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Magnesium in PDB 2cv2: Glutamyl-Trna Synthetase From Thermus Thermophilus in Complex with Trna(Glu) and An Enzyme Inhibitor, Glu-Ams

Enzymatic activity of Glutamyl-Trna Synthetase From Thermus Thermophilus in Complex with Trna(Glu) and An Enzyme Inhibitor, Glu-Ams

All present enzymatic activity of Glutamyl-Trna Synthetase From Thermus Thermophilus in Complex with Trna(Glu) and An Enzyme Inhibitor, Glu-Ams:
6.1.1.17;

Protein crystallography data

The structure of Glutamyl-Trna Synthetase From Thermus Thermophilus in Complex with Trna(Glu) and An Enzyme Inhibitor, Glu-Ams, PDB code: 2cv2 was solved by S.Sekine, S.Yokoyama, Riken Structural Genomics/Proteomicsinitiative (Rsgi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.34 / 2.69
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 110.317, 219.822, 135.831, 90.00, 90.00, 90.00
R / Rfree (%) 20 / 26

Other elements in 2cv2:

The structure of Glutamyl-Trna Synthetase From Thermus Thermophilus in Complex with Trna(Glu) and An Enzyme Inhibitor, Glu-Ams also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Glutamyl-Trna Synthetase From Thermus Thermophilus in Complex with Trna(Glu) and An Enzyme Inhibitor, Glu-Ams (pdb code 2cv2). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Glutamyl-Trna Synthetase From Thermus Thermophilus in Complex with Trna(Glu) and An Enzyme Inhibitor, Glu-Ams, PDB code: 2cv2:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 2cv2

Go back to Magnesium Binding Sites List in 2cv2
Magnesium binding site 1 out of 2 in the Glutamyl-Trna Synthetase From Thermus Thermophilus in Complex with Trna(Glu) and An Enzyme Inhibitor, Glu-Ams


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Glutamyl-Trna Synthetase From Thermus Thermophilus in Complex with Trna(Glu) and An Enzyme Inhibitor, Glu-Ams within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg902

b:36.5
occ:1.00
O C:HOH1340 2.8 37.3 1.0
N7 C:A546 3.6 30.7 1.0
OP2 C:A546 3.8 40.9 1.0
N7 C:A545 3.9 31.8 1.0
O2 C:C509 3.9 34.3 1.0
C8 C:A545 4.2 34.8 1.0
C8 C:A546 4.3 31.4 1.0
O C:HOH1249 4.4 38.9 1.0
N3 C:C509 4.4 31.0 1.0
OP2 C:G522 4.4 29.7 1.0
C5 C:A545 4.5 26.9 1.0
C5 C:A546 4.5 25.0 1.0
C2 C:C509 4.6 30.8 1.0
N6 C:A546 4.7 22.5 1.0
O C:HOH1133 4.9 39.4 1.0
N9 C:A545 5.0 30.3 1.0

Magnesium binding site 2 out of 2 in 2cv2

Go back to Magnesium Binding Sites List in 2cv2
Magnesium binding site 2 out of 2 in the Glutamyl-Trna Synthetase From Thermus Thermophilus in Complex with Trna(Glu) and An Enzyme Inhibitor, Glu-Ams


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Glutamyl-Trna Synthetase From Thermus Thermophilus in Complex with Trna(Glu) and An Enzyme Inhibitor, Glu-Ams within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg901

b:33.8
occ:1.00
N7 D:A546 3.7 29.4 1.0
OP2 D:G522 4.0 32.6 1.0
O2 D:C509 4.1 33.6 1.0
N7 D:A545 4.2 33.5 1.0
OP2 D:A546 4.3 27.1 1.0
N3 D:C509 4.4 27.6 1.0
C8 D:A546 4.4 29.3 1.0
O D:HOH1097 4.5 18.8 1.0
C8 D:A545 4.6 32.9 1.0
C5 D:A546 4.6 26.7 1.0
C2 D:C509 4.7 29.0 1.0
N6 D:A546 4.8 28.3 1.0
C5 D:A545 4.9 30.2 1.0

Reference:

S.Sekine, M.Shichiri, S.Bernier, R.Chenevert, J.Lapointe, S.Yokoyama. Structural Bases of Transfer Rna-Dependent Amino Acid Recognition and Activation By Glutamyl-Trna Synthetase Structure V. 14 1791 2006.
ISSN: ISSN 0969-2126
PubMed: 17161369
DOI: 10.1016/J.STR.2006.10.005
Page generated: Tue Aug 13 22:21:09 2024

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