Sodium in PDB 3l1o: Crystal Structure of Monoclonal Antibody MN423 Fab Fragment with Free Combining Site, Crystallized in the Presence of Zinc

The structure of Crystal Structure of Monoclonal Antibody MN423 Fab Fragment with Free Combining Site, Crystallized in the Presence of Zinc, PDB code: 3l1o was solved by R.Skrabana, J.Sevcik, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.90 / 2.00
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	41.330, 75.426, 72.701, 90.00, 92.86, 90.00
R / Rfree (%)	15.8 / 24.9

The structure of Crystal Structure of Monoclonal Antibody MN423 Fab Fragment with Free Combining Site, Crystallized in the Presence of Zinc also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Sodium atom in the Crystal Structure of Monoclonal Antibody MN423 Fab Fragment with Free Combining Site, Crystallized in the Presence of Zinc (pdb code 3l1o). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Monoclonal Antibody MN423 Fab Fragment with Free Combining Site, Crystallized in the Presence of Zinc, PDB code: 3l1o:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Monoclonal Antibody MN423 Fab Fragment with Free Combining Site, Crystallized in the Presence of Zinc


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 Monoclonal Antibody MN423 Fab Fragment with Free Combining Site, Crystallized in the Presence of Zinc within 5.0Å range: probe atom residue distance (Å) B Occ H:Na228 b:32.4 occ:1.00 N H:GLU91 3.3 14.6 1.0 CA H:GLU91 3.6 15.6 1.0 C H:ALA90 3.7 14.5 1.0 CB H:GLU91 3.8 18.1 1.0 CB H:ALA90 3.9 13.6 1.0 O H:HOH363 4.1 32.1 1.0 O H:ALA90 4.2 14.9 1.0 CA H:ALA90 4.4 14.8 1.0 CG H:GLU91 4.8 25.1 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Monoclonal Antibody MN423 Fab Fragment with Free Combining Site, Crystallized in the Presence of Zinc


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Monoclonal Antibody MN423 Fab Fragment with Free Combining Site, Crystallized in the Presence of Zinc within 5.0Å range: probe atom residue distance (Å) B Occ L:Na217 b:31.0 occ:1.00 OG1 L:THR197 2.2 17.6 1.0 OE2 L:GLU195 3.1 32.7 1.0 O L:GLU195 3.2 17.1 1.0 CB L:THR197 3.3 21.1 1.0 N L:THR197 3.4 20.9 1.0 ND2 L:ASN145 3.5 30.9 1.0 CG L:LYS147 3.5 23.0 1.0 O L:ASN145 3.5 20.9 1.0 C L:GLU195 3.7 19.8 1.0 CG L:GLU195 3.8 28.2 1.0 C L:ALA196 3.9 20.4 1.0 CD L:GLU195 3.9 33.2 1.0 CA L:THR197 3.9 21.2 1.0 CD L:LYS147 4.0 27.7 1.0 CE L:LYS147 4.0 30.3 1.0 N L:ALA196 4.1 18.3 1.0 N L:LYS147 4.1 21.3 1.0 CA L:ALA196 4.2 20.0 1.0 C L:ASN145 4.2 21.9 1.0 CB L:GLU195 4.2 22.9 1.0 CG L:ASN145 4.4 23.2 1.0 CB L:LYS147 4.5 22.0 1.0 O L:HOH262 4.5 44.6 1.0 CG2 L:THR197 4.6 21.8 1.0 CB L:PRO204 4.6 20.4 1.0 NZ L:LYS147 4.6 32.8 1.0 CB L:ASN145 4.6 20.7 1.0 CA L:GLU195 4.6 21.4 1.0 O L:ALA196 4.6 18.9 1.0 CA L:VAL146 4.7 21.4 1.0 C L:VAL146 4.7 21.0 1.0 CG L:PRO204 4.8 21.7 1.0 N L:VAL146 4.8 21.8 1.0 CA L:LYS147 4.9 21.7 1.0 CA L:ASN145 5.0 21.5 1.0

R.Skrabana, R.Dvorsky, J.Sevcik, M.Novak. Monoclonal Antibody MN423 As A Stable Mold Facilitates Structure Determination of Disordered Tau Protein J.Struct.Biol. V. 171 74 2010.
ISSN: ISSN 1047-8477
PubMed: 20184958
DOI: 10.1016/J.JSB.2010.02.016