Atomistry » Sodium » PDB 6kcd-6lfw » 6ldw
Atomistry »
  Sodium »
    PDB 6kcd-6lfw »
      6ldw »

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

Protein crystallography data

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

Other elements in 6ldw:

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

Chlorine (Cl) 2 atoms

Sodium Binding Sites:

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 6ldw

Go back to Sodium Binding Sites List in 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

Reference:

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.
Page generated: Tue Oct 8 11:37:44 2024

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy