Magnesium in PDB 4l0j: Structure of A Translocation Signal Domain Mediating Conjugative Transfer By Type IV Secretion Systems

The structure of Structure of A Translocation Signal Domain Mediating Conjugative Transfer By Type IV Secretion Systems, PDB code: 4l0j was solved by A.Redzej, A.Ilangovan, S.Lang, C.J.Gruber, M.Topf, K.Zangger, E.L.Zechner, G.Waksman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.82 / 1.85
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	109.173, 109.173, 56.801, 90.00, 90.00, 90.00
R / Rfree (%)	17.8 / 22.8

The binding sites of Magnesium atom in the Structure of A Translocation Signal Domain Mediating Conjugative Transfer By Type IV Secretion Systems (pdb code 4l0j). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structure of A Translocation Signal Domain Mediating Conjugative Transfer By Type IV Secretion Systems, PDB code: 4l0j:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Structure of A Translocation Signal Domain Mediating Conjugative Transfer By Type IV Secretion Systems


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 Translocation Signal Domain Mediating Conjugative Transfer By Type IV Secretion Systems within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg902 b:31.6 occ:1.00 MG A:MG903 2.7 35.4 1.0 O A:THR632 2.7 20.8 1.0 N A:LEU768 2.8 19.1 1.0 CB A:LEU768 3.4 19.0 1.0 CA A:LEU768 3.6 16.8 1.0 CG A:LEU768 3.6 18.6 1.0 C A:ALA767 3.8 23.7 1.0 O A:LEU768 3.8 19.6 1.0 CA A:ALA633 3.8 19.2 1.0 C A:THR632 3.8 20.8 1.0 CA A:ALA767 3.9 24.2 1.0 CB A:SER761 3.9 21.9 1.0 CD1 A:LEU768 4.1 19.6 1.0 CB A:ALA633 4.1 19.1 1.0 C A:LEU768 4.1 17.9 1.0 N A:ALA633 4.3 20.1 1.0 SE A:MSE631 4.4 23.9 1.0 CB A:ALA767 4.4 24.1 1.0 CG A:MSE631 4.6 24.1 1.0 OG A:SER761 4.7 24.4 1.0 CD1 A:LEU770 4.7 26.4 1.0 N A:SER761 4.8 22.0 1.0 CB A:MSE631 4.8 19.3 1.0 O A:THR766 4.9 27.2 1.0 O A:ALA767 5.0 25.8 1.0 CA A:SER761 5.0 24.4 1.0

Magnesium binding site 2 out of 4 in the Structure of A Translocation Signal Domain Mediating Conjugative Transfer By Type IV Secretion Systems


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 Translocation Signal Domain Mediating Conjugative Transfer By Type IV Secretion Systems within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg903 b:35.4 occ:1.00 MG A:MG902 2.7 31.6 1.0 O A:PRO759 2.7 21.3 1.0 N A:SER761 2.9 22.0 1.0 SE A:MSE631 3.4 23.9 1.0 CA A:VAL760 3.4 21.7 1.0 CB A:SER761 3.6 21.9 1.0 C A:PRO759 3.6 21.8 1.0 C A:VAL760 3.7 23.8 1.0 CA A:SER761 3.9 24.4 1.0 CD1 A:LEU768 3.9 19.6 1.0 N A:VAL760 4.0 19.1 1.0 CB A:MSE631 4.0 19.3 1.0 CE A:MSE745 4.1 22.0 1.0 CG A:MSE631 4.2 24.1 1.0 CG A:LEU768 4.3 18.6 1.0 O A:THR632 4.4 20.8 1.0 CB A:VAL760 4.7 20.1 1.0 CE A:MSE631 4.7 20.7 1.0 O A:SER761 4.8 26.0 1.0 O A:VAL760 4.9 25.1 1.0 C A:SER761 4.9 26.9 1.0 CA A:PRO759 4.9 17.0 1.0 CB A:LEU768 4.9 19.0 1.0 N A:LEU768 4.9 19.1 1.0 CG A:PRO759 5.0 21.3 1.0 OG A:SER761 5.0 24.4 1.0

Magnesium binding site 3 out of 4 in the Structure of A Translocation Signal Domain Mediating Conjugative Transfer By Type IV Secretion Systems


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of A Translocation Signal Domain Mediating Conjugative Transfer By Type IV Secretion Systems within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg904 b:35.4 occ:1.00 O A:HOH1060 2.7 30.8 1.0 O A:LYS723 2.9 25.7 1.0 N A:LYS769 3.0 20.1 1.0 CD1 A:ILE724 3.4 28.0 1.0 CA A:LEU768 3.4 16.8 1.0 CD A:PRO725 3.6 31.3 1.0 CA A:ILE724 3.6 25.0 1.0 CB A:LYS769 3.7 19.4 1.0 C A:LEU768 3.7 17.9 1.0 CG A:LYS769 3.7 20.9 1.0 CD2 A:LEU768 3.8 23.8 1.0 CB A:LEU768 3.9 19.0 1.0 C A:LYS723 3.9 23.3 1.0 CA A:LYS769 3.9 19.9 1.0 CD A:LYS769 4.0 24.2 1.0 N A:ILE724 4.2 21.4 1.0 O A:HOH1061 4.3 35.1 1.0 CB A:ILE724 4.4 21.9 1.0 CG1 A:ILE724 4.4 23.4 1.0 O A:ALA767 4.5 25.8 1.0 CG2 A:ILE724 4.5 26.3 1.0 N A:PRO725 4.5 31.6 1.0 CG A:LEU768 4.5 18.6 1.0 CE A:LYS769 4.6 25.8 1.0 CG A:PRO725 4.6 38.2 1.0 C A:ILE724 4.6 27.0 1.0 N A:LEU768 4.7 19.1 1.0 C A:LYS769 4.8 17.1 1.0 NH2 A:ARG668 4.9 26.8 1.0 O A:LEU768 4.9 19.6 1.0 O A:GLY722 4.9 26.3 1.0 O A:LYS769 4.9 20.6 1.0

Magnesium binding site 4 out of 4 in the Structure of A Translocation Signal Domain Mediating Conjugative Transfer By Type IV Secretion Systems


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of A Translocation Signal Domain Mediating Conjugative Transfer By Type IV Secretion Systems within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg905 b:33.5 occ:1.00 O A:ASP743 2.9 23.9 1.0 N A:VAL760 3.0 19.1 1.0 O A:VAL760 3.6 25.1 1.0 C A:ASP743 3.6 23.3 1.0 CA A:PRO759 3.7 17.0 1.0 C A:PRO759 3.8 21.8 1.0 CA A:VAL760 3.9 21.7 1.0 CB A:PRO759 4.1 19.5 1.0 C A:VAL760 4.1 23.8 1.0 CB A:VAL760 4.1 20.1 1.0 CA A:ASP743 4.2 31.9 1.0 O A:GLU742 4.5 27.3 1.0 N A:ALA744 4.5 22.3 1.0 O A:HOH1071 4.6 44.0 1.0 CG2 A:VAL760 4.8 20.4 1.0 CA A:ALA744 4.8 20.7 1.0

A.Redzej, A.Ilangovan, S.Lang, C.J.Gruber, M.Topf, K.Zangger, E.L.Zechner, G.Waksman. Structure of A Translocation Signal Domain Mediating Conjugative Transfer By Type IV Secretion Systems. Mol.Microbiol. V. 89 324 2013.
ISSN: ISSN 0950-382X
PubMed: 23710762
DOI: 10.1111/MMI.12275