Sodium in PDB 8eo4: Human Pu.1 Ets-Domain (165-270) Bound to D(Aataagcggaagtggg) with Di- Methylated Cpg Sites

The structure of Human Pu.1 Ets-Domain (165-270) Bound to D(Aataagcggaagtggg) with Di- Methylated Cpg Sites, PDB code: 8eo4 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)	33.25 / 1.24
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	42.905, 60.675, 44.538, 90, 116.81, 90
R / Rfree (%)	13.7 / 16.5

The binding sites of Sodium atom in the Human Pu.1 Ets-Domain (165-270) Bound to D(Aataagcggaagtggg) with Di- Methylated Cpg Sites (pdb code 8eo4). 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(Aataagcggaagtggg) with Di- Methylated Cpg Sites, PDB code: 8eo4:

Sodium binding site 1 out of 1 in the Human Pu.1 Ets-Domain (165-270) Bound to D(Aataagcggaagtggg) with Di- Methylated Cpg Sites


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(Aataagcggaagtggg) with Di- Methylated Cpg Sites within 5.0Å range: probe atom residue distance (Å) B Occ D:Na101 b:58.3 occ:1.00 HZ1 F:LYS247 2.1 44.5 1.0 OP1 D:DT32 2.2 31.5 1.0 HZ3 F:LYS247 2.3 44.5 1.0 NZ F:LYS247 2.5 37.1 0.4 O D:HOH248 2.5 44.8 1.0 HE3 F:LYS247 2.6 43.5 1.0 CE F:LYS247 3.0 36.2 0.5 O3' D:DA31 3.2 26.2 1.0 P D:DT32 3.3 28.7 1.0 HZ2 F:LYS247 3.3 44.5 1.0 HD3 F:LYS247 3.6 41.7 0.8 HE2 F:LYS247 3.8 43.5 1.0 CD F:LYS247 3.9 34.8 1.0 O C:HOH126 4.1 41.0 1.0 H4' D:DA31 4.1 27.3 1.0 H1' D:DA31 4.1 23.2 1.0 H5' D:DT32 4.2 45.5 1.0 OP2 D:DT32 4.2 30.0 1.0 O5' D:DT32 4.5 28.5 1.0 H5'' D:DT32 4.5 45.5 1.0 HD2 F:LYS247 4.5 41.7 1.0 C3' D:DA31 4.5 21.5 1.0 C5' D:DT32 4.6 37.9 1.0 O C:HOH165 4.6 33.3 1.0 C4' D:DA31 4.8 22.7 1.0 HG3 F:LYS247 4.8 38.5 1.0 O F:HOH407 4.9 53.1 1.0 C1' D:DA31 4.9 19.3 1.0 CG F:LYS247 4.9 32.1 0.0

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