Sodium in PDB 4rjl: Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus Complexed with Gdpcp

The structure of Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus Complexed with Gdpcp, PDB code: 4rjl was solved by O.V.Kravchenko, O.S.Nikonov, V.I.Arhipova, E.A.Stolboushkina, 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)	46.56 / 1.64
Space group	I 2 3
Cell size a, b, c (Å), α, β, γ (°)	186.250, 186.250, 186.250, 90.00, 90.00, 90.00
R / Rfree (%)	16.8 / 18

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

Magnesium

(Mg)

2 atoms

The binding sites of Sodium atom in the Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus Complexed with Gdpcp (pdb code 4rjl). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus Complexed with Gdpcp, PDB code: 4rjl:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus Complexed with Gdpcp


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus Complexed with Gdpcp within 5.0Å range: probe atom residue distance (Å) B Occ A:Na528 b:29.3 occ:1.00 OG1 A:THR54 2.4 19.3 1.0 O A:HOH820 2.4 37.4 1.0 O A:HOH731 2.5 30.1 1.0 O A:HOH1140 2.6 27.6 1.0 O A:HOH659 2.6 24.6 1.0 O A:THR70 2.8 33.2 1.0 CB A:THR54 3.5 18.9 1.0 CB A:THR70 3.7 25.8 1.0 C A:THR70 3.8 31.0 1.0 O A:HOH1033 3.9 54.4 1.0 OG1 A:THR70 4.0 29.5 1.0 CA A:THR54 4.0 18.4 1.0 O A:THR30 4.1 21.5 1.0 N A:ASN55 4.3 19.9 1.0 CA A:THR70 4.3 24.5 1.0 O2 A:FMT516 4.5 46.0 1.0 O A:ASN55 4.5 22.3 1.0 O1 A:FMT525 4.6 38.0 1.0 C A:THR54 4.6 19.8 1.0 C A:THR30 4.7 21.9 1.0 CA A:THR30 4.7 20.8 1.0 CG2 A:THR54 4.7 21.4 1.0 O A:ILE29 4.8 22.3 1.0 O1 A:FMT516 4.8 34.2 1.0 CG2 A:THR70 4.8 25.8 1.0 O A:HOH826 4.9 37.1 1.0 O A:GLU53 4.9 20.2 1.0 N A:GLU71 5.0 30.8 1.0

Sodium binding site 2 out of 2 in the Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus Complexed with Gdpcp


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus Complexed with Gdpcp within 5.0Å range: probe atom residue distance (Å) B Occ A:Na529 b:31.9 occ:1.00 O A:MET111 2.3 20.8 1.0 O A:HOH627 2.4 22.2 1.0 O A:HOH732 2.4 33.1 1.0 O A:HOH673 2.5 26.6 1.0 O A:HOH727 2.6 30.6 1.0 O A:HOH1048 2.6 35.3 1.0 O A:HOH704 3.0 29.9 1.0 O A:HOH832 3.2 38.2 1.0 C A:MET111 3.5 19.1 1.0 O A:HOH1115 3.9 46.5 1.0 O A:HOH794 4.0 37.6 1.0 CA A:ASP112 4.2 16.5 1.0 O A:HOH1034 4.2 46.8 1.0 N A:ASP112 4.2 17.5 1.0 O A:HOH1070 4.3 43.8 1.0 OD1 A:ASP112 4.4 20.6 1.0 N A:MET111 4.4 17.9 1.0 CA A:MET111 4.5 17.7 1.0 O A:HOH697 4.5 28.1 1.0 O A:ALA109 4.6 19.5 1.0 O A:HOH801 4.7 33.5 1.0 O A:HOH808 4.8 35.1 1.0 O A:HOH750 4.8 30.1 1.0 O A:ALA108 4.8 17.6 1.0 CG2 A:VAL141 4.9 20.9 1.0 C A:LEU110 5.0 20.8 1.0

O.V.Kravchenko, O.S.Nikonov, V.I.Arhipova, E.A.Stolboushkina, A.G.Gabdulkhakov, A.D.Nikulin, M.B.Garber, S.V.Nikonov. Crystal Structure of Gamma Subunit of the Translation Initiation Factor 2 From Sulfolobus Solfataricus in Complex with Gdpcp at 1.64A Resolution To Be Published.