Atomistry » Sodium » PDB 8djz-8e62 » 8e3k
Atomistry »
  Sodium »
    PDB 8djz-8e62 »
      8e3k »

Sodium in PDB 8e3k: Human Pu.1 Ets-Domain (165-270) Bound to D(Aataagcggaagtggg)

Protein crystallography data

The structure of Human Pu.1 Ets-Domain (165-270) Bound to D(Aataagcggaagtggg), PDB code: 8e3k 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) 33.30 / 1.28
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 43.001, 60.742, 44.574, 90, 116.71, 90
R / Rfree (%) 12.7 / 15.1

Sodium Binding Sites:

The binding sites of Sodium atom in the Human Pu.1 Ets-Domain (165-270) Bound to D(Aataagcggaagtggg) (pdb code 8e3k). 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), PDB code: 8e3k:

Sodium binding site 1 out of 1 in 8e3k

Go back to Sodium Binding Sites List in 8e3k
Sodium binding site 1 out of 1 in the Human Pu.1 Ets-Domain (165-270) Bound to D(Aataagcggaagtggg)


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) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Na101

b:54.2
occ:1.00
OP2 C:DA5 2.2 33.7 1.0
H8 C:DA5 2.5 29.3 1.0
O F:HOH373 2.5 43.9 1.0
O C:HOH215 2.6 41.3 1.0
H2'' C:DA4 2.9 37.7 1.0
O5' C:DA5 2.9 28.9 1.0
O F:HOH412 2.9 45.0 1.0
P C:DA5 3.0 32.8 1.0
H2' C:DA5 3.3 30.4 1.0
C8 C:DA5 3.4 24.4 1.0
HZ2 F:LYS206 3.5 24.3 1.0
H2' C:DA4 3.5 37.7 1.0
HE3 F:LYS206 3.5 21.5 1.0
C2' C:DA4 3.5 31.4 1.0
HE2 F:LYS206 3.8 21.5 1.0
O C:HOH278 3.9 47.8 1.0
H3' C:DA4 3.9 36.1 1.0
O3' C:DA4 4.0 31.9 1.0
CE F:LYS206 4.0 17.9 1.0
C3' C:DA4 4.0 30.1 1.0
HE21 F:GLN226 4.1 28.9 0.4
NZ F:LYS206 4.1 20.2 1.0
C2' C:DA5 4.2 25.3 1.0
N7 C:DA5 4.2 23.0 1.0
HD2 F:TYR225 4.2 20.7 1.0
C5' C:DA5 4.2 26.0 1.0
OP1 C:DA5 4.3 36.8 1.0
N9 C:DA5 4.3 22.8 1.0
H3' C:DA5 4.4 31.2 1.0
O4' C:DA5 4.4 24.9 1.0
O C:HOH231 4.5 43.0 1.0
HD21 F:LEU248 4.5 24.9 1.0
HZ3 F:LYS206 4.5 24.3 1.0
C1' C:DA5 4.6 24.2 1.0
HG2 F:GLN226 4.7 24.4 0.4
H5' C:DA5 4.7 31.2 1.0
C3' C:DA5 4.7 26.0 1.0
C4' C:DA5 4.7 25.2 1.0
O F:HOH305 4.7 34.1 1.0
HE2 F:TYR225 4.7 22.7 1.0
NE2 F:GLN226 4.8 24.1 0.4
HZ1 F:LYS206 4.8 24.3 1.0
H5'' C:DA5 4.8 31.2 1.0
H2'' C:DA5 4.8 30.4 1.0
CD2 F:TYR225 4.9 17.3 1.0
C1' C:DA4 4.9 29.5 1.0

Reference:

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
Page generated: Wed Oct 9 11:37:17 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy