Magnesium in PDB 8zut: Crystal Structure of the F99S/M153T/V163A Variant of Gfp at pH 8.5

The structure of Crystal Structure of the F99S/M153T/V163A Variant of Gfp at pH 8.5, PDB code: 8zut was solved by R.Takeda, E.Tsutsumi, K.Takeda, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.88 / 1.48
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	50.536, 62.347, 67.758, 90, 90, 90
R / Rfree (%)	16.1 / 19.7

The binding sites of Magnesium atom in the Crystal Structure of the F99S/M153T/V163A Variant of Gfp at pH 8.5 (pdb code 8zut). 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 the F99S/M153T/V163A Variant of Gfp at pH 8.5, PDB code: 8zut:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of the F99S/M153T/V163A Variant of Gfp at pH 8.5


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 the F99S/M153T/V163A Variant of Gfp at pH 8.5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg301 b:11.0 occ:0.49 O A:HOH610 1.9 35.6 1.0 O A:HOH664 1.9 32.8 1.0 O A:HOH607 2.0 25.8 1.0 O A:HOH562 2.0 30.7 1.0 O A:HOH609 2.1 31.6 1.0 O A:HOH621 2.2 32.4 1.0 O A:HOH537 4.1 25.0 1.0 OE2 A:GLU5 4.2 22.2 0.5 NZ A:LYS79 4.3 27.7 0.4 NZ A:LYS79 4.3 17.6 0.6 O A:HOH508 4.3 29.0 1.0 CE A:LYS79 4.5 33.4 0.6 OG1 A:THR38 4.6 15.9 1.0 CE A:LYS79 4.7 34.4 0.4 O A:HOH534 4.9 25.2 1.0 CG2 A:THR38 4.9 15.1 1.0 CG2 A:THR9 5.0 15.8 1.0 O A:HOH555 5.0 24.3 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of the F99S/M153T/V163A Variant of Gfp at pH 8.5


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 the F99S/M153T/V163A Variant of Gfp at pH 8.5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:14.7 occ:0.40 O A:HOH563 2.0 23.0 1.0 O A:HOH545 2.1 35.9 1.0 O A:HOH521 2.1 21.9 1.0 O A:HOH503 2.2 43.5 1.0 O A:HOH502 2.3 40.6 1.0 O A:GLY174 3.8 15.2 1.0 CA A:GLY174 4.0 16.1 1.0 OE2 A:GLU142 4.1 20.8 1.0 CG A:ASN170 4.1 22.4 1.0 CB A:ASN170 4.2 13.4 1.0 OE1 A:GLU142 4.2 17.5 1.0 C A:GLY174 4.2 13.7 1.0 ND2 A:ASN170 4.2 15.9 1.0 CD A:GLU142 4.5 18.6 1.0 OD1 A:ASN170 4.5 58.6 1.0 O A:HOH485 4.6 32.8 1.0 O A:SER175 4.8 13.8 1.0 O A:ILE171 4.9 13.5 1.0 O A:HOH467 4.9 36.2 0.5 N A:GLY174 5.0 16.0 1.0

R.Takeda, E.Tsutsumi, K.Okatsu, S.Fukai, K.Takeda. Structural Characterization of Green Fluorescent Protein in the I-State. Sci Rep V. 14 22832 2024.
ISSN: ESSN 2045-2322
PubMed: 39353998
DOI: 10.1038/S41598-024-73696-Y