Sodium in PDB 2vnf: Molecular Basis of Histone H3K4ME3 Recognition By ING4

The structure of Molecular Basis of Histone H3K4ME3 Recognition By ING4, PDB code: 2vnf was solved by A.Palacios, I.G.Munoz, D.Pantoja-Uceda, M.J.Marcaida, D.Torres, J.M.Martin-Garcia, I.Luque, G.Montoya, F.J.Blanco, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	68.51 / 1.76
Space group	P 43
Cell size a, b, c (Å), α, β, γ (°)	68.516, 68.516, 28.174, 90.00, 90.00, 90.00
R / Rfree (%)	15.6 / 22.7

The structure of Molecular Basis of Histone H3K4ME3 Recognition By ING4 also contains other interesting chemical elements:

Zinc

(Zn)

4 atoms

The binding sites of Sodium atom in the Molecular Basis of Histone H3K4ME3 Recognition By ING4 (pdb code 2vnf). 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 Molecular Basis of Histone H3K4ME3 Recognition By ING4, PDB code: 2vnf:

Sodium binding site 1 out of 1 in the Molecular Basis of Histone H3K4ME3 Recognition By ING4


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Molecular Basis of Histone H3K4ME3 Recognition By ING4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na300 b:61.4 occ:1.00 O A:HOH2061 2.6 40.8 1.0 C3 A:DTT1245 3.4 26.2 1.0 O3 A:DTT1245 3.5 39.5 1.0 CD A:ARG241 3.8 53.7 1.0 O A:HOH2035 4.0 47.7 1.0 C2 A:DTT1245 4.0 8.9 1.0 CD1 A:ILE219 4.1 28.8 1.0 OG A:SER218 4.1 33.5 1.0 CG1 A:ILE219 4.5 28.9 1.0 C4 A:DTT1245 4.5 29.6 1.0 NE A:ARG241 4.6 63.7 1.0 NH1 A:ARG241 4.6 68.7 1.0 O2 A:DTT1245 4.7 37.3 1.0 S4 A:DTT1245 4.8 62.4 1.0 CZ A:ARG241 4.9 65.8 1.0 S1 A:DTT1245 5.0 54.0 1.0 CG A:ARG241 5.0 42.1 1.0

A.Palacios, I.G.Munoz, D.Pantoja-Uceda, M.J.Marcaida, D.Torres, J.M.Martin-Garcia, I.Luque, G.Montoya, F.J.Blanco. Molecular Basis of Histone H3K4ME3 Recognition By ING4 J.Biol.Chem. V. 283 15956 2008.
ISSN: ISSN 0021-9258
PubMed: 18381289
DOI: 10.1074/JBC.M710020200