Sodium in PDB 1oa8: Axh Domain of Human Spinocerebellar Ataxin-1

The structure of Axh Domain of Human Spinocerebellar Ataxin-1, PDB code: 1oa8 was solved by M.D.Allen, Y.W.Chen, M.Bycroft, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	70.71 / 1.70
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	48.783, 82.441, 137.781, 90.00, 90.00, 90.00
R / Rfree (%)	21 / 25.2

The binding sites of Sodium atom in the Axh Domain of Human Spinocerebellar Ataxin-1 (pdb code 1oa8). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Axh Domain of Human Spinocerebellar Ataxin-1, PDB code: 1oa8:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Axh Domain of Human Spinocerebellar Ataxin-1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Axh Domain of Human Spinocerebellar Ataxin-1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1690 b:43.4 occ:1.00 O A:HOH2096 2.1 38.5 1.0 O A:ALA603 2.4 38.5 1.0 O A:SER606 2.6 43.2 1.0 O A:LEU609 2.6 32.4 1.0 C A:ALA603 3.4 38.8 1.0 NZ A:LYS689 3.5 51.4 1.0 C A:SER606 3.7 43.0 1.0 C A:LEU609 3.8 32.0 1.0 O A:GLU604 3.9 41.8 1.0 C A:GLU604 4.1 42.0 1.0 N A:GLU604 4.2 40.1 1.0 CA A:GLU604 4.2 41.4 1.0 CE A:LYS689 4.2 48.6 1.0 CB A:SER606 4.4 41.8 1.0 CA A:ALA603 4.4 37.4 1.0 CA A:SER606 4.4 42.7 1.0 N A:SER606 4.5 42.9 1.0 CA A:LYS610 4.5 29.1 1.0 O A:HOH2033 4.5 32.6 1.0 CD A:LYS689 4.5 46.8 1.0 N A:LYS610 4.6 30.0 1.0 N A:LEU609 4.7 35.0 1.0 N A:ASN607 4.7 42.9 1.0 N A:ILE605 4.8 42.1 1.0 CA A:LEU609 4.8 32.9 1.0 CB A:LYS610 4.9 28.2 1.0 CA A:ASN607 4.9 43.4 1.0 CB A:ALA603 4.9 36.8 1.0 C A:ILE605 4.9 43.3 1.0

Sodium binding site 2 out of 3 in the Axh Domain of Human Spinocerebellar Ataxin-1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Axh Domain of Human Spinocerebellar Ataxin-1 within 5.0Å range: probe atom residue distance (Å) B Occ C:Na1691 b:23.9 occ:1.00 O C:ALA603 2.1 19.1 1.0 O C:LEU609 2.3 20.2 1.0 O C:SER606 2.3 29.7 1.0 O B:HOH2049 2.4 24.0 1.0 O B:HOH2056 2.7 35.7 1.0 C C:ALA603 3.3 18.8 1.0 C C:LEU609 3.5 21.2 1.0 C C:SER606 3.5 31.0 1.0 O B:HOH2048 3.9 25.2 1.0 CA C:ALA603 4.1 18.2 1.0 N C:GLU604 4.3 19.1 1.0 CA C:LYS610 4.3 19.5 1.0 N C:LEU609 4.3 25.1 1.0 N C:LYS610 4.4 19.8 1.0 N C:SER606 4.4 29.3 1.0 CA C:SER606 4.4 29.3 1.0 N C:ASN607 4.5 32.2 1.0 CA C:ASN607 4.5 33.5 1.0 CA C:LEU609 4.5 22.5 1.0 CA C:GLU604 4.5 20.9 1.0 O C:GLU604 4.5 23.0 1.0 OG C:SER606 4.5 32.4 1.0 O B:GLY655 4.5 20.4 1.0 O B:HOH2057 4.6 35.3 1.0 C C:GLU604 4.6 22.6 1.0 CB C:ALA603 4.6 16.4 1.0 C C:ASN607 4.7 32.5 1.0 CB C:SER606 4.7 29.9 1.0 NE2 B:GLN656 4.7 26.5 1.0 CB C:LYS610 4.8 19.8 1.0 CB C:LYS689 4.8 31.2 1.0 O C:ASN607 4.9 32.4 1.0 CG B:GLN656 5.0 19.3 1.0

Sodium binding site 3 out of 3 in the Axh Domain of Human Spinocerebellar Ataxin-1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Axh Domain of Human Spinocerebellar Ataxin-1 within 5.0Å range: probe atom residue distance (Å) B Occ D:Na1695 b:20.2 occ:1.00 O D:LEU609 2.2 25.1 1.0 O D:ALA603 2.3 19.1 1.0 O D:SER606 2.3 30.7 1.0 O D:HOH2115 2.3 30.1 1.0 CE D:LYS689 3.4 36.3 1.0 C D:ALA603 3.4 21.9 1.0 C D:LEU609 3.5 23.3 1.0 C D:SER606 3.5 29.8 1.0 NZ D:LYS689 3.7 38.5 1.0 N D:LEU609 4.2 23.9 1.0 CA D:ALA603 4.2 21.5 1.0 N D:SER606 4.2 29.3 1.0 CA D:SER606 4.3 30.2 1.0 CA D:LEU609 4.4 22.9 1.0 N D:LYS610 4.4 21.6 1.0 CA D:LYS610 4.4 22.2 1.0 N D:GLU604 4.4 22.4 1.0 O D:GLU604 4.4 26.6 1.0 OG D:SER606 4.5 36.9 1.0 N D:ASN607 4.5 30.3 1.0 C D:GLU604 4.5 26.1 1.0 CA D:GLU604 4.6 24.6 1.0 C D:ASN607 4.6 30.9 1.0 CA D:ASN607 4.7 31.6 1.0 CB D:SER606 4.7 29.9 1.0 O D:ASN607 4.8 32.4 1.0 CB D:ALA603 4.8 22.1 1.0 CD D:LYS689 4.9 34.6 1.0 CB D:LEU609 4.9 22.1 1.0 CB D:LYS610 5.0 21.9 1.0

Y.W.Chen, M.D.Allen, D.B.Veprintsev, J.Lowe, M.Bycroft. The Structure of the Axh Domain of Spinocerebellar Ataxin-1. J. Biol. Chem. V. 279 3758 2004.
ISSN: ISSN 0021-9258
PubMed: 14583607
DOI: 10.1074/JBC.M309817200