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Magnesium in PDB 4m53: Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdpcp

Protein crystallography data

The structure of Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdpcp, PDB code: 4m53 was solved by O.S.Nikonov, E.A.Stolboushkina, V.I.Arkhipova, A.M.Lazopulo, S.M.Lazopulo, A.G.Gabdulkhakov, A.D.Nikulin, M.B.Garber, S.V.Nikonov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.70 / 2.00
Space group I 2 3
Cell size a, b, c (Å), α, β, γ (°) 186.891, 186.891, 186.891, 90.00, 90.00, 90.00
R / Rfree (%) 16 / 18.4

Other elements in 4m53:

The structure of Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdpcp also contains other interesting chemical elements:

Sodium (Na) 9 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdpcp (pdb code 4m53). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdpcp, PDB code: 4m53:

Magnesium binding site 1 out of 1 in 4m53

Go back to Magnesium Binding Sites List in 4m53
Magnesium binding site 1 out of 1 in the Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdpcp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdpcp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg527

b:7.0
occ:0.91
O2G A:GCP525 2.0 16.4 0.9
O2B A:GCP525 2.1 11.4 0.9
O A:HOH602 2.1 11.4 0.9
O A:HOH1202 2.1 26.4 0.9
OG1 A:THR23 2.1 17.5 1.0
O A:HOH673 2.3 29.4 1.0
CB A:THR23 3.3 18.5 1.0
PB A:GCP525 3.3 12.6 0.9
PG A:GCP525 3.3 13.4 0.9
C3B A:GCP525 3.6 12.4 0.9
N A:THR23 3.8 11.7 1.0
O A:HOH1203 3.9 25.7 0.7
OD2 A:ASP93 4.1 18.6 0.9
O1B A:GCP525 4.1 10.6 0.9
CA A:THR23 4.1 14.3 1.0
OD1 A:ASP93 4.2 18.4 0.9
O1G A:GCP525 4.3 13.5 0.9
CG2 A:THR23 4.4 16.4 1.0
O A:HOH1171 4.4 48.7 1.0
O3G A:GCP525 4.4 12.8 0.9
CE A:LYS22 4.4 12.5 0.9
O A:HOH1190 4.4 45.7 0.9
CG A:ASP93 4.5 20.8 0.9
O A:ALA94 4.5 13.7 1.0
O A:HOH730 4.5 35.5 1.0
O2A A:GCP525 4.5 14.4 0.9
O A:HOH898 4.5 43.9 1.0
CB A:LYS22 4.5 10.8 0.9
O3A A:GCP525 4.6 15.2 0.9
C A:LYS22 4.8 12.6 0.9
PA A:GCP525 4.9 14.8 0.9
NZ A:LYS22 5.0 11.7 0.9

Reference:

O.Nikonov, E.Stolboushkina, V.Arkhipova, O.Kravchenko, S.Nikonov, M.Garber. Conformational Transitions in the Gamma Subunit of the Archaeal Translation Initiation Factor 2 Acta Crystallogr.,Sect.D V. 70 658 2014.
ISSN: ISSN 0907-4449
DOI: 10.1107/S1399004713032240
Page generated: Mon Dec 14 19:11:37 2020

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