Atomistry » Magnesium » PDB 4m35-4mfd » 4m4s
Atomistry »
  Magnesium »
    PDB 4m35-4mfd »
      4m4s »

Magnesium in PDB 4m4s: Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdp and Formate Ion Mimic AIF2GAMMA*Gdp*Pi Complex (A Formate Ion Substitutes For Pi)

Protein crystallography data

The structure of Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdp and Formate Ion Mimic AIF2GAMMA*Gdp*Pi Complex (A Formate Ion Substitutes For Pi), PDB code: 4m4s was solved by O.S.Nikonov, E.A.Stolboushkina, V.I.Arkhipova, 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) 45.73 / 2.25
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 142.860, 142.860, 218.410, 90.00, 90.00, 120.00
R / Rfree (%) 15.2 / 18.2

Other elements in 4m4s:

The structure of Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdp and Formate Ion Mimic AIF2GAMMA*Gdp*Pi Complex (A Formate Ion Substitutes For Pi) also contains other interesting chemical elements:

Sodium (Na) 4 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 Gdp and Formate Ion Mimic AIF2GAMMA*Gdp*Pi Complex (A Formate Ion Substitutes For Pi) (pdb code 4m4s). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdp and Formate Ion Mimic AIF2GAMMA*Gdp*Pi Complex (A Formate Ion Substitutes For Pi), PDB code: 4m4s:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 4m4s

Go back to Magnesium Binding Sites List in 4m4s
Magnesium binding site 1 out of 2 in the Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdp and Formate Ion Mimic AIF2GAMMA*Gdp*Pi Complex (A Formate Ion Substitutes For Pi)


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 Gdp and Formate Ion Mimic AIF2GAMMA*Gdp*Pi Complex (A Formate Ion Substitutes For Pi) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg531

b:27.8
occ:1.00
O A:HOH906 2.0 28.4 1.0
OG1 A:THR23 2.1 22.2 1.0
O1B A:GDP530 2.1 20.2 1.0
O A:HOH901 2.1 29.3 1.0
O A:HOH907 2.2 24.1 1.0
O A:HOH902 2.2 27.9 1.0
CB A:THR23 3.2 25.7 1.0
PB A:GDP530 3.3 24.3 1.0
O3B A:GDP530 3.4 25.3 1.0
O A:HOH903 3.9 29.4 1.0
O A:HOH905 3.9 28.8 1.0
O2A A:GDP530 4.0 24.0 0.9
N A:THR23 4.0 20.4 1.0
OE1 A:GLU40 4.1 41.0 0.9
OD2 A:ASP93 4.1 26.9 0.9
CG2 A:THR23 4.2 22.7 1.0
CA A:THR23 4.2 22.3 0.9
O2B A:GDP530 4.3 28.4 1.0
O3A A:GDP530 4.3 21.6 0.8
O A:HOH908 4.4 33.9 1.0
OD1 A:ASP93 4.4 28.8 0.9
PA A:GDP530 4.4 23.1 1.0
O1 A:FMT501 4.5 26.8 1.0
O1A A:GDP530 4.5 21.9 1.0
OG A:SER35 4.7 28.5 0.2
CG A:ASP93 4.7 28.5 0.9
CD A:GLU40 4.9 39.7 0.9
CB A:LYS22 5.0 18.2 1.0

Magnesium binding site 2 out of 2 in 4m4s

Go back to Magnesium Binding Sites List in 4m4s
Magnesium binding site 2 out of 2 in the Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdp and Formate Ion Mimic AIF2GAMMA*Gdp*Pi Complex (A Formate Ion Substitutes For Pi)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdp and Formate Ion Mimic AIF2GAMMA*Gdp*Pi Complex (A Formate Ion Substitutes For Pi) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg532

b:5.0
occ:0.33
NE2 A:HIS187 1.9 24.9 1.0
O A:HOH1037 2.1 25.4 0.3
CE1 A:HIS187 2.6 27.2 0.8
CD2 A:HIS187 3.1 21.8 0.8
ND1 A:HIS187 3.8 22.9 1.0
CG A:HIS187 4.1 23.3 0.9
CD1 A:LEU186 4.1 18.9 1.0

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

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy