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Sodium in PDB 3c0s: Uvde 3 Metals

Protein crystallography data

The structure of Uvde 3 Metals, PDB code: 3c0s was solved by E.M.Meulenbroek, K.Paspaleva, E.A.J.Thomassen, J.P.Abrahams, N.Goosen, N.S.Pannu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 33.41 / 1.80
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 37.137, 47.562, 48.250, 99.50, 111.39, 109.02
R / Rfree (%) 20.2 / 27.5

Other elements in 3c0s:

The structure of Uvde 3 Metals also contains other interesting chemical elements:

Manganese (Mn) 3 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Uvde 3 Metals (pdb code 3c0s). 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 Uvde 3 Metals, PDB code: 3c0s:

Sodium binding site 1 out of 1 in 3c0s

Go back to Sodium Binding Sites List in 3c0s
Sodium binding site 1 out of 1 in the Uvde 3 Metals


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Uvde 3 Metals within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na284

b:46.1
occ:1.00
O A:HOH324 2.5 29.7 1.0
O A:HOH544 2.7 40.9 1.0
N A:ARG255 3.7 14.6 1.0
CA A:ARG255 3.8 16.7 1.0
C A:GLU254 3.9 16.9 1.0
CB A:GLU254 4.0 17.9 1.0
O A:HOH378 4.1 25.9 1.0
CG A:ARG255 4.1 20.4 1.0
O A:GLU254 4.2 15.2 1.0
OG A:SER258 4.2 23.7 1.0
CB A:ARG255 4.5 15.6 1.0
CA A:GLU254 4.6 16.1 1.0
CB A:SER258 4.8 19.8 1.0
O A:GLU251 4.9 16.1 1.0
OE1 A:GLU254 5.0 33.8 1.0

Reference:

E.M.Meulenbroek, K.Paspaleva, E.A.Thomassen, J.P.Abrahams, N.Goosen, N.S.Pannu. Involvement of A Carboxylated Lysine in Uv Damage Endonuclease Protein Sci. V. 18 549 2009.
ISSN: ISSN 0961-8368
PubMed: 19241382
DOI: 10.1002/PRO.54
Page generated: Tue Dec 15 06:03:51 2020

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