Sodium in PDB 7nq6: High Resolution Crystal Structure of C-Terminal Domain (Residues 715- 866) of Nucleoporin-98

The structure of High Resolution Crystal Structure of C-Terminal Domain (Residues 715- 866) of Nucleoporin-98, PDB code: 7nq6 was solved by S.Trakhanov, D.Goerlich, T.Huyton, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.56 / 1.50
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	72.07, 72.07, 91.82, 90, 90, 90
R / Rfree (%)	17.1 / 19.2

The structure of High Resolution Crystal Structure of C-Terminal Domain (Residues 715- 866) of Nucleoporin-98 also contains other interesting chemical elements:

Chlorine

(Cl)

3 atoms

The binding sites of Sodium atom in the High Resolution Crystal Structure of C-Terminal Domain (Residues 715- 866) of Nucleoporin-98 (pdb code 7nq6). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the High Resolution Crystal Structure of C-Terminal Domain (Residues 715- 866) of Nucleoporin-98, PDB code: 7nq6:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the High Resolution Crystal Structure of C-Terminal Domain (Residues 715- 866) of Nucleoporin-98


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of High Resolution Crystal Structure of C-Terminal Domain (Residues 715- 866) of Nucleoporin-98 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na902 b:20.8 occ:0.76 H A:LYS783 2.1 18.7 1.0 HH11 A:ARG782 2.3 22.6 1.0 O A:ASP810 2.5 25.7 1.0 HD3 A:ARG782 2.6 23.1 1.0 HA A:ARG782 2.7 17.5 1.0 O A:PHE758 2.8 16.5 1.0 N A:LYS783 2.9 15.6 1.0 NH1 A:ARG782 3.1 18.8 1.0 H A:ASP810 3.2 24.4 1.0 HA A:PHE758 3.2 18.5 1.0 O A:ARG781 3.5 16.4 1.0 HH12 A:ARG782 3.5 22.6 1.0 CA A:ARG782 3.5 14.6 1.0 CD A:ARG782 3.6 19.2 1.0 N A:ASP810 3.6 20.3 1.0 C A:ASP810 3.6 22.4 1.0 HA A:LYS783 3.6 20.9 1.0 HB3 A:LEU809 3.7 22.6 1.0 C A:ARG782 3.7 15.6 1.0 C A:PHE758 3.7 15.7 1.0 CA A:LYS783 3.9 17.4 1.0 HD2 A:ARG782 3.9 23.1 1.0 CA A:PHE758 3.9 15.4 1.0 HD1 A:PHE758 3.9 19.4 1.0 HB2 A:GLU811 4.0 37.1 1.0 HG3 A:LYS783 4.1 40.0 1.0 HG2 A:LYS783 4.1 40.0 1.0 CA A:ASP810 4.1 21.2 1.0 HA A:LEU809 4.1 22.1 1.0 HB3 A:PHE758 4.1 18.5 1.0 CZ A:ARG782 4.1 16.3 1.0 HB2 A:ASP810 4.2 32.7 1.0 HD22 A:LEU809 4.2 42.0 1.0 C A:LEU809 4.3 18.4 1.0 NE A:ARG782 4.3 18.4 1.0 C A:ARG781 4.3 15.8 1.0 H A:GLU784 4.4 19.1 1.0 N A:ARG782 4.4 15.3 1.0 CG A:ARG782 4.5 17.7 1.0 CG A:LYS783 4.5 33.3 1.0 CB A:ARG782 4.5 14.9 1.0 CB A:LEU809 4.5 18.9 1.0 CA A:LEU809 4.5 18.4 1.0 HG3 A:ARG782 4.5 21.2 1.0 CB A:PHE758 4.5 15.4 1.0 CD1 A:PHE758 4.6 16.2 1.0 HG3 A:GLU811 4.6 31.9 1.0 HB2 A:ARG782 4.7 17.9 1.0 CB A:ASP810 4.7 27.2 1.0 N A:GLU811 4.7 24.9 1.0 CB A:LYS783 4.8 20.5 1.0 HG23 A:VAL812 4.8 35.6 1.0 O A:GLY757 4.8 18.8 1.0 HG22 A:VAL812 4.8 35.6 1.0 CB A:GLU811 4.8 30.9 1.0 O A:ARG782 4.9 15.7 1.0 HA A:ASP810 5.0 25.4 1.0 N A:GLU784 5.0 15.9 1.0 CD2 A:LEU809 5.0 35.0 1.0 HD23 A:LEU809 5.0 42.0 1.0 N A:GLY759 5.0 16.1 1.0 C A:LYS783 5.0 15.6 1.0

Sodium binding site 2 out of 3 in the High Resolution Crystal Structure of C-Terminal Domain (Residues 715- 866) of Nucleoporin-98


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of High Resolution Crystal Structure of C-Terminal Domain (Residues 715- 866) of Nucleoporin-98 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na903 b:23.6 occ:0.97 HE21 A:GLN806 2.1 22.2 1.0 HG1 A:THR808 2.7 20.5 1.0 OG1 A:THR808 2.8 17.0 1.0 O A:GLN806 2.8 18.0 1.0 O A:HOH1066 2.8 20.2 1.0 NE2 A:GLN806 2.9 18.5 1.0 HG2 A:GLN806 3.0 19.5 1.0 HB3 A:GLN806 3.3 21.4 1.0 HB3 A:TYR762 3.3 21.3 1.0 HG A:SER760 3.3 24.0 1.0 H A:TYR762 3.4 19.6 1.0 C A:GLN806 3.4 16.7 1.0 H A:THR808 3.5 20.5 1.0 HE22 A:GLN806 3.5 22.2 1.0 HB A:THR808 3.6 20.5 1.0 N A:THR808 3.6 17.1 1.0 CG A:GLN806 3.6 16.2 1.0 CB A:THR808 3.7 17.1 1.0 CD A:GLN806 3.7 17.0 1.0 HB2 A:TYR762 3.8 21.3 1.0 C A:VAL807 3.8 17.0 1.0 O A:SER760 3.8 17.5 1.0 HA A:ILE761 3.9 17.7 1.0 CB A:GLN806 3.9 17.9 1.0 HA A:VAL807 3.9 20.9 1.0 N A:TYR762 3.9 16.3 1.0 CB A:TYR762 4.0 17.7 1.0 HG13 A:VAL860 4.0 20.0 1.0 N A:VAL807 4.0 17.0 1.0 OG A:SER760 4.1 20.0 1.0 CA A:VAL807 4.1 17.4 1.0 CA A:THR808 4.2 17.1 1.0 O A:HOH1078 4.3 17.7 1.0 CA A:GLN806 4.3 16.3 1.0 C A:SER760 4.3 16.1 1.0 O A:VAL807 4.4 16.7 1.0 CL A:CL906 4.4 28.0 0.5 HG3 A:GLN806 4.5 19.5 1.0 CA A:ILE761 4.5 14.7 1.0 C A:ILE761 4.6 16.7 1.0 CA A:TYR762 4.6 17.3 1.0 HA A:THR808 4.6 20.4 1.0 N A:ILE761 4.6 16.0 1.0 H A:VAL807 4.7 20.3 1.0 HB2 A:GLN806 4.7 21.4 1.0 CG1 A:VAL860 4.8 16.7 1.0 HG11 A:VAL860 4.9 20.0 1.0 OE1 A:GLN806 5.0 19.9 1.0 HA A:GLN806 5.0 19.5 1.0 H A:GLN806 5.0 20.6 1.0

Sodium binding site 3 out of 3 in the High Resolution Crystal Structure of C-Terminal Domain (Residues 715- 866) of Nucleoporin-98


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of High Resolution Crystal Structure of C-Terminal Domain (Residues 715- 866) of Nucleoporin-98 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na904 b:26.8 occ:0.78 HG2 A:ARG724 2.7 24.7 1.0 O A:HOH1161 2.8 21.6 1.0 HD2 A:ARG724 3.2 24.0 1.0 CG A:ARG724 3.5 20.7 1.0 HB3 A:ARG724 3.6 25.6 1.0 CD A:ARG724 3.7 20.0 1.0 O A:HOH1098 3.7 23.7 1.0 HD3 A:ARG724 3.8 24.0 1.0 O A:HOH1132 4.1 19.7 1.0 CB A:ARG724 4.1 21.3 1.0 HG3 A:ARG724 4.3 24.7 1.0 HA A:ARG724 4.7 24.8 1.0 HH11 A:ARG724 4.8 22.2 1.0 HB2 A:ARG724 4.9 25.6 1.0

S.Trakhanov, T.Huyton, D.Goerlich. High Resolution Crystal Structure of C-Terminal Domain (Residues 715-866) of Nucleoporin-98 To Be Published.