Magnesium in PDB 4jnd: Structure of A C.Elegans Sex Determining Protein

All present enzymatic activity of Structure of A C.Elegans Sex Determining Protein:
3.1.3.16;

The structure of Structure of A C.Elegans Sex Determining Protein, PDB code: 4jnd was solved by Y.Feng, Y.Zhang, J.Ge, M.Yang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.80 / 1.65
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	81.399, 160.093, 77.422, 90.00, 90.00, 90.00
R / Rfree (%)	17.7 / 20.3

The binding sites of Magnesium atom in the Structure of A C.Elegans Sex Determining Protein (pdb code 4jnd). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of A C.Elegans Sex Determining Protein, PDB code: 4jnd:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of A C.Elegans Sex Determining Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of A C.Elegans Sex Determining Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:15.1 occ:1.00 OD2 A:ASP202 2.1 15.0 1.0 O A:HOH609 2.2 16.1 1.0 OD2 A:ASP415 2.2 17.1 1.0 O A:HOH607 2.2 16.1 1.0 OD1 A:ASP370 2.2 17.2 1.0 O A:HOH601 2.2 13.7 1.0 CG A:ASP202 3.1 13.1 1.0 CG A:ASP415 3.1 16.1 1.0 CG A:ASP370 3.2 23.6 1.0 OD1 A:ASP415 3.3 16.4 1.0 OD1 A:ASP202 3.4 13.3 1.0 OD2 A:ASP370 3.5 23.1 1.0 MG A:MG502 3.8 14.2 1.0 O A:HOH604 4.0 14.6 1.0 O A:HOH603 4.1 16.2 1.0 O A:HOH773 4.1 31.7 1.0 O A:HOH625 4.3 19.8 1.0 N A:GLY371 4.3 20.7 1.0 O A:HOH602 4.3 14.9 1.0 CB A:ASP202 4.4 13.1 1.0 CB A:ASP415 4.4 18.4 1.0 OD1 A:ASP177 4.5 19.8 1.0 CB A:ASP370 4.5 18.5 1.0 N A:ASP370 4.6 15.0 1.0 O A:ASN416 4.6 16.1 1.0 CB A:CYS369 4.7 15.8 1.0 CA A:ASP370 4.9 16.4 1.0 SG A:CYS369 4.9 20.1 1.0 C A:ASP370 4.9 19.5 1.0

Magnesium binding site 2 out of 2 in the Structure of A C.Elegans Sex Determining Protein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of A C.Elegans Sex Determining Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:14.2 occ:1.00 OD1 A:ASP202 2.1 13.3 1.0 O A:HOH602 2.1 14.9 1.0 O A:HOH604 2.1 14.6 1.0 O A:GLY203 2.1 13.4 1.0 O A:HOH601 2.2 13.7 1.0 O A:HOH606 2.2 15.5 1.0 CG A:ASP202 3.2 13.1 1.0 C A:GLY203 3.3 16.2 1.0 OD2 A:ASP202 3.6 15.0 1.0 MG A:MG501 3.8 15.1 1.0 N A:GLY203 3.9 10.8 1.0 O A:HOH613 4.0 17.3 1.0 C A:ASP202 4.1 10.0 1.0 OD1 A:ASP177 4.2 19.8 1.0 N A:HIS204 4.2 13.0 1.0 CA A:GLY203 4.2 12.9 1.0 O A:HOH609 4.2 16.1 1.0 O A:HOH607 4.3 16.1 1.0 OE1 A:GLU176 4.3 23.3 1.0 CA A:HIS204 4.3 15.0 1.0 O A:ASP202 4.3 13.9 1.0 OD1 A:ASP415 4.4 16.4 1.0 CB A:ASP202 4.4 13.1 1.0 CB A:GLU176 4.4 14.4 1.0 ND2 A:ASN416 4.5 11.9 1.0 CA A:ASP202 4.6 13.9 1.0 CB A:HIS204 4.6 18.2 1.0 NH1 A:ARG172 4.7 17.7 1.0 O A:HOH617 4.9 19.9 1.0

Y.Zhang, H.Zhao, J.Wang, J.Ge, Y.Li, J.Gu, P.Li, Y.Feng, M.Yang. Structural Insight Into Caenorhabditis Elegans Sex-Determining Protein Fem-2. J.Biol.Chem. V. 288 22058 2013.
ISSN: ISSN 0021-9258
PubMed: 23760267
DOI: 10.1074/JBC.M113.464339