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Sodium in PDB 2cjc: Complexes of Dodecin with Flavin and Flavin-Like Ligands

Protein crystallography data

The structure of Complexes of Dodecin with Flavin and Flavin-Like Ligands, PDB code: 2cjc was solved by M.Grininger, F.Seiler, K.Zeth, D.Oesterhelt, 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 F 41 3 2
Cell size a, b, c (Å), α, β, γ (°) 142.040, 142.040, 142.040, 90.00, 90.00, 90.00
R / Rfree (%) 19.4 / 22.2

Other elements in 2cjc:

The structure of Complexes of Dodecin with Flavin and Flavin-Like Ligands also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms
Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Complexes of Dodecin with Flavin and Flavin-Like Ligands (pdb code 2cjc). 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 Complexes of Dodecin with Flavin and Flavin-Like Ligands, PDB code: 2cjc:

Sodium binding site 1 out of 1 in 2cjc

Go back to Sodium Binding Sites List in 2cjc
Sodium binding site 1 out of 1 in the Complexes of Dodecin with Flavin and Flavin-Like Ligands


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Complexes of Dodecin with Flavin and Flavin-Like Ligands within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na103

b:30.8
occ:0.33
O A:HOH2063 2.3 27.1 1.0
CL A:CL105 2.5 27.4 0.3
O A:HOH2006 2.9 38.8 0.3
O A:HOH2007 4.2 31.0 1.0
CB A:LEU7 4.4 23.5 1.0
NE2 A:GLN59 4.5 24.6 1.0
OE1 A:GLN59 4.6 25.1 1.0
CD2 A:LEU7 4.8 22.4 1.0
O A:LYS5 4.9 25.8 1.0

Reference:

M.Grininger, F.Seiler, K.Zeth, D.Oesterhelt. Dodecin Sequesters Fad in Closed Conformation From the Aqueous Solution. J.Mol.Biol. V. 364 561 2006.
ISSN: ISSN 0022-2836
PubMed: 17027852
DOI: 10.1016/J.JMB.2006.08.083
Page generated: Tue Dec 15 05:46:58 2020

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