Sodium in PDB 3qxw: Free Structure of An Anti-Methotrexate CDR1-4 Graft Vhh Antibody

The structure of Free Structure of An Anti-Methotrexate CDR1-4 Graft Vhh Antibody, PDB code: 3qxw was solved by S.W.Fanning, J.R.Horn, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 1.85
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	39.043, 59.167, 131.425, 90.00, 92.20, 90.00
R / Rfree (%)	18.9 / 23.8

The binding sites of Sodium atom in the Free Structure of An Anti-Methotrexate CDR1-4 Graft Vhh Antibody (pdb code 3qxw). 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 Free Structure of An Anti-Methotrexate CDR1-4 Graft Vhh Antibody, PDB code: 3qxw:

Sodium binding site 1 out of 1 in the Free Structure of An Anti-Methotrexate CDR1-4 Graft Vhh Antibody


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Free Structure of An Anti-Methotrexate CDR1-4 Graft Vhh Antibody within 5.0Å range: probe atom residue distance (Å) B Occ D:Na2000 b:38.7 occ:1.00 O D:HOH1056 2.3 33.1 1.0 OG1 D:THR106 2.7 15.5 1.0 O D:GLY112 3.3 19.0 1.0 OD1 D:ASP101 3.5 22.5 1.0 OD1 D:ASN103 3.5 25.6 1.0 CB D:THR106 3.6 16.1 1.0 CG2 D:THR106 3.8 17.3 1.0 OD1 D:ASP102 3.9 30.3 1.0 NH1 B:ARG21 4.0 27.1 1.0 OD2 D:ASP101 4.1 16.8 1.0 C D:GLY112 4.1 19.3 1.0 CA D:GLY112 4.1 18.3 1.0 CG D:ASP101 4.2 20.3 1.0 OD2 D:ASP102 4.4 32.2 1.0 CG D:ASP102 4.5 28.6 1.0 CG D:ASN103 4.7 21.1 1.0 OD1 D:ASP119 5.0 35.3 1.0

S.W.Fanning, J.R.Horn. An Anti-Hapten Camelid Antibody Reveals A Cryptic Binding Site with Significant Energetic Contributions From A Nonhypervariable Loop. Protein Sci. V. 20 1196 2011.
ISSN: ISSN 0961-8368
PubMed: 21557375
DOI: 10.1002/PRO.648