Magnesium in PDB 6jop: Crystal Structures of Phage Nrs-1 N300-Dntps-MG2+ Complex Provide Molecular Mechanisms For Substrate Specificity

The structure of Crystal Structures of Phage Nrs-1 N300-Dntps-MG2+ Complex Provide Molecular Mechanisms For Substrate Specificity, PDB code: 6jop was solved by H.J.Guo, M.J.Li, H.Wu, F.Yu, J.H.He, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.34 / 2.35
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	134.333, 55.456, 50.763, 90.00, 95.58, 90.00
R / Rfree (%)	18 / 20.1

The binding sites of Magnesium atom in the Crystal Structures of Phage Nrs-1 N300-Dntps-MG2+ Complex Provide Molecular Mechanisms For Substrate Specificity (pdb code 6jop). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structures of Phage Nrs-1 N300-Dntps-MG2+ Complex Provide Molecular Mechanisms For Substrate Specificity, PDB code: 6jop:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structures of Phage Nrs-1 N300-Dntps-MG2+ Complex Provide Molecular Mechanisms For Substrate Specificity


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structures of Phage Nrs-1 N300-Dntps-MG2+ Complex Provide Molecular Mechanisms For Substrate Specificity within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:28.1 occ:1.00 OD1 A:ASP80 2.0 45.6 1.0 O A:HOH530 2.1 32.1 1.0 OD1 A:ASP78 2.1 38.7 1.0 O1A A:TTP401 2.2 33.4 1.0 O2B A:TTP401 2.2 28.4 1.0 O3G A:TTP401 2.3 41.8 1.0 CG A:ASP78 3.0 26.4 1.0 OD2 A:ASP78 3.1 35.2 1.0 CG A:ASP80 3.1 38.3 1.0 PB A:TTP401 3.4 32.5 1.0 PA A:TTP401 3.5 36.9 1.0 PG A:TTP401 3.6 34.2 1.0 OD2 A:ASP80 3.7 43.4 1.0 O3A A:TTP401 3.9 37.0 1.0 O3B A:TTP401 3.9 48.7 1.0 NE2 A:HIS115 3.9 33.6 1.0 O2G A:TTP401 4.2 26.4 1.0 O A:LEU79 4.2 34.5 1.0 CB A:ASP80 4.3 35.8 1.0 CD2 A:HIS115 4.4 33.6 1.0 C5' A:TTP401 4.4 33.7 1.0 CB A:ASP78 4.4 24.1 1.0 CA A:ASP80 4.4 38.9 1.0 CB A:SER108 4.5 31.9 1.0 O5' A:TTP401 4.5 30.9 1.0 O2A A:TTP401 4.5 36.3 1.0 C A:LEU79 4.5 31.4 1.0 OG A:SER108 4.5 38.9 1.0 N A:ASP80 4.6 33.0 1.0 O1B A:TTP401 4.7 40.2 1.0 O1G A:TTP401 4.7 29.9 1.0 N A:LEU79 4.8 32.8 1.0 CA A:ASP78 4.9 31.6 1.0 C A:ASP78 5.0 31.7 1.0

Magnesium binding site 2 out of 2 in the Crystal Structures of Phage Nrs-1 N300-Dntps-MG2+ Complex Provide Molecular Mechanisms For Substrate Specificity


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structures of Phage Nrs-1 N300-Dntps-MG2+ Complex Provide Molecular Mechanisms For Substrate Specificity within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg403 b:25.9 occ:1.00 O A:HOH560 2.2 52.2 1.0 O A:GLU142 2.5 16.7 1.0 O A:THR69 2.5 18.4 1.0 OD1 A:ASP72 2.7 21.4 1.0 O A:PHE74 2.8 15.5 1.0 O A:ASP72 2.9 16.2 1.0 CG A:ASP72 3.5 18.2 1.0 C A:GLU142 3.6 22.5 1.0 C A:THR69 3.7 13.8 1.0 N A:PHE74 3.7 21.2 1.0 C A:ASP72 3.7 17.5 1.0 C A:PHE74 3.8 17.7 1.0 OD2 A:ASP72 3.9 37.8 1.0 O A:LYS70 4.0 49.3 1.0 CB A:GLU142 4.1 17.0 1.0 CA A:GLU142 4.1 19.1 1.0 C A:LYS70 4.3 32.0 1.0 CA A:PHE74 4.3 26.0 1.0 CA A:LYS70 4.3 19.8 1.0 C A:PRO73 4.4 28.9 1.0 N A:THR69 4.4 23.7 1.0 O A:HOH523 4.4 21.6 1.0 CA A:ASP72 4.5 14.9 1.0 N A:ASP72 4.5 14.6 1.0 N A:LYS70 4.5 35.2 1.0 N A:PRO73 4.5 15.3 1.0 CB A:ASP72 4.6 18.2 1.0 N A:SER143 4.7 16.2 1.0 CA A:THR69 4.7 28.3 1.0 CA A:PRO73 4.7 23.6 1.0 CD2 A:LEU68 4.8 24.3 1.0 CB A:PHE74 4.9 15.4 1.0 CB A:LEU68 4.9 18.7 1.0

H.Guo, M.Li, H.Wu, W.Wang, F.Yu, J.He. Crystal Structures of Phage Nrs-1 N300-Dntps-MG2+Complex Provide Molecular Mechanisms For Substrate Specificity. Biochem.Biophys.Res.Commun. V. 515 551 2019.
ISSN: ESSN 1090-2104
PubMed: 31176489
DOI: 10.1016/J.BBRC.2019.05.162