Sodium in PDB 7obz: Structure of Rslov D109G

The structure of Structure of Rslov D109G, PDB code: 7obz was solved by A.Moeglich, T.G.A.Krafft, M.Weyand, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.37 / 2.00
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	90.96, 65.8, 122.72, 90, 94, 90
R / Rfree (%)	21.8 / 26.3

The structure of Structure of Rslov D109G also contains other interesting chemical elements:

Chlorine

(Cl)

13 atoms

The binding sites of Sodium atom in the Structure of Rslov D109G (pdb code 7obz). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Structure of Rslov D109G, PDB code: 7obz:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Structure of Rslov D109G


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Rslov D109G within 5.0Å range: probe atom residue distance (Å) B Occ B:Na203 b:67.2 occ:1.00 NH1 B:ARG123 3.3 63.6 0.5 NH2 B:ARG123 3.6 70.9 0.5 CZ B:ARG123 3.8 66.0 0.5 CA B:MET42 3.9 51.6 1.0 CG B:ARG41 4.0 57.7 0.5 N B:MET42 4.0 51.7 1.0 CD B:ARG41 4.1 58.0 0.5 NE B:ARG41 4.3 56.3 0.5 CB B:MET42 4.3 44.5 1.0 NE B:ARG41 4.3 62.1 0.5 C B:ARG41 4.4 54.8 1.0 CG B:ARG41 4.4 58.4 0.5 CE C:MET155 4.5 81.3 1.0 O B:ARG41 4.5 54.0 1.0 OE1 B:GLU120 4.6 49.2 1.0 CG B:MET42 4.7 44.9 1.0 CB B:ARG41 4.7 51.7 0.5 CB B:ARG41 4.7 51.7 0.5 SD C:MET155 4.8 102.9 1.0 NE B:ARG123 4.9 53.9 0.5 CD B:ARG41 4.9 57.3 0.5

Sodium binding site 2 out of 3 in the Structure of Rslov D109G


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of Rslov D109G within 5.0Å range: probe atom residue distance (Å) B Occ C:Na205 b:73.5 occ:1.00 OD2 C:ASP112 3.1 68.1 1.0 O C:HOH344 3.2 60.8 1.0 OD1 C:ASP112 3.2 56.3 1.0 CG C:ASP112 3.6 63.4 1.0 CA C:GLY106 4.0 52.8 1.0 N C:MET1 4.3 87.8 1.0 N C:GLY106 4.6 49.4 1.0 C C:GLY106 4.8 60.9 1.0 CA C:MET1 5.0 79.0 1.0

Sodium binding site 3 out of 3 in the Structure of Rslov D109G


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Structure of Rslov D109G within 5.0Å range: probe atom residue distance (Å) B Occ D:Na204 b:75.8 occ:1.00 OE1 D:GLU128 2.4 84.1 1.0 O D:GLU120 2.6 75.7 1.0 OG D:SER124 2.8 67.0 1.0 N D:ARG123 3.0 81.1 1.0 N D:SER124 3.1 78.0 1.0 CD D:GLU128 3.2 81.9 1.0 CA D:LEU121 3.3 75.8 1.0 C D:LEU121 3.3 75.4 1.0 OE2 D:GLU128 3.3 81.2 1.0 CB D:SER124 3.3 69.9 1.0 N D:GLY122 3.3 75.2 1.0 CZ D:PHE119 3.6 67.0 1.0 CA D:ARG123 3.6 70.7 1.0 C D:GLU120 3.6 73.2 1.0 C D:ARG123 3.6 81.4 1.0 CB D:ARG123 3.7 71.3 1.0 CA D:SER124 3.8 85.2 1.0 O D:LEU121 3.9 76.2 1.0 N D:LEU121 3.9 71.7 1.0 C D:GLY122 4.0 81.7 1.0 CE2 D:PHE119 4.0 68.4 1.0 CA D:GLY122 4.2 80.0 1.0 CE1 D:PHE119 4.3 63.7 1.0 CB D:LEU121 4.5 75.0 1.0 CG D:GLU128 4.6 79.6 1.0 O D:HOH307 4.6 70.5 1.0 O D:ARG123 4.7 86.1 1.0 C D:SER124 4.9 84.3 1.0 CA D:GLU120 5.0 70.2 1.0 CB D:GLU128 5.0 63.9 1.0

J.Dietler, R.Schubert, T.G A Krafft, S.Meiler, S.Kainrath, F.Richter, K.Schweimer, M.Weyand, H.Janovjak, A.Moglich. A Light-Oxygen-Voltage Receptor Integrates Light and Temperature. J.Mol.Biol. 67107 2021.
ISSN: ESSN 1089-8638
PubMed: 34146595
DOI: 10.1016/J.JMB.2021.167107