Magnesium in PDB 1t3t: Structure of Formylglycinamide Synthetase

All present enzymatic activity of Structure of Formylglycinamide Synthetase:
6.3.5.3;

The structure of Structure of Formylglycinamide Synthetase, PDB code: 1t3t was solved by S.E.Ealick, R.Anand, A.A.Hoskin, J.Stubbe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.73 / 1.90
Space group	P 65
Cell size a, b, c (Å), α, β, γ (°)	145.806, 145.806, 141.353, 90.00, 90.00, 120.00
R / Rfree (%)	18.8 / 20.6

The binding sites of Magnesium atom in the Structure of Formylglycinamide Synthetase (pdb code 1t3t). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Structure of Formylglycinamide Synthetase, PDB code: 1t3t:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Structure of Formylglycinamide Synthetase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Formylglycinamide Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2006 b:15.6 occ:1.00 O1B A:ADP2005 2.0 1.6 0.5 OD1 A:ASP884 2.2 12.5 1.0 OD1 A:ASN722 2.2 9.7 1.0 OD1 A:ASP679 2.2 14.3 1.0 O A:HOH3089 2.4 24.9 1.0 O A:HOH3086 2.5 14.8 1.0 CG A:ASP884 3.1 13.8 1.0 PB A:ADP2005 3.1 1.6 0.5 CG A:ASP679 3.1 16.0 1.0 CG A:ASN722 3.2 13.1 1.0 OD2 A:ASP884 3.4 13.2 1.0 O2B A:ADP2005 3.6 1.6 0.5 ND2 A:ASN722 3.6 12.1 1.0 O3B A:ADP2005 3.7 1.6 0.5 CB A:ASP679 3.8 14.5 1.0 O A:HOH2041 3.9 22.5 1.0 OD2 A:ASP679 4.0 15.5 1.0 O A:HOH2061 4.0 14.8 1.0 OG A:SER886 4.0 15.4 1.0 CA A:ASP679 4.3 14.1 1.0 O A:ASP884 4.3 17.3 1.0 NE2 A:HIS883 4.4 16.8 1.0 O A:HOH2682 4.4 28.1 1.0 CD2 A:HIS883 4.4 11.0 1.0 O3A A:ADP2005 4.4 1.6 0.5 CB A:ASP884 4.5 11.2 1.0 CB A:ASN722 4.6 11.8 1.0 N A:ASP884 4.7 13.5 1.0 C A:ASP884 4.8 15.5 1.0 OE2 A:GLU718 4.8 15.3 1.0 CA A:ASN722 4.8 12.6 1.0 CA A:ASP884 4.9 13.6 1.0 CB A:SER886 4.9 14.2 1.0 O A:HOH2273 5.0 24.8 1.0 O A:ASP679 5.0 14.2 1.0

Magnesium binding site 2 out of 3 in the Structure of Formylglycinamide Synthetase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Formylglycinamide Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2007 b:21.3 occ:1.00 O3B A:ADP2005 2.1 1.6 0.5 OE2 A:GLU718 2.1 15.3 1.0 O A:HOH3091 2.2 91.5 1.0 O A:HOH3090 2.4 28.0 1.0 O A:HOH2054 2.5 40.6 1.0 O A:HOH2023 2.5 32.5 1.0 CD A:GLU718 3.2 18.6 1.0 PB A:ADP2005 3.4 1.6 0.5 O2B A:ADP2005 3.5 1.6 0.5 OE1 A:GLU718 3.6 18.0 1.0 O A:HOH2140 3.8 21.5 1.0 O A:HOH3086 3.9 14.8 1.0 ND2 A:ASN722 4.2 12.1 1.0 O A:HOH2458 4.2 28.0 1.0 O1A A:ADP2005 4.2 1.6 0.5 O3A A:ADP2005 4.2 1.6 0.5 OD2 A:ASP887 4.3 20.9 1.0 O A:ILE697 4.4 13.7 1.0 CG A:GLU718 4.5 15.2 1.0 O A:HOH2103 4.5 91.5 1.0 O A:HOH3088 4.5 19.6 1.0 O1B A:ADP2005 4.5 1.6 0.5 OG A:SER886 4.5 15.4 1.0 CB A:SER886 4.6 14.2 1.0 PA A:ADP2005 4.8 2.5 0.5 O A:GLU699 4.8 13.9 1.0 O A:HOH2381 5.0 24.9 1.0

Magnesium binding site 3 out of 3 in the Structure of Formylglycinamide Synthetase


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Formylglycinamide Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2008 b:19.8 occ:1.00 O2A A:ADP2005 2.2 1.6 0.5 O2B A:ADP2005 2.2 1.6 0.5 O A:HOH3087 2.5 21.5 1.0 O A:HOH3088 2.5 19.6 1.0 O A:HOH3085 2.5 17.5 1.0 O A:HOH2041 2.6 22.5 1.0 PA A:ADP2005 3.2 2.5 0.5 PB A:ADP2005 3.3 1.6 0.5 O3A A:ADP2005 3.5 1.6 0.5 O A:HOH3090 3.8 28.0 1.0 O1A A:ADP2005 3.9 1.6 0.5 OG A:SER886 4.0 15.4 1.0 O A:HOH3089 4.1 24.9 1.0 O A:HOH2156 4.1 19.6 1.0 O1B A:ADP2005 4.1 1.6 0.5 OE1 A:GLU896 4.2 14.4 1.0 OE2 A:GLU896 4.2 12.4 1.0 O A:HOH2061 4.4 14.8 1.0 O3B A:ADP2005 4.5 1.6 0.5 O A:HOH2273 4.5 24.8 1.0 O A:THR645 4.5 11.7 1.0 O5' A:ADP2005 4.5 1.6 0.5 O A:ASP887 4.6 15.6 1.0 OD2 A:ASP887 4.7 20.9 1.0 CD A:GLU896 4.7 13.5 1.0 O A:VAL646 4.7 12.7 1.0 CB A:ASP887 4.8 17.3 1.0 C5' A:ADP2005 4.9 3.6 0.5

R.Anand, A.A.Hoskin, J.Stubbe, S.E.Ealick. Domain Organization of Salmonella Typhimurium Formylglycinamide Ribonucleotide Amidotransferase Revealed By X-Ray Crystallography Biochemistry V. 43 10328 2004.
ISSN: ISSN 0006-2960
PubMed: 15301531
DOI: 10.1021/BI0491301