Magnesium in PDB 1zes: BEF3- Activated Phob Receiver Domain

The structure of BEF3- Activated Phob Receiver Domain, PDB code: 1zes was solved by P.Bachhawat, G.T.Montelione, A.M.Stock, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.70 / 1.90
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	77.869, 77.869, 109.071, 90.00, 90.00, 90.00
R / Rfree (%)	18.9 / 24

The structure of BEF3- Activated Phob Receiver Domain also contains other interesting chemical elements:

Fluorine

(F)

9 atoms

The binding sites of Magnesium atom in the BEF3- Activated Phob Receiver Domain (pdb code 1zes). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the BEF3- Activated Phob Receiver Domain, PDB code: 1zes:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the BEF3- Activated Phob Receiver Domain


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of BEF3- Activated Phob Receiver Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:21.1 occ:1.00 OD2 A:ASP53 2.0 16.4 1.0 O A:MET55 2.0 18.0 1.0 OD1 A:ASP10 2.1 15.0 1.0 O A:HOH304 2.2 21.4 1.0 F1 A:BEF201 2.2 15.9 1.0 O A:HOH303 2.2 17.9 1.0 CG A:ASP53 3.0 14.8 1.0 CG A:ASP10 3.1 19.8 1.0 C A:MET55 3.2 18.4 1.0 BE A:BEF201 3.3 19.7 1.0 OD1 A:ASP53 3.4 15.7 1.0 OD2 A:ASP10 3.5 21.8 1.0 OE2 A:GLU9 3.9 18.9 1.0 CA A:MET55 4.0 19.6 1.0 CB A:MET55 4.0 19.8 1.0 F3 A:BEF201 4.1 21.2 1.0 N A:MET55 4.2 17.9 1.0 CB A:ASP53 4.3 15.2 1.0 N A:LEU56 4.3 18.8 1.0 O A:HOH332 4.3 29.7 1.0 N A:ASP10 4.4 16.9 1.0 F2 A:BEF201 4.4 18.4 1.0 CB A:ASP10 4.4 17.8 1.0 CD2 A:LEU56 4.5 14.6 1.0 OE2 A:GLU11 4.6 20.6 0.5 CD A:GLU9 4.6 19.3 1.0 CA A:LEU56 4.6 18.7 1.0 OE1 A:GLU9 4.7 19.0 1.0 NZ A:LYS105 4.7 14.7 1.0 CA A:ASP10 4.9 18.3 1.0 CG A:LEU56 4.9 15.7 1.0

Magnesium binding site 2 out of 3 in the BEF3- Activated Phob Receiver Domain


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of BEF3- Activated Phob Receiver Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg303 b:18.8 occ:1.00 O B:HOH307 2.0 18.6 1.0 OD1 B:ASP10 2.0 14.8 1.0 F1 B:BEF202 2.1 16.1 1.0 O B:HOH304 2.1 19.0 1.0 OD2 B:ASP53 2.1 15.7 1.0 O B:MET55 2.1 19.4 1.0 CG B:ASP10 3.0 16.3 1.0 CG B:ASP53 3.1 13.9 1.0 BE B:BEF202 3.2 14.7 1.0 C B:MET55 3.3 19.1 1.0 OD1 B:ASP53 3.4 14.5 1.0 OD2 B:ASP10 3.4 20.8 1.0 OE2 B:GLU9 3.7 17.6 1.0 CA B:MET55 4.1 20.1 1.0 F3 B:BEF202 4.1 17.8 1.0 CB B:MET55 4.1 19.5 1.0 F2 B:BEF202 4.3 14.9 1.0 N B:MET55 4.3 18.2 1.0 CB B:ASP10 4.3 17.6 1.0 N B:LEU56 4.4 18.6 1.0 CB B:ASP53 4.4 13.1 1.0 N B:ASP10 4.4 17.6 1.0 CD B:GLU9 4.5 19.4 1.0 NZ B:LYS105 4.6 15.8 1.0 CD2 B:LEU56 4.6 18.0 1.0 OE1 B:GLU9 4.6 16.1 1.0 OE2 B:GLU11 4.7 20.4 1.0 CA B:LEU56 4.7 18.2 1.0 CA B:ASP10 4.9 17.8 1.0

Magnesium binding site 3 out of 3 in the BEF3- Activated Phob Receiver Domain


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of BEF3- Activated Phob Receiver Domain within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg301 b:18.1 occ:1.00 O C:HOH315 2.0 16.1 1.0 F1 C:BEF203 2.0 18.6 1.0 O C:HOH309 2.0 13.8 1.0 OD1 C:ASP10 2.1 21.6 1.0 OD2 C:ASP53 2.2 16.4 1.0 O C:MET55 2.2 20.8 1.0 CG C:ASP10 3.1 19.5 1.0 CG C:ASP53 3.2 14.9 1.0 BE C:BEF203 3.3 19.7 1.0 OD2 C:ASP10 3.4 19.8 1.0 C C:MET55 3.4 19.8 1.0 OD1 C:ASP53 3.5 16.9 1.0 OE2 C:GLU9 3.9 16.9 1.0 F3 C:BEF203 4.1 19.3 1.0 CA C:MET55 4.2 19.2 1.0 CB C:MET55 4.2 19.8 1.0 N C:MET55 4.3 19.4 1.0 OE2 C:GLU11 4.3 19.7 1.0 F2 C:BEF203 4.3 18.1 1.0 CD2 C:LEU56 4.4 18.3 1.0 O C:HOH302 4.4 51.7 1.0 CB C:ASP10 4.5 17.2 1.0 N C:LEU56 4.5 19.5 1.0 CB C:ASP53 4.5 15.1 1.0 N C:ASP10 4.5 16.6 1.0 CD C:GLU9 4.6 17.8 1.0 OE1 C:GLU9 4.7 18.1 1.0 NZ C:LYS105 4.7 13.8 1.0 CA C:LEU56 4.8 19.7 1.0 CG C:GLU11 4.9 18.5 1.0

P.Bachhawat, G.V.Swapna, G.T.Montelione, A.M.Stock. Mechanism of Activation For Transcription Factor Phob Suggested By Different Modes of Dimerization in the Inactive and Active States. Structure V. 13 1353 2005.
ISSN: ISSN 0969-2126
PubMed: 16154092
DOI: 10.1016/J.STR.2005.06.006