Sodium in PDB 1lds: Crystal Structure of Monomeric Human Beta-2-Microglobulin

The structure of Crystal Structure of Monomeric Human Beta-2-Microglobulin, PDB code: 1lds was solved by C.H.Trinh, D.P.Smith, A.P.Kalverda, S.E.V.Phillips, S.E.Radford, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.70 / 1.80
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	77.425, 29.091, 54.644, 90.00, 121.64, 90.00
R / Rfree (%)	18.7 / 23.3

The binding sites of Sodium atom in the Crystal Structure of Monomeric Human Beta-2-Microglobulin (pdb code 1lds). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of Monomeric Human Beta-2-Microglobulin, PDB code: 1lds:

Sodium binding site 1 out of 1 in the Crystal Structure of Monomeric Human Beta-2-Microglobulin


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Monomeric Human Beta-2-Microglobulin within 5.0Å range: probe atom residue distance (Å) B Occ A:Na100 b:15.2 occ:1.00 O A:HOH203 2.2 17.3 1.0 O A:LEU87 2.2 11.1 1.0 O A:HIS84 2.4 7.3 1.0 O A:HOH138 2.4 16.9 1.0 O A:HOH123 2.4 11.9 1.0 O A:HOH141 2.7 26.5 1.0 C A:HIS84 3.3 1.8 1.0 C A:LEU87 3.4 9.4 1.0 N A:HIS84 3.8 3.3 1.0 CA A:VAL85 4.1 3.1 1.0 N A:VAL85 4.1 5.2 1.0 N A:LEU87 4.2 5.6 1.0 CA A:LEU87 4.2 5.9 1.0 CA A:HIS84 4.3 3.9 1.0 C A:VAL85 4.3 7.8 1.0 N A:SER88 4.4 5.9 1.0 CB A:LEU87 4.4 4.3 1.0 OD1 A:ASN83 4.4 45.6 1.0 O A:VAL85 4.5 6.0 1.0 C A:SER88 4.5 10.1 1.0 CA A:SER88 4.5 5.6 1.0 O A:SER88 4.6 12.7 1.0 C A:ASN83 4.8 5.5 1.0 O A:HOH185 4.8 28.1 1.0 CA A:ASN83 4.9 1.0 1.0 N A:GLN89 5.0 7.5 1.0 N A:THR86 5.0 2.6 1.0

C.H.Trinh, D.P.Smith, A.P.Kalverda, S.E.Phillips, S.E.Radford. Crystal Structure of Monomeric Human Beta-2-Microglobulin Reveals Clues to Its Amyloidogenic Properties. Proc.Natl.Acad.Sci.Usa V. 99 9771 2002.
ISSN: ISSN 0027-8424
PubMed: 12119416
DOI: 10.1073/PNAS.152337399