 1.0 O A:THR86 4.8 11.6 1.0

J.B.Coitinho, M.A.F.Costa, E.M.Melo, E.A.Morais, L.G.A.De Andrade, A.M.Da Rocha, M.T.Q.De Magalhaes, D.C.Favaro, L.Bleicher, E.R.P.Pedroso, A.M.Goes, R.A.P.Nagem. Structural and Immunological Characterization of A New Nucleotidyltransferase-Like Antigen From Paracoccidioides Brasiliensis. Mol.Immunol. V. 112 151 2019.
ISSN: ISSN 0161-5890
PubMed: 31108423
DOI: 10.1016/J.MOLIMM.2019.04.028