Sodium in PDB 8ekz: Human Pu.1 Ets-Domain (165-270) Bound to D(Aataaggagaagtagg)

The structure of Human Pu.1 Ets-Domain (165-270) Bound to D(Aataaggagaagtagg), PDB code: 8ekz was solved by J.R.Terrell, G.M.K.Poon, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	23.01 / 1.42
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	43.146, 60.993, 44.429, 90, 116.58, 90
R / Rfree (%)	15.3 / 16.6

The binding sites of Sodium atom in the Human Pu.1 Ets-Domain (165-270) Bound to D(Aataaggagaagtagg) (pdb code 8ekz). 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 Human Pu.1 Ets-Domain (165-270) Bound to D(Aataaggagaagtagg), PDB code: 8ekz:

Sodium binding site 1 out of 1 in the Human Pu.1 Ets-Domain (165-270) Bound to D(Aataaggagaagtagg)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Human Pu.1 Ets-Domain (165-270) Bound to D(Aataaggagaagtagg) within 5.0Å range: probe atom residue distance (Å) B Occ C:Na101 b:29.7 occ:1.00 OP2 C:DA5 2.4 36.3 1.0 O C:HOH278 2.7 34.1 1.0 H8 C:DA5 2.9 30.2 1.0 H2'' C:DA4 3.1 41.0 1.0 O C:HOH281 3.2 50.0 1.0 H2' C:DA4 3.5 41.0 1.0 P C:DA5 3.6 35.9 1.0 O5' C:DA5 3.6 34.5 1.0 HZ1 F:LYS206 3.6 26.5 1.0 C2' C:DA4 3.7 34.2 1.0 C8 C:DA5 3.7 25.1 1.0 HE2 F:LYS206 3.9 24.4 1.0 HD2 F:TYR225 4.0 22.0 1.0 H2' C:DA5 4.0 33.4 1.0 HE3 F:LYS206 4.0 24.4 1.0 H3' C:DA4 4.1 42.1 1.0 HG3 F:GLN226 4.2 33.4 1.0 C3' C:DA4 4.3 35.1 1.0 CE F:LYS206 4.3 20.4 1.0 N7 C:DA5 4.3 24.8 1.0 NZ F:LYS206 4.3 22.1 1.0 O3' C:DA4 4.4 37.7 1.0 O C:HOH226 4.5 26.4 1.0 CD2 F:TYR225 4.7 18.4 1.0 O F:HOH301 4.8 29.7 0.7 HZ3 F:LYS206 4.8 26.5 1.0 OP1 C:DA5 4.8 40.3 1.0 N9 C:DA5 4.8 25.3 1.0 C2' C:DA5 4.9 27.8 1.0 CD F:GLN226 4.9 34.6 1.0 CG F:GLN226 4.9 27.8 1.0 HE2 F:TYR225 4.9 23.4 1.0 HB3 F:TYR225 4.9 20.4 1.0 HZ2 F:LYS206 4.9 26.5 1.0 C5' C:DA5 5.0 31.9 1.0

J.R.Terrell, S.J.Taylor, A.L.Schneider, Y.Lu, T.N.Vernon, S.Xhani, R.H.Gumpper, M.Luo, W.D.Wilson, U.Steidl, G.M.K.Poon. Dna Selection By the Master Transcription Factor Pu.1. Cell Rep V. 42 12671 2023.
ISSN: ESSN 2211-1247
PubMed: 37352101
DOI: 10.1016/J.CELREP.2023.112671