Sodium in PDB 6ldw: Structure of Antibody C9 in Complex with Methylated Peptide

The structure of Structure of Antibody C9 in Complex with Methylated Peptide, PDB code: 6ldw was solved by J.M.M.Caaveiro, K.Tsumoto, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.16 / 1.60
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	39.310, 75.680, 76.320, 73.98, 87.16, 84.78
R / Rfree (%)	17.1 / 23.5

The structure of Structure of Antibody C9 in Complex with Methylated Peptide also contains other interesting chemical elements:

Chlorine

(Cl)

2 atoms

The binding sites of Sodium atom in the Structure of Antibody C9 in Complex with Methylated Peptide (pdb code 6ldw). 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 Structure of Antibody C9 in Complex with Methylated Peptide, PDB code: 6ldw:

Sodium binding site 1 out of 1 in the Structure of Antibody C9 in Complex with Methylated Peptide


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Antibody C9 in Complex with Methylated Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Na301 b:38.6 occ:1.00 O B:HOH559 1.9 41.6 1.0 O B:HOH513 2.1 42.5 1.0 O B:HOH560 2.2 33.6 1.0 O B:HOH432 2.3 35.2 1.0 O B:HOH442 2.3 36.6 1.0 OE2 B:GLU86 4.3 43.6 1.0 OE1 B:GLU86 4.3 45.8 1.0 O B:HOH517 4.4 29.3 1.0 O B:HOH546 4.6 43.6 0.6 CD B:GLU86 4.7 38.1 1.0 OG1 B:THR85 4.9 48.0 1.0

M.Ishii, M.Nakakido, J.M.M.Caaveiro, D.Kuroda, C.Okumura, T.Maruyama, K.Entzminger, K.Tsumoto. Structural Basis For Antigen Recognition By Methylated Lysine Specific Antibodies To Be Published.