Sodium in PDB 6vb3: Hla-B*15:01 Complexed with A Synthetic Peptide

The structure of Hla-B*15:01 Complexed with A Synthetic Peptide, PDB code: 6vb3 was solved by R.J.Schutte, D.Li, D.A.Ostrov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.39 / 2.00
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	50.799, 81.828, 110.453, 90.00, 90.00, 90.00
R / Rfree (%)	23.9 / 30.7

The binding sites of Sodium atom in the Hla-B*15:01 Complexed with A Synthetic Peptide (pdb code 6vb3). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Hla-B*15:01 Complexed with A Synthetic Peptide, PDB code: 6vb3:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Hla-B*15:01 Complexed with A Synthetic Peptide


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Hla-B*15:01 Complexed with A Synthetic Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Na302 b:33.4 occ:1.00 OD1 A:ASP220 2.3 22.9 1.0 CG A:ASP220 3.4 32.0 1.0 CG A:ARG256 3.6 22.6 1.0 CB A:ARG256 3.8 22.7 1.0 CA A:ARG256 3.8 26.1 1.0 CA A:ASP220 3.9 34.3 1.0 CB A:ASP220 4.1 21.4 1.0 O A:ARG256 4.3 25.4 1.0 OD2 A:ASP220 4.4 34.1 1.0 N A:ASP220 4.5 27.6 1.0 C A:ARG256 4.6 26.8 1.0 CD A:ARG256 4.7 24.5 1.0 NE A:ARG256 4.8 27.3 1.0 O A:HOH594 4.8 18.6 1.0 N A:ARG256 4.9 22.3 1.0 O A:GLN255 5.0 26.5 1.0

Sodium binding site 2 out of 2 in the Hla-B*15:01 Complexed with A Synthetic Peptide


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Hla-B*15:01 Complexed with A Synthetic Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Na101 b:30.8 occ:1.00 O B:ASP34 2.4 17.3 1.0 CG2 B:VAL85 2.8 30.9 1.0 N B:VAL85 3.3 23.1 1.0 C B:ASP34 3.3 24.5 1.0 CB B:ASP34 3.4 23.1 1.0 CD2 B:HIS84 3.4 23.3 1.0 CA B:ASP34 3.8 17.7 1.0 NE2 B:HIS84 3.8 19.2 1.0 CB B:VAL85 3.8 26.8 1.0 CG B:HIS84 3.9 22.9 1.0 CA B:HIS84 4.0 24.6 1.0 C B:HIS84 4.1 22.0 1.0 CA B:VAL85 4.1 29.1 1.0 N B:ASP34 4.2 19.0 1.0 N B:ILE35 4.3 19.6 1.0 CE1 B:HIS84 4.5 19.0 1.0 CB B:HIS84 4.6 15.3 1.0 ND1 B:HIS84 4.6 22.3 1.0 CG B:PRO32 4.6 17.7 1.0 CA B:ILE35 4.7 19.0 1.0 CG B:ASP34 4.7 32.5 1.0 O B:HOH208 4.9 28.9 1.0 O B:PRO32 5.0 20.9 1.0

R.J.Schutte, D.Li, D.A.Ostrov. Hla-B*15:01 Complexed with A Synthetic Peptide To Be Published.