Magnesium in PDB 1l5y: Crystal Structure of MG2+ / BEF3-Bound Receiver Domain of Sinorhizobium Meliloti Dctd

The structure of Crystal Structure of MG2+ / BEF3-Bound Receiver Domain of Sinorhizobium Meliloti Dctd, PDB code: 1l5y was solved by S.Park, M.Meyer, A.D.Jones, H.P.Yennawar, N.H.Yennawar, B.T.Nixon, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.87 / 2.10
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	52.005, 76.837, 77.853, 90.00, 90.00, 90.00
R / Rfree (%)	18.4 / 22.9

The structure of Crystal Structure of MG2+ / BEF3-Bound Receiver Domain of Sinorhizobium Meliloti Dctd also contains other interesting chemical elements:

Fluorine

(F)

33 atoms

The binding sites of Magnesium atom in the Crystal Structure of MG2+ / BEF3-Bound Receiver Domain of Sinorhizobium Meliloti Dctd (pdb code 1l5y). 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 Structure of MG2+ / BEF3-Bound Receiver Domain of Sinorhizobium Meliloti Dctd, PDB code: 1l5y:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of MG2+ / BEF3-Bound Receiver Domain of Sinorhizobium Meliloti Dctd


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 MG2+ / BEF3-Bound Receiver Domain of Sinorhizobium Meliloti Dctd within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg701 b:17.8 occ:1.00 O A:ARG57 2.0 13.7 1.0 OD1 A:ASP12 2.1 16.6 1.0 F1 A:BEF660 2.1 12.7 1.0 OD2 A:ASP55 2.1 10.1 1.0 O A:HOH709 2.3 12.9 1.0 O A:HOH710 2.4 16.6 1.0 CG A:ASP55 3.1 10.8 1.0 CG A:ASP12 3.1 18.4 1.0 BE A:BEF660 3.1 13.2 1.0 C A:ARG57 3.2 13.8 1.0 OD1 A:ASP55 3.4 7.7 1.0 OD2 A:ASP12 3.5 14.0 1.0 CG A:MET58 3.9 12.8 1.0 O A:HOH805 4.0 28.0 1.0 CA A:ARG57 4.0 12.1 1.0 OD1 A:ASP11 4.0 14.9 1.0 O3 A:SO4707 4.1 35.1 1.0 N A:ARG57 4.1 12.4 1.0 F3 A:BEF660 4.1 12.4 1.0 F2 A:BEF660 4.2 11.3 1.0 O1 A:SO4707 4.2 35.8 1.0 N A:MET58 4.2 13.9 1.0 CB A:ARG57 4.3 11.8 1.0 CA A:MET58 4.4 15.9 1.0 CB A:ASP55 4.4 12.1 1.0 CB A:ASP12 4.4 14.8 1.0 N A:ASP12 4.5 12.2 1.0 CB A:MET58 4.7 14.4 1.0 NZ A:LYS105 4.7 13.8 1.0 CG A:ASP11 4.7 12.9 1.0 S A:SO4707 4.8 34.9 1.0 OD2 A:ASP11 4.9 13.9 1.0 C A:ILE56 5.0 12.9 1.0 CA A:ASP12 5.0 17.4 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of MG2+ / BEF3-Bound Receiver Domain of Sinorhizobium Meliloti Dctd


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 MG2+ / BEF3-Bound Receiver Domain of Sinorhizobium Meliloti Dctd within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg702 b:24.2 occ:1.00 F1 B:BEF661 2.1 18.0 1.0 OD2 B:ASP255 2.2 15.9 1.0 OD1 B:ASP212 2.2 17.7 1.0 O B:HOH743 2.2 9.1 1.0 O B:ARG257 2.2 17.5 0.5 O B:ARG257 2.2 16.9 0.5 O B:HOH744 2.3 14.4 1.0 CG B:ASP212 3.2 21.6 1.0 CG B:ASP255 3.2 12.8 1.0 BE B:BEF661 3.2 16.4 1.0 C B:ARG257 3.4 18.0 0.5 C B:ARG257 3.4 17.3 0.5 OD2 B:ASP212 3.4 23.6 1.0 OD1 B:ASP255 3.6 14.1 1.0 OD1 B:ASP211 4.0 14.1 1.0 CA B:ARG257 4.1 18.0 0.5 CA B:ARG257 4.1 16.8 0.5 F3 B:BEF661 4.1 13.3 1.0 CB B:ARG257 4.2 19.1 0.5 CB B:ARG257 4.2 16.6 0.5 CG B:MET258 4.2 18.1 1.0 N B:ARG257 4.2 17.4 0.5 N B:ARG257 4.3 16.8 0.5 O B:HOH776 4.3 21.8 1.0 F2 B:BEF661 4.3 17.9 1.0 N B:MET258 4.4 17.9 1.0 CB B:ASP255 4.4 16.0 1.0 N B:ASP212 4.5 15.2 1.0 O B:HOH739 4.5 25.3 1.0 CB B:ASP212 4.5 18.0 1.0 CA B:MET258 4.6 20.5 1.0 CG B:ARG257 4.7 20.9 0.5 CG B:ASP211 4.8 14.7 1.0 CG B:ARG257 4.9 16.2 0.5 NZ B:LYS305 4.9 16.1 1.0

S.Park, M.Meyer, A.D.Jones, H.P.Yennawar, N.H.Yennawar, B.T.Nixon. Two-Component Signaling in the Aaa + Atpase Dctd: Binding MG2+ and BEF3- Selects Between Alternate Dimeric States of the Receiver Domain Faseb J. V. 16 1964 2002.
ISSN: ISSN 0892-6638
PubMed: 12368235