Magnesium in PDB 7eiv: Heterotetrameric Glycyl-Trna Synthetase From Escherichia Coli

All present enzymatic activity of Heterotetrameric Glycyl-Trna Synthetase From Escherichia Coli:
6.1.1.14;

The structure of Heterotetrameric Glycyl-Trna Synthetase From Escherichia Coli, PDB code: 7eiv was solved by Y.Ju, H.Zhou, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.58 / 2.68
Space group	F 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	207.371, 253.945, 270.738, 90, 90, 90
R / Rfree (%)	22.8 / 24.9

The binding sites of Magnesium atom in the Heterotetrameric Glycyl-Trna Synthetase From Escherichia Coli (pdb code 7eiv). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Heterotetrameric Glycyl-Trna Synthetase From Escherichia Coli, PDB code: 7eiv:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Heterotetrameric Glycyl-Trna Synthetase From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Heterotetrameric Glycyl-Trna Synthetase From Escherichia Coli within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:52.8 occ:1.00 O1G A:ANP403 2.2 59.0 1.0 O1B A:ANP403 2.4 74.0 1.0 O A:HOH520 2.5 45.1 1.0 PB A:ANP403 3.2 60.3 1.0 PG A:ANP403 3.3 54.8 1.0 N3B A:ANP403 3.3 62.0 1.0 O2B A:ANP403 3.9 65.8 1.0 O2G A:ANP403 3.9 62.1 1.0 OD2 A:ASP67 4.2 68.2 1.0 OD1 A:ASP67 4.2 58.5 1.0 NH1 A:ARG76 4.2 45.9 1.0 NH1 A:ARG64 4.4 60.5 1.0 O3G A:ANP403 4.5 50.3 1.0 CG A:ASP67 4.6 59.5 1.0 O3A A:ANP403 4.7 79.0 1.0 O A:HOH508 4.8 53.9 1.0

Magnesium binding site 2 out of 4 in the Heterotetrameric Glycyl-Trna Synthetase From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Heterotetrameric Glycyl-Trna Synthetase From Escherichia Coli within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:54.6 occ:1.00 O2G A:ANP403 2.4 62.1 1.0 OE2 A:GLU141 2.7 68.8 1.0 O3A A:ANP403 2.7 79.0 1.0 OE1 A:GLU141 2.8 63.8 1.0 CD A:GLU141 3.1 60.0 1.0 OE1 A:GLU134 3.1 62.7 1.0 O2A A:ANP403 3.3 80.3 1.0 O1B A:ANP403 3.6 74.0 1.0 PB A:ANP403 3.6 60.3 1.0 PG A:ANP403 3.6 54.8 1.0 PA A:ANP403 3.7 90.9 1.0 N3B A:ANP403 3.8 62.0 1.0 OD2 A:ASP119 3.9 72.3 1.0 CD A:GLU134 4.3 61.0 1.0 O3G A:ANP403 4.5 50.3 1.0 CG A:GLU141 4.6 54.9 1.0 CG A:ASP119 4.6 64.2 1.0 O1G A:ANP403 4.6 59.0 1.0 O5' A:ANP403 4.7 92.0 1.0 O1A A:ANP403 4.8 98.5 1.0 OD1 A:ASP119 4.9 63.9 1.0 O2B A:ANP403 5.0 65.8 1.0

Magnesium binding site 3 out of 4 in the Heterotetrameric Glycyl-Trna Synthetase From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Heterotetrameric Glycyl-Trna Synthetase From Escherichia Coli within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg401 b:62.5 occ:1.00 O3G B:ANP403 2.3 58.4 1.0 OE1 B:GLU141 2.5 78.9 1.0 O3A B:ANP403 2.8 82.0 1.0 OE1 B:GLU134 3.3 63.9 1.0 O2A B:ANP403 3.3 83.3 1.0 O1B B:ANP403 3.4 72.3 1.0 CD B:GLU141 3.5 66.6 1.0 PB B:ANP403 3.6 60.3 1.0 PG B:ANP403 3.6 56.8 1.0 OE2 B:GLU141 3.7 78.2 1.0 PA B:ANP403 3.7 92.7 1.0 OD2 B:ASP119 3.9 66.2 1.0 N3B B:ANP403 3.9 60.4 1.0 O2G B:ANP403 4.4 52.2 1.0 CD B:GLU134 4.5 64.1 1.0 O1G B:ANP403 4.7 50.1 1.0 CG B:ASP119 4.7 59.8 1.0 O1A B:ANP403 4.7 93.8 1.0 O5' B:ANP403 4.8 95.9 1.0 CG B:GLU141 4.9 61.2 1.0 OD1 B:ASP119 4.9 63.9 1.0 O2B B:ANP403 4.9 61.8 1.0

Magnesium binding site 4 out of 4 in the Heterotetrameric Glycyl-Trna Synthetase From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Heterotetrameric Glycyl-Trna Synthetase From Escherichia Coli within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:50.8 occ:1.00 O1B B:ANP403 2.3 72.3 1.0 O2G B:ANP403 2.4 52.2 1.0 PB B:ANP403 3.2 60.3 1.0 N3B B:ANP403 3.4 60.4 1.0 PG B:ANP403 3.5 56.8 1.0 O2B B:ANP403 3.8 61.8 1.0 OD2 B:ASP67 4.2 62.6 1.0 O3G B:ANP403 4.2 58.4 1.0 NH1 B:ARG76 4.2 51.0 1.0 NH1 B:ARG64 4.3 61.2 1.0 OD1 B:ASP67 4.3 64.2 1.0 O3A B:ANP403 4.6 82.0 1.0 CG B:ASP67 4.7 60.4 1.0 O1G B:ANP403 4.7 50.1 1.0

Y.Ju, H.Zhou. X-Shaped 3-D Structure of Bacterial Heterotetrameric Trna Synthetase Suggests Cryptic Prokaryote Functions and Rationale For Synthetase Classifications To Be Published.